BLASTP 2.2.22 [Sep-27-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Reference for composition-based statistics starting in round 2: Schaffer, Alejandro A., L. Aravind, Thomas L. Madden, Sergei Shavirin, John L. Spouge, Yuri I. Wolf, Eugene V. Koonin, and Stephen F. Altschul (2001), "Improving the accuracy of PSI-BLAST protein database searches with composition-based statistics and other refinements", Nucleic Acids Res. 29:2994-3005. Query= batch____ (477 letters) Database: uniref50.fasta 3,077,464 sequences; 1,040,396,356 total letters Searching..................................................done Results from round 1 Score E Sequences producing significant alignments: (bits) Value UniRef50_P06223 RNA polymerase sigma-54 factor n=235 Tax=Gammapr... 879 0.0 UniRef50_C9XTZ3 RNA polymerase sigma-54 factor n=6 Tax=Enterobac... 877 0.0 UniRef50_UPI000169A703 RNA polymerase sigma-54 factor n=5 Tax=En... 586 e-166 UniRef50_P08623 RNA polymerase sigma-54 factor n=31 Tax=Gammapro... 538 e-151 UniRef50_P0A171 RNA polymerase sigma-54 factor n=83 Tax=Gammapro... 533 e-150 UniRef50_A0Z7G1 DNA-directed RNA polymerase subunit N n=1 Tax=ma... 475 e-132 UniRef50_Q5WZ64 RNA polymerase sigma-54 factor (Sigma-L) n=6 Tax... 468 e-130 UniRef50_D1RJS1 RNA polymerase sigma-54 factor RpoN n=1 Tax=Legi... 468 e-130 UniRef50_Q1YU16 DNA-directed RNA polymerase subunit N n=1 Tax=ga... 463 e-129 UniRef50_P24695 RNA polymerase sigma-54 factor n=3 Tax=Acidithio... 452 e-125 UniRef50_D0STY4 RNA polymerase sigma-54 factor n=1 Tax=Acinetoba... 414 e-114 UniRef50_Q6FED3 RNA polymerase sigma-54 factor n=4 Tax=Acinetoba... 405 e-111 UniRef50_P28615 RNA polymerase sigma-54 factor n=83 Tax=Betaprot... 394 e-108 UniRef50_C6WT04 RNA polymerase, sigma 54 subunit, RpoN n=3 Tax=B... 392 e-107 UniRef50_A0LCX7 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=M... 387 e-106 UniRef50_C5V3W1 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=G... 377 e-103 UniRef50_Q31GC3 Sigma-54 (RpoN) n=2 Tax=Bacteria RepID=Q31GC3_THICR 377 e-103 UniRef50_P77998 RNA polymerase sigma-54 factor n=20 Tax=Xanthomo... 376 e-103 UniRef50_D2UEM7 Probable rna polymerase sigma-54 factor protein ... 374 e-102 UniRef50_A9HW09 RNA polymerase sigma-54 factor n=8 Tax=Betaprote... 367 e-100 UniRef50_Q0ADR2 RNA polymerase, sigma 54 subunit, RpoN n=3 Tax=B... 357 6e-97 UniRef50_Q2LSN3 RNA polymerase sigma-54 factor n=4 Tax=Deltaprot... 355 3e-96 UniRef50_Q6MPK9 RNA polymerase sigma-54 factor n=1 Tax=Bdellovib... 347 5e-94 UniRef50_B8DJR2 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=D... 335 2e-90 UniRef50_A1K6F2 RNA polymerase sigma-54 factor n=9 Tax=Betaprote... 334 4e-90 UniRef50_Q2EU28 RpoN (Fragment) n=40 Tax=Gammaproteobacteria Rep... 333 7e-90 UniRef50_D0LNA6 RNA polymerase, sigma 54 subunit, RpoN n=2 Tax=D... 328 3e-88 UniRef50_B5EEZ6 RNA polymerase, sigma 54 subunit, RpoN n=3 Tax=G... 327 5e-88 UniRef50_C8R228 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=D... 325 2e-87 UniRef50_UPI00016A2E41 RNA polymerase factor sigma-54 n=1 Tax=Bu... 322 2e-86 UniRef50_A9BRF9 RNA polymerase, sigma 54 subunit, RpoN n=16 Tax=... 321 3e-86 UniRef50_A9IMC8 RNA polymerase sigma-54 factor n=3 Tax=Bordetell... 321 4e-86 UniRef50_C8PV20 RNA polymerase sigma-54 factor n=1 Tax=Enhydroba... 321 5e-86 UniRef50_Q03408 RNA polymerase sigma-54 factor n=8 Tax=Alphaprot... 320 6e-86 UniRef50_A3VRA5 DNA-directed RNA polymerase subunit N n=1 Tax=Pa... 317 5e-85 UniRef50_B3Q2R5 RNA polymerase sigma factor protein (Sigma-54) n... 316 1e-84 UniRef50_A5WCB6 RNA polymerase, sigma 54 subunit, RpoN n=3 Tax=P... 315 2e-84 UniRef50_A0LK00 RNA polymerase, sigma 54 subunit, RpoN n=7 Tax=D... 315 2e-84 UniRef50_Q2W084 DNA-directed RNA polymerase specialized sigma su... 314 5e-84 UniRef50_Q0ATI6 RNA polymerase, sigma 54 subunit, RpoN n=2 Tax=A... 312 2e-83 UniRef50_D2L2L2 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=D... 311 3e-83 UniRef50_C8VY02 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=D... 311 3e-83 UniRef50_B4SIK0 RNA polymerase, sigma 54 subunit, RpoN n=3 Tax=S... 310 9e-83 UniRef50_Q1DDF1 RNA polymerase sigma-54 factor n=4 Tax=Cystobact... 309 1e-82 UniRef50_C7R9H7 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=K... 308 2e-82 UniRef50_P30333 RNA polymerase sigma-54 factor 2 n=48 Tax=Alphap... 308 4e-82 UniRef50_B3E461 RNA polymerase, sigma 54 subunit, RpoN n=4 Tax=D... 308 4e-82 UniRef50_C0GFB1 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=D... 306 1e-81 UniRef50_D2LIV1 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=R... 306 1e-81 UniRef50_Q0BUA8 RNA polymerase sigma-54 factor rpoN n=1 Tax=Gran... 306 1e-81 UniRef50_B2UH35 RNA polymerase, sigma 54 subunit, RpoN n=39 Tax=... 306 2e-81 UniRef50_A6TU36 RNA polymerase, sigma 54 subunit, RpoN n=2 Tax=A... 305 2e-81 UniRef50_Q3MKN6 RpoN (Fragment) n=2 Tax=Gammaproteobacteria RepI... 305 2e-81 UniRef50_C0G3T2 RNA polymerase sigma-54 factor n=7 Tax=Alphaprot... 305 2e-81 UniRef50_B0RT01 RNA polymerase sigma-54 factor n=10 Tax=Bacteria... 305 3e-81 UniRef50_B0K876 RNA polymerase, sigma 54 subunit, RpoN n=9 Tax=T... 303 1e-80 UniRef50_C4XU56 RNA polymerase sigma factor n=13 Tax=Desulfovibr... 301 3e-80 UniRef50_D2UDB4 Probable rna polymerase sigma-54 factor protein ... 300 1e-79 UniRef50_P22881 RNA polymerase sigma-54 factor n=38 Tax=Rhizobia... 299 1e-79 UniRef50_A6G445 Sigma-54 (RpoN) n=1 Tax=Plesiocystis pacifica SI... 299 2e-79 UniRef50_A9GI22 RNA polymerase sigma-54 factor n=4 Tax=Myxococca... 293 8e-78 UniRef50_A5CYP0 DNA-directed RNA polymerase specialized sigma su... 293 1e-77 UniRef50_A3EWH7 RNA polymerase, sigma 54 subunit, RpoN n=2 Tax=L... 292 2e-77 UniRef50_Q7WTR8 RpoN (Fragment) n=2 Tax=Pseudomonas RepID=Q7WTR8... 291 5e-77 UniRef50_B9XGP4 RNA polymerase, sigma 54 subunit, RpoN n=2 Tax=V... 288 3e-76 UniRef50_B6FY84 Putative uncharacterized protein n=1 Tax=Clostri... 288 3e-76 UniRef50_A4GID2 DNA-directed RNA polymerase specialized sigma su... 287 6e-76 UniRef50_C8N804 RNA polymerase sigma-54 factor n=1 Tax=Cardiobac... 284 7e-75 UniRef50_C9R8T3 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=A... 282 2e-74 UniRef50_P33984 RNA polymerase sigma-54 factor n=12 Tax=Alphapro... 280 7e-74 UniRef50_Q3SF03 RNA polymease sigma-54 factor protein n=1 Tax=Th... 277 5e-73 UniRef50_D0MG37 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=R... 277 8e-73 UniRef50_C9XR96 RNA polymerase sigma-54 factor n=5 Tax=Clostridi... 276 1e-72 UniRef50_A5EVL1 RNA polymerase sigma-54 factor n=1 Tax=Dicheloba... 276 1e-72 UniRef50_Q0G1W5 DNA-directed RNA polymerase subunit N n=1 Tax=Fu... 276 2e-72 UniRef50_UPI0001C42E0E RNA polymerase sigma factor (sigma54) n=1... 271 5e-71 UniRef50_A5G033 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=A... 270 8e-71 UniRef50_C0Z6M1 RNA polymerase sigma-54 factor n=1 Tax=Brevibaci... 270 8e-71 UniRef50_C1A8U9 RNA polymerase sigma factor n=1 Tax=Gemmatimonas... 269 2e-70 UniRef50_Q0EWW0 DNA-directed RNA polymerase subunit N n=1 Tax=Ma... 268 2e-70 UniRef50_Q4JMT6 Predicted DNA-directed RNA polymerase specialize... 268 5e-70 UniRef50_A9BWZ4 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=D... 267 5e-70 UniRef50_A8W0U1 SUF system FeS assembly protein, NifU family n=1... 266 1e-69 UniRef50_C1SGY5 RNA polymerase, sigma 54 subunit, RpoN/SigL n=1 ... 265 3e-69 UniRef50_C6HU23 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=L... 265 4e-69 UniRef50_B0TGK6 RNA polymerase sigma-54 factor n=1 Tax=Heliobact... 261 5e-68 UniRef50_A0RKT0 RNA polymerase sigma-54 factor n=75 Tax=Bacillus... 261 5e-68 UniRef50_C7IQW3 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=T... 260 6e-68 UniRef50_B9JZG8 RNA polymerase sigma-54 factor n=1 Tax=Agrobacte... 259 2e-67 UniRef50_B2A6Z6 RNA polymerase, sigma 54 subunit, RpoN n=4 Tax=F... 259 2e-67 UniRef50_C6W3I8 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=D... 258 3e-67 UniRef50_B8CYG5 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=H... 258 3e-67 UniRef50_A9H5R6 RNA polymerase sigma-54 factor 1 n=3 Tax=Glucona... 258 3e-67 UniRef50_C1P7Z1 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=B... 256 1e-66 UniRef50_B5ZLK5 RNA polymerase, sigma 54 subunit, RpoN n=2 Tax=G... 255 3e-66 UniRef50_A6CFS8 RNA polymerase subunit sigma-54 n=3 Tax=Planctom... 253 1e-65 UniRef50_B5YI16 RNA polymerase sigma-54 factor n=1 Tax=Thermodes... 250 8e-65 UniRef50_B3E042 DNA-directed RNA polymerase specialized sigma su... 249 1e-64 UniRef50_Q2S3F8 RNA polymerase sigma-54 factor n=2 Tax=Sphingoba... 249 2e-64 UniRef50_A1TNE5 RNA polymerase, sigma 54 subunit, RpoN n=2 Tax=A... 248 3e-64 UniRef50_Q01PW4 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=C... 248 5e-64 UniRef50_Q7UQ69 RNA polymerase subunit sigma-54 n=2 Tax=Planctom... 247 6e-64 UniRef50_C5D7M8 RNA polymerase, sigma 54 subunit, RpoN n=5 Tax=G... 247 7e-64 UniRef50_C1F1M0 RNA polymerase sigma-54 factor n=1 Tax=Acidobact... 245 2e-63 UniRef50_C5TQ27 RNA polymerase sigma-54 factor n=8 Tax=Neisseria... 245 3e-63 UniRef50_B3QT08 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=C... 245 3e-63 UniRef50_D1N390 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=V... 244 6e-63 UniRef50_C4GJ01 Putative uncharacterized protein n=1 Tax=Kingell... 242 2e-62 UniRef50_UPI00016C46F0 RNA polymerase subunit sigma-54 n=1 Tax=G... 241 4e-62 UniRef50_P38944 Putative RNA polymerase sigma-54 factor n=34 Tax... 239 1e-61 UniRef50_B1ZUW1 RNA polymerase, sigma 54 subunit, RpoN n=3 Tax=V... 239 1e-61 UniRef50_C9KMQ5 RNA polymerase sigma-54 factor n=1 Tax=Mitsuokel... 239 2e-61 UniRef50_Q1Q3A8 Strongly similar to RNA polymerase subunit sigma... 238 3e-61 UniRef50_B0S8M7 DNA-directed RNA polymerase sigma-54 subunit n=6... 238 3e-61 UniRef50_UPI0001C34EB5 RNA polymerase factor sigma-54 n=1 Tax=Cl... 238 4e-61 UniRef50_A6NQ00 Putative uncharacterized protein n=1 Tax=Bactero... 237 6e-61 UniRef50_Q6M9X4 Putative RNA polymerase sigma-54 factor (Sigma-N... 237 8e-61 UniRef50_A6CNF4 DNA-directed RNA polymerase subunit N n=1 Tax=Ba... 237 9e-61 UniRef50_B6YQD2 RNA polymerase sigma-54 factor n=1 Tax=Candidatu... 236 1e-60 UniRef50_D1R8J1 Putative uncharacterized protein n=1 Tax=Parachl... 235 2e-60 UniRef50_C7PK09 RNA polymerase, sigma 54 subunit, RpoN n=35 Tax=... 234 5e-60 UniRef50_C7ILW5 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=C... 234 6e-60 UniRef50_P24219 RNA polymerase sigma-54 factor n=7 Tax=Bacillus ... 233 1e-59 UniRef50_Q2B706 DNA-directed RNA polymerase subunit N n=1 Tax=Ba... 229 1e-58 UniRef50_A6DS74 Putative uncharacterized protein n=1 Tax=Lentisp... 228 3e-58 UniRef50_A4ISQ1 RNA polymerase sigma-54 factor RpoN n=3 Tax=Baci... 228 3e-58 UniRef50_D2R5L0 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=P... 228 5e-58 UniRef50_A3V230 Sigma-54 factor (RpoN2) n=1 Tax=Loktanella vestf... 227 9e-58 UniRef50_Q9K710 RNA polymerase sigma factor (Sigma54) n=1 Tax=Ba... 226 1e-57 UniRef50_B2RK26 RNA polymerase sigma-54 factor n=2 Tax=Porphyrom... 225 2e-57 UniRef50_C5ELZ1 RNA polymerase n=3 Tax=Clostridiales RepID=C5ELZ... 225 3e-57 UniRef50_A4SER6 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=C... 225 3e-57 UniRef50_Q1IR37 Sigma-54, RpoN n=1 Tax=Candidatus Koribacter ver... 225 3e-57 UniRef50_B2V793 RNA polymerase, sigma 54 subunit, RpoN n=5 Tax=A... 224 7e-57 UniRef50_B5J6Z7 RNA polymerase sigma-54 factor n=3 Tax=Bacteria ... 224 7e-57 UniRef50_B3ESG5 Putative uncharacterized protein n=1 Tax=Candida... 223 1e-56 UniRef50_B2UL79 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=A... 223 1e-56 UniRef50_B8DD95 RNA polymerase sigma-54 factor n=20 Tax=Listeria... 222 2e-56 UniRef50_D2LXG7 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=B... 219 2e-55 UniRef50_Q5FPW5 RNA polymerase sigma-54 factor RpoN n=1 Tax=Gluc... 219 2e-55 UniRef50_B0P364 Putative uncharacterized protein n=3 Tax=Clostri... 218 3e-55 UniRef50_C3J8N1 RNA polymerase sigma-54 factor n=2 Tax=Bacteria ... 218 6e-55 UniRef50_C0QWG2 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=B... 214 6e-54 UniRef50_C1QAL1 RNA polymerase, sigma 54 subunit, RpoN/SigL n=1 ... 213 9e-54 UniRef50_Q11E47 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=C... 213 1e-53 UniRef50_B1HSZ7 RNA polymerase sigma-54 factor n=2 Tax=Bacillace... 211 4e-53 UniRef50_B0NX39 Putative uncharacterized protein n=1 Tax=Clostri... 210 9e-53 UniRef50_Q3J1U1 Sigma-54 factor (RpoN2) n=4 Tax=Rhodobacter spha... 210 9e-53 UniRef50_C9BP10 RNA polymerase sigma-54 subunit n=11 Tax=Enteroc... 207 8e-52 UniRef50_Q8ENP0 RNA polymerase sigma-54 factor n=1 Tax=Oceanobac... 204 7e-51 UniRef50_B0PGS4 Putative uncharacterized protein n=1 Tax=Anaerot... 202 2e-50 UniRef50_Q5WDK1 DNA-directed RNA polymerase sigma-54 factor sigm... 202 2e-50 UniRef50_Q01194 RNA polymerase sigma-54 factor n=7 Tax=Rhodobact... 202 3e-50 UniRef50_C6VM89 RNA polymerase factor sigma-54 n=5 Tax=Lactobaci... 202 3e-50 UniRef50_B0VJD8 RNA polymerase sigma-54 factor n=1 Tax=Candidatu... 201 6e-50 UniRef50_C2ME31 RNA polymerase sigma-54 factor n=1 Tax=Porphyrom... 200 9e-50 UniRef50_B4S818 RNA polymerase, sigma 54 subunit, RpoN n=10 Tax=... 199 2e-49 UniRef50_B9KSN5 RNA polymerase, sigma 54 subunit, RpoN n=3 Tax=R... 198 3e-49 UniRef50_C9LEP5 RNA polymerase sigma-54 factor n=1 Tax=Prevotell... 198 3e-49 UniRef50_B6BVF1 RNA polymerase sigma-54 factor n=1 Tax=beta prot... 195 2e-48 UniRef50_C8WN98 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=E... 194 4e-48 UniRef50_A6L093 RNA polymerase sigma-54 n=31 Tax=Bacteroidales R... 194 5e-48 UniRef50_A7B1W8 Putative uncharacterized protein n=1 Tax=Ruminoc... 193 1e-47 UniRef50_C8WRI0 RNA polymerase, sigma 54 subunit, RpoN n=2 Tax=A... 193 1e-47 UniRef50_C2ECN0 RNA polymerase factor sigma-54 n=1 Tax=Lactobaci... 193 1e-47 UniRef50_A8UBI0 RNA polymerase sigma-54 factor n=28 Tax=Lactobac... 193 1e-47 UniRef50_C3WCT3 RNA polymerase sigma-54 factor rpoN n=1 Tax=Fuso... 190 8e-47 UniRef50_D1PTK8 DNA-directed RNA polymerase sigma subunit RpoN n... 190 1e-46 UniRef50_UPI0001906882 RNA polymerase factor sigma-54 n=2 Tax=Rh... 190 1e-46 UniRef50_C9RQK6 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=F... 184 5e-45 UniRef50_A9B5F2 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=H... 184 7e-45 UniRef50_C9LBN7 RNA polymerase sigma-54 factor n=1 Tax=Blautia h... 184 7e-45 UniRef50_C8S196 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=R... 184 9e-45 UniRef50_C6JNV9 RNA polymerase sigma-54 factor n=2 Tax=Fusobacte... 182 3e-44 UniRef50_D1W3B9 RNA polymerase sigma-54 factor n=1 Tax=Prevotell... 182 4e-44 UniRef50_Q3IW74 Sigma54-2 (RNA polymerase sigma-54 factor) n=5 T... 179 2e-43 UniRef50_D1CE57 RNA polymerase, sigma 54 subunit, RpoN n=2 Tax=B... 178 5e-43 UniRef50_D0GPK2 RNA polymerase sigma-54 factor n=1 Tax=Leptotric... 175 4e-42 UniRef50_UPI000196CE77 hypothetical protein CATMIT_02522 n=1 Tax... 168 4e-40 UniRef50_C8PMB8 RNA polymerase sigma-54 factor n=1 Tax=Treponema... 164 5e-39 UniRef50_B9L984 RNA polymerase sigma-54 factor n=1 Tax=Nautilia ... 164 6e-39 UniRef50_B3W836 Sigma 54 transcription factor n=2 Tax=Lactobacil... 164 7e-39 UniRef50_D2RMY8 RNA polymerase, sigma 54 subunit, RpoN n=2 Tax=A... 161 5e-38 UniRef50_Q73JL4 RNA polymerase sigma-54 factor, putative n=1 Tax... 161 5e-38 UniRef50_A6DC70 RNA polymerase sigma-54 factor n=1 Tax=Caminibac... 161 7e-38 UniRef50_C3XKI9 RNA polymerase sigma-54 factor n=2 Tax=Campyloba... 158 5e-37 UniRef50_C0CQW9 Putative uncharacterized protein n=1 Tax=Blautia... 157 7e-37 UniRef50_UPI0000D54D13 DNA-directed RNA polymerase subunit N n=1... 155 3e-36 UniRef50_B1CB68 Putative uncharacterized protein n=1 Tax=Anaerof... 154 6e-36 UniRef50_A8LQ77 RNA polymerase sigma-54 factor n=1 Tax=Dinoroseo... 152 2e-35 UniRef50_D1B1S7 RNA polymerase sigma-54 factor, RpoN n=10 Tax=Ca... 148 4e-34 UniRef50_Q9ZLC8 RNA polymerase sigma-54 factor n=34 Tax=Campylob... 148 5e-34 UniRef50_Q256I9 DNA-directed RNA polymerase sigma 54 n=5 Tax=Chl... 145 2e-33 UniRef50_B9Y8Z2 Putative uncharacterized protein n=1 Tax=Holdema... 145 4e-33 UniRef50_C0XEY8 RNA polymerase factor sigma-54 n=2 Tax=Lactobaci... 144 1e-32 UniRef50_Q7P6F0 RNA polymerase sigma-54 factor rpoN n=9 Tax=Fuso... 144 1e-32 UniRef50_UPI000196AFF4 hypothetical protein CATMIT_00324 n=1 Tax... 143 1e-32 UniRef50_Q7M8V1 RNA POLYMERASE SIGMA-54 FACTOR n=1 Tax=Wolinella... 140 1e-31 UniRef50_A8RDS7 Putative uncharacterized protein n=1 Tax=Eubacte... 140 1e-31 UniRef50_C8PAD9 DNA-directed RNA polymerase sigma subunit RpoN n... 139 2e-31 UniRef50_C5EQJ4 RNA polymerase n=1 Tax=Clostridiales bacterium 1... 137 9e-31 UniRef50_C4PNB9 RNA polymerase sigma-54 factor n=8 Tax=Chlamydia... 137 1e-30 UniRef50_Q30RF5 Sigma-54 (RpoN) n=2 Tax=Campylobacterales RepID=... 136 2e-30 UniRef50_D0D5Z1 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=C... 131 7e-29 UniRef50_O66858 RNA polymerase sigma factor RpoN n=1 Tax=Aquifex... 127 7e-28 UniRef50_Q5LLX0 RNA polymerase sigma-54 factor n=1 Tax=Ruegeria ... 127 1e-27 UniRef50_A7TBU8 Predicted protein n=1 Tax=Nematostella vectensis... 127 1e-27 UniRef50_UPI0001912E87 hypothetical protein Salmonellaentericaen... 125 2e-27 UniRef50_B7J217 RNA polymerase sigma-54 factor n=19 Tax=Borrelia... 123 1e-26 UniRef50_C5CDZ9 Sigma-54 DNA-binding domain protein n=1 Tax=Kosm... 121 5e-26 UniRef50_O83149 RNA polymerase sigma-54 factor n=2 Tax=Treponema... 118 6e-25 UniRef50_B7C885 Putative uncharacterized protein n=1 Tax=Eubacte... 116 2e-24 UniRef50_A8UUG6 RNA polymerase sigma factor RpoN n=1 Tax=Hydroge... 110 1e-22 UniRef50_UPI0001BC42F5 RNA polymerase factor sigma-54 n=2 Tax=Fu... 105 3e-21 UniRef50_C6S982 RNA polymerase sigma-54 factor n=22 Tax=Neisseri... 102 4e-20 UniRef50_A1BC03 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=P... 101 8e-20 UniRef50_B4U9T0 Sigma-54 DNA-binding domain protein n=1 Tax=Hydr... 96 4e-18 UniRef50_C4L5I1 Sigma-54 DNA-binding domain protein n=1 Tax=Exig... 91 1e-16 UniRef50_B1YLE5 Sigma-54 DNA-binding domain protein n=1 Tax=Exig... 87 1e-15 UniRef50_C4FUT1 Putative uncharacterized protein n=1 Tax=Catonel... 86 2e-15 UniRef50_UPI00006DCE7B hypothetical protein CdifQ_04003678 n=1 T... 86 4e-15 UniRef50_B9Y4S8 Putative uncharacterized protein n=1 Tax=Holdema... 80 1e-13 UniRef50_B5SFM8 Putative rna polymerase sigma n (Sigma 54) facto... 77 2e-12 UniRef50_A7HM99 Sigma-54 DNA-binding domain protein n=1 Tax=Ferv... 67 1e-09 UniRef50_C1TNP1 DNA-directed RNA polymerase specialized sigma su... 67 2e-09 UniRef50_A8F4Z2 Sigma-54 DNA-binding domain protein n=1 Tax=Ther... 65 4e-09 UniRef50_D0R1X8 Putative uncharacterized protein n=1 Tax=Lactoba... 59 6e-07 UniRef50_D0R1X9 Putative uncharacterized protein n=2 Tax=Lactoba... 52 5e-05 UniRef50_B1CB69 Putative uncharacterized protein n=1 Tax=Anaerof... 49 3e-04 UniRef50_D0R1Y0 Putative uncharacterized protein n=2 Tax=Lactoba... 49 6e-04 >UniRef50_P06223 RNA polymerase sigma-54 factor n=235 Tax=Gammaproteobacteria RepID=RP54_KLEOX Length = 477 Score = 879 bits (2272), Expect = 0.0, Method: Compositional matrix adjust. Identities = 424/477 (88%), Positives = 454/477 (95%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQAL+SNPLLEQ D H+E++T+E Sbjct: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALDSNPLLEQTDLHDEVETKE 60 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 +D E+LDT DALEQKEMPEELPLDASWD IYTAGTPSG DY DDELPVYQGETTQ+L Sbjct: 61 AEDRESLDTVDALEQKEMPEELPLDASWDEIYTAGTPSGNGVDYQDDELPVYQGETTQSL 120 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 QDYLMWQVELTPF+DTDRAIATSIVDAVD+TGYLT+ +EDI+ESIGD+EI ++EVEAVLK Sbjct: 121 QDYLMWQVELTPFTDTDRAIATSIVDAVDDTGYLTISVEDIVESIGDDEIGLEEVEAVLK 180 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 RIQRFDPVGVAAKDLRDCLL+QLSQF K TPW+EEARLIISDHLDLLANHDFR+LMRVTR Sbjct: 181 RIQRFDPVGVAAKDLRDCLLVQLSQFAKETPWIEEARLIISDHLDLLANHDFRSLMRVTR 240 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQIN 300 LKE+VLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRK N W VELNSDS+PRL+IN Sbjct: 241 LKEEVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKVNDRWVVELNSDSLPRLKIN 300 Query: 301 QHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 Q YA+M N+ RND D QFIRSNLQ+A+WLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE Sbjct: 301 QQYAAMGNSTRNDADGQFIRSNLQEARWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 Query: 361 YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAI 420 +MKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAI Sbjct: 361 FMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAI 420 Query: 421 RALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQLV 477 RALVKKLIAAENPAKPLSDSKLT++LS+QGIMVARRTVAKYRESLSIPPSNQRKQLV Sbjct: 421 RALVKKLIAAENPAKPLSDSKLTTMLSDQGIMVARRTVAKYRESLSIPPSNQRKQLV 477 >UniRef50_C9XTZ3 RNA polymerase sigma-54 factor n=6 Tax=Enterobacteriaceae RepID=C9XTZ3_CROTZ Length = 479 Score = 877 bits (2265), Expect = 0.0, Method: Compositional matrix adjust. Identities = 426/479 (88%), Positives = 456/479 (95%), Gaps = 2/479 (0%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQ D H+EI T+E Sbjct: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQTDIHDEIATQE 60 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 TQDSE LDTA+ALEQKEMP+ELPLDASWD IYTAGTPSGT DYIDDELPVYQGETTQ+L Sbjct: 61 TQDSEGLDTAEALEQKEMPDELPLDASWDEIYTAGTPSGTGTDYIDDELPVYQGETTQSL 120 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDI--DEVEAV 178 QDYLMWQV+LTPF+DTDRAIAT+IVDAVD+TGYLTV ++DIL+ +GD + DI +E+EAV Sbjct: 121 QDYLMWQVQLTPFTDTDRAIATAIVDAVDDTGYLTVTVQDILDGMGDNDDDIGPEEIEAV 180 Query: 179 LKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRV 238 LKR+QRFDPVGVAA+DLRDCLLIQLSQF TP+L +AR I+SDHLDLLANHDFR+LMRV Sbjct: 181 LKRVQRFDPVGVAARDLRDCLLIQLSQFSAETPFLAQARQIVSDHLDLLANHDFRSLMRV 240 Query: 239 TRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQ 298 TRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNG WTVELN+DSIPRL+ Sbjct: 241 TRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGRWTVELNADSIPRLK 300 Query: 299 INQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQG 358 INQ YA+M +ARN+ DSQFIRSNLQ+AKWLIKSLESRNDTLLRVSRCIVEQQQAFF+QG Sbjct: 301 INQQYAAMSGSARNESDSQFIRSNLQEAKWLIKSLESRNDTLLRVSRCIVEQQQAFFDQG 360 Query: 359 EEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASST 418 EEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASST Sbjct: 361 EEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASST 420 Query: 419 AIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQLV 477 AIRALVKKLIAAENPAKPLSDSKLTS+LSEQGIMVARRTVAKYRESLSIPPSNQRKQLV Sbjct: 421 AIRALVKKLIAAENPAKPLSDSKLTSMLSEQGIMVARRTVAKYRESLSIPPSNQRKQLV 479 >UniRef50_UPI000169A703 RNA polymerase sigma-54 factor n=5 Tax=Enterobacteriaceae RepID=UPI000169A703 Length = 353 Score = 586 bits (1511), Expect = e-166, Method: Compositional matrix adjust. Identities = 280/351 (79%), Positives = 318/351 (90%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 MKQGLQL+ SQQLAMTPQLQQAIRLLQLSTLELQQE+Q ALESNPLLEQ D HEEID +E Sbjct: 1 MKQGLQLKFSQQLAMTPQLQQAIRLLQLSTLELQQEIQLALESNPLLEQTDLHEEIDAKE 60 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 T DSE+LDT +ALEQK+MPEELPLDA+WD IYTAGTPSG DY DDELPVYQGETTQTL Sbjct: 61 TVDSESLDTREALEQKDMPEELPLDATWDEIYTAGTPSGMGNDYSDDELPVYQGETTQTL 120 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 QDYLMWQV+LTPF++TD AIATSIVDAVD+TGYLTVPLEDILES+GDE + +DEVEAVLK Sbjct: 121 QDYLMWQVDLTPFTETDAAIATSIVDAVDDTGYLTVPLEDILESMGDENVALDEVEAVLK 180 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 RIQ FDP+GVAA++LR+CLL+QLSQ+ K TP+L EARLI+S++LDLL NHDFR ++R++R Sbjct: 181 RIQHFDPIGVAARNLRECLLVQLSQYAKDTPYLAEARLIVSEYLDLLGNHDFRMMIRLSR 240 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQIN 300 LKED LKEA+ LIQSLDPRPGQSI TGE EYVIPDVLVRK G WTVELN+DSIPRL++N Sbjct: 241 LKEDTLKEAIALIQSLDPRPGQSINTGESEYVIPDVLVRKEKGIWTVELNADSIPRLKVN 300 Query: 301 QHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQ 351 Q YA+M N+ RND D QFIRSNLQ+AKWLIKSLESRN+TLL+V+RCIVEQQ Sbjct: 301 QQYAAMGNSVRNDSDGQFIRSNLQEAKWLIKSLESRNETLLKVARCIVEQQ 351 >UniRef50_P08623 RNA polymerase sigma-54 factor n=31 Tax=Gammaproteobacteria RepID=RP54_AZOVI Length = 502 Score = 538 bits (1385), Expect = e-151, Method: Compositional matrix adjust. Identities = 281/504 (55%), Positives = 363/504 (72%), Gaps = 29/504 (5%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDT-- 58 MK L L++ QQL MTPQLQQAIRLLQLSTL+LQQE+Q+AL+SNP+LE+ + E+ D+ Sbjct: 1 MKPSLVLKMGQQLTMTPQLQQAIRLLQLSTLDLQQEIQEALDSNPMLERQEDAEDYDSPD 60 Query: 59 --RETQDSETLDTADALEQK---------------------EMPEELPLDASWDTIYTAG 95 E D TLDT Q+ +P ELP+D +W+ IY Sbjct: 61 MLGEHGDQSTLDTTPGSYQEGYESGAASEDGGTLEEGDWHERIPSELPVDTAWEDIYQTS 120 Query: 96 TPSGTSGDYIDDELP-VYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYL 154 + S D +DE + T ++LQ +L+WQ+ LTP SDTDR IA +++D+++ GYL Sbjct: 121 ASNLPSTD--EDEWDFTTRTSTGESLQSHLLWQLNLTPMSDTDRLIAVTLIDSINSDGYL 178 Query: 155 TVPLEDILESIGDE-EIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWL 213 LE+IL S+ E +++DEVE VL+RIQ+F+P G+AA+DL + LL+QL Q TPWL Sbjct: 179 EAALEEILASLDPELGVELDEVEMVLRRIQQFEPAGIAARDLSESLLLQLRQLPPDTPWL 238 Query: 214 EEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVI 273 EEA+ + D+LDLL N DF LMR +LKE+ L+ + LIQSL+PRPG I++ EPEYV+ Sbjct: 239 EEAKRLAKDYLDLLGNRDFTQLMRRMKLKEEELRPVIELIQSLNPRPGAQIESSEPEYVV 298 Query: 274 PDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSL 333 PDV+VRKHN W VELN +++PRL+IN HYA A D+ F+R+ LQ+A+W IKSL Sbjct: 299 PDVIVRKHNDRWLVELNQEAVPRLRINPHYAGFIRRADASADNTFMRNQLQEARWFIKSL 358 Query: 334 ESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSP 393 +SRN+TL++VS IVE Q+ F + GEE MKP+VL DIA+AV MHESTISRVTTQKY+H+P Sbjct: 359 QSRNETLMKVSTQIVEHQRGFLDYGEEAMKPLVLHDIAEAVGMHESTISRVTTQKYMHTP 418 Query: 394 RGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMV 453 RGI+ELKYFFSSHV+T GGE SSTAIRA++KKLIAAENP KPLSDSK+ LL EQGI V Sbjct: 419 RGIYELKYFFSSHVSTAEGGECSSTAIRAIIKKLIAAENPKKPLSDSKIAGLLEEQGIQV 478 Query: 454 ARRTVAKYRESLSIPPSNQRKQLV 477 ARRTVAKYRESLSI PS++RK+L+ Sbjct: 479 ARRTVAKYRESLSIAPSSERKRLM 502 >UniRef50_P0A171 RNA polymerase sigma-54 factor n=83 Tax=Gammaproteobacteria RepID=RP54_PSEPK Length = 497 Score = 533 bits (1374), Expect = e-150, Method: Compositional matrix adjust. Identities = 270/499 (54%), Positives = 359/499 (71%), Gaps = 24/499 (4%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTR- 59 MK L L++ QQL MTPQLQQAIRLLQLSTL+LQQE+Q+ALESNP+LE+ + E+ D Sbjct: 1 MKPSLVLKMGQQLTMTPQLQQAIRLLQLSTLDLQQEIQEALESNPMLERQEDGEDFDNSD 60 Query: 60 ------------ETQDS---ETLDTADALEQKE----MPEELPLDASWDTIYTAGTPSGT 100 E QD+ E+ +AD LE E +P ELP+D +W+ IY S Sbjct: 61 PMADNAENKPAAEVQDNSFQESTVSADNLEDGEWSERIPNELPVDTAWEDIYQTSASSLP 120 Query: 101 SGDYIDDELP-VYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLE 159 S D DDE + ++LQ +L+WQ+ L P SDTDR IA +++D+++ GYL LE Sbjct: 121 SND--DDEWDFTTRTSAGESLQSHLLWQLNLAPMSDTDRLIAVTLIDSINGQGYLEDTLE 178 Query: 160 DILESIGDE-EIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARL 218 +I E +I++DEVEAVL RIQ+F+P GV A++L +CLL+QL Q TTPW+ EA+ Sbjct: 179 EICAGFDPELDIELDEVEAVLHRIQQFEPAGVGARNLGECLLLQLRQLPATTPWMTEAKR 238 Query: 219 IISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLV 278 +++D +DLL + D+ LMR ++KED L++ + L+QSL+PRPG I++ EPEYV+PDV+V Sbjct: 239 LVTDFIDLLGSRDYSQLMRRMKIKEDELRQVIELVQSLNPRPGSQIESSEPEYVVPDVIV 298 Query: 279 RKHNGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRND 338 RK + W VELN ++IPRL++N YA A D+ F+R+ LQ+A+W IKSL+SRN+ Sbjct: 299 RKDSDRWLVELNQEAIPRLRVNPQYAGFVRRADTSADNTFMRNQLQEARWFIKSLQSRNE 358 Query: 339 TLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFE 398 TL++V+ IVE Q+ F + G+E MKP+VL DIA+AV MHESTISRVTTQKY+H+PRGI+E Sbjct: 359 TLMKVATQIVEHQRGFLDHGDEAMKPLVLHDIAEAVGMHESTISRVTTQKYMHTPRGIYE 418 Query: 399 LKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTV 458 LKYFFSSHV+T GGE SSTAIRA++KKL+AAEN KPLSDSK+ LL QGI VARRTV Sbjct: 419 LKYFFSSHVSTSEGGECSSTAIRAIIKKLVAAENQKKPLSDSKIAGLLEAQGIQVARRTV 478 Query: 459 AKYRESLSIPPSNQRKQLV 477 AKYRESL I PS++RK+L+ Sbjct: 479 AKYRESLGIAPSSERKRLM 497 >UniRef50_A0Z7G1 DNA-directed RNA polymerase subunit N n=1 Tax=marine gamma proteobacterium HTCC2080 RepID=A0Z7G1_9GAMM Length = 475 Score = 475 bits (1222), Expect = e-132, Method: Compositional matrix adjust. Identities = 253/487 (51%), Positives = 334/487 (68%), Gaps = 22/487 (4%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQ---IDTHEEID 57 MKQ LQL++ Q LA+TPQLQQAI+LLQLSTL+LQQ +++ LESNPLLE+ D+HEE Sbjct: 1 MKQSLQLKMGQSLALTPQLQQAIKLLQLSTLDLQQAIEETLESNPLLEREEDGDSHEE-- 58 Query: 58 TRETQDSET-LDTADALEQKEMPEELPLDASWDTIYTAGTPS-----GTSGDYID-DELP 110 TQ S++ +D + + +ELP+D W+ + + P G G + D D P Sbjct: 59 ---TQSSQSDVDFTTPVAEPNSADELPVDTRWEDLMPSSAPPPSSPDGEMGQFADRDAEP 115 Query: 111 VYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEI 170 +TL D L WQ+ LT FS TD IAT+ +DAVD G LT E+IL+++ D EI Sbjct: 116 -------ETLHDQLHWQLNLTRFSVTDHMIATAFIDAVDANGRLTQTPEEILDALRDPEI 168 Query: 171 DIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANH 230 ++DEV AVL R+Q F+P G+ A DLR+CLL+QL Q D+ P A I + HL+ +A Sbjct: 169 ELDEVLAVLHRLQHFEPTGIFASDLRECLLLQLRQMDEEVPHRNTAGAIANRHLESIATA 228 Query: 231 DFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELN 290 D R L R R + + A+NLI+SLDP PG S+ EY+IPDV V + NGHW VELN Sbjct: 229 DPRQLSRRLRTTPEDVIGALNLIRSLDPTPGTSVGESTTEYIIPDVFVLRKNGHWRVELN 288 Query: 291 SDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQ 350 D P+L+IN Y+ + + D ++R NLQ+AK+ + SL +RN+TLL+V+ IVE Sbjct: 289 PDIAPKLRINALYSELVGQTGSASDKSYVRENLQEAKFFMTSLHNRNETLLKVASKIVEH 348 Query: 351 QQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTE 410 Q+ F E GEE MKP++LADIAQ + MHEST+SR TT+KY+H+PRGI+ELK+FFSSHV T Sbjct: 349 QREFLELGEEAMKPLILADIAQQIGMHESTVSRATTRKYMHTPRGIYELKFFFSSHVATI 408 Query: 411 GGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPS 470 GGE SSTAI+AL+KKL+ EN KPLSD+KL LL EQGI+VARRTVAKYRE L+IPPS Sbjct: 409 EGGERSSTAIKALIKKLVQGENTKKPLSDNKLGVLLEEQGIIVARRTVAKYREQLNIPPS 468 Query: 471 NQRKQLV 477 N+R++L+ Sbjct: 469 NERRRLL 475 >UniRef50_Q5WZ64 RNA polymerase sigma-54 factor (Sigma-L) n=6 Tax=Legionella RepID=Q5WZ64_LEGPL Length = 464 Score = 468 bits (1204), Expect = e-130, Method: Compositional matrix adjust. Identities = 236/482 (48%), Positives = 324/482 (67%), Gaps = 30/482 (6%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHE----EI 56 MK LQ+ + Q L +TPQLQQAIRLLQLST +LQQE+Q +ESNPLLE E +I Sbjct: 1 MKPTLQIGIGQHLTLTPQLQQAIRLLQLSTFDLQQEIQLVVESNPLLEATPVEEKEDAQI 60 Query: 57 DTRETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGT--SGDYIDDELPVYQG 114 +T + D + D W +Y DY D L Sbjct: 61 NTNQNHDEYS------------------DFQWSQLYNNLNKRNNFEENDYNFDNLHC--- 99 Query: 115 ETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEE--IDI 172 TT LQD+L WQ++LTP SD DR IAT+I+DA+++ G+LT+P+ +I S+ ++ +DI Sbjct: 100 -TTTNLQDHLNWQLDLTPMSDIDRVIATTIIDAINDDGFLTIPVAEIHASLNSDDFPLDI 158 Query: 173 DEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDF 232 +E+EAV R+Q FDPVG A+ +L + L++QL Q L A+ +I + ++LL H++ Sbjct: 159 EEIEAVRHRLQLFDPVGCASVNLAETLVLQLEQLPLEPKLLATAKKVILEDIELLGQHNY 218 Query: 233 RTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSD 292 R LM+ ++ E + E + +I L+P+PG I EYVIPD+ V+K + W V LN D Sbjct: 219 RQLMKNHQISEKTIHEILQVIHKLNPKPGSLIHQDNIEYVIPDLTVKKIDNQWKVFLNQD 278 Query: 293 SIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQ 352 +PRL IN YA++ A N D+QF++ NLQ+A+W +KS++SR +TLL+V+ CI+E Q Sbjct: 279 ILPRLSINSQYAALIQRANNSLDNQFLKHNLQEARWFLKSIQSRQETLLKVATCIMEYQH 338 Query: 353 AFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGG 412 F E GEE MKP++L D+A A++MHEST+SRVTTQK++++PRG+FELKYFFSSHVNT+ G Sbjct: 339 GFLEFGEEAMKPLILNDVASALDMHESTVSRVTTQKFINTPRGVFELKYFFSSHVNTDNG 398 Query: 413 GEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQ 472 GE SSTAIRA++KKLI+AEN KPLSDSK+ L+ EQGI VARRTVAKYRE++ IPPSN+ Sbjct: 399 GECSSTAIRAVIKKLISAENRKKPLSDSKIAQLIGEQGIKVARRTVAKYREAMGIPPSNE 458 Query: 473 RK 474 RK Sbjct: 459 RK 460 >UniRef50_D1RJS1 RNA polymerase sigma-54 factor RpoN n=1 Tax=Legionella longbeachae D-4968 RepID=D1RJS1_LEGLO Length = 465 Score = 468 bits (1203), Expect = e-130, Method: Compositional matrix adjust. Identities = 242/478 (50%), Positives = 326/478 (68%), Gaps = 21/478 (4%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQI--DTHEEIDT 58 MK LQL +SQ L +TPQLQQAIR+LQLST++LQQE+Q LESNPLLE + EEI Sbjct: 1 MKPSLQLSISQHLTLTPQLQQAIRILQLSTIDLQQEIQLVLESNPLLEATPNEDKEEIAI 60 Query: 59 RETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQ 118 ET+ E + D W +Y + + TS D +D TT Sbjct: 61 DETRQQENDQS---------------DFQWSELYQS-SDKRTSFDDVDYNFDNLHCTTT- 103 Query: 119 TLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEE--IDIDEVE 176 L+D+L WQ+ L+P SD DRAIAT+I+DA++ G+L++ + ++ S+ EE +D+DE+E Sbjct: 104 NLKDHLKWQLNLSPMSDIDRAIATAIIDAMNSDGFLSMGITELHASLTSEEHPLDLDEIE 163 Query: 177 AVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLM 236 AV R+Q FDPVG A +L + LLIQL Q + T L A+ II+ ++LL H++R LM Sbjct: 164 AVRHRLQLFDPVGCACINLAETLLIQLEQLPQDTEHLALAKKIITKDIELLGQHNYRQLM 223 Query: 237 RVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPR 296 + ++ E + + +IQ L+P+PG I EY+IPD+ V+K N W V LN +P Sbjct: 224 KNHQITEKTIDSVLKIIQKLNPKPGNLIHEDITEYIIPDLTVKKINNQWQVHLNQSVLPH 283 Query: 297 LQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFE 356 L IN YAS+ A N D+ F+++NLQ+A+W +KS++SR +TLL+V+ CI++ QQ F E Sbjct: 284 LSINNQYASLIQRADNSADNLFLKNNLQEARWFLKSIQSRQETLLKVATCIMQYQQGFLE 343 Query: 357 QGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEAS 416 GEE MKP++L DIA A+EMHESTISRVTTQK++H+PRG+FELKYFFSSH++T G E S Sbjct: 344 YGEEAMKPLILNDIAIALEMHESTISRVTTQKFIHTPRGVFELKYFFSSHISTNVGEECS 403 Query: 417 STAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRK 474 STAIRA++KKLIAAEN KPLSDSK+T LL +QGI VARRTVAKYRE++ I PSN+RK Sbjct: 404 STAIRAVIKKLIAAENRKKPLSDSKITQLLEKQGIQVARRTVAKYREAMGIAPSNERK 461 >UniRef50_Q1YU16 DNA-directed RNA polymerase subunit N n=1 Tax=gamma proteobacterium HTCC2207 RepID=Q1YU16_9GAMM Length = 490 Score = 463 bits (1192), Expect = e-129, Method: Compositional matrix adjust. Identities = 246/496 (49%), Positives = 347/496 (69%), Gaps = 26/496 (5%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M+QGLQL++SQQL MTPQLQQAIRLLQLSTL+L+QE+ + L SNPLLE E+I Sbjct: 1 MRQGLQLKISQQLTMTPQLQQAIRLLQLSTLDLRQEMIEQLYSNPLLE---MDEDIPESP 57 Query: 61 TQD-----SETLDTADA---LEQK-------EMPEELPLDASWDTIYTA-GTPSGTSGDY 104 QD SE+ A+A EQ E+P+++P+DA+WD +Y+ T + +SG Sbjct: 58 GQDADPTTSESNQVAEAERNSEQNPEYEWNDEIPKDVPVDANWDDVYSPPTTAASSSGGE 117 Query: 105 IDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILES 164 ++ E V+Q T++ Q +L WQ+ LTPFSD DR IA++ +D++D +G++ L DI Sbjct: 118 VNLE-QVFQ--VTESFQGHLEWQLNLTPFSDRDREIASAFIDSIDSSGFIAAELSDITAH 174 Query: 165 IGDEEIDI----DEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLII 220 I ++I+ DE+ AVL R+Q+FDP GV A+ + +CL IQL+Q T +L+ A+ ++ Sbjct: 175 IHYDDIEDQLHEDELVAVLHRLQQFDPPGVFARSISECLTIQLNQLSPETQYLQSAKHLV 234 Query: 221 SDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRK 280 L +A+ D L + T L+ + L+ A+ L++ L+PRPG+S+ + + EY++PD V K Sbjct: 235 DGFLQDIASVDSARLAKKTGLEINELQGALQLVRGLNPRPGESLSSNDVEYIVPDAYVEK 294 Query: 281 HNGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTL 340 G W V+LN ++PRL+IN Y+S+ + + +QF++ NL +A+W ++S+ESRN+TL Sbjct: 295 IKGRWRVKLNDSNMPRLRINDSYSSLIKRSDSSDQNQFLKDNLAEARWFLRSIESRNETL 354 Query: 341 LRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELK 400 +RV+ IVE Q+ F + G MKPMVL+DIA +E+HESTISRVTT KYL +P+GIFELK Sbjct: 355 MRVAMTIVELQRGFLDHGPVAMKPMVLSDIASKLELHESTISRVTTSKYLATPQGIFELK 414 Query: 401 YFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAK 460 YFFSSHV+T GGGE SSTA+ A++K+LI AE P KPLSDSKLTS+L +QGI VARRTVAK Sbjct: 415 YFFSSHVSTAGGGECSSTAVCAILKELIGAEQPEKPLSDSKLTSMLEQQGIQVARRTVAK 474 Query: 461 YRESLSIPPSNQRKQL 476 YRESL IP S+QRK+ Sbjct: 475 YRESLGIPSSSQRKRF 490 >UniRef50_P24695 RNA polymerase sigma-54 factor n=3 Tax=Acidithiobacillus ferrooxidans RepID=RP54_THIFE Length = 475 Score = 452 bits (1163), Expect = e-125, Method: Compositional matrix adjust. Identities = 241/489 (49%), Positives = 336/489 (68%), Gaps = 27/489 (5%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQ----------I 50 MKQGL+L+L Q LAMTPQLQQAIRLLQLST++LQQE+Q LESNPLL++ I Sbjct: 1 MKQGLELKLGQHLAMTPQLQQAIRLLQLSTVDLQQEVQGMLESNPLLDEETGDEGGGGPI 60 Query: 51 DTHEEIDTRETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELP 110 E+ + E Q LD A + +P+ELP+D+ WD I+ GT SG SG+ D++LP Sbjct: 61 PETVELPSEERQ----LDLA---AENILPDELPVDSQWDDIFDMGT-SG-SGNGSDEDLP 111 Query: 111 VYQGET--TQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDE 168 ++ TQ+LQDYL WQ ++T F+ +R +A I+DA+DE GYL LED+ ++ + Sbjct: 112 DFESRNSRTQSLQDYLRWQADMTHFTADERNMAELIIDAIDERGYLADSLEDLAATMNVQ 171 Query: 169 EIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQF-DKTTPWLEEARLIISDHLDLL 227 E D + AVL R+Q FDP GV A++L +CLL+QL Q +K + A+ I+ DHL L Sbjct: 172 E---DALLAVLLRVQDFDPPGVGARNLSECLLLQLKQMVEKDDAHVLLAQRIVKDHLQAL 228 Query: 228 ANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTV 287 HD+ L V + E L+ A+ LI +L+P+PG+ + T EYVIPDV+VR Sbjct: 229 GRHDYPRLCTVLGVDEAALRAAMALISALNPKPGEDVGTESTEYVIPDVIVRWAGSRLRT 288 Query: 288 ELNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCI 347 +LN +++P+L+IN+HYA M D ++I+ L +A+W IKSL+SR DT+L+V+R I Sbjct: 289 DLNPEAMPKLRINRHYADMAGG--KDAAHKYIQDQLNEARWFIKSLQSRQDTILKVARAI 346 Query: 348 VEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHV 407 VE+Q+ FF G E M+PMVL IA AVEMHEST+SRVT QKY+ +PRG++E KYFFSSHV Sbjct: 347 VERQKDFFANGPESMRPMVLRHIADAVEMHESTVSRVTNQKYMITPRGLYEFKYFFSSHV 406 Query: 408 NTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSI 467 T+ GG AS+TAIRAL+ K+ AE+ PLSD+++ +L++QGI +ARRTVAKYRE+ ++ Sbjct: 407 GTDSGGSASATAIRALLIKMTQAEDAQHPLSDAEIARVLADQGIQIARRTVAKYREAANV 466 Query: 468 PPSNQRKQL 476 PP++QR++L Sbjct: 467 PPASQRRRL 475 >UniRef50_D0STY4 RNA polymerase sigma-54 factor n=1 Tax=Acinetobacter lwoffii SH145 RepID=D0STY4_ACILW Length = 483 Score = 414 bits (1065), Expect = e-114, Method: Compositional matrix adjust. Identities = 231/488 (47%), Positives = 333/488 (68%), Gaps = 16/488 (3%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQID---THEEID 57 M+ + ++++ L++TPQLQQAIRLLQLS+LEL+QE+Q L+SNPLLE+++ T E + Sbjct: 1 MRLSVGIKIANSLSLTPQLQQAIRLLQLSSLELEQEVQLQLDSNPLLEKVEEQITLESLS 60 Query: 58 TRETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETT 117 T E+ ++E D + L +P++LP+D WD +YT S + ++ + E QG Sbjct: 61 TIES-NNENHDLTNELNADHLPDDLPVDTDWDDVYTHQPTSLGAAEFEERE-DNRQGH-- 116 Query: 118 QTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYL-------TVPLEDILESIG-DEE 169 Q+LQ+Y++ Q+ L FS D+ IA IVD++D+ G+L T ++ +L S+G +EE Sbjct: 117 QSLQEYMLEQINLLNFSQVDKLIAYCIVDSLDDKGFLDAELSEITASVQHLLSSMGSEEE 176 Query: 170 IDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLAN 229 I+ DEV VLK IQR DPVGV ++ L +CLL+QL +T +A ++ H +LL Sbjct: 177 IEDDEVAVVLKHIQRLDPVGVGSRSLAECLLVQLDNLPTSTSCRNDAIKLLQ-HYELLIT 235 Query: 230 HDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVEL 289 ++ L++ T L + L+ AV+L+++L P PG + E +Y +PDV+V K N W V L Sbjct: 236 NELPKLIKQTGLNPEQLRCAVDLLKTLKPHPGLEFENKESDYQVPDVVVMKKNNCWQVNL 295 Query: 290 NSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVE 349 NSD +P+L++N YA M A D+Q++R+ + +AK IKS++ R+ TLL+V+ CIVE Sbjct: 296 NSDVLPKLRVNSFYAKMIRRADQSDDNQYLRNQMLEAKNFIKSIDERHKTLLKVATCIVE 355 Query: 350 QQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNT 409 Q+ F E G E MKP+VL DIA+ VE+HEST+SRVTT KY+ +PRG+FELKYFFSSHV T Sbjct: 356 HQKMFLEIGAEGMKPLVLRDIAEEVELHESTVSRVTTNKYMLTPRGLFELKYFFSSHVGT 415 Query: 410 EGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPP 469 GGEASSTAIRA +KKLI+ EN KPLSD+ + ++L ++GI VARRTVAKYRESL IP Sbjct: 416 TSGGEASSTAIRAKIKKLISEENARKPLSDNAIANMLKDEGIDVARRTVAKYRESLHIPS 475 Query: 470 SNQRKQLV 477 S++RK L+ Sbjct: 476 SSERKVLI 483 >UniRef50_Q6FED3 RNA polymerase sigma-54 factor n=4 Tax=Acinetobacter RepID=Q6FED3_ACIAD Length = 482 Score = 405 bits (1041), Expect = e-111, Method: Compositional matrix adjust. Identities = 229/488 (46%), Positives = 325/488 (66%), Gaps = 17/488 (3%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQID---THEEID 57 MK + L+++ L++TPQLQQAIRLLQLS+LEL+QE+Q L+SNPLLE+I+ T E + Sbjct: 1 MKLSVGLKVANSLSLTPQLQQAIRLLQLSSLELEQEIQIQLDSNPLLEKIEDEGTAESLT 60 Query: 58 TRETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETT 117 E ++S D L +P +LP+D WD +YT + + S +Y + E + Sbjct: 61 HLENKESR--DLTQDLNADHLPNDLPVDTDWDDVYTHQSTALASPEYEERE---DNRQAE 115 Query: 118 QTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYL-------TVPLEDILESIG-DEE 169 TL+++++ QV L FS DR IA +VD +DE G+L + +L G +EE Sbjct: 116 HTLKEHILAQVNLLHFSTVDRLIAYCVVDCLDEKGFLDAEIEEIIEAAQYLLSEAGLEEE 175 Query: 170 IDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLAN 229 I+ DEV VLK IQR DPVGV +K+L +CL +QL D TP EA L + + +LL + Sbjct: 176 IEADEVMVVLKHIQRLDPVGVGSKNLAECLKVQLDVLDVFTPLRNEA-LSLLKYYELLVS 234 Query: 230 HDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVEL 289 +D L++ T L +KEA+ L+++L P PG + + +Y +PDV+V K + W V+L Sbjct: 235 NDLNKLLKSTNLTMLQVKEAIELLKTLKPYPGLDFEAQDSDYQVPDVVVTKKDQSWQVQL 294 Query: 290 NSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVE 349 N D +P+L+IN Y++M A + ++R+ + +AK IKS++ R+ TLL+V+ CIVE Sbjct: 295 NPDIMPKLRINSFYSNMIRRADQSDGNMYLRNQMLEAKNFIKSIDERHKTLLKVATCIVE 354 Query: 350 QQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNT 409 Q+ FFE G E MKP+VL D+A+ VE+HEST+SRVTT KY+ +PRG+FELKYFFSSHV T Sbjct: 355 HQRNFFEIGPEGMKPLVLRDVAEEVELHESTVSRVTTNKYMLTPRGLFELKYFFSSHVGT 414 Query: 410 EGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPP 469 GGE SSTAIRA +KK+I+AENP KPLSD+ + ++L ++GI VARRTVAKYRESL IP Sbjct: 415 TSGGECSSTAIRARIKKMISAENPRKPLSDNIIANMLKDEGIDVARRTVAKYRESLHIPS 474 Query: 470 SNQRKQLV 477 S++RK L+ Sbjct: 475 SSERKVLI 482 >UniRef50_P28615 RNA polymerase sigma-54 factor n=83 Tax=Betaproteobacteria RepID=RP54_RALEH Length = 493 Score = 394 bits (1013), Expect = e-108, Method: Compositional matrix adjust. Identities = 231/495 (46%), Positives = 311/495 (62%), Gaps = 21/495 (4%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 MK LQLRLSQ LA+TPQLQQ+IRLLQLSTLELQQE++QAL NPLLE+ + E R Sbjct: 1 MKPSLQLRLSQHLALTPQLQQSIRLLQLSTLELQQEVEQALTENPLLERENDWIESPLRV 60 Query: 61 TQD-SETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYI-------------- 105 D S L +A A E A + SG DY Sbjct: 61 AADGSVNLQSAPAPAPAEPQGNGEARADGAADDDSYGDSGNGDDYGSSDWSLDDFARRPQ 120 Query: 106 ---DDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDIL 162 D++ P+ E TL++YLM Q+ S D+ +A +++++D+ GYL+ LE+I Sbjct: 121 GDEDEKTPMQLREAEPTLREYLMEQLTPLKISARDKGLAIFLIESLDDDGYLSASLEEIC 180 Query: 163 -ESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIIS 221 E + E +I+EV A+L +Q FDP GV A++ +CL +QL + T P E A I++ Sbjct: 181 TELPEELEFEIEEVHAILTLLQSFDPPGVGARNAAECLALQLRRL--THPQRELALNIVT 238 Query: 222 DHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKH 281 +HL+LLA D+ L + ++ E LK A LI+SL P PG + E ++V+PDV VRK Sbjct: 239 NHLELLAVRDYTRLKKALQVDEAALKSAHELIRSLAPYPGHAYSRPEADFVVPDVFVRKG 298 Query: 282 NGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLL 341 G W +LN D +PRL+IN YA + A+ + + ++ LQ+A+WLIK+++ R D +L Sbjct: 299 GGGWIAQLNPDVMPRLRINDMYAQILRGAKGESGTAGLQQKLQEARWLIKNIQQRFDKIL 358 Query: 342 RVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKY 401 RVS+ IVE+Q+ FF GE M+P+VL +IA + +HESTISRVTT KY+ +P G FELKY Sbjct: 359 RVSQAIVERQKNFFSHGEIAMRPLVLREIADTLGLHESTISRVTTNKYMATPMGTFELKY 418 Query: 402 FFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKY 461 FF SHV+TE GG ASSTAIRAL+K+LI AE+P PLSDS++ LL EQG +VARRTVAKY Sbjct: 419 FFGSHVSTETGGAASSTAIRALIKQLIGAEDPRNPLSDSRIAELLGEQGFVVARRTVAKY 478 Query: 462 RESLSIPPSNQRKQL 476 RE+L IP N RK L Sbjct: 479 REALKIPAVNLRKSL 493 >UniRef50_C6WT04 RNA polymerase, sigma 54 subunit, RpoN n=3 Tax=Betaproteobacteria RepID=C6WT04_METML Length = 525 Score = 392 bits (1007), Expect = e-107, Method: Compositional matrix adjust. Identities = 230/528 (43%), Positives = 323/528 (61%), Gaps = 55/528 (10%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 MKQGLQL+ SQ L++TPQLQQAIRLLQLSTLEL QE+ +++NPLLE+ D E D Sbjct: 1 MKQGLQLKFSQNLSLTPQLQQAIRLLQLSTLELNQEIDVLMQTNPLLERGDDTE--DEYG 58 Query: 61 TQDSETLDTAD-ALEQKEMPEELPLDASWDTIY--TAGTPSGT----------------- 100 D AD + E E P ++D Y +A +G Sbjct: 59 NAVEPVADGADLSATSPESAEAKPEFENFDAEYAESASEFNGAESANASVADVSDTADFD 118 Query: 101 --SGDYID-------DELPVYQG--------------------ETTQT-LQDYLMWQVEL 130 S DY D DE + ET QT L+++L+ Q++L Sbjct: 119 VPSTDYADTFSAEFNDEFDEFSNGSRWDENTMPADDDSDFKPQETLQTSLREHLLSQLKL 178 Query: 131 TPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDE-EIDIDEVEAVLKRIQRFDPVG 189 P S+ D+++A +VD++++ GYL LE+I E + +E EID E++ L+ +Q DP G Sbjct: 179 MPLSERDQSLALMLVDSINDDGYLEQSLEEIAELMPEELEIDAIELQTALRHVQHLDPPG 238 Query: 190 VAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEA 249 V A+ L +CLL+QL+ K+TP L A L+ HL +LA+ DF L + E LK+ Sbjct: 239 VGARSLSECLLLQLAVLPKSTPHLAMADLVAKHHLQVLASRDFVKLRKELGCDEATLKQV 298 Query: 250 VNLIQSLDPRPGQSI-QTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCN 308 LI SL+PRPG + G Y+ +V+V+K G W LN IP+L+INQ YA + Sbjct: 299 QQLITSLNPRPGSAFSHIGSEHYIQHEVIVKKVKGIWIASLNDSVIPKLKINQLYAGILK 358 Query: 309 NARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLA 368 R D SQ+++S +Q+AKW+IK+++ R T+LRVS+ IV++Q+ F E GE M+P+VL Sbjct: 359 RNR-DSSSQYLQSQMQEAKWMIKNIQQRFSTILRVSQAIVDRQRNFLEYGEVAMRPLVLR 417 Query: 369 DIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLI 428 +IA +++HESTISRVTT KY+ +PRGIFELKYFF S V T+ GG S+TAIRAL+K+L+ Sbjct: 418 EIADELDLHESTISRVTTNKYMLTPRGIFELKYFFGSSVATDAGGTCSATAIRALIKQLV 477 Query: 429 AAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 ENP KP SD+++T LL++QGI+VARRT+AKYRES++I P++ RK L Sbjct: 478 DQENPRKPYSDNQITDLLAKQGIVVARRTIAKYRESMNIAPASLRKSL 525 >UniRef50_A0LCX7 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Magnetococcus sp. MC-1 RepID=A0LCX7_MAGSM Length = 510 Score = 387 bits (995), Expect = e-106, Method: Compositional matrix adjust. Identities = 218/510 (42%), Positives = 317/510 (62%), Gaps = 47/510 (9%) Query: 5 LQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRET--- 61 L+LR+ QL MTPQLQ AIRLLQ+S+++LQ+ LQ+ LE NPLLE+ D + +T Sbjct: 7 LKLRMGMQLVMTPQLQMAIRLLQMSSMDLQEYLQEELEKNPLLEREDENGNAVDGDTAPL 66 Query: 62 -QDSETLDTA--------------------DALEQKE--------MPEELPLDASWDTIY 92 +D +D A D + E + E+LPLDA W +Y Sbjct: 67 GEDGAAVDGAGLDGENYMEFMGNNSSTGEMDGFQIDEPQTPEVTHLSEDLPLDAEWSDVY 126 Query: 93 T-AGTPSGTSGDYID-DELPVYQGETTQ--TLQDYLMWQVELTPFSDTDRAIATSIVDAV 148 + AG+ + + ++ E P + + TL D+L+WQ+ L+ + +RA+ ++VDA+ Sbjct: 127 SDAGSNFESHNNSLNTSEAPPLENTLVRNDTLSDHLIWQLGLSARDEHERALGMALVDAI 186 Query: 149 DETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDK 208 DE GYLT PLE E+ G +D++E L IQ F+P GV A++L +CLL+QL + D+ Sbjct: 187 DENGYLTAPLESFQETTG---ASLDDLEDALLLIQSFEPSGVGARNLAECLLLQL-KADR 242 Query: 209 --TTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQT 266 P+ + HLD LA DFR L RV +L E+ L AV +I LDP+PG + + Sbjct: 243 MAVAPYTS-----LLAHLDDLARRDFRKLSRVLKLSEEDLASAVAVIHGLDPKPGLAYGS 297 Query: 267 GEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDA 326 + YV+PDV VRK NG W VE+N ++ PRL+IN+HY + + D +F+ + ++A Sbjct: 298 DQTSYVVPDVYVRKQNGKWVVEINPETQPRLRINRHYQDQISRYASADDKRFMTESARNA 357 Query: 327 KWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTT 386 +WLIKSLE R+ T+ RV+ IV Q+ F ++G EY+KP++L D+A + +HEST SRVT+ Sbjct: 358 QWLIKSLEQRSSTIYRVAESIVRFQEDFLDKGPEYLKPLILKDVADDIGVHESTTSRVTS 417 Query: 387 QKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLL 446 KY+H+PRGIFELKYFFSS + ++ G SS A++ ++KL+ +E +P SD KL +L Sbjct: 418 NKYMHTPRGIFELKYFFSSSLTSQSGESHSSEAVKFKIRKLVESEPLRRPFSDEKLAKML 477 Query: 447 SEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 EQGI VARRTVAKYRE+L+IP S++RKQL Sbjct: 478 KEQGINVARRTVAKYREALNIPSSSRRKQL 507 >UniRef50_C5V3W1 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Gallionella ferruginea ES-2 RepID=C5V3W1_9PROT Length = 465 Score = 377 bits (968), Expect = e-103, Method: Compositional matrix adjust. Identities = 207/485 (42%), Positives = 305/485 (62%), Gaps = 29/485 (5%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQID---THEEID 57 MK LQLR+SQQL +TPQLQQ+IRLLQLSTL++QQE+ + L+ NP+LE D H Sbjct: 1 MKASLQLRMSQQLTLTPQLQQSIRLLQLSTLDMQQEIDRMLDENPMLELGDESVYHALSG 60 Query: 58 TRETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVY--QGE 115 +D +D A++ + P E W+ T G DDE Y Q Sbjct: 61 EPVREDHAQVDNAESERGEAEPFE------WNA-ETRGA---------DDESDAYPEQAA 104 Query: 116 TTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIG----DEEID 171 ++++YL Q+ ++ DR + ++DA+DE GY+ L+D+ E G + E+ Sbjct: 105 LQASMREYLHSQLSVSQLDSRDRLVIGMLIDALDENGYM---LQDLAELAGLLPAELELT 161 Query: 172 IDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHD 231 +D++E L ++Q D G+ A+ L +CL +QL + TP + A +++ +LDLLA HD Sbjct: 162 LDDLETALVQLQYLDRPGLGARTLSECLALQLKALPEQTPGRDLAMSLVNGNLDLLAAHD 221 Query: 232 FRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNS 291 F + ++ R + L+ A LI SL+P+PG +YV+PDV+V +H G W LN+ Sbjct: 222 FSKIKKLLRCSDASLRVAQELIVSLNPKPGCEFDRSVADYVVPDVIVEQHKGKWRARLNA 281 Query: 292 DSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQ 351 D++PRL++NQ YA++ R+D + S LQ+A WLIKSL R DT+LRV++ IV++Q Sbjct: 282 DAMPRLRVNQMYANILQQ-RDDKSGAPLVSQLQEASWLIKSLRQRFDTILRVAQAIVDRQ 340 Query: 352 QAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEG 411 AF E G+ M+P+VL +IA +EMHEST+SR TTQK++ +PRGI+E KYFF S + TE Sbjct: 341 GAFLEHGDIAMRPLVLREIADVLEMHESTVSRGTTQKFMRTPRGIYEFKYFFGSGLVTES 400 Query: 412 GGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSN 471 GG SS AIR L+K+L+ E+ +KPL+D +++ +L++QGI+VARRT+AKYRE+L I P N Sbjct: 401 GGVCSSAAIRELIKQLVGGEDTSKPLTDGRMSEILAQQGIVVARRTIAKYREALHILPVN 460 Query: 472 QRKQL 476 RK L Sbjct: 461 LRKSL 465 >UniRef50_Q31GC3 Sigma-54 (RpoN) n=2 Tax=Bacteria RepID=Q31GC3_THICR Length = 500 Score = 377 bits (968), Expect = e-103, Method: Compositional matrix adjust. Identities = 206/499 (41%), Positives = 313/499 (62%), Gaps = 34/499 (6%) Query: 4 GLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQD 63 GLQ+ + QQL +TPQLQQ+I++LQ S LE+QQ + LE+N +LE +D + D Sbjct: 6 GLQINIGQQLKLTPQLQQSIKILQYSALEVQQTISTTLETNFMLE-------LDEDGSDD 58 Query: 64 SETLDTADALEQKE-------------------MPEELPLDASWDTIYTAGTPSGTSGDY 104 +E D AD+ ++E + ++L D W+ +Y S + Sbjct: 59 TEEFDAADSEYEEEPLNESSETETELDIEASDTLSDDLQADYEWEEVYIDSPISNSIKSN 118 Query: 105 IDDELPVYQGETTQ--TLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDIL 162 +D+ + T+ TL + L WQ ++ + D+ IA+ I+D +D+ GYL PLEDI+ Sbjct: 119 NNDDYTAPENYTSAEVTLSEKLYWQADIYSWPDSQDVIASYIIDDIDDEGYLKTPLEDIM 178 Query: 163 ESIGDEEIDI----DEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARL 218 S+ E D+ ++E VL IQ+F+P GV A+DL + L++QL + P++ A Sbjct: 179 ASLQKNEPDLIVSLADIEQVLSVIQQFEPTGVGARDLSEGLILQLKALPQN-PYVVTAIK 237 Query: 219 IISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLV 278 II ++ DLL+ D++ + ++ L ++ L E +++IQ+L PRPG+ + + E VIPD+ + Sbjct: 238 IIEENFDLLSVRDYKRIKKIYLLNDEELMEVIHVIQALSPRPGREYSSTQGEIVIPDLKL 297 Query: 279 RKHNGHWTVELNSDSIPRLQINQHYASMCNNARNDG-DSQFIRSNLQDAKWLIKSLESRN 337 + + VELN D+ PRL IN Y M + D DS+ I+ L +AK LIKS++SR Sbjct: 298 YRSKDGFIVELNQDAFPRLTINSAYIDMAGSLGTDSSDSKQIKEQLIEAKGLIKSIQSRG 357 Query: 338 DTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIF 397 +TLLRV + I+E+Q FFE+GE+ M+PMVL D+A+A+E+HESTISR T QKY+ +PRG F Sbjct: 358 ETLLRVGKYIIEKQARFFEEGEQAMQPMVLRDVAEALELHESTISRATNQKYMQTPRGTF 417 Query: 398 ELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRT 457 ELKYFFS+ V+ G + S+ AI++ +K+LI E+P KPLSD+KL +LL E+ I VARRT Sbjct: 418 ELKYFFSTGVSQYGSDDQSAIAIKSHIKQLIEGEDPNKPLSDNKLMALLEEKEINVARRT 477 Query: 458 VAKYRESLSIPPSNQRKQL 476 +AKYRE+L IP S++RK+L Sbjct: 478 IAKYREALHIPSSSERKKL 496 >UniRef50_P77998 RNA polymerase sigma-54 factor n=20 Tax=Xanthomonadaceae RepID=RP54_XANEU Length = 479 Score = 376 bits (966), Expect = e-103, Method: Compositional matrix adjust. Identities = 205/482 (42%), Positives = 304/482 (63%), Gaps = 8/482 (1%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 MK LQ L QQL MTPQL+QAI+LLQ+ST EL+ E+ +A+E+NPLLE D + Sbjct: 1 MKARLQTSLGQQLVMTPQLRQAIKLLQMSTTELEVEIAEAVETNPLLEWADEAAHAASDI 60 Query: 61 TQDSETLDTADALEQKEM-PEELPLDASWDTIYTAGTPSGTSGDYIDDEL--PVYQGETT 117 DS + + +++E+ P E D S D + G SG+ G + DDE + + Sbjct: 61 AVDSSPSASTEQPQREEVAPAERDEDWSQDELQWTG--SGSGGSFDDDESGDAAERVAES 118 Query: 118 QTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIG-DEEIDIDEVE 176 +TL D+L+WQ+ L+P S DR I ++DA+DE GYL PL ILE++ +D +V Sbjct: 119 ETLADHLLWQLHLSPLSPRDRQIGAMLIDALDEDGYLREPLSAILETLALGAAVDEADVL 178 Query: 177 AVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLM 236 VL +IQRFDPVGV A+ L +CL +QL D TP E A I++ L+ L L Sbjct: 179 TVLHQIQRFDPVGVGARTLGECLALQLGVLDADTPGRELALQIVAGPLERLPRSGVAGLA 238 Query: 237 RVTRLKEDVLKEAVNLIQSLDPRPGQSI-QTGEPEYVIPDVLVRKHNGHWTVELNSDSIP 295 + +++AV L++SLDPRPG+ I + YV+PD ++ + G W L + P Sbjct: 239 HELKRSTADVEQAVQLVRSLDPRPGKQIGDLSQDTYVVPDCVIWRQRGVWRAALAGRAQP 298 Query: 296 RLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFF 355 ++ I++ Y ++ + + D+ ++R LQ+A+WL+KSLE+R +TLLRV RC++E Q F Sbjct: 299 KVTIHRGYENLIRSC-GESDAGYLRGQLQEARWLLKSLEARGETLLRVVRCLLEHQAGFL 357 Query: 356 EQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEA 415 E G + ++P+ L +IA + +HESTISR +KY+ +PRG L+ FF+S ++T+ GGEA Sbjct: 358 EFGAQALRPLTLREIAGELGLHESTISRAIARKYVRTPRGTIALRAFFASGIDTDSGGEA 417 Query: 416 SSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 SSTAI+A++++LI AENP KPLSD+KL LL G+ VARRTVAKYRE+++I S++R + Sbjct: 418 SSTAIQAMIRRLIDAENPRKPLSDAKLADLLKTSGVPVARRTVAKYREAMNISASHERVR 477 Query: 476 LV 477 + Sbjct: 478 IA 479 >UniRef50_D2UEM7 Probable rna polymerase sigma-54 factor protein n=1 Tax=Xanthomonas albilineans RepID=D2UEM7_XANAL Length = 485 Score = 374 bits (959), Expect = e-102, Method: Compositional matrix adjust. Identities = 207/490 (42%), Positives = 304/490 (62%), Gaps = 20/490 (4%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQID----THEEI 56 MK LQ L Q L MTPQL+QAI+LLQ+S+ EL+ EL A+ESNPLLE + T E Sbjct: 1 MKARLQTSLGQHLVMTPQLRQAIKLLQMSSAELEVELAAAVESNPLLEWSEDAALTFEHT 60 Query: 57 DTRETQ----DSETLD-TADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPV 111 D++E D +TL AD + E P D+ D T SG SG DD+ Sbjct: 61 DSQEASGAAADGDTLTPVAD-----DHAEASPADSGEDWTTTDPAWSGGSGGAFDDDDTS 115 Query: 112 YQGETT---QTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESI-GD 167 E +TL +L+WQ+ L+P S DR+I +++DA+D GYL PL I E++ + Sbjct: 116 SLAERVAEPETLIGHLLWQLHLSPLSARDRSIGVALIDALDGDGYLREPLTAIAETLRPN 175 Query: 168 EEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLL 227 DE+ VL +IQRFDP G+AA+ L +CL +QL ++TP LE A I++ L+ L Sbjct: 176 IAAGEDEILTVLHQIQRFDPTGIAARSLEECLTLQLGMLPESTPGLELAHTIVNGSLEKL 235 Query: 228 ANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSI-QTGEPEYVIPDVLVRKHNGHWT 286 L + + AV L++SLDPRPG+ I + G YV+PD +V + G W Sbjct: 236 PRSGIAGLAHALKRPVADVDTAVALLRSLDPRPGKQIGELGSDTYVVPDCVVWRQRGVWH 295 Query: 287 VELNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRC 346 L++ + P++ I++ Y + + D+ ++R LQ+A+WL+KS+E+R +TLL+V+RC Sbjct: 296 AALSAHAQPKVTIHRGYERLIRQC-GESDAGYLRGQLQEARWLLKSVEARGETLLKVTRC 354 Query: 347 IVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSH 406 ++ QQ F E GE+ ++P+ L +IA + +HESTISR +KY+ +PRG L+ FF+S Sbjct: 355 LLRQQAGFLEFGEQALRPLTLREIAGELGLHESTISRAIARKYVRTPRGTIPLRAFFASG 414 Query: 407 VNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLS 466 ++T+ GGEASSTAI+A++++LI ENP KPLSD+KL LL G+ VARRTVAKYRE+++ Sbjct: 415 IDTDSGGEASSTAIQAMIRRLIETENPRKPLSDAKLADLLKNTGVPVARRTVAKYREAMN 474 Query: 467 IPPSNQRKQL 476 IP S++R ++ Sbjct: 475 IPASHERVRI 484 >UniRef50_A9HW09 RNA polymerase sigma-54 factor n=8 Tax=Betaproteobacteria RepID=A9HW09_BORPD Length = 479 Score = 367 bits (943), Expect = e-100, Method: Compositional matrix adjust. Identities = 202/482 (41%), Positives = 296/482 (61%), Gaps = 25/482 (5%) Query: 2 KQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRET 61 + L+LR Q L +TPQLQQ+IRLLQLSTL+LQ E+ QAL NP+LE+ D E + Sbjct: 9 RPALELRTGQHLTLTPQLQQSIRLLQLSTLDLQAEISQALADNPMLERNDERSEAEVDAP 68 Query: 62 QDSET-LDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 + E +D A E + +E+P G G Y DD + TL Sbjct: 69 TEREADIDAEPAREAETRIDEMP---------------GAGGVYPDDRPDGPDTARSDTL 113 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDE-EIDIDEVEAVL 179 +++L+ Q+ LT D A+ + ++D +DE GYL PLE+ILE + E E D+DE+ A L Sbjct: 114 REHLLAQLGLTRAGRRDAALVSLLIDELDENGYLASPLEEILEWLPPEAEADLDELRAAL 173 Query: 180 KRIQRFDPVGVAAKDLRDCLLIQLSQFDKT-------TPWLEEARLIISDHLDLLANHDF 232 +Q FDP G+ A+D+ +CL++QL D + L AR + +DHL LLA + Sbjct: 174 CLLQSFDPPGIGARDMAECLVLQLRNPDPSRLPEAADPTVLACARRLCADHLPLLAGGNA 233 Query: 233 RTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSD 292 L + + + A LI+ LDPRPG++ +Y +PDV+VRK W LNS Sbjct: 234 ARLRDALQCDDATARAAHALIRRLDPRPGRAWTVPAADYAVPDVIVRKTRQGWQAVLNSA 293 Query: 293 SIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQ 352 ++PRLQ+N YA + N R + + + LQ A+W+I+++E R DT+LRV++ IV Q Sbjct: 294 AVPRLQVNTLYAQLLGNQR-EASHAGLHAQLQQARWMIRNVEQRFDTILRVAQAIVAHQS 352 Query: 353 AFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGG 412 AFF +G M+P++L DIA + +HESTISR TTQKY+ +P G ELK+FF S V T+ G Sbjct: 353 AFFSEGPAAMRPLILKDIAGELGLHESTISRATTQKYMLTPFGTLELKHFFGSGVATDAG 412 Query: 413 GEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQ 472 AS+TA++A++++++A E+ AKPLSD+++T L++QGI++ARRTVAKYRE+L I P++ Sbjct: 413 DVASATAVQAVIRQMVAGEDRAKPLSDNQITQRLADQGIVIARRTVAKYREALRIAPASL 472 Query: 473 RK 474 RK Sbjct: 473 RK 474 >UniRef50_Q0ADR2 RNA polymerase, sigma 54 subunit, RpoN n=3 Tax=Betaproteobacteria RepID=Q0ADR2_NITEC Length = 487 Score = 357 bits (916), Expect = 6e-97, Method: Compositional matrix adjust. Identities = 201/490 (41%), Positives = 307/490 (62%), Gaps = 21/490 (4%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLE---QIDTHEEID 57 MK LQL+LS L +TPQL+Q+I+LLQLS LEL QE+ + ++ NPLLE ID E+++ Sbjct: 1 MKPTLQLKLSTGLTLTPQLKQSIQLLQLSALELNQEISRIVQENPLLELDEDID-QEKLE 59 Query: 58 TR----ETQDSETLDTADALEQKEMPEELPLDASW--DTIYTAGTPSGTSGDYIDDELPV 111 T S+ TA+A E ++ E + W D++Y+ + D+E Sbjct: 60 TEGQDSSLVSSDLSTTAEANESHDIRENTEISNDWLDDSLYSDQGAFLDTRRQDDEE--- 116 Query: 112 YQGETTQ------TLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESI 165 Y + ++ +L+++L+ Q+ L + + I +VD++D+ GY T LE++ + + Sbjct: 117 YDQDYSRLVSKPASLREHLLMQISLRQRCERKKKITALLVDSLDDNGYFTQDLEELAKLL 176 Query: 166 GDE-EIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHL 224 E EIDI ++++ L IQ+ DP GV A++LR+CL IQLS TP EA ++++HL Sbjct: 177 PVELEIDITDLKSALAYIQQLDPPGVGARNLRECLSIQLSALPDATPLRTEALKLVNEHL 236 Query: 225 DLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGH 284 + +A +F L +V E L+ LI L+P+PG YVIPDV+V K Sbjct: 237 ESVAAKNFPLLRKVLGCDETCLQSVYQLITQLNPKPGDDFNATTARYVIPDVIVTKSAKG 296 Query: 285 WTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVS 344 W +LNSDS+PR+++N YA + RN+ + L++A+WLI++++ R T+LR S Sbjct: 297 WVAQLNSDSVPRVRVNHLYADILKQNRNEAIRPLM-EQLKEARWLIRNIDQRMVTILRAS 355 Query: 345 RCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFS 404 + I++ QQAF E GE ++P+V+ +IA+ + +HESTISR+TTQKY+ +P GIFELKYFF Sbjct: 356 QAIIDCQQAFLEHGETAVRPLVMREIAEVLGLHESTISRITTQKYMRTPHGIFELKYFFG 415 Query: 405 SHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRES 464 SH+ E G S+ AIR L+K+LI E+ KPL+DS+++ +L++QGI+VARRTVAKYRE Sbjct: 416 SHIPAETGEAHSAIAIRGLIKQLIQNEDRKKPLNDSQVSQILAQQGIVVARRTVAKYREF 475 Query: 465 LSIPPSNQRK 474 + IPP+N RK Sbjct: 476 MHIPPTNLRK 485 >UniRef50_Q2LSN3 RNA polymerase sigma-54 factor n=4 Tax=Deltaproteobacteria RepID=Q2LSN3_SYNAS Length = 487 Score = 355 bits (910), Expect = 3e-96, Method: Compositional matrix adjust. Identities = 194/483 (40%), Positives = 292/483 (60%), Gaps = 20/483 (4%) Query: 7 LRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSET 66 L+LSQQL MTPQLQQAI+LLQLS +E+ + Q +E NPLLE E +T SE Sbjct: 9 LKLSQQLIMTPQLQQAIKLLQLSRMEMIDVINQEMEENPLLEDAPADEYDETERNHGSEE 68 Query: 67 LDTADALEQK--EMPEELPLDAS------WDTIYTAGTPSGTSGDYIDDELPVYQGETTQ 118 T + E + E EE+ + W++ GT+ D D E P + T+ Sbjct: 69 GKTPEREELRGIERTEEITGEGDGKEEFDWNSYLEDYGTFGTTYDRSDGEAPNWDNVLTE 128 Query: 119 --TLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVE 176 TL D+LMWQ++L+ ++ + + I+ +D GYL +E+I G E + +VE Sbjct: 129 KSTLTDHLMWQLKLSRLTEQEMRVGEQIIGNLDANGYLAASIEEIA---GLENVSEKDVE 185 Query: 177 AVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLM 236 VLK+IQ FDP G+AA++L++CLLIQ+ +E II DH+ L ++ + Sbjct: 186 TVLKKIQEFDPPGIAARNLQECLLIQVKMLGIQNQLVE---AIIQDHMKDLEIKNYNHIS 242 Query: 237 RVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPR 296 R ++ D + +AV +I ++DPRPG + + +IPDV V K + + LN D +PR Sbjct: 243 RKNKVPVDDVFQAVMIISNMDPRPGSVYNEEKIQAIIPDVYVFKSGDDYKIVLNDDGLPR 302 Query: 297 LQINQHYASMCNNARNDGDSQ----FIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQ 352 L+I+ Y + N + D +S+ +IR +Q A WLIKS++ R T+ +V+ IV Q+ Sbjct: 303 LRISNFYKEIMGNVKGDSNSESGRKYIRERVQSATWLIKSIQQRQRTIYKVAESIVRHQR 362 Query: 353 AFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGG 412 FF++G Y+KP+VL DIA VEMHESTISRV T KY+++PRGIFELKYFFSS + + G Sbjct: 363 EFFDRGINYLKPLVLRDIAYDVEMHESTISRVVTNKYMYTPRGIFELKYFFSSSIQRKSG 422 Query: 413 GEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQ 472 +S +++ ++++I AE+P P SD ++ S+L +GI +ARRTVAKYRE ++I PS++ Sbjct: 423 EAIASKSVKEEIRRVIGAEDPLHPYSDQEIVSILESKGIKIARRTVAKYREMMNILPSSR 482 Query: 473 RKQ 475 R++ Sbjct: 483 RRR 485 >UniRef50_Q6MPK9 RNA polymerase sigma-54 factor n=1 Tax=Bdellovibrio bacteriovorus RepID=Q6MPK9_BDEBA Length = 478 Score = 347 bits (891), Expect = 5e-94, Method: Compositional matrix adjust. Identities = 190/481 (39%), Positives = 296/481 (61%), Gaps = 23/481 (4%) Query: 7 LRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSET 66 + LSQ L +TPQLQQAI+LLQ+S +EL+ ++ LE NP+LE+ ++ +E T Sbjct: 7 MNLSQSLVITPQLQQAIKLLQMSRMELESAVRSELEENPILEEAESA----LKEEDLQRT 62 Query: 67 LDTADALEQKEMPEELPL-------DASWDTIYTAGTPSGTSGDYIDDELPVYQGETT-- 117 + A+ +E E P++ + + W++ A SG +E+ Y+ T Sbjct: 63 KEAANEVEHSETPDQQNIQDPQKQDEFEWESYIEANQKPPQSGMAGSEEIMNYENVITAS 122 Query: 118 QTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEA 177 QTL D+L WQV++ FS+ + A +++ A+D+ GY+ VPLE I E +E++D+ +E Sbjct: 123 QTLHDHLYWQVKMNGFSEEEERAADALIGAIDDDGYIKVPLEQIAE---EEKVDLALLED 179 Query: 178 VLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMR 237 L I FDP GV A+DL++CLLIQ ++ T + +I +H+ L ++ + + Sbjct: 180 TLTLIHEFDPPGVGARDLQECLLIQAKHMEEDT---HDLVTLIKNHVKDLEKKNYEAIAK 236 Query: 238 -VTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPR 296 + R ED++ E +I ++DP+PG++ + + YV PDV V K + V LN D +PR Sbjct: 237 ALNRDVEDIV-EICKIIYAMDPKPGRAFVSSDTHYVTPDVYVYKVGDDYVVSLNEDGLPR 295 Query: 297 LQINQHYASMCNNARNDGDS--QFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAF 354 L+I+ Y +M + GD +I+ L+ A WLIKS+ R T+ +V+ IV+ Q+ F Sbjct: 296 LKISNFYKNMLKGGKTTGDKTQDYIQEKLRSAVWLIKSIHQRQRTIYKVTESIVKHQREF 355 Query: 355 FEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGE 414 FE+G E++KPMVL DIA + MHEST+SRVTT KY+H+P+GI+ELKYFF+S +++ G Sbjct: 356 FEKGSEHLKPMVLRDIANDIGMHESTVSRVTTAKYVHTPQGIYELKYFFNSGISSSDGDS 415 Query: 415 ASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRK 474 +S +++ +K L+A E+P PLSD K+ LL +GI +ARRTVAKYR+ L I PS+QRK Sbjct: 416 LASESVKIKIKDLVAKEDPKNPLSDQKIVDLLKVEGIQIARRTVAKYRDVLKILPSSQRK 475 Query: 475 Q 475 + Sbjct: 476 K 476 >UniRef50_B8DJR2 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Desulfovibrio vulgaris str. 'Miyazaki F' RepID=B8DJR2_DESVM Length = 477 Score = 335 bits (859), Expect = 2e-90, Method: Compositional matrix adjust. Identities = 189/480 (39%), Positives = 293/480 (61%), Gaps = 20/480 (4%) Query: 6 QLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQI-DTHEEIDTRETQDS 64 QL+L+QQL MTPQLQQAIRLLQLS LEL + +QQ + NP LE+ D +++T + +++ Sbjct: 8 QLKLTQQLVMTPQLQQAIRLLQLSRLELVETVQQEMLENPFLEEAQDEGPQVETPDPREA 67 Query: 65 ETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELP----VYQGETTQ-- 118 T A ++ E+ DA W+ + + E+P ++ Sbjct: 68 ATAAADVAYDR-----EIARDADWEDYLGDFASTSRQSTVRETEMPEEMTSFEARYAAKP 122 Query: 119 TLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAV 178 +L+ +LMWQ+ L+ ++ + I I+ + +GYL ++DI E G + EVE+V Sbjct: 123 SLEGHLMWQLRLSSLTERQKDIGEVIIGNIASSGYLHATVDDIAEMAG---VTPGEVESV 179 Query: 179 LKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTT-PWLEEARLIISDHLDLLANHDFRTLMR 237 L +QRFDPVGV+A+ ++CLL+Q+ T L E ++ DHL+ L ++ L+R Sbjct: 180 LHAVQRFDPVGVSARTAQECLLVQIEMLGYTRDKVLVE---LVRDHLEDLEKRRYKPLLR 236 Query: 238 VTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRL 297 RL + LKE ++LIQ+LDP PG S G+P++V PDV V K++ + + LN D +P L Sbjct: 237 KFRLTMEDLKEYLDLIQTLDPMPGASYGGGDPQFVSPDVYVYKYDDDFIIMLNEDGLPHL 296 Query: 298 QINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQ 357 Q++ Y A + G+ ++ + ++ A WLIKSL R TL +V IV+ Q+ FFE Sbjct: 297 QLSTMYERSAAAAASAGEREYFQEKMRSASWLIKSLYQRQRTLYKVVESIVKYQRGFFED 356 Query: 358 GEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASS 417 G +KP++L DIA + MHEST+SR+TT KY+ +P GI ELK+FF+S + + G + S Sbjct: 357 GVSRLKPLILKDIADDIGMHESTVSRITTSKYVATPHGIMELKFFFNSALELDDGSQVGS 416 Query: 418 TAIRALVKKLIAAENPAKPLSDSKLTSLLSEQ-GIMVARRTVAKYRESLSIPPSNQRKQL 476 +++AL+KKLIA E+P +PLSD ++ +L +Q + +ARRTVAKYR ++ IP S++RK+L Sbjct: 417 ESVKALIKKLIADEDPREPLSDERIGEILKDQLKVNIARRTVAKYRTAMDIPSSSKRKEL 476 >UniRef50_A1K6F2 RNA polymerase sigma-54 factor n=9 Tax=Betaproteobacteria RepID=A1K6F2_AZOSB Length = 488 Score = 334 bits (856), Expect = 4e-90, Method: Compositional matrix adjust. Identities = 197/487 (40%), Positives = 292/487 (59%), Gaps = 25/487 (5%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQ----------- 49 M G++LRL Q LA+TPQ+QQA+RLLQLS+ E QE++QA+ SNP LE+ Sbjct: 1 MSLGMELRLRQHLAITPQIQQALRLLQLSSQEFTQEVEQAVTSNPFLEEDPDAPPPGPAA 60 Query: 50 IDTHEEIDTRETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYID-DE 108 + +ET+D D E + P L + G D+ + E Sbjct: 61 AMPLAPAASSSEPRAETVDGGDG-EGSDAPVSPALHEIGRSGGGGGG--DEEHDWTEWTE 117 Query: 109 LPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIG-D 167 P+ +L+D L Q+ L+P SD DR +A ++D + + GYL PLE++ + I + Sbjct: 118 API-------SLRDNLRNQLLLSPMSDRDRTLAHMVIDELTDAGYLETPLEELADLISPE 170 Query: 168 EEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLL 227 EE+D+ E+ A LK +Q+ DP G+AA+ L++CLL+QL +TP L A ++ H +LL Sbjct: 171 EEVDVHELSAALKLVQQLDPPGIAARSLQECLLLQLQALPASTPNLSLALELVGQHFELL 230 Query: 228 ANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTV 287 A +F L ++ E+ L A LI++LDPRPG+ YV+PD++V G W Sbjct: 231 ARREFTRLQQLLSCNENALHGARALIRTLDPRPGRCFAPDNTRYVVPDIIVTNQRGRWVA 290 Query: 288 ELNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCI 347 LN P+++IN+ YA + + R+ + F R LQ+A+WL++++E R +T+ RV+ I Sbjct: 291 TLNPAVQPQVRINRAYAEIAAS-RSGCGASFSRL-LQEARWLLRNVEQRFNTIQRVADAI 348 Query: 348 VEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHV 407 V +Q+ FF GE MKPM L DIA + +HEST+ RVT KY+ +PRG+FE KYFFS + Sbjct: 349 VARQRVFFSYGEAAMKPMALKDIATELGLHESTVCRVTNGKYMATPRGLFEFKYFFSRQL 408 Query: 408 NTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSI 467 T+ GG S+TAIRAL+K+LIAAE+P PLSD++L +L+EQG+ +ARRTV KYR + + Sbjct: 409 ATDDGGSCSATAIRALLKELIAAEDPQTPLSDAQLARMLAEQGLRLARRTVTKYRTLMRV 468 Query: 468 PPSNQRK 474 P R+ Sbjct: 469 PSVELRR 475 >UniRef50_Q2EU28 RpoN (Fragment) n=40 Tax=Gammaproteobacteria RepID=Q2EU28_ECOLX Length = 161 Score = 333 bits (855), Expect = 7e-90, Method: Compositional matrix adjust. Identities = 161/161 (100%), Positives = 161/161 (100%) Query: 310 ARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLAD 369 ARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLAD Sbjct: 1 ARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLAD 60 Query: 370 IAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIA 429 IAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIA Sbjct: 61 IAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIA 120 Query: 430 AENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPS 470 AENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPS Sbjct: 121 AENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPS 161 >UniRef50_D0LNA6 RNA polymerase, sigma 54 subunit, RpoN n=2 Tax=Deltaproteobacteria RepID=D0LNA6_HALO1 Length = 494 Score = 328 bits (841), Expect = 3e-88, Method: Compositional matrix adjust. Identities = 185/501 (36%), Positives = 303/501 (60%), Gaps = 35/501 (6%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQ----------- 49 M+ +L+LSQQL MTPQLQQAI+LLQLS +EL +++ + NP+LE+ Sbjct: 3 MEMRQELKLSQQLVMTPQLQQAIKLLQLSRMELVDLVREEMLENPVLEEDSEMSPDAQSR 62 Query: 50 --IDTHEEIDTRETQDSETLDTADALEQKEMPEELPLDAS------WDTI---YTAGTPS 98 + E++ TR+ +++ + A K+ E+ D S W++ Y++G PS Sbjct: 63 ELVGDAEQV-TRQVEEAGHTELPVAESNKDTASEVKADDSAVGEIDWESYLDDYSSG-PS 120 Query: 99 GTSGDYIDDELPVYQGETT--QTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLT- 155 ++ +D+LP ++ T ++L ++L+WQ++++ +T A+ I+ +D +GY Sbjct: 121 VSNFRPDNDDLPSHEATLTRSESLSEHLLWQLKMSAMDETHMAVGEVIIGNIDASGYFKE 180 Query: 156 VPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEE 215 PLED+ E+ +DE E VL +IQ FDPVGV A+ L +CLLIQ + + + Sbjct: 181 PPLEDLASEC---EVSVDEAEEVLMKIQTFDPVGVGARSLAECLLIQAMHDGQDDELVVK 237 Query: 216 ARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPD 275 II HL L +++ + R + + + EA +I DPRPG+ + +P Y+ PD Sbjct: 238 ---IIKSHLPNLERKNYQAIARDLKQPLEEVYEAAKVIMEFDPRPGRQYSSEDPHYITPD 294 Query: 276 VLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLES 335 V + K + V N D +P+L+I+ Y S + N D +I+ L+ A+WLI+S++ Sbjct: 295 VYIHKVGDRYFVVPNDDGLPKLKISSFYRSALSKNGNAKD--YIQDKLRSAQWLIRSIQQ 352 Query: 336 RNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRG 395 R T+++VS I++ Q+ FF++G +++P++L D+A+ + MHESTISRVTT KY+H+P+G Sbjct: 353 RQRTIIKVSESILKFQREFFDRGIAHLRPLILRDVAEDIGMHESTISRVTTSKYVHTPQG 412 Query: 396 IFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVAR 455 IFELK+FF+S ++ G + +S A+++ +KK+I E+P KPLSD K+ + L GI +AR Sbjct: 413 IFELKFFFNSGISRTDGDDLASQAVKSKIKKIIGDEDPKKPLSDQKIAAQLKSGGIAIAR 472 Query: 456 RTVAKYRESLSIPPSNQRKQL 476 RTVAKYRE + I S++RKQ+ Sbjct: 473 RTVAKYREQMGILSSSKRKQV 493 >UniRef50_B5EEZ6 RNA polymerase, sigma 54 subunit, RpoN n=3 Tax=Geobacter RepID=B5EEZ6_GEOBB Length = 515 Score = 327 bits (839), Expect = 5e-88, Method: Compositional matrix adjust. Identities = 195/512 (38%), Positives = 299/512 (58%), Gaps = 48/512 (9%) Query: 6 QLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLL------EQIDTHEEIDTR 59 Q+++SQQL MTPQLQQAI+LLQLS LELQ ++Q LE NP+L E+I E+I+ R Sbjct: 8 QMKMSQQLVMTPQLQQAIKLLQLSRLELQDVVRQELEENPILDEVIEQEEIREPEQIELR 67 Query: 60 ETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDE-LPVYQGETTQ 118 E + +D E + E +A WD+ Y G + Y DDE P ++ T+ Sbjct: 68 EKEAEPEAAASDFQEVRAGEE--TREADWDS-YIDGYNYSSGEQYYDDEDRPSFENLLTK 124 Query: 119 --TLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDI--------------L 162 TL D+LMWQ+ LT ++ + + I+ +DE GYL LED+ L Sbjct: 125 KSTLFDHLMWQLSLTRLTEREIVVGAEIIGNIDEEGYLRASLEDVASACVQVAPFQEEML 184 Query: 163 ESIG------DEEID-----------IDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQ 205 E G +EEI + V++VLKRI FDPVGV A+DLR+CLLIQ+ Sbjct: 185 EWSGLGSDACEEEIADAAGGFSTAVLVPLVDSVLKRIHEFDPVGVGARDLRECLLIQVGS 244 Query: 206 FDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQ 265 +E ++ DHL L +H ++ +V ++ + + A +I LDP+PG+ Sbjct: 245 LGMGGSLVES---LLRDHLKDLESHKYKQAAKVLGVEVNDILAATRIIAELDPKPGRVFG 301 Query: 266 TGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNAR--NDGDSQFIRSNL 323 + + +Y+ D+ V K + V LN + +P L+IN YA ++R + +I + Sbjct: 302 SDDVQYISADIFVHKVGEEYVVMLNDEGMPNLRINPIYAPDAKSSRPVDKVAEDYIGEKM 361 Query: 324 QDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISR 383 + A WLIKS++ R T+ +V++ IV+ Q+ F ++G E+++P+VL DIA+ + MHESTISR Sbjct: 362 RSALWLIKSIQQRQRTIFKVAKSIVKFQREFLDRGIEHLRPLVLRDIAEDIGMHESTISR 421 Query: 384 VTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLT 443 VTT KY+ +P+G+FELKYFF+S ++T G +S ++++ +K+L+ E+ +P SD +L Sbjct: 422 VTTNKYMQTPQGLFELKYFFNSGISTGEGDFIASESVKSKIKELVDNEDSKRPYSDQRLA 481 Query: 444 SLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 LLS+ I++ARRTV KYRE L I S++RK+ Sbjct: 482 ELLSDHNIVIARRTVTKYREMLRIGSSSERKK 513 >UniRef50_C8R228 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Desulfurivibrio alkaliphilus AHT2 RepID=C8R228_9DELT Length = 498 Score = 325 bits (833), Expect = 2e-87, Method: Compositional matrix adjust. Identities = 196/499 (39%), Positives = 289/499 (57%), Gaps = 40/499 (8%) Query: 7 LRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQ-IDTHEEIDTRETQDSE 65 L+LSQQL MTPQLQQAI+LLQLS LEL + +QQ LE NP+LE+ +D +E D D Sbjct: 9 LKLSQQLVMTPQLQQAIKLLQLSRLELMETVQQELEVNPVLEEGLDLYE--DGGNPADDP 66 Query: 66 TLDTADA----------LEQKEMPEELPLDAS-------WDTI---YTA----GTPSGTS 101 D+A A + E E+ +D+S W Y G SG + Sbjct: 67 LPDSALAGNNGPEEELGRSEPEQTAEISMDSSSALGEIDWGNYLNEYAGDQSDGGYSGAA 126 Query: 102 GDYIDDELPVYQGETTQ---TLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPL 158 G DD+ P + E +LQ +L WQ+ L+ SD ++ I I+ +DE G+L V Sbjct: 127 GR--DDDAPPSRLEIMSVRPSLQSHLQWQLNLSHISDREKEIGEFIIGNLDENGFLLVSP 184 Query: 159 EDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARL 218 E+I + E + +L R+Q DP GV A+DLR CLL+QL++ + A Sbjct: 185 EEICSQT---DCTPAEADHLLSRVQEMDPAGVGAQDLRHCLLLQLARLEAADSL---AAR 238 Query: 219 IISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLV 278 I+ DHL LL ++ L + T + AV +I L+PRPG+ +P Y++PDV V Sbjct: 239 IVRDHLSLLETRNYPGLAKATGASTAEVSAAVEVITGLNPRPGRLYSDADPVYIVPDVYV 298 Query: 279 RKHNGHWTVELNSDSIPRLQINQHYASMCN-NARNDGDSQ-FIRSNLQDAKWLIKSLESR 336 K + + LN + +PRL+I+ +Y + + ++ G ++ +++ L+ A WLIKS++ R Sbjct: 299 YKLGEEYVIMLNDEGLPRLRISNYYRDILDKDSTAPGATKDYVQDKLRSAMWLIKSIQQR 358 Query: 337 NDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGI 396 T+ RV +++ Q+ FFE G +KPMVL D+A+ + MHESTISRVTT KY+H+P+G Sbjct: 359 QRTIYRVVESLLKFQRDFFEHGVNKLKPMVLRDVAEDIGMHESTISRVTTNKYVHTPQGT 418 Query: 397 FELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARR 456 FELKYFF+S ++TE G +S +I+ +K ++ E+ KPLSDS + ++ S GI +ARR Sbjct: 419 FELKYFFNSTISTEAGDGMASESIKQRLKSIVQHEDRKKPLSDSAIAAVFSRDGIRLARR 478 Query: 457 TVAKYRESLSIPPSNQRKQ 475 TVAKYRE L I PS R++ Sbjct: 479 TVAKYREQLGILPSKLRRR 497 >UniRef50_UPI00016A2E41 RNA polymerase factor sigma-54 n=1 Tax=Burkholderia ubonensis Bu RepID=UPI00016A2E41 Length = 479 Score = 322 bits (824), Expect = 2e-86, Method: Compositional matrix adjust. Identities = 185/484 (38%), Positives = 278/484 (57%), Gaps = 17/484 (3%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M L L++ Q LA+TP+LQQ++RLLQ+S+LE QQEL+ AL+ NP LE + T ++ Sbjct: 1 MSVTLALQMRQHLALTPRLQQSLRLLQMSSLEFQQELRLALDRNPFLEDVRTDDD----- 55 Query: 61 TQDSETLDTADALEQKEMPEELPLDASW----DTIYTAGTPSGTSGDYIDDELPVYQGET 116 + +A PE LD + + YTA + G DD GE Sbjct: 56 -DGAAEPSSAAEAADASTPETGALDGAHPPANEIAYTAEPAARGPGRADDDASDAAAGEW 114 Query: 117 TQ---TLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDID 173 + +L YL + L P + DRA A I+DA+D+ GYL L +++ + D + ++ Sbjct: 115 SAAEPSLHAYLHDALRLYPLNRRDRAAARLIIDALDDDGYLRQALPELVLA-ADPALLLN 173 Query: 174 E--VEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHD 231 E + L+ +Q D G+AA+ L +CLL+QL TP L +A+ I DHL+ LA+ + Sbjct: 174 ERDLAVALRLVQALDRPGIAARTLAECLLLQLDALPAGTPALAQAKAIARDHLERLAHRE 233 Query: 232 FRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNS 291 L R L A L++ LDPRPG + +YV+PDV+VR+ G W V +N Sbjct: 234 TAELQRRLGCDAPTLHAACALVRGLDPRPGDHYGSTRGDYVVPDVIVREVRGEWIVTINP 293 Query: 292 DSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQ 351 +PR +++Q YA + A + DS + LQ+A+WLI++ + R DT+ RV CIV +Q Sbjct: 294 AVLPRARLHQRYAELFARASGERDSP-LGQQLQEARWLIRNAQKRFDTIQRVGACIVARQ 352 Query: 352 QAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEG 411 + FF GE +KP+VL DIA +++HEST+SR T KY+ +P G FE K+FF + G Sbjct: 353 RDFFRYGEIALKPLVLRDIADELDLHESTVSRATGNKYMATPYGTFEFKHFFPRRLEAAG 412 Query: 412 GGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSN 471 G S+ A + L++ +IAAE A+PLSD L L+ +GI++ARRTV KYR+++ IPP+ Sbjct: 413 NGACSAAAAKVLIRDMIAAEQHAEPLSDVALAQRLAGRGILLARRTVTKYRQAMKIPPAG 472 Query: 472 QRKQ 475 R++ Sbjct: 473 LRRR 476 >UniRef50_A9BRF9 RNA polymerase, sigma 54 subunit, RpoN n=16 Tax=Proteobacteria RepID=A9BRF9_DELAS Length = 538 Score = 321 bits (823), Expect = 3e-86, Method: Compositional matrix adjust. Identities = 213/544 (39%), Positives = 310/544 (56%), Gaps = 74/544 (13%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEID--- 57 MK GL LR+SQ L++TPQLQQ+I+LLQLSTLEL QE++Q L NP LE + + D Sbjct: 1 MKPGLSLRVSQHLSLTPQLQQSIQLLQLSTLELAQEVEQMLGDNPFLELANEEGDHDAAA 60 Query: 58 -TRET-------------------------QDSETLDTADALEQKEMPEELPLDASW--- 88 TRE + S + DA+E E L SW Sbjct: 61 GTREPAAPGAEATESFQESRADQPSAAVEWEPSSDASSGDAVETSGTAESL----SWEGD 116 Query: 89 --------DTIYTAGTPSG-TSGDYIDDELPVYQ-GETTQTLQDYLMWQVELTPFSDTDR 138 D + + PS T G +DE + + ++L D+L Q + DR Sbjct: 117 GQTNSGNDDRDWGSDAPSSRTRGQGEEDEADATELARSAESLTDHLHRQALSLRLGEVDR 176 Query: 139 AIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKR-------IQRFDPVGVA 191 A +++ +++ GYL PL+++ + + + D++E E ++ R +Q +PVGV Sbjct: 177 AALRFLIENLNDDGYLEDPLDELAQGLAGD--DLEECEELVHRFTVALRLLQSLEPVGVG 234 Query: 192 AKDLRDCLLIQL--------------SQFDKTTPWLEEARLIISDHLDLLANHDFRTLMR 237 A+DL +CL +QL ++ + L A I + +DLLA D R L Sbjct: 235 ARDLAECLTLQLRDQLADAEREGSGSAEDEDRQAVLRTALDICAQPMDLLARRDLRKLAS 294 Query: 238 VTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRK-HNGH----WTVELNSD 292 + +E+ L+EA+ LI L+PRPG+ + + V+PDV+VR +G ++V+LN D Sbjct: 295 LCGAREERLREALVLITRLEPRPGRRFADVQRQIVVPDVIVRPVRSGAGRMDFSVQLNPD 354 Query: 293 SIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQ 352 +P+L+++ YAS + R ++ LQ+A+W IK+++ R DT+LRVS+ IVE+Q+ Sbjct: 355 VMPKLRVHDIYASALRSHRGSEGHAALQQRLQEARWFIKNIQQRFDTILRVSQAIVERQK 414 Query: 353 AFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGG 412 FF GE M+P+VL DIA A+ +HESTISRVTT KY+ +P+G +ELKYFF S + TE G Sbjct: 415 NFFVHGELAMRPLVLRDIADALGLHESTISRVTTAKYMATPQGTYELKYFFGSGLGTEAG 474 Query: 413 GEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQ 472 G ASSTA+RAL+K+ +AAE+P KPLSD++L +L EQGI ARRTVAKYRE L IPP+ Sbjct: 475 GNASSTAVRALIKQFVAAEDPKKPLSDNQLADMLKEQGIECARRTVAKYRELLKIPPTTL 534 Query: 473 RKQL 476 RK L Sbjct: 535 RKAL 538 >UniRef50_A9IMC8 RNA polymerase sigma-54 factor n=3 Tax=Bordetella RepID=A9IMC8_BORPD Length = 489 Score = 321 bits (822), Expect = 4e-86, Method: Compositional matrix adjust. Identities = 180/479 (37%), Positives = 273/479 (56%), Gaps = 19/479 (3%) Query: 6 QLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSE 65 +LRL QQ A+TP+LQQ+++LLQ+S LE QE++QAL NP LE+ + + Sbjct: 20 ELRLHQQTALTPRLQQSVKLLQMSALEFNQEVRQALVENPFLEEDEEAAASAPQ------ 73 Query: 66 TLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDY-----IDDELPVYQG---ETT 117 D + S + P+ SGDY +D P+ G + Sbjct: 74 ---APDGAGADAPVAQAAAATSSGALGDEHGPAAYSGDYPSARRANDGAPMDMGLWVGAS 130 Query: 118 QTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILE-SIGDEEIDIDEVE 176 +LQ+ L ++ S DR +A IV A+DE GYL PL ++ E + D E Sbjct: 131 VSLQERLDQELRTYRLSPRDRLLAQYIVQALDEDGYLRQPLLELAEPGVFGTPPDESEWR 190 Query: 177 AVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLM 236 A L+ +Q+ D G+AA+DL++CL +QL D P + AR I+ HLD+LA HD+ L Sbjct: 191 AALRLVQQLDAPGLAARDLQECLALQLQALDGQRPEVALARRIVDQHLDILARHDYEALQ 250 Query: 237 RVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPR 296 E L++A + ++SLDPRPG+ P Y++PDV+VRK +G W V N ++P+ Sbjct: 251 NALGCDESSLRQACDTVRSLDPRPGRRYDEAPPAYIVPDVIVRKESGQWRVYCNRGAVPQ 310 Query: 297 LQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFE 356 ++++ YA + R D + LQ+A+WL++++E R T+ RV+ IV Q FFE Sbjct: 311 PRLHRVYADLFRTTRYR-DRGPMAQELQEARWLVRNVEQRYSTIQRVAEAIVRLQHMFFE 369 Query: 357 QGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEAS 416 G ++P++L +++ +++HEST+SR T KY+ +P GI E KYFFS + T+ GG S Sbjct: 370 YGPVALRPLMLREVSAELDIHESTVSRATANKYMATPMGILEFKYFFSRELATDTGGSCS 429 Query: 417 STAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 + A+RAL+ +LI E+P PLSD L S L+ GI+VARRTV+KYR + PP++ R+Q Sbjct: 430 AGAVRALIAELIDNEDPRMPLSDVALASKLAADGIVVARRTVSKYRAQIKRPPADLRRQ 488 >UniRef50_C8PV20 RNA polymerase sigma-54 factor n=1 Tax=Enhydrobacter aerosaccus SK60 RepID=C8PV20_9GAMM Length = 599 Score = 321 bits (822), Expect = 5e-86, Method: Compositional matrix adjust. Identities = 170/426 (39%), Positives = 273/426 (64%), Gaps = 24/426 (5%) Query: 67 LDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMW 126 +D+++ L +++ ++P+DA WD IY+ + + T D +D Y+ T +QDY+ W Sbjct: 177 IDSSEHLSSQQV--DMPVDAQWDDIYSYESSAATGIDS-EDSQDDYKLATQGNIQDYVRW 233 Query: 127 QVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGD-------EEIDI--DEVEA 177 Q+ L S D +A ++D++DE G++T+ +++ +S E +D+ +++E Sbjct: 234 QLNLRRLSTIDMLMAEYLIDSMDERGFITLSNDELFQSFDTMLSFYQVENVDLALEDIEL 293 Query: 178 VLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMR 237 V+K+IQ +P+GV A++L +CLLIQL++ TP + A+ I+ H + AN++ L++ Sbjct: 294 VVKQIQNCEPLGVGARNLAECLLIQLNKLPSDTPSWQAAKQILM-HSEFFANNNINALLK 352 Query: 238 VTRLKEDVLKEAVNLIQSLDPRPGQS-------IQTGEPEYVIPDVLVRKHNGHWTVELN 290 + L ++ A+ L+++L+P P S + G Y IPDV+V + HW V LN Sbjct: 353 SSNLDVSEIQPALALLRTLNPNPALSYEKSQRQLDNGIESYDIPDVIVVQRGQHWEVSLN 412 Query: 291 SDSIPRLQINQHYASMCNNARNDGDSQ--FIRSNLQDAKWLIKSLESRNDTLLRVSRCIV 348 +++P+L+INQ YA + +RND Q +++ L DA+ I+S+E RN LL+V+ CIV Sbjct: 413 PETLPKLRINQVYAKLV--SRNDNSEQGVYLKEQLYDARLFIRSIEERNQNLLKVATCIV 470 Query: 349 EQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVN 408 ++QQAFFEQG M+PMVL D+A V +HEST+SR+TT K + +P+G+F LKYFFSS V+ Sbjct: 471 KRQQAFFEQGVMAMQPMVLKDVADEVGLHESTVSRITTSKTIVTPKGLFSLKYFFSSQVS 530 Query: 409 TEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIP 468 ++ G SSTAI A++K++I AE+P KPLSDS + L ++GI +ARRTV KYRE ++I Sbjct: 531 SDEGEGVSSTAISAMIKQMIEAEDPKKPLSDSSIMKNLQDKGIDIARRTVTKYREGMNIG 590 Query: 469 PSNQRK 474 S QRK Sbjct: 591 SSTQRK 596 >UniRef50_Q03408 RNA polymerase sigma-54 factor n=8 Tax=Alphaproteobacteria RepID=RP54_CAUCR Length = 497 Score = 320 bits (821), Expect = 6e-86, Method: Compositional matrix adjust. Identities = 190/494 (38%), Positives = 288/494 (58%), Gaps = 28/494 (5%) Query: 5 LQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDT-HEEIDTRETQD 63 L+LR Q L +TPQLQQAI+LLQLS +EL ++ LE NPLL++ + HE E + Sbjct: 7 LELRQGQGLVITPQLQQAIKLLQLSNIELDAFVEAELERNPLLQRDEGDHEPAVEVEAER 66 Query: 64 SETLDTADALEQKEMPEEL--PLD----------ASWDTIYTAG----TPSGTSGDYIDD 107 +L DA+ EL P+D D + G + +G G + D Sbjct: 67 DASLTQVDAVADTTAGRELDTPVDDVSPGERATGEGTDAEHAGGQIDWSRAGGGGSFESD 126 Query: 108 ELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGD 167 E + TL +L Q+ S AIA ++DAVDE GYL + + ++ + +G Sbjct: 127 EGYERALTDSPTLAAHLRTQLVQAALSPAHNAIAEILIDAVDEGGYLRLDIVELADRLG- 185 Query: 168 EEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLL 227 + VE L +Q F+PVGV A+D+R+CL +QL ++ P A + DHL+LL Sbjct: 186 --CALALVEETLSVLQGFEPVGVFARDVRECLALQLKDLNRYDP----AMAAMLDHLELL 239 Query: 228 ANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKH-NGHWT 286 A D L R+ + ++ L+E + I+SL+PRPG + + E ++PDV+VR+ G W Sbjct: 240 AKRDMAGLRRICGVDDEDLREMIGEIRSLNPRPGAAYHSEPAETLVPDVMVREGLGGMWH 299 Query: 287 VELNSDSIPRLQINQHY-ASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSR 345 VELN+D++PR+ ++Q Y A + AR+D + F+ + A WL+KSL+ R T+L+V+ Sbjct: 300 VELNTDTLPRVLVDQRYHARVSKGARSDQEKTFVADCMASANWLVKSLDQRAKTILKVAS 359 Query: 346 CIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSS 405 IV QQ F G E+++P+ L +A A+ MHEST+SRVT+ KY+ +PRG+FELK+FF+S Sbjct: 360 EIVRQQDGFLAFGVEHLRPLNLKTVADAIGMHESTVSRVTSNKYIATPRGVFELKFFFTS 419 Query: 406 HVNTEGGGEASSTA-IRALVKKLIAAEN-PAKPLSDSKLTSLLSEQGIMVARRTVAKYRE 463 + + GGEA S A +R +K L+ AE A SD ++ +L G+ +ARRTVAKYRE Sbjct: 420 AIQSSEGGEAHSAASVRHKIKGLVDAEKCEADVHSDDRIVEILKAAGVDIARRTVAKYRE 479 Query: 464 SLSIPPSNQRKQLV 477 ++ IP S +R++L+ Sbjct: 480 AMRIPSSVERRRLM 493 >UniRef50_A3VRA5 DNA-directed RNA polymerase subunit N n=1 Tax=Parvularcula bermudensis HTCC2503 RepID=A3VRA5_9PROT Length = 481 Score = 317 bits (813), Expect = 5e-85, Method: Compositional matrix adjust. Identities = 193/489 (39%), Positives = 289/489 (59%), Gaps = 25/489 (5%) Query: 1 MKQG--LQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDT 58 MKQ L++R QQL MTPQLQQAI+LLQL+ LEL + +++ LE NP LE+ + + D Sbjct: 1 MKQSPKLEIRQGQQLIMTPQLQQAIKLLQLTNLELAEFVEEQLEENPFLERDERADIGDA 60 Query: 59 -RE---TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSG--DYIDDELPVY 112 RE ++D E D E ++ P +A AG SG SG D E Sbjct: 61 DREPSASRDEEMARATDHFEAPTQADDTPGEAG------AGDWSGVSGRSGIADGEFDAV 114 Query: 113 QGETTQT-LQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEID 171 Q Q L D+L Q+ L+ + + ++D +D+ GYL E I +G ID Sbjct: 115 QNAEVQIGLHDHLTHQLHLSTTDEVTLLVGAHLIDLIDDGGYLREETEVIALRLG---ID 171 Query: 172 IDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHD 231 VE L IQ FDP GV A+ L++CL +QL + L+E + D+LDLLA H Sbjct: 172 RPFVEKTLSLIQTFDPSGVGARSLQECLRLQLRDLGE----LDERISLFIDNLDLLAAHK 227 Query: 232 FRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRK-HNGHWTVELN 290 L R R+ E+ LK + I+ LDP+PG + + VIPDV V + +G W VELN Sbjct: 228 LPALRRAVRINEEELKALIATIRKLDPKPGLAFGGEAVQLVIPDVHVTEASDGGWKVELN 287 Query: 291 SDSIPRLQINQHYASMCNNARNDGDSQ-FIRSNLQDAKWLIKSLESRNDTLLRVSRCIVE 349 ++++P++ N+ Y S ++A N +++ F+ ++ A WL+KSL+ R T+LRV+ IV+ Sbjct: 288 AETLPKVIANERYFSRLSSADNGAETRSFLNEHMATANWLVKSLDQRARTILRVATEIVK 347 Query: 350 QQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNT 409 Q F +G Y++P+ L IA+ +EMHEST+SRVT+ KY+ +PRG FE+KYFF+ +++ Sbjct: 348 YQDEFLVRGIRYLRPLNLKTIAEKIEMHESTVSRVTSNKYISTPRGTFEMKYFFTPSISS 407 Query: 410 EGGGEA-SSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIP 468 + G A S+ ++R +++LI AE+P PLSD +L +LL+ + +ARRTVAKYRE+L +P Sbjct: 408 KDGDVAYSAESVRHRIRELIEAEDPTNPLSDDRLVTLLAGEDFDIARRTVAKYREALGLP 467 Query: 469 PSNQRKQLV 477 S +R++L Sbjct: 468 SSVKRRRLA 476 >UniRef50_B3Q2R5 RNA polymerase sigma factor protein (Sigma-54) n=7 Tax=Rhizobiales RepID=B3Q2R5_RHIE6 Length = 483 Score = 316 bits (810), Expect = 1e-84, Method: Compositional matrix adjust. Identities = 190/481 (39%), Positives = 280/481 (58%), Gaps = 25/481 (5%) Query: 5 LQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDT---HEEIDTRET 61 L R Q L +TPQL +IRLLQL+ EL Q ++Q +E NP L+ + Sbjct: 7 LHQRQQQSLVITPQLIASIRLLQLAHTELNQFVEQEIEKNPFLDLASNDGGASGVSPTAA 66 Query: 62 QD---SETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQ 118 D S D D + +MPE L + W +I G S +D+ +T+ Sbjct: 67 DDPNISAREDHVDGPARTDMPE---LSSPWKSIRDTGNLSPGERPSLDEF-----AASTE 118 Query: 119 TLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAV 178 TL +++ Q+ LT F+ +R IA ++ D +D+TGYL V L ++ E + E V+ V Sbjct: 119 TLHEHVAHQIALTAFTPQERLIAGALADHLDDTGYLQVNLLELAERLNSPEAG---VKRV 175 Query: 179 LKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRV 238 L+ +Q FDP G+ A+ L +CL IQL Q D+ P + A L+ + L+LLA DFR L R Sbjct: 176 LEALQLFDPPGIFARSLGECLEIQLRQRDRFDPAM--AALVAN--LELLARRDFRALKRR 231 Query: 239 TRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKH-NGHWTVELNSDSIPRL 297 R+ ED L + +N I++LDP+PG Q+ E +IPDV V G W VELN + +P++ Sbjct: 232 CRVDEDDLLDMLNEIRALDPKPGNQFQSARSESIIPDVFVLPSPGGGWHVELNREILPKV 291 Query: 298 QINQHYASMCN--NARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFF 355 INQ Y + A++ D F+ Q A WL++SL+ R T+L+V+ IV Q F Sbjct: 292 LINQTYFAQVTRLTAQSSKDQSFLNECFQSASWLVRSLDQRATTILKVATEIVRHQDVFL 351 Query: 356 EQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEA 415 E G +++P+ L IA A++MHEST+SRVT+ KY+ +PRG+FELKYFF+ + + GG+A Sbjct: 352 EDGIAHLRPLNLKTIADAIDMHESTVSRVTSNKYILTPRGVFELKYFFTVAIPSSQGGDA 411 Query: 416 -SSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRK 474 S+ A+R ++ LIAAE LSD + + L E G+ +ARRTVAKYRE+++IP S QR+ Sbjct: 412 HSAEAVRHQIRALIAAETLHDVLSDDGIVAKLKETGVDIARRTVAKYREAMNIPSSAQRR 471 Query: 475 Q 475 + Sbjct: 472 R 472 >UniRef50_A5WCB6 RNA polymerase, sigma 54 subunit, RpoN n=3 Tax=Psychrobacter RepID=A5WCB6_PSYWF Length = 581 Score = 315 bits (808), Expect = 2e-84, Method: Compositional matrix adjust. Identities = 164/415 (39%), Positives = 268/415 (64%), Gaps = 25/415 (6%) Query: 81 ELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAI 140 ELP+D WD IYT +P+G + + YQG T+ +LQD++ WQ+ + S I Sbjct: 168 ELPIDTEWDDIYTH-SPTGLAAPDTQG-MSDYQGATSVSLQDHIRWQLTFSKLSSVQSLI 225 Query: 141 ATSIVDAVDETGYLTVPLEDILESIGD--------EEIDIDEVEAVLKRIQRFDPVGVAA 192 A ++DA+D+ G++ + + ++ +S + ++I+++ ++ V++ IQ +P+GV A Sbjct: 226 ADYLIDALDDHGFIQIDMAELKDSFDEMASFYQWQQKIELEHIQQVIELIQSCEPLGVGA 285 Query: 193 KDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNL 252 ++L + L IQL D+ TP++ +A ++ +H LL +++ + LM T LK + + A+ L Sbjct: 286 RNLAESLQIQLRALDENTPYMRQALRLLDEH-QLLVSNNIKELMSRTGLKNNEISPALEL 344 Query: 253 IQSLDPRPGQSIQTGEPEYV-------IPDVLVR-KHN-----GHWTVELNSDSIPRLQI 299 I++L+ PG + +P+Y IPDV+V+ HN W VELN +++P+L+I Sbjct: 345 IRTLNAAPGLAFSKAQPDYGSTPEVYDIPDVIVQLVHNQGGGEAVWKVELNPETLPKLRI 404 Query: 300 NQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE 359 NQ YAS+ + D+ ++R NL DA+ I+S+E RN LL+V+ CI++ QQ F QG Sbjct: 405 NQQYASLVKRGDDSPDNVYLRDNLMDARLFIRSIEERNHNLLKVATCIIKMQQDFLLQGA 464 Query: 360 EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTA 419 MKP++L ++A+ V +HEST+SR+TT K + +P+G+F LK+FFSSHV+++ G+ SSTA Sbjct: 465 TAMKPLILKEVAEEVGLHESTVSRLTTSKSILTPQGLFSLKHFFSSHVSSD-QGDVSSTA 523 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRK 474 I A+++ LI AE+P KP+SDS + L +QGI +ARRTVAKYRE+++I S QRK Sbjct: 524 ISAMIEALIDAEDPKKPMSDSAIKQHLQQQGIDIARRTVAKYREAMNIGSSTQRK 578 >UniRef50_A0LK00 RNA polymerase, sigma 54 subunit, RpoN n=7 Tax=Deltaproteobacteria RepID=A0LK00_SYNFM Length = 488 Score = 315 bits (808), Expect = 2e-84, Method: Compositional matrix adjust. Identities = 195/486 (40%), Positives = 294/486 (60%), Gaps = 27/486 (5%) Query: 6 QLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEE-------IDT 58 QL+LSQQL MTPQLQQAI+LLQLS LEL + + Q LE+NP+LE+ + EE Sbjct: 9 QLKLSQQLIMTPQLQQAIKLLQLSRLELLETIHQELETNPVLEE--SQEESGEAEEPGAA 66 Query: 59 RETQDSETLDTADALEQKEMPEELPLDASWDTI---YTAGTPSGTSGDYIDDELPVYQGE 115 + A+ ++ E+ E++ D W+ Y GTP D + E Y Sbjct: 67 EAAAEVAAEVAAEPYQEVEILEKVREDFDWEGYLDEYNTGTPVLVETD-PNKEWQSYDQR 125 Query: 116 TT--QTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDID 173 T +LQD+L+WQ+ L+ SD +R +A I+ ++ GYL L++I ++G ++ D Sbjct: 126 LTVPTSLQDHLVWQIRLSDMSDEEREVAGLIIGNLNRDGYLDASLDEI-AAMG--KVSTD 182 Query: 174 EVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARL--IISDHLDLLANHD 231 VE VL +Q DPVGVAA+D R+CLLIQ + LE+ + I+ +L L N + Sbjct: 183 MVERVLAVVQLLDPVGVAARDPRECLLIQARSLE-----LEDDLVVRIVEHYLHFLENRN 237 Query: 232 FRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNS 291 + L+R + +K AV++I SLDPRPG EY+ PD+ V K +G + V LN Sbjct: 238 YPALIRALKRPAPEVKAAVDVILSLDPRPGSRFAEESTEYISPDIYVMKVDGEFVVLLNE 297 Query: 292 DSIPRLQINQHY-ASMCNNARNDGDS-QFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVE 349 D +P+L+++ +Y ++ +A ++ ++I+ L+ A WLIKS+ R TL +V+ IV+ Sbjct: 298 DGMPKLKVSSYYRHALTEDAELPSEAKEYIQGKLRSAAWLIKSIHQRQRTLFKVAHSIVK 357 Query: 350 QQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNT 409 Q FFE+G +++PMVL D+A+ V MHESTISRVT KY+H+P GIFELKYFF+S +N+ Sbjct: 358 LQADFFEKGVSHLRPMVLRDVAEDVGMHESTISRVTASKYMHTPHGIFELKYFFNSSINS 417 Query: 410 EGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPP 469 G +S +++ ++++I E+ A+P SD ++ L + I +ARRTVAKYRE L + P Sbjct: 418 VLGEAVASESVKERIRQIIREEDLARPFSDQEIVEKLEGENISIARRTVAKYREMLGVLP 477 Query: 470 SNQRKQ 475 SN+RK+ Sbjct: 478 SNKRKR 483 >UniRef50_Q2W084 DNA-directed RNA polymerase specialized sigma subunit n=14 Tax=Alphaproteobacteria RepID=Q2W084_MAGSA Length = 503 Score = 314 bits (804), Expect = 5e-84, Method: Compositional matrix adjust. Identities = 191/505 (37%), Positives = 289/505 (57%), Gaps = 48/505 (9%) Query: 5 LQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDS 64 L +R +Q L MTPQLQQAI+LLQLS EL + Q LE NPLLE+ + + E + Sbjct: 7 LDIRQTQSLVMTPQLQQAIKLLQLSNFELTAFIDQELERNPLLEREEGERGPEPTEPK-- 64 Query: 65 ETLDTADALEQKEMPEELPL---------DASWDTIYTAGTPSGTSGDYIDDEL------ 109 +D+ D P E PL + D Y + ++ D + DE Sbjct: 65 --VDSTDLAVLDSAPAEAPLLDGMNGGSAEDGMDVDYDNTFNNDSASDAVQDESLGQWGN 122 Query: 110 ----------------PVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGY 153 + GE + L+D+L QV + DR IA +++ +DE GY Sbjct: 123 VGGGGGGFDDGESNLEQMVAGEIS--LRDHLAAQVSMDIPDAGDRLIALHLIEMLDEAGY 180 Query: 154 LTVPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWL 213 L L+++ E +G + V VLKR+Q FDPVGV A+ L++CL +QL++ ++ P + Sbjct: 181 LIGDLDELAERLG---CPTERVLVVLKRVQGFDPVGVFARSLKECLGLQLAEKNRLDPAM 237 Query: 214 EEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVI 273 + + D+L+LLA D LM+ + + + E + I++LDP+P + + V Sbjct: 238 QA----LLDNLELLARRDLPGLMKACGVDAEDMAEMIGEIKALDPKPALAFDHIVAQPVT 293 Query: 274 PDVLVRK-HNGHWTVELNSDSIPRLQIN-QHYASMCNNARNDGDSQFIRSNLQDAKWLIK 331 PDVL+R+ +G W VELNSD++PR+ +N ++Y+ + AR+ D +I Q A WL+K Sbjct: 294 PDVLMRRTQDGAWVVELNSDTLPRVLVNTRYYSKIAGAARSKDDKTYISERFQSANWLVK 353 Query: 332 SLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLH 391 SL R T+L+V+ IV QQ AFF G ++++P+VL DIA A+ MHEST+SRVT+ KY+ Sbjct: 354 SLHQRATTILKVATEIVRQQDAFFRLGVQHLRPLVLRDIATAISMHESTVSRVTSNKYMA 413 Query: 392 SPRGIFELKYFFSSHVNTEGGGEA-SSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQG 450 +PRGI+ELKYFF+ + + GG+A S+ ++R +K LI AE + LSD + L +G Sbjct: 414 TPRGIYELKYFFTQAIGSADGGDAHSAESVRHRIKALIDAEGKSV-LSDDSIVDALKAEG 472 Query: 451 IMVARRTVAKYRESLSIPPSNQRKQ 475 I +ARRTVAKYRE+++I S QR++ Sbjct: 473 IDIARRTVAKYREAMNIGSSVQRRR 497 >UniRef50_Q0ATI6 RNA polymerase, sigma 54 subunit, RpoN n=2 Tax=Alphaproteobacteria RepID=Q0ATI6_MARMM Length = 504 Score = 312 bits (799), Expect = 2e-83, Method: Compositional matrix adjust. Identities = 189/506 (37%), Positives = 286/506 (56%), Gaps = 38/506 (7%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDT-R 59 + Q L +R Q L MTPQLQQAI+LLQLS +EL + ++ LE NPLLE+ D+ E ++ R Sbjct: 4 LMQKLDMRQGQSLVMTPQLQQAIKLLQLSNIELAEFVEGELERNPLLERDDSGESAESQR 63 Query: 60 ETQDSETLDTADALEQKEMPEELPLDASWDTIY-------------------------TA 94 E E + A + + + DA D ++ + Sbjct: 64 EEGQGEPRELELAAPSADANDSI--DADVDMMHGDDSKSDLSGVDGVESGAAMGAGSVSG 121 Query: 95 GTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYL 154 T G+ G +D + +L D+L Q+ + DR I ++D D+ GY+ Sbjct: 122 HTSGGSRGPASEDYDAIANSSRDISLADHLHEQLSMATGDPVDRLIGAHLIDLADDDGYM 181 Query: 155 TVPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLE 214 L++I +G E VEAVL Q FDP GV A+DL +CL +QL D+ P + Sbjct: 182 RSDLDEISAQLGVERA---RVEAVLDLTQTFDPAGVMARDLPECLALQLKDKDRLDPAM- 237 Query: 215 EARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIP 274 A L+ D+L+ LA HD+ L + + + L E ++ I++L P+PG + + V P Sbjct: 238 -ATLL--DNLERLAKHDYVALKSLCGVDSEDLDEMISEIRALTPKPGHAFGSDSTRAVEP 294 Query: 275 DVLVRKH-NGHWTVELNSDSIPRLQINQHYAS-MCNNARNDGDSQFIRSNLQDAKWLIKS 332 DV +R+ +G W VELNS+++PR+ +N Y + + A+++ D FI Q+A WL+KS Sbjct: 295 DVFIRQSPDGSWQVELNSETLPRVLVNNSYFNEISAVAKSETDKTFITECSQNASWLVKS 354 Query: 333 LESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHS 392 L+ R T+L+V+ IV QQ F G Y++P+ L +A A+ MHEST+SRVT+ KY+ + Sbjct: 355 LDQRARTILKVASEIVRQQDMFLAHGVAYLRPLNLKTVADAIGMHESTVSRVTSNKYVAT 414 Query: 393 PRGIFELKYFFSSHVNTEGGGEA-SSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGI 451 RG+FELKYFF+S + + GGGEA S+ A+R +K +I E+ LSD L L ++GI Sbjct: 415 ARGMFELKYFFTSAIPSAGGGEAHSAEAVRHRIKLMIGQESADGVLSDDSLVEQLRDEGI 474 Query: 452 MVARRTVAKYRESLSIPPSNQRKQLV 477 +ARRTVAKYRE+L+IP S QR++++ Sbjct: 475 EIARRTVAKYREALNIPSSVQRRRML 500 >UniRef50_D2L2L2 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Desulfovibrio sp. FW1012B RepID=D2L2L2_9DELT Length = 478 Score = 311 bits (798), Expect = 3e-83, Method: Compositional matrix adjust. Identities = 188/482 (39%), Positives = 291/482 (60%), Gaps = 21/482 (4%) Query: 6 QLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLE---QIDTHEEIDTRETQ 62 QL+LSQQL MTPQLQQAI+LLQLS LEL + +QQ L NPLLE + D E E Sbjct: 8 QLKLSQQLVMTPQLQQAIKLLQLSRLELLESVQQELLENPLLEESIEEDRQPERTMAEDN 67 Query: 63 DSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELP----VYQGE--T 116 T +++DA M +EL +A WD +G + E+P + + Sbjct: 68 LGPTGNSSDA----AMEKELLKNAEWDDYLGDFASTGRQSQSRESEMPEEGMAFDARLAS 123 Query: 117 TQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVE 176 +L+ +L WQ+ L+ F+ + I SIV +++ +GYL LE++ + G + EVE Sbjct: 124 KPSLEGHLGWQMRLSNFTAKELEIGESIVGSLNSSGYLRASLEELAQMAG---ASVPEVE 180 Query: 177 AVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLM 236 VL R+QRFDPVGVAA+ +CLL Q+ + L E ++ DHL+ L ++ L Sbjct: 181 TVLHRLQRFDPVGVAARTPSECLLTQIEVYGYEDTILIE---LVRDHLEDLEKKRYKPLA 237 Query: 237 RVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPR 296 + + + LKE + LIQ+L+P PG S +G+P +V PD V K+ G + + LN + +PR Sbjct: 238 KKFHITMEKLKEYLELIQTLNPMPGASYGSGDPIFVSPDAFVYKYGGEFVIILNEEGMPR 297 Query: 297 LQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFE 356 L +N Y + N +ND D +++ ++ A WL+KSL R TL +V IV+ Q+ FFE Sbjct: 298 LNVNTTYMAEIN-PKNDKDKDYLQDKMRSAMWLMKSLYQRQRTLYKVLESIVKFQREFFE 356 Query: 357 QGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEAS 416 +G ++P++L D+A + MHEST+SR+T+ KY+ +P GIFELK+FF+S ++ + GG Sbjct: 357 EGVTRLRPLILKDVADDISMHESTVSRITSNKYVATPHGIFELKFFFNSSLDLDDGGTVG 416 Query: 417 STAIRALVKKLIAAENPAKPLSDSKLTSLLSEQ-GIMVARRTVAKYRESLSIPPSNQRKQ 475 S +++A++K++I+ EN KP+SD + +L ++ I +ARRTVAKYR ++ I S++RK+ Sbjct: 417 SESVKAMIKRIISGENAKKPISDEAIADMLKDELQINIARRTVAKYRTAMGIESSSKRKE 476 Query: 476 LV 477 + Sbjct: 477 IF 478 >UniRef50_C8VY02 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Desulfotomaculum acetoxidans DSM 771 RepID=C8VY02_DESAS Length = 472 Score = 311 bits (797), Expect = 3e-83, Method: Compositional matrix adjust. Identities = 174/481 (36%), Positives = 287/481 (59%), Gaps = 18/481 (3%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLE-QIDTHEEIDTR 59 M GL + +Q+L MTP+L+QAI +LQLS+LEL + Q L+ NP+LE + D + I+ Sbjct: 3 MGYGLHVEQTQKLIMTPELRQAITVLQLSSLELSMYIDQQLQENPMLEVREDDLDRIEEN 62 Query: 60 ETQDSETLDTADALEQKEMPEELPLDASWDTIYT-AGTPSGTSGDYIDDELPVYQGETTQ 118 E + + + L ++E D W+ + + G + Y+ TQ Sbjct: 63 EGAEGDASGGEEELSRQE------CDVDWEEYFHDSDLDLGRREKLAEQSGSGYENFLTQ 116 Query: 119 --TLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVE 176 L +YLM Q+ L+ D +AI I+ VD GYL V +++I E + E+ +VE Sbjct: 117 APNLTEYLMMQLNLSRCGDYLKAIGEYIIGNVDHNGYLHVSVKEIAEQL---EVSQSKVE 173 Query: 177 AVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLM 236 L IQ FDP+GV A L++CLLIQ+ + + E +I +L +A + Sbjct: 174 QALSVIQSFDPLGVGASSLQECLLIQVRYLNIKNKLVAE---LIEKYLPDIAKGRLNQIA 230 Query: 237 RVTRLKEDVLKEAVNLIQSLDPRPGQSIQ-TGEPEYVIPDVLVRKHNGHWTVELNSDSIP 295 + + ++EA ++I++LDP+PG++ T + Y++PDV+V + G + + +N S+P Sbjct: 231 QQLGVAVTEVQEAADIIKTLDPKPGRNFSATNDVRYIVPDVIVERVEGEYIILVNDSSVP 290 Query: 296 RLQINQHYASMCNNARNDGDSQ-FIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAF 354 RL IN Y S+ + D ++ F+ S L A WL+KS+E R TL +V+ C+V+ Q+ F Sbjct: 291 RLTINTAYRSVLTQDKFDLQTRRFVESKLNSAAWLLKSIEQRRLTLYKVASCLVDLQKDF 350 Query: 355 FEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGE 414 E G +++KP+ L +A+ V +HEST+SR T+ KY+ +P+G+FE+K+FFS+ + + GGG Sbjct: 351 MEYGVKHLKPLNLKTVAEIVGLHESTVSRATSNKYIQTPQGVFEMKFFFSTGLTSAGGGM 410 Query: 415 ASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRK 474 S+ +I+ +++LIA+E+ KPL+D K++ + +E+GI ++RRTVAKYR+ L+IPP QRK Sbjct: 411 TSAESIKKTLRELIASEDARKPLNDQKISDIFAERGIKISRRTVAKYRDELNIPPLKQRK 470 Query: 475 Q 475 + Sbjct: 471 R 471 >UniRef50_B4SIK0 RNA polymerase, sigma 54 subunit, RpoN n=3 Tax=Stenotrophomonas RepID=B4SIK0_STRM5 Length = 469 Score = 310 bits (793), Expect = 9e-83, Method: Compositional matrix adjust. Identities = 194/479 (40%), Positives = 274/479 (57%), Gaps = 24/479 (5%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 MK L +L QQL +TPQL Q+IRLLQL L L+QE+Q+ L+SNPLLE + Sbjct: 1 MKAALSTQLGQQLHLTPQLLQSIRLLQLDGLHLEQEIQRLLDSNPLLEIEEAEAPAAEST 60 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELP-VYQGETTQT 119 D+ TL+TA +ELP + WD AG+ S GD DD + + GE++ Sbjct: 61 DADATTLETAAF-------DELPESSMWDV---AGS-SWQDGD--DDRMARIAAGESSDP 107 Query: 120 LQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDI--DEVEA 177 Q ++ ++ L D + A+A +D DE GYL PL L+ + + DI D VEA Sbjct: 108 -QLRVLQRLSLD-MDDRELAVAAFWLDHCDEAGYLQAPLAQ-LQLLASAQFDIAADGVEA 164 Query: 178 VLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMR 237 + +++ +P G+AA+DLR+ L QL P A I+ LD LA HD+ L R Sbjct: 165 IRQQLLHGEPAGMAAQDLREGLQAQLRSLHGVVPARHLAARILDGALDALAAHDYPALAR 224 Query: 238 VTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRL 297 + D ++EAV LI SL PRPG S+ V+PDV+ + W V LN + R+ Sbjct: 225 QHDAEIDDVREAVRLILSLQPRPGDSLLPERNAVVVPDVVAWHADNQWKVALNPATSRRV 284 Query: 298 QINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQ 357 IN Y A + +R LQ+A+W + L R DTLLR +R IVE+Q AF + Sbjct: 285 SINSQYEQAL--AETSEAAPALREMLQEARWFSRGLSMRYDTLLRTARVIVERQAAFLVR 342 Query: 358 GEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASS 417 GEE M P+ L ++A+ + MHEST+SR+TT K+L +PRG FELK+FF+ + G S Sbjct: 343 GEEAMAPLTLKEVAEEIGMHESTVSRITTGKFLQTPRGTFELKHFFAVRLE---GASVSG 399 Query: 418 TAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 A++A+V++LI AE +PL+D + LLS QG+ +ARRTVAKYRE L I P+ +R++L Sbjct: 400 QAVKAMVRRLIDAEPAGRPLADEAIAGLLSRQGVNIARRTVAKYREQLDIAPARERRRL 458 >UniRef50_Q1DDF1 RNA polymerase sigma-54 factor n=4 Tax=Cystobacterineae RepID=Q1DDF1_MYXXD Length = 505 Score = 309 bits (792), Expect = 1e-82, Method: Compositional matrix adjust. Identities = 181/498 (36%), Positives = 287/498 (57%), Gaps = 32/498 (6%) Query: 7 LRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSET 66 L+L+QQL MTPQLQQAI+LLQLS +EL +++++ +E NPLLEQ D D + + E Sbjct: 9 LKLAQQLVMTPQLQQAIKLLQLSRMELLEQVREEMEQNPLLEQPDEQAPGDVGDKEPGEA 68 Query: 67 LDTADALE---QKEMPE-------------ELPLDASWDTI-----YTAGTPSGTSGDYI 105 AD +E ++P E P + W+ + T + G+ Sbjct: 69 SLEADNMEVPRDVDLPAATSDTATEFKADGEGPPEIDWEQYLNSYQFNEPTTASNKGNVA 128 Query: 106 DDELPVYQGETTQT--LQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLED--- 160 D++P ++ + L D++ Q+ +D +R IA I+ +D+ GYL +P D Sbjct: 129 TDDMPSFEANLVKKADLVDHIQEQLGTLRLNDAERRIAMLILGNLDDDGYLKLPEVDGDP 188 Query: 161 ILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQF-DKTTPWLEEARLI 219 ++ + ++ + E L+RIQ DP G A+DL++CLLIQL + P L LI Sbjct: 189 LIRLANEADVPMHVAERTLRRIQMLDPRGCGARDLQECLLIQLQGIREPHAPLLG---LI 245 Query: 220 ISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVR 279 I H+ L + + + + ++ + + AV L+ LDP+PG++ + +Y+ PDV V Sbjct: 246 IKRHMKYLESKNLPAIAKDLKVTLEEVVGAVRLLPKLDPKPGRNFSGDDAQYISPDVFVY 305 Query: 280 KHNGHWTVELNSDSIPRLQINQHY-ASMCNNARNDGDSQ-FIRSNLQDAKWLIKSLESRN 337 K +TV LN D + +L+I+ Y ++ A G ++ FI+ L+ A WLI+S+ R Sbjct: 306 KMGDDYTVVLNDDGLSKLRISGTYRNALKTGAVGPGQTKDFIQDKLRSAMWLIRSIHQRQ 365 Query: 338 DTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIF 397 T+ +V+ IV+ Q+ F ++G Y+KP++L D+A+ + MHEST+SRVTT KY+H+P+GIF Sbjct: 366 RTIYKVTESIVKFQRDFLDKGIAYLKPLILRDVAEDIGMHESTVSRVTTSKYVHTPQGIF 425 Query: 398 ELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRT 457 ELKYFF+S + G + +S A++ +K+L+A E+ P SD K+ LL QG +ARRT Sbjct: 426 ELKYFFNSSIARVSGEDTASEAVKHHIKQLVAQEDARNPYSDQKIVELLRSQGTEIARRT 485 Query: 458 VAKYRESLSIPPSNQRKQ 475 VAKYRE L I PS++RK+ Sbjct: 486 VAKYREVLGILPSSKRKR 503 >UniRef50_C7R9H7 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Kangiella koreensis DSM 16069 RepID=C7R9H7_KANKD Length = 495 Score = 308 bits (790), Expect = 2e-82, Method: Compositional matrix adjust. Identities = 192/496 (38%), Positives = 294/496 (59%), Gaps = 28/496 (5%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQID-THEEIDTR 59 M LQL LSQQL + PQLQQ+I+LLQLS L LQQE+Q L++NPLL +D ++ E + Sbjct: 1 MNPNLQLSLSQQLKLNPQLQQSIKLLQLSQLALQQEIQYQLDNNPLLTLLDDSYCEPEAA 60 Query: 60 ETQDSETLDTADALEQKEMPEELPLDASWDTIYT--------AGTPSGTSGDYIDDELPV 111 + + LD + +P P + + I + +G T + D E + Sbjct: 61 SSVSNSELDVS------PLPTVFPNNRDTNNIGSLANLRHIDSGQHHSTYSIHNDGESNL 114 Query: 112 -YQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIG---D 167 Q + + L+++L WQ++++ S D IA +++ +D+ G+LTV ++I+E I + Sbjct: 115 ENQFQESIGLREHLEWQIQMSSLSRADMEIAYYVIENIDDAGFLTVSHQEIIEQIKQDFE 174 Query: 168 EEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTP---------WLEEARL 218 D DEVEAV+ ++Q+ +P+G A+ +L+ LL+QL T LE A+ Sbjct: 175 HRFDPDEVEAVIHQVQQLEPLGCASSNLQQFLLLQLQLAINNTSNPQQSALESALELAQR 234 Query: 219 IISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLV 278 ++ H D L H + L++ L + + +A+++IQ L +P EY+ PD+LV Sbjct: 235 LVHHHFDYLCKHHYSKLIKRLSLTQQEMDDALSVIQCLRSKPNHQYIGEVTEYIRPDILV 294 Query: 279 RKHNGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRND 338 G W +L S++ P+L IN YA + D +++ NLQ A+W ++S+E+RND Sbjct: 295 YNLQGSWLAQLASNNAPQLDINHQYAQALRQSNKTCDKHYLQQNLQRARWFMQSIEARND 354 Query: 339 TLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFE 398 TL RV+ IV+ QQ FF+ GE ++PM L D+A+ +++HESTISR + K+L SP GI+E Sbjct: 355 TLKRVADWIVQHQQNFFDCGESALRPMRLKDLAEDLKLHESTISRACSDKFLQSPNGIYE 414 Query: 399 LKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTV 458 LKYFFS+ V + GGE SS AI+ +K+ + AE KPLSD +L +L E+GI +ARRTV Sbjct: 415 LKYFFSNAVPSTQGGEWSSKAIKNKIKQYVKAEPSRKPLSDIELAKMLQEEGIAIARRTV 474 Query: 459 AKYRESLSIPPSNQRK 474 AKYRE+L+I PS QRK Sbjct: 475 AKYREALNILPSGQRK 490 >UniRef50_P30333 RNA polymerase sigma-54 factor 2 n=48 Tax=Alphaproteobacteria RepID=RP55_BRAJA Length = 537 Score = 308 bits (788), Expect = 4e-82, Method: Compositional matrix adjust. Identities = 192/520 (36%), Positives = 287/520 (55%), Gaps = 54/520 (10%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 + Q L+ R SQ L MTPQL QAI+LLQLS L+L +++ LE NPLLE+ + Sbjct: 3 LTQRLEFRQSQSLVMTPQLMQAIKLLQLSNLDLTTFVEEELERNPLLERANDEASGGEAP 62 Query: 61 TQDSETLDT------------ADALE--QKE-MPEELP--------LDASWDTIYT---- 93 + + D+ +A E Q+E M ++L LD D +++ Sbjct: 63 AEAGQFSDSDGGHNDEPGGGPGEAFEPGQEEWMSKDLGTRAEIEQTLDTGLDNVFSEEPA 122 Query: 94 --------AGTPS-------GTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDR 138 P+ G SGD D L + TL D+L Q+ + + R Sbjct: 123 EAAARNAQDAAPTTYTEWGGGASGDE-DYNLEAFVAAEV-TLGDHLAEQLSVAFTAPAQR 180 Query: 139 AIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDC 198 I ++D VDE GYL L E +G + EVE VL +Q+FDP GV A++L +C Sbjct: 181 MIGQYLIDLVDEAGYLPPDLGQAAERLGASQ---QEVEDVLAVLQKFDPPGVCARNLSEC 237 Query: 199 LLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDP 258 L IQL + D+ P ++ + +HLDLLA D L +V + ++ + + + I+ L+P Sbjct: 238 LAIQLRELDRYDPAMQ----ALVEHLDLLAKRDIAGLRKVCGVDDEDIADMIGEIRRLNP 293 Query: 259 RPGQSIQTGEPEYVIPDVLVRKH-NGHWTVELNSDSIPRLQINQ-HYASMCNNARNDGDS 316 +PG + ++PDV VR +G W VELNSD++PR+ +NQ +Y+ + DGD Sbjct: 294 KPGMKFGAARLQTMVPDVYVRPGPDGGWHVELNSDTLPRVLVNQTYYSELSKKIGKDGDK 353 Query: 317 QFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEM 376 + LQ+A WL+++L+ R T+L+V+ IV QQ FF G +++P+ L +A A++M Sbjct: 354 SYFTDALQNATWLVRALDQRARTILKVATEIVRQQDGFFTHGVAHLRPLNLKAVADAIQM 413 Query: 377 HESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEA-SSTAIRALVKKLIAAENPAK 435 HEST+SRVT KY+ + RG FELKYFF++ + + GGEA S+ A+R +K+LI +E PA Sbjct: 414 HESTVSRVTANKYMATNRGTFELKYFFTASIASADGGEAHSAEAVRHHIKQLIDSEAPAA 473 Query: 436 PLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 LSD + L GI +ARRTVAKYRE++ IP S QR++ Sbjct: 474 ILSDDTIVERLRASGIDIARRTVAKYREAMRIPSSVQRRR 513 >UniRef50_B3E461 RNA polymerase, sigma 54 subunit, RpoN n=4 Tax=Deltaproteobacteria RepID=B3E461_GEOLS Length = 482 Score = 308 bits (788), Expect = 4e-82, Method: Compositional matrix adjust. Identities = 176/488 (36%), Positives = 288/488 (59%), Gaps = 33/488 (6%) Query: 6 QLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPL---------LEQIDTHEEI 56 QL+++QQL MTPQLQQAI+LLQ++ +ELQ ++Q LE NP+ + + +T E+ Sbjct: 8 QLKMTQQLVMTPQLQQAIKLLQMTRIELQDVVRQELEENPILEESSELEEVREGETLLEV 67 Query: 57 DTRETQDSETLDTADALEQKEMPEELPLDASWDTI-----YTAGTPSGTSGDYIDDE-LP 110 E D E L D+ ++ E EE D WD+ YT+G SG D + E L Sbjct: 68 VEAELPD-EALANTDSFQEVEAGEETLRD--WDSYLDGYNYTSGEQSGDDDDKLSFENLL 124 Query: 111 VYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEI 170 +G TL D+L WQ+++ +SD ++ + ++ +D+ GY + D+ Sbjct: 125 TRKG----TLFDHLHWQLQMGKYSDEEQRVGEEVIGNIDDDGYFCSTIADVAVVC----- 175 Query: 171 DIDE--VEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLA 228 D+ E VE +L+RIQ FDP GV A+ L++CLLIQ +E I+ +L + Sbjct: 176 DVPEPVVETMLERIQEFDPSGVGARSLQECLLIQARSLGMEGSVVEA---ILLRYLPEVE 232 Query: 229 NHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVE 288 + +++ + R +++ + + A+ +I DPRPG+ + E Y+ PD+ V K + V Sbjct: 233 SRNYKQIARSLKVELEHVLAAIRVIAGFDPRPGRLYSSDEVHYISPDIFVHKVGDDYVVL 292 Query: 289 LNSDSIPRLQINQHYASMCNNARNDGDSQ-FIRSNLQDAKWLIKSLESRNDTLLRVSRCI 347 LN + +P L+++ Y D ++ ++ ++ A+WLIKS++ R T+ RV++ I Sbjct: 293 LNEEGLPNLRLSPFYLEAKAGGSMDAKAEEYVGDKMRAAQWLIKSIQQRQRTIFRVAKSI 352 Query: 348 VEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHV 407 V+ Q+ F E+G E ++P+VL D+A+ + MHESTISRVTT KY+ +P+G+FELKYFF+S + Sbjct: 353 VKFQREFLERGVEGLRPLVLRDVAEDIGMHESTISRVTTNKYMQTPQGLFELKYFFNSGL 412 Query: 408 NTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSI 467 +T G SS +++ +K +I E+P+KPLSD K+ +LS+ + +ARRTV KYRE + I Sbjct: 413 STSDGESVSSESVKNRIKDIIDKEDPSKPLSDQKIAEMLSDATVNIARRTVTKYREMMRI 472 Query: 468 PPSNQRKQ 475 S++R++ Sbjct: 473 GSSSERRR 480 >UniRef50_C0GFB1 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Dethiobacter alkaliphilus AHT 1 RepID=C0GFB1_9FIRM Length = 464 Score = 306 bits (784), Expect = 1e-81, Method: Compositional matrix adjust. Identities = 191/485 (39%), Positives = 293/485 (60%), Gaps = 32/485 (6%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M L+L +Q+L MTP+LQQAI LLQ S LELQ +Q L NP+LE ID E+ + + Sbjct: 3 MSYHLKLEQTQKLVMTPELQQAITLLQYSALELQTYVQNQLLENPVLE-IDESEDTEKKT 61 Query: 61 -------TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSG-DYIDDELPVY 112 Q+ +++D + L+ + M P+ T +T G DY P Sbjct: 62 DESVEEPVQEKDSIDWEEYLKDEGME---PM-----TSFTIRQNEDAPGFDYYLSNEP-- 111 Query: 113 QGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDI 172 TLQ++L++Q+ L + T++ I I+ +D+ GYL +++ IG E Sbjct: 112 ------TLQEHLLFQLGLCSLTPTEKHIGEFIIGNLDQHGYLKGDFKELAMLIGAEP--- 162 Query: 173 DEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDF 232 E+ VL+ IQ+FDPVGV A+DL++CLL+Q+ + + P A+ I+ HL +A++ Sbjct: 163 REILGVLEVIQKFDPVGVGARDLQECLLLQIQEHNSPHPL---AKPIVRTHLADVADNKI 219 Query: 233 RTLMRVTRLKEDVLKEAVNLIQSLDPRPGQ-SIQTGEPEYVIPDVLVRKHNGHWTVELNS 291 + + R ++ AV+ I++LDP+PG+ + G+ YV+PDV+V K +G + V +N Sbjct: 220 KKIASELRAGATDVQAAVDFIRTLDPKPGRLAGDVGDVRYVVPDVVVEKVDGEYVVIVNE 279 Query: 292 DSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQ 351 +IPRL +N +Y S+ S FI++ L A WL+KS+E R T+ RV+ CI Q Sbjct: 280 QNIPRLAVNPYYRSLLGKDSESVTSTFIKTRLDSALWLLKSIEQRRITVYRVTECITRIQ 339 Query: 352 QAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEG 411 + FF+QG ++++PM L IA + +HEST+SR T+ K++ +PRG+F LK+FF+S V+ Sbjct: 340 RDFFDQGIKHLRPMTLRQIADEIGVHESTVSRATSNKFVQTPRGLFPLKFFFASGVDDYH 399 Query: 412 GGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSN 471 G SS +I+ +K+LI AEN +PLSD KL LLS++GI+V+RRTVAKYRE +SIP SN Sbjct: 400 GTAVSSESIKCHLKELIEAENVQRPLSDQKLMELLSKRGIVVSRRTVAKYREEMSIPSSN 459 Query: 472 QRKQL 476 +RK+L Sbjct: 460 KRKRL 464 >UniRef50_D2LIV1 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Rhodomicrobium vannielii ATCC 17100 RepID=D2LIV1_RHOVA Length = 503 Score = 306 bits (784), Expect = 1e-81, Method: Compositional matrix adjust. Identities = 188/504 (37%), Positives = 285/504 (56%), Gaps = 40/504 (7%) Query: 5 LQLRL----SQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLE------------ 48 LQLRL +Q++ +TPQL+QAI+LLQ S +ELQ ++ + NPLLE Sbjct: 2 LQLRLEQRQTQKIVITPQLRQAIKLLQFSAIELQSYIENEIRDNPLLEAEERADGDAPLP 61 Query: 49 QIDTHEEIDTRETQDSETLDTADALEQKEMPEELPLDASWDTIYTAG-----------TP 97 ++ + D D DA E + D Y + Sbjct: 62 EVIRADGASVGADADVPAFDARDASPAVETVTDWEPATPGDRAYEGAPAAASPEAEWLST 121 Query: 98 SGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDT-DRAIATSIVDAVDETGYLTV 156 +G +G DD P ++L D+L Q +L F D DR IA ++D VD GY+ Sbjct: 122 NGKAGSPSDDYDPFATLSMAESLTDHLNEQAQLA-FPDAQDRFIARYLIDLVDADGYIRS 180 Query: 157 PLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEA 216 PLED + ++++E VL +Q FDPVGV A+DL +CL IQL + D+ P++E Sbjct: 181 PLEDAAALLSSP---LEDIERVLGVMQTFDPVGVCARDLAECLAIQLREKDRCDPYME-- 235 Query: 217 RLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDV 276 RL+ +LDL+A D + L RV + D L+E + +++L+P+PG + + GE E ++PDV Sbjct: 236 RLLA--NLDLIAACDMQKLRRVCGVDADDLREMMQELRALNPKPGAAFEHGEVETLVPDV 293 Query: 277 LVRKH-NGHWTVELNSDSIPRLQINQ-HYASMCNNARNDGDSQFIRSNLQDAKWLIKSLE 334 +VR+ +G W ELN + P L +++ +YAS+ N R+D + ++ A WL+KSLE Sbjct: 294 IVRRGPDGEWRAELNPSAAPSLAVDRAYYASLKNRCRSDSERTYLADRQSSANWLVKSLE 353 Query: 335 SRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPR 394 R T+L+V+ +VE+Q AFF+ G ++KP+ L IA + MHEST+SRVT+ K + +PR Sbjct: 354 QRLSTILKVATAMVEEQSAFFDHGVRHLKPLNLRQIAAKIGMHESTVSRVTSNKAIQTPR 413 Query: 395 GIFELKYFFS--SHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIM 452 GIFE+KYFF+ + SS A+R +K+ I E+P + LSD ++ ++L GI Sbjct: 414 GIFEMKYFFTSSIPSASASSEAHSSEAVRDRIKEFILNESPEEVLSDDRIVTMLKADGID 473 Query: 453 VARRTVAKYRESLSIPPSNQRKQL 476 +ARRTVAKYR++L IP S R++L Sbjct: 474 IARRTVAKYRDALRIPSSAARRRL 497 >UniRef50_Q0BUA8 RNA polymerase sigma-54 factor rpoN n=1 Tax=Granulibacter bethesdensis CGDNIH1 RepID=Q0BUA8_GRABC Length = 537 Score = 306 bits (783), Expect = 1e-81, Method: Compositional matrix adjust. Identities = 189/512 (36%), Positives = 283/512 (55%), Gaps = 48/512 (9%) Query: 5 LQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQD- 63 L LR SQ L MTPQL+QAI+LLQ + +E+ +++ LE NPLLE+ ++ E I R D Sbjct: 27 LDLRQSQSLVMTPQLRQAIKLLQFNNMEVAAFIEEELERNPLLERDESTELIQERPAPDQ 86 Query: 64 ----SETLDTADALEQKEMPEEL-PLDASWDTIY---------TAGTPSGTSGDYIDD-- 107 + LD+ADA M E PLD ++Y + P+G + D+ Sbjct: 87 TGPEPDFLDSADAASSDHMISEAGPLDVDPGSLYDEPGETASFLSSQPTGNHANSFDNSP 146 Query: 108 -ELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIG 166 ++ + E +L++ L Q+ L S DR I ++ +D G LT+P I +++ Sbjct: 147 FDVISQRLEYRPSLREQLAEQLRLCFASPQDRLIGAHLIAQLDAAGRLTMPPAAIAKALN 206 Query: 167 DEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDL 226 + +E + ++ FDP G+ DL++CL QL F++ P A I+ +HLDL Sbjct: 207 ---CPLPHLENIRTAMRYFDPPGLFCLDLKECLTTQLQAFNRYDP----AMAILLEHLDL 259 Query: 227 LANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRK-----H 281 LA + R LM + + + L ++ I+ +P+PG + P+ +IPDVL+ + H Sbjct: 260 LAQRNHRRLMSLCGVDAEDLAGMIDDIKRCNPKPGAGFDSDLPQTIIPDVLMSRRPATAH 319 Query: 282 N-----------------GHWTVELNSDSIPRLQINQH-YASMCNNARNDGDSQFIRSNL 323 N G W +ELN +++PR+ +N + + D FI+ L Sbjct: 320 NEDDDPLSSPLLLDVAIAGEWLIELNPETMPRVLVNMGGLTRFARRSMSRDDRSFIKEKL 379 Query: 324 QDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISR 383 A WL+KSL+ R+ T+LRVS IV QQQAFF G ++KP++L DIA+AV+MHESTISR Sbjct: 380 NTAHWLVKSLQQRSQTILRVSAEIVRQQQAFFRHGVSHLKPLILRDIAEAVDMHESTISR 439 Query: 384 VTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLT 443 VT KY+ +PRG ELKYFF++ ++ G S+ AIR ++ LI E + LSD L Sbjct: 440 VTANKYIATPRGTLELKYFFTTAISGADGENFSAEAIRHRIRTLIDQEPASDVLSDDALV 499 Query: 444 SLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 + L ++GI +ARRTVAKYRE+L IP S QRK+ Sbjct: 500 THLKQEGIDIARRTVAKYREALRIPSSVQRKR 531 >UniRef50_B2UH35 RNA polymerase, sigma 54 subunit, RpoN n=39 Tax=Burkholderiaceae RepID=B2UH35_RALPJ Length = 500 Score = 306 bits (783), Expect = 2e-81, Method: Compositional matrix adjust. Identities = 187/511 (36%), Positives = 276/511 (54%), Gaps = 47/511 (9%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 +K L++R Q LA+TP+LQQ+++LLQLS E QE+Q+AL SNP LE+++ Sbjct: 2 VKAALEMRAKQHLALTPRLQQSVKLLQLSATEFAQEMQEALASNPFLEEVEQEAGAQPDA 61 Query: 61 TQDSETLDTAD--ALEQKEMPEE-LPLD-------------------ASWDTIYTAGTPS 98 T+ ++ AD P E LPL+ A + T Y+ G Sbjct: 62 TRANDLPGPADLDGSGTDHTPSEALPLETTTSAIETDPALATADEFPADFGTYYSHG--G 119 Query: 99 GTSGDYIDDELPVYQGE---TTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLT 155 GD D ++ GE T +L+++L ++ S D + ++++A+D+ GYL Sbjct: 120 AHHGDGEDSDI----GEWVHATPSLREHLHQELRSYRLSQRDCLLGQTVIEALDDDGYLR 175 Query: 156 ------VPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKT 209 +PL + ++E+ I L +Q DP GVAA+DL +CL +Q+ Sbjct: 176 QLLSELIPLAPVEPPPTEKEMQI-----ALALVQSLDPPGVAARDLSECLRLQIEARPAD 230 Query: 210 TPWLEE----ARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQ 265 T E A I+ HL LA +F + R ED L++A LI+ LDPRPG Sbjct: 231 TEAEERIQEVAHDIVRSHLPRLAKREFTQMRRALGCTEDELRDACALIRMLDPRPGLRFS 290 Query: 266 TGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQD 325 Y++PDV+V K G W N P +IN+ YA + R + LQ+ Sbjct: 291 QAHAGYIVPDVIVAKIRGKWIAVTNPAVAPCARINKVYAELFAQTRGYHRTPLAH-QLQE 349 Query: 326 AKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVT 385 A+WLI++ + R T+ RV+ IV Q+ F E GE MKP+VL D+A+ + +HESTISR T Sbjct: 350 ARWLIRNAQQRFATIQRVAEAIVAHQKHFLEYGEVAMKPLVLRDVAEELGLHESTISRAT 409 Query: 386 TQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSL 445 KY+ +PRGIFE KYFFS + T+ GG S+ ++RAL+K++I AE+ PLSD L + Sbjct: 410 GNKYMATPRGIFEFKYFFSRQLATDTGGACSAASVRALLKEMIEAEDADAPLSDVSLAKM 469 Query: 446 LSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 L+EQG++VARRTVAKYR + I P+ R+Q+ Sbjct: 470 LAEQGVIVARRTVAKYRGLMRIAPAEMRRQV 500 >UniRef50_A6TU36 RNA polymerase, sigma 54 subunit, RpoN n=2 Tax=Alkaliphilus RepID=A6TU36_ALKMQ Length = 462 Score = 305 bits (782), Expect = 2e-81, Method: Compositional matrix adjust. Identities = 177/483 (36%), Positives = 278/483 (57%), Gaps = 32/483 (6%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M LQL SQ+L MTPQL+QAI++LQ T+EL Q +Q +E NP+LE + E Sbjct: 3 MGYNLQLEQSQKLIMTPQLKQAIQILQFPTIELDQYIQDQIEKNPVLEL--------SNE 54 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQT- 119 + LD ++KE+ W G S Y + + E + Sbjct: 55 KEPGRELDKGIEDKKKEV--------DWKEYIKDMQNHGYSKGYAHSDENEFNYENIISS 106 Query: 120 ---LQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVE 176 LQ++L++Q +T I I+ +DE GYLT+ +E+I + D + I+ VE Sbjct: 107 DVNLQEHLLFQFHVTLLDREYNEIGEYIICNLDENGYLTLSIEEIAK---DLRVGINLVE 163 Query: 177 AVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARL--IISDHLDLLANHDFRT 234 VL IQ F+P GVAA++L +CL +QL+ +E+ R+ I+ +L+L+A++ + Sbjct: 164 DVLHIIQTFEPPGVAARNLTECLTLQLNSL-----AIEDQRVYDIVEKYLELMASNKYPV 218 Query: 235 LMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSI 294 + + ++ + ++E + I++L+P+PG+ T E YVIPDV+V+K + + + +N S Sbjct: 219 IAKKMKISVNKVQEICDFIRTLEPKPGREFATNESSYVIPDVVVKKIDDEYVIIVNDYSA 278 Query: 295 PRLQINQHYAS-MCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQA 353 PRL I Q Y M N N +F+ A WLIKS+E R +T+ RV I+ +Q++ Sbjct: 279 PRLTIRQDYQKLMTNECENSETVKFLNDKFNAAAWLIKSIEQRRNTIYRVVESIMSKQRS 338 Query: 354 FFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSS-HVNTEGG 412 FFE G+++++PM L +IA+ +++HEST+SR T KY+ +P GIFELKYFF+S G Sbjct: 339 FFEHGKKHLRPMTLKEIAEEIDVHESTVSRATNGKYVETPIGIFELKYFFTSGVGGDVGV 398 Query: 413 GEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQ 472 SS I+A + ++I ENP KPLSD K+ L+ + + ++RRTVAKYR+ L IP S++ Sbjct: 399 EGTSSKTIKAFISEIIQKENPKKPLSDDKIVKELATRAMHLSRRTVAKYRDDLRIPSSSK 458 Query: 473 RKQ 475 RK+ Sbjct: 459 RKR 461 >UniRef50_Q3MKN6 RpoN (Fragment) n=2 Tax=Gammaproteobacteria RepID=Q3MKN6_THIRO Length = 368 Score = 305 bits (782), Expect = 2e-81, Method: Compositional matrix adjust. Identities = 164/368 (44%), Positives = 229/368 (62%), Gaps = 17/368 (4%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 MKQ +QLRL Q L MTPQLQQAIRLLQLSTLELQ+E+Q+AL++N +LE+ D + + E Sbjct: 1 MKQSIQLRLGQHLTMTPQLQQAIRLLQLSTLELQKEIQEALDTNLMLEEGDEADRFNVGE 60 Query: 61 TQDSETLDTAD------ALEQ----------KEMPEELPLDASWDTIYTAGTPSGTSG-D 103 + T+ + D A+EQ EMP+ELP+D W ++ + PS + G D Sbjct: 61 QPQTGTIQSEDIETPRLAVEQTVDREIHAESNEMPDELPVDTLWTDVFDSYLPSTSHGSD 120 Query: 104 YIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILE 163 D P Q QTL D+L WQ+ L S+ D IA +++D++D GYL + ++++L Sbjct: 121 DGSDYDPFAQQSRPQTLLDHLAWQLNLCRLSERDNMIAQAVIDSIDADGYLRIDIDELLL 180 Query: 164 SIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDH 223 ++ EI +EVEAV+ RIQ FDP GV A++L +CLLIQLSQ TPW A I D Sbjct: 181 TVDHPEISAEEVEAVVHRIQSFDPPGVGARNLPECLLIQLSQLPAQTPWRNAAMAICRDG 240 Query: 224 LDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNG 283 + LA D +L+R + E+ + A+ LI+ L+PRPG I +YV+PD+ VRK G Sbjct: 241 FEYLAKRDVASLVRQLKESEEAVAGALALIRRLNPRPGSLIAGAPAQYVVPDIFVRKREG 300 Query: 284 HWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRV 343 W+VELN +S+P+L++N YA + A D ++S+LQ+A+W IKSL SRNDT+LRV Sbjct: 301 RWSVELNPESMPKLRVNAEYARLIRRADQSADGVTLKSHLQEARWFIKSLASRNDTVLRV 360 Query: 344 SRCIVEQQ 351 IVE Q Sbjct: 361 GAKIVEMQ 368 >UniRef50_C0G3T2 RNA polymerase sigma-54 factor n=7 Tax=Alphaproteobacteria RepID=C0G3T2_9RHIZ Length = 521 Score = 305 bits (781), Expect = 2e-81, Method: Compositional matrix adjust. Identities = 179/496 (36%), Positives = 286/496 (57%), Gaps = 36/496 (7%) Query: 5 LQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHE------EIDT 58 L +R SQ L MTPQL Q+I+LLQ++ +EL Q L +E NPLL++I+ E + Sbjct: 28 LDIRQSQSLVMTPQLMQSIKLLQMTHIELDQFLDMEIEKNPLLDRIEADSDDLAGGEPAS 87 Query: 59 RETQDSETLDTADALEQKEMPEELPLDASWDT----IY-------------TAGTPSGTS 101 +E+ D D + + L A++D I+ +AG + + Sbjct: 88 GADDPTESADNDDWFQTEGAGAAENLSATFDNSLENIFPDDLGSSQEQWKLSAGEGAFSG 147 Query: 102 GDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDI 161 Y D++ + +L DY+ Q+ L DR IAT++ DA+DE+GYL + + + Sbjct: 148 NGYDIDQVTAGR----LSLSDYVAEQIVLGFSKAADRFIATALADALDESGYLRIDIVGL 203 Query: 162 LESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIIS 221 ++G I+ E+ +L +Q FDP G+ A+DLR+CL IQL D+ P +E + Sbjct: 204 AHNLG---IETAEIGRILGVLQGFDPPGLFARDLRECLAIQLRLKDRFDPAMEA----LI 256 Query: 222 DHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLV-RK 280 +LDLLA DF TL ++ + + L + + I++LDP+PG + + ++PDVLV Sbjct: 257 ANLDLLARRDFATLQKICGVDQADLIDMLAEIRALDPKPGARFEVSVADTIVPDVLVFSA 316 Query: 281 HNGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTL 340 +G W +ELN ++PRL +N Y + + + + F+ +Q A WL++SL+ R T+ Sbjct: 317 RDGGWAIELNPATMPRLIVNNEYYAEVSGSVKTEEKAFLTDCMQTAGWLVRSLDQRARTI 376 Query: 341 LRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELK 400 L+V++ IV QQ F G ++KP+ L +A AV MHESTISRVT K++ +PRG+FEL+ Sbjct: 377 LKVAQEIVRQQDGFLRHGVAHLKPLNLRMVADAVGMHESTISRVTANKFMATPRGVFELR 436 Query: 401 YFFSSHVNTEGGGEA-SSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVA 459 YFF++ + + GGEA SS ++R ++++I AE P + LSD + L + G+ +ARRTVA Sbjct: 437 YFFTASLASSEGGEAHSSESVRHRIRQMIEAEKPDEVLSDDAIVDALKKDGVDIARRTVA 496 Query: 460 KYRESLSIPPSNQRKQ 475 KYRE+++I S QR++ Sbjct: 497 KYREAMNIASSVQRRR 512 >UniRef50_B0RT01 RNA polymerase sigma-54 factor n=10 Tax=Bacteria RepID=B0RT01_XANCB Length = 487 Score = 305 bits (780), Expect = 3e-81, Method: Compositional matrix adjust. Identities = 188/477 (39%), Positives = 268/477 (56%), Gaps = 22/477 (4%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 MK + +L QQL +TPQL Q+IRLLQL ++L+ E+++ALE+NPLLE + + D Sbjct: 21 MKTTISAQLGQQLHLTPQLLQSIRLLQLDGMQLELEIRRALETNPLLELEELADSSDEAP 80 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 + + D A +ELP W+ S +G+ D V GE+T Sbjct: 81 SAEDGATDMAAF-------DELPESTMWEV-----QSSSWNGEDDDRMQRVAAGESTDP- 127 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDE-EIDIDEVEAVL 179 ++ ++ L +TD A ++ D+ GYLT L + + I +D EA+ Sbjct: 128 HVRILRELALD-LDETDLGTAAFWLEQTDDAGYLTEALPTLQQLAATRLGISVDAAEAIR 186 Query: 180 KRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVT 239 +R+ DP G+AA DLR+CL QL+ P A I++ LDLLA HD+ L R Sbjct: 187 QRLLHGDPAGLAACDLRECLQAQLAALPGRVPARHLAGRILAGDLDLLAGHDYALLARAH 246 Query: 240 RLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQI 299 D ++EAV LI SL PRPG + VIPDVL +G W V LN + R+ I Sbjct: 247 DADVDDVREAVRLILSLQPRPGDDLLQETNASVIPDVLAWHADGSWRVALNPATTHRVSI 306 Query: 300 NQHYASMCNNARNDGDS-QFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQG 358 N + A GD+ Q +R LQ+A+WL + L R +TLLR +R IVE+Q AF +G Sbjct: 307 NPVHERALAEA---GDAAQPLRDMLQEARWLTRGLSMRYETLLRATRAIVERQAAFLARG 363 Query: 359 EEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASST 418 EE M P+ L +IA + MHESTISR+TT KY+ +PRG FELK+FF+ + G S Sbjct: 364 EEAMAPLTLKEIADEIGMHESTISRITTGKYIQTPRGTFELKHFFAVRLE---GASVSGQ 420 Query: 419 AIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 A++A+V++LI +E +PL+D + LLS QG+ +ARRTVAKYRE L I P+ +R++ Sbjct: 421 AVKAMVRRLIESEPAGRPLADEAIAGLLSRQGVNIARRTVAKYREQLDIAPARERRR 477 >UniRef50_B0K876 RNA polymerase, sigma 54 subunit, RpoN n=9 Tax=Thermoanaerobacterales RepID=B0K876_THEP3 Length = 454 Score = 303 bits (775), Expect = 1e-80, Method: Compositional matrix adjust. Identities = 178/476 (37%), Positives = 283/476 (59%), Gaps = 26/476 (5%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M+ L+L+ +Q+L MTP+L+QAI +LQL++LEL ++Q LE+NPLLE+ + EE D E Sbjct: 3 MEFDLKLQQTQKLIMTPELKQAIEILQLNSLELNALIEQELETNPLLEKEEVIEE-DIYE 61 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 + D L A +E E + +D +++ T +L Sbjct: 62 SNDFTEL----AKYIRETEERM----YYDDSDDEEIEEVNYENFVS---------TKPSL 104 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 D+L++Q+ +TP S + I I+ ++ +GYL ++DI E + E +EV L Sbjct: 105 TDHLLFQLHITPVSPKIQKICEYIIFSLSPSGYLREDIKDIAEIL---ECTEEEVLEGLS 161 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 +Q FDP G+AA++L++CL +QL D ++E ++ HL+ +A + L ++ Sbjct: 162 IVQSFDPPGIAARNLQECLKLQLLAQDSYKGIVKE---LVDYHLEEIAEGKYSYLAKLYN 218 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQ-TGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQI 299 + +++AV+ I+ L+P+PG S T + Y++PDV V K G + V +N P+L+I Sbjct: 219 ISLKEVQQAVDFIKKLNPKPGSSFSSTADVRYIVPDVEVIKREGEYFVIVNDSVTPKLKI 278 Query: 300 NQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE 359 N +Y S+ N + ++ ++I S LQ A WLIKSLESR +TL +V + IVE Q+ F ++G Sbjct: 279 NNYYHSILN-SHDEEAKKYINSKLQSAMWLIKSLESRKETLYKVVKAIVELQRDFLDKGI 337 Query: 360 EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTA 419 Y+KPM IA V +HEST+SR KY+ +PRG+FELK+FF S ++ + G E S+ Sbjct: 338 NYLKPMTQKQIADIVGIHESTVSRAINGKYVATPRGLFELKFFFQSGISNKNGNEFSAET 397 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 I+ L+KKLI E+P PLSD K+ +L E+ I ++RRTVAKYRE +IP + +R++ Sbjct: 398 IKNLIKKLIEEEDPTNPLSDQKIADILKEKNINISRRTVAKYREECNIPSTIKRRR 453 >UniRef50_C4XU56 RNA polymerase sigma factor n=13 Tax=Desulfovibrionales RepID=C4XU56_DESMR Length = 476 Score = 301 bits (771), Expect = 3e-80, Method: Compositional matrix adjust. Identities = 190/479 (39%), Positives = 286/479 (59%), Gaps = 23/479 (4%) Query: 6 QLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLE-QIDTHEEIDTRETQDS 64 QL+LSQQL MTPQLQQAI+LLQLS LEL + +QQ L NPLLE ++ + + +D+ Sbjct: 8 QLKLSQQLVMTPQLQQAIKLLQLSRLELLESVQQELLENPLLEESVEEDRQPERVMVEDN 67 Query: 65 ETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQG--------ET 116 ADA M +EL +A WD G + TS + +L V + + Sbjct: 68 NGPTGADA----AMEKELLKNAEWDDYL--GDFASTSKQSLSRDLEVPEEGMAFDARLAS 121 Query: 117 TQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVE 176 +L +L WQ+ L+ F+ + I +IV +++ +GYL +E+I G D VE Sbjct: 122 KPSLDGHLGWQMHLSNFTAKEVEIGETIVGSLNSSGYLRATVEEI---AGMANADPAHVE 178 Query: 177 AVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLM 236 VL R+QRFDPVGVAA+ +CLLIQ+ + P L E ++ +HL+ L ++ L Sbjct: 179 KVLHRLQRFDPVGVAARTPSECLLIQIEVYGYDDPILIE---LVREHLEDLEKKRYKPLA 235 Query: 237 RVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPR 296 + L + LKE + LIQ+LDP PG S +G+P YV PD V K+ + + LN + +PR Sbjct: 236 KKFHLTMEKLKEYLELIQTLDPMPGASYGSGDPIYVSPDAFVYKYGEDFVILLNEEGMPR 295 Query: 297 LQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFE 356 L +N Y + RND D +++ ++ A WL+KSL R TL +V IV+ Q+ FFE Sbjct: 296 LGLNMSYTD-GSLPRNDKDKDYLQDKMRSAMWLMKSLYQRQRTLYKVLESIVKFQRGFFE 354 Query: 357 QGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEAS 416 G ++P++L D+A + MHEST+SR+T+ KY+ +P GIFELK+FF+S + + GG Sbjct: 355 DGVTKLRPLILKDVADDISMHESTVSRITSNKYVATPHGIFELKFFFNSALELDDGGTVG 414 Query: 417 STAIRALVKKLIAAENPAKPLSDSKLTSLLSEQ-GIMVARRTVAKYRESLSIPPSNQRK 474 S +++A++K++I+ EN KP+SD + +L ++ I +ARRTVAKYR ++ I S++RK Sbjct: 415 SESVKAMIKRIISGENDKKPISDEAIADMLKDELQINIARRTVAKYRTAMGIESSSKRK 473 >UniRef50_D2UDB4 Probable rna polymerase sigma-54 factor protein n=1 Tax=Xanthomonas albilineans RepID=D2UDB4_XANAL Length = 466 Score = 300 bits (767), Expect = 1e-79, Method: Compositional matrix adjust. Identities = 195/479 (40%), Positives = 274/479 (57%), Gaps = 27/479 (5%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 MK + +L QQL +TPQL Q+IRLLQL L+L+ E+++ALE+NPLLE + E E Sbjct: 1 MKPTVSAQLGQQLHLTPQLLQSIRLLQLDGLQLEMEIRRALENNPLLELEEP-EAATEAE 59 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDEL-PVYQGETTQT 119 T L TA +ELP + WD P+ D DD L + GE+T Sbjct: 60 TAVEAVLQTAAF-------DELPEPSMWDV------PATGWNDGEDDRLQHIAAGESTDP 106 Query: 120 -LQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDID--EVE 176 L+ +EL P + A ++ D+ GYL L D L + +D+ +VE Sbjct: 107 HLRVLQRLALELPP---REIEAAAFWLEHCDDAGYLDDAL-DTLTLLACTRLDLSAAQVE 162 Query: 177 AVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLM 236 +R+ DP G+AA DLR+CL +QL P A I+ L LLA+HD+ L Sbjct: 163 TARQRLLHGDPAGLAACDLRECLHVQLHDLPGPVPGRHLAARILDGDLHLLASHDYALLA 222 Query: 237 RVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPR 296 R + + ++EAV LI SL PRPG S+Q + +VIPDV+ + +G W V LN + R Sbjct: 223 RKLDAEAEDVREAVRLILSLQPRPGDSLQPQDLGHVIPDVVAWQADGSWRVALNPATTHR 282 Query: 297 LQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFE 356 + IN + A +Q +R LQ+A+WL + L R +TLLR +R IVE Q AF Sbjct: 283 VNINPMHERALAEAGEA--AQPLREMLQEARWLTRGLSMRYETLLRTTRSIVEHQAAFLN 340 Query: 357 QGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEAS 416 +GEE M P+ L ++A A+ MHEST+SR+TT KYL +PRG FELK+FF+ + G S Sbjct: 341 KGEEAMAPLTLKEVADAIGMHESTVSRITTGKYLQTPRGTFELKHFFAVRLE---GAAVS 397 Query: 417 STAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 A+RA+V++LI AE ++PL+D + +LLS QG+ VARRTVAKYRE L I P+ +R++ Sbjct: 398 GQAVRAMVRRLIEAEPSSRPLADEAIAALLSRQGVNVARRTVAKYREQLDIAPARERRR 456 >UniRef50_P22881 RNA polymerase sigma-54 factor n=38 Tax=Rhizobiales RepID=RP54_RHISN Length = 519 Score = 299 bits (766), Expect = 1e-79, Method: Compositional matrix adjust. Identities = 186/521 (35%), Positives = 288/521 (55%), Gaps = 61/521 (11%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLE------------ 48 + L LR SQ L MTPQL Q+I+LLQ++ LEL Q + Q +E NPLLE Sbjct: 3 LSASLHLRQSQSLVMTPQLMQSIQLLQMTHLELGQFIAQEVEKNPLLEFQSADEAGFGSD 62 Query: 49 ------------------QIDTHEEIDTRETQDSETLDT---AD---------ALEQKEM 78 +D + D+ T E L T AD A ++ + Sbjct: 63 RPERDETGLTAEAGGAEESVDHGDLYDSATTSPGERLSTELDADFANVFQDDTAPQRADA 122 Query: 79 PEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDR 138 PE L W ++ AG + G +DD + +TL++ L+ QV + DR Sbjct: 123 PELL---GQWKSMPGAGGSNDGEGYDLDDFVA-----GRKTLRETLIEQVAFAFAAPADR 174 Query: 139 AIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDC 198 IA ++D +DE GYL + + +G D+ V VL Q+FDP GV A+ L +C Sbjct: 175 LIAQHLIDQLDEAGYLHAEIAETAARLGASAADVTRVLLVL---QQFDPPGVFARTLSEC 231 Query: 199 LLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDP 258 L IQL ++ P +E + +L+LLA DF +L ++ + E+ L E + I+ LDP Sbjct: 232 LAIQLRLRNRLDPAMEA----LVANLELLARRDFASLKKICGVDEEDLIEMLAEIRKLDP 287 Query: 259 RPGQSIQTGEPEYVIPDVLVRKH-NGHWTVELNSDSIPRLQINQHYASMC--NNARNDGD 315 +PG S +T E +IPDV+VR +G W VELN D++PR+ +N Y + ++ +N + Sbjct: 288 KPGTSFETSVTEAIIPDVVVRSAPDGGWLVELNPDALPRVLVNHDYFAEISRHSQKNSAE 347 Query: 316 SQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVE 375 F+ +Q+A WL +SL+ R T+L+V+ IV QQ AF G ++++P+ L +A A++ Sbjct: 348 QAFLSECMQNANWLTRSLDQRARTILKVASEIVRQQDAFLVHGVDHLRPLNLRIVADAIK 407 Query: 376 MHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEA-SSTAIRALVKKLIAAENPA 434 MHEST+SRVT+ KY+ +PRG+FELKYFF+ + + G+A S+ ++R ++ +I+ E+ Sbjct: 408 MHESTVSRVTSNKYILTPRGLFELKYFFTVSIGSAENGDAHSAESVRHRIRTMISQESAD 467 Query: 435 KPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 LSD + +L G+ +ARRTVAKYRE+++IP S QR++ Sbjct: 468 AVLSDDDIVDILKRAGVDIARRTVAKYREAMNIPSSVQRRR 508 >UniRef50_A6G445 Sigma-54 (RpoN) n=1 Tax=Plesiocystis pacifica SIR-1 RepID=A6G445_9DELT Length = 518 Score = 299 bits (765), Expect = 2e-79, Method: Compositional matrix adjust. Identities = 192/515 (37%), Positives = 299/515 (58%), Gaps = 49/515 (9%) Query: 6 QLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLL----EQIDTHEE-IDTRE 60 +LR+SQQL MTPQLQQAI+LLQLS +ELQ ++ L NPLL E T+EE + E Sbjct: 8 ELRMSQQLVMTPQLQQAIKLLQLSRVELQDLVRNELLENPLLEESREMGTTNEEPVSAVE 67 Query: 61 TQDSETL--DTADALEQKEMPEELPLDA------SWDTI---YTAGTPSGTSGDYIDDEL 109 QD L D +A +E+ DA W++ +T P SG DD+L Sbjct: 68 MQDGVDLQGDIGEARAADAPQQEVKADAPNTDNFDWESYLQHHTLSGPMPGSGVRGDDDL 127 Query: 110 PVYQGETT--QTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGD 167 P + +TL ++LMWQ+ L+ +S + IA IV ++ +G+L + + I + + Sbjct: 128 PGLEQTMADEETLVEHLMWQIRLSNWSPLEEDIAEYIVRSITASGHLGLSVPQIAQRL-- 185 Query: 168 EEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARL-IISDHLDL 226 E+ VE +L+++Q+ DP+ +A+++L + L IQ + P + L II+ HL Sbjct: 186 -EVSTLRVEQMLRKVQQLDPLALASRNLAEVLWIQARHPEH--PIGDPLVLTIIAKHLPN 242 Query: 227 LANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWT 286 L ++ + R T + + EA +I L+PRP + + +YV PDV V K + Sbjct: 243 LEKRAYQAVARDTGEPLEEVYEATKVIMGLEPRPARQFVSESAQYVTPDVYVHKIGEEYV 302 Query: 287 VELNSDSIPRLQINQHYASMC-----------------------NNARND--GDSQFIRS 321 V LN D +P+L+I+ +Y S A+ D G +I Sbjct: 303 VTLNDDGLPKLKISNYYRSAMLADSSKQGGKGKGAKQAKQGKGAKPAKGDQAGAKDYITE 362 Query: 322 NLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTI 381 L+ A+WLI+S++ R T+L+V++ I+ Q+ FFE+G ++++P++L D+A+ +EMHEST+ Sbjct: 363 RLRSAQWLIRSIQQRQRTILKVTKSILGFQREFFEKGPQHLRPLILKDVAEDIEMHESTV 422 Query: 382 SRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSK 441 SRVTT KY+H+P+GI+ELKYFF++ ++ GGGE +S A++ +KKLI E+ KP SD K Sbjct: 423 SRVTTNKYVHTPQGIYELKYFFNAGISRRGGGELASEAVKEKIKKLIEGEDSRKPYSDQK 482 Query: 442 LTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 L LL E+GI +ARRTVAKYRE L++ S++R++L Sbjct: 483 LVELLREEGIDIARRTVAKYREQLNLLSSSKRRKL 517 >UniRef50_A9GI22 RNA polymerase sigma-54 factor n=4 Tax=Myxococcales RepID=A9GI22_SORC5 Length = 506 Score = 293 bits (751), Expect = 8e-78, Method: Compositional matrix adjust. Identities = 186/528 (35%), Positives = 293/528 (55%), Gaps = 77/528 (14%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLL------------- 47 M+ LQ +LSQQL MTPQL QAIRLLQLS LEL E+++ L+ NP+L Sbjct: 3 MEMKLQFKLSQQLVMTPQLVQAIRLLQLSRLELVDEIRKELDGNPVLADDMTDPKARDGD 62 Query: 48 --------------------EQIDTHEEIDTRETQDS-ETLDTADALEQKEMPEELPLDA 86 E+ D +I RET+ + +D LE +++ + +P Sbjct: 63 KGDQRGRNADLPTEQRLENGERFDRDTDIAARETEKRVKEVDWEQFLENRQLQQAMP--- 119 Query: 87 SWDTIYTAGTPSGTSGDYIDDELPVYQGETTQ--TLQDYLMWQVELTPFSDTDRAIATSI 144 G + +ELP T+ L+D+L+WQ++++ F + +R A + Sbjct: 120 ------------AHRGGF--EELPPIDQNLTKPSNLRDHLLWQLQMSDFVENERQFALLV 165 Query: 145 VDAVDETGYLTV-----------PLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAK 193 + +DE GYL + P +++ + E+ ++ E VL IQRFDPVGVAA+ Sbjct: 166 IGNLDEKGYLDLKGGERPDGTKGPDLSLVDLAREAELHPEDAEEVLSMIQRFDPVGVAAR 225 Query: 194 DLRDCLLIQ--LSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVN 251 DL +CL +Q + FD +E A II DHL + +F + + ++ + + +AV Sbjct: 226 DLSECLRVQAEVLGFDD----IEMA--IIKDHLHNVERRNFPAIAKALKIPLEDVYDAVQ 279 Query: 252 LIQSLDPRPGQSIQTGEPE--YVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNN 309 IQ L+ P ++ + + + PDV V K + V N + RL IN++ A Sbjct: 280 EIQKLESVPARNFAEVDEKTIAITPDVYVIKDGTQFVVTDNDKGLQRLYINENLAQRM-- 337 Query: 310 ARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLAD 369 R+ +FI L+ A+WLI+++E R T+++V+ CIVE+Q+ F E+G Y+KPM+L D Sbjct: 338 LRDPKAKEFISEKLRSAQWLIRAIEQRRRTIIKVTECIVEKQREFLERGVGYLKPMILRD 397 Query: 370 IAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIA 429 +A++V MHESTISRVT+ KY+H+P+G+FELKYFF+S ++ + +S +++ +KK+I Sbjct: 398 VAESVGMHESTISRVTSNKYVHTPQGLFELKYFFNSSIHRVADEDIASESVKQAIKKIIV 457 Query: 430 AENPAKPLSDSKLTSLLSE-QGIMVARRTVAKYRESLSIPPSNQRKQL 476 AE+ + P SD + +L E GI +ARRTVAKYRE L I S++RK++ Sbjct: 458 AEDKSNPYSDQAIVKILEETDGIKIARRTVAKYREMLGILSSSKRKKM 505 >UniRef50_A5CYP0 DNA-directed RNA polymerase specialized sigma subunit, sigma54 homolog n=9 Tax=Clostridia RepID=A5CYP0_PELTS Length = 471 Score = 293 bits (749), Expect = 1e-77, Method: Compositional matrix adjust. Identities = 165/483 (34%), Positives = 277/483 (57%), Gaps = 23/483 (4%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M GL + +Q+L MTP+L+QAI +LQLS+LEL ++Q L+ NP+LE D Sbjct: 3 MGYGLNMEQTQKLIMTPELRQAITVLQLSSLELSMYIEQQLQENPMLELTDDDY------ 56 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIY--TAGTPSGTSGD-YIDDELPVYQGETT 117 ++ E T + PE D W+ ++ P + + D + Y+ Sbjct: 57 GREEEFEPTVEPEPDGGGPE---YDLDWEEYLQESSDDPGIFRQERWQDQQEYSYENFLY 113 Query: 118 Q--TLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEV 175 Q TL ++L Q+ L+P D+ I ++ +DE GYL VPL+++ + + V Sbjct: 114 QMPTLTEHLTTQLNLSPCRGKDKLIGEYLIGNIDENGYLRVPLKEVAACLN---VSTSRV 170 Query: 176 EAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTL 235 VLK IQ FDP GV A+ L +CLLIQ+ Q L + +I +HL LA + Sbjct: 171 FKVLKVIQGFDPPGVGARSLEECLLIQVGQLGIKNEILNK---LIKEHLSDLAKGKLNRI 227 Query: 236 MRVTRLKEDVLKEAVNLIQSLDPRPGQSIQT-GEPEYVIPDVLVRKHNGHWTVELNSDSI 294 + + +++A +++++LDP+PG++ + Y++PD+++ K G + + +N +I Sbjct: 228 AQSLGVTVQEVQKAADVLRTLDPKPGRNFSNLNDTRYIVPDIVLEKVEGEYVILINDVAI 287 Query: 295 PRLQINQHYASMCNNARN--DGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQ 352 PRL IN Y S+ ++ N G +F+ S L A WLI+S+E R TL +V++C+V+ Q+ Sbjct: 288 PRLTINSTYRSVLSSNTNCDSGTRRFVESKLNAAAWLIRSIEQRRLTLYKVAKCLVDLQR 347 Query: 353 AFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGG 412 F + G +Y+KP+ L +A+ V +HEST+SR T+ KY+ +P+G+FE+KYFF + +N G Sbjct: 348 DFLDYGVKYLKPLNLKKVAEMVGLHESTVSRATSNKYIQTPQGVFEMKYFFCTGLNNTAG 407 Query: 413 GEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQ 472 S+ I+ ++++++A E+ PL+D K++ L ++GI ++RRTVAKYR+ L I + Sbjct: 408 NMVSAECIKKMLQEIVAGEDARSPLNDQKISELFRQRGIKISRRTVAKYRDELGIAAIRK 467 Query: 473 RKQ 475 RK+ Sbjct: 468 RKR 470 >UniRef50_A3EWH7 RNA polymerase, sigma 54 subunit, RpoN n=2 Tax=Leptospirillum sp. Group II RepID=A3EWH7_9BACT Length = 486 Score = 292 bits (748), Expect = 2e-77, Method: Compositional matrix adjust. Identities = 178/495 (35%), Positives = 281/495 (56%), Gaps = 34/495 (6%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 ++Q L+++L Q++ MTPQLQQAI LL L+ L+L++E+ Q ++NPLLE EE D + Sbjct: 2 IRQRLEIKLGQKMVMTPQLQQAIHLLMLAKLDLREEILQETQTNPLLE---LEEEGDWED 58 Query: 61 TQDSETLD--TADALEQKEMPEEL----PLDASWDTIYTAGTPSGTSGDYIDDELPVYQG 114 + ++D AD+ ++ +PEE PL SWD Y+ SG Y ++ Sbjct: 59 SVPESSIDHLPADSENRETVPEEETNPDPL-MSWD--YSLHEDMDDSGLYQEERSIREDP 115 Query: 115 ET----------TQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILES 164 E+ TL+D+L+WQ+ S ++ +A ++ ++E GYL V E+I ES Sbjct: 116 ESDFSYEKVLAAPTTLEDHLIWQISFREMSPVEKELAHFLIGNINEDGYLAVSEEEIPES 175 Query: 165 IGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQ--LSQFDKTTPWLEEARLIISD 222 + D + VL IQ DP GV A++LR+CL+IQ + +KT W ++ Sbjct: 176 L---RTDPEMFPRVLSWIQECDPPGVGARNLRECLMIQARMLHLEKTVVWS-----VLES 227 Query: 223 HLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDV-LVRKH 281 LD ++ + R + + ++EA +I+ L+P+PG+ + PDV Sbjct: 228 QLDEFMEMKYKGIARALSVSVEDIQEAGKIIRKLEPKPGRPYFRDMAMPISPDVRFYDAG 287 Query: 282 NGHWTVELNSDSIPRLQINQHYASMCNNA-RNDGDSQFIRSNLQDAKWLIKSLESRNDTL 340 +G V LN + +PRL+I Y S+ + D ++I L+ A W +KS+E R T+ Sbjct: 288 HGEIRVGLNEEGVPRLRIQSAYKSLLKTMEKKDKTREYIEEKLRSAMWFMKSIEQRKKTI 347 Query: 341 LRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELK 400 LRV+ I+ Q+ FF +G +KP+VL IAQ + +HESTISRVT QKY +P GI ELK Sbjct: 348 LRVAEAILRHQEDFFRRGPLGLKPLVLKTIAQDLGLHESTISRVTNQKYAETPFGIVELK 407 Query: 401 YFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAK 460 +FFS + ++ G E SS ++R ++ ++ E+ + PL+D ++ + L ++GI++ARRTVAK Sbjct: 408 FFFSGGLPSQSGSEHSSVSVREKIRDMVHGESKSAPLTDQEIMNRLGKEGIVIARRTVAK 467 Query: 461 YRESLSIPPSNQRKQ 475 YR L IPP N+RKQ Sbjct: 468 YRMELDIPPVNKRKQ 482 >UniRef50_Q7WTR8 RpoN (Fragment) n=2 Tax=Pseudomonas RepID=Q7WTR8_PSEYM Length = 328 Score = 291 bits (744), Expect = 5e-77, Method: Compositional matrix adjust. Identities = 155/326 (47%), Positives = 215/326 (65%), Gaps = 24/326 (7%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQ----------- 49 MK L LR+ QQL MTPQLQQAIRLLQLSTL+LQQE+Q+ALESNP+LE+ Sbjct: 1 MKPSLVLRMGQQLTMTPQLQQAIRLLQLSTLDLQQEIQEALESNPMLERQEEGDDFDNSD 60 Query: 50 -----IDTHEEIDTRETQDSETLDTADALEQKE----MPEELPLDASWDTIYTAGTPSGT 100 I+ D +E E+ T D LE E +P ELP+D +W+ +Y S Sbjct: 61 PLADNIEQKPNPDVQEPTYQESAPTVDNLEDGEWSERIPNELPVDTAWEDVYQTSASSLP 120 Query: 101 SGDYIDDELP-VYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLE 159 S D DDE + ++LQ +L+WQ+ + P SD DR +A +++D ++ GYL LE Sbjct: 121 SND--DDEWDFTTRTSAGESLQSHLLWQLNVAPMSDKDRLVAVTLIDCINNQGYLDETLE 178 Query: 160 DILESIGDE-EIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARL 218 +ILES E +I++DE+EAVL RIQ+F+P G+ A++L +CLL+QL Q TPWL EA+ Sbjct: 179 EILESFDPELDIELDEIEAVLHRIQQFEPAGIGARNLSECLLLQLRQLPAKTPWLTEAQR 238 Query: 219 IISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLV 278 +++D++DLL + D+ LMR +LKED L++ + L+QSL+PRPG I++ E EYVIPDV+V Sbjct: 239 LVTDYIDLLGSRDYGQLMRRMKLKEDELRQVIELVQSLNPRPGSQIESTEAEYVIPDVIV 298 Query: 279 RKHNGHWTVELNSDSIPRLQINQHYA 304 RK N W VELN +S+PRL++N YA Sbjct: 299 RKDNERWLVELNQESVPRLRVNPQYA 324 >UniRef50_B9XGP4 RNA polymerase, sigma 54 subunit, RpoN n=2 Tax=Verrucomicrobia RepID=B9XGP4_9BACT Length = 498 Score = 288 bits (737), Expect = 3e-76, Method: Compositional matrix adjust. Identities = 177/503 (35%), Positives = 284/503 (56%), Gaps = 36/503 (7%) Query: 1 MKQGLQL--RLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQI-----DTH 53 M QGLQL RL+Q L ++PQ+QQ++ LLQ TLEL+ ++ L+ NP+LE++ D Sbjct: 1 MAQGLQLAQRLTQSLVLSPQMQQSLALLQAPTLELKALVETELQQNPVLEEVAAPETDQS 60 Query: 54 EEIDTRETQDSETLD--------TADALEQKEMP--EEL--------PLDASW-DTIYTA 94 E T + + E +D T D +K P EE LD W D + Sbjct: 61 ERAKTDDGEQVEAVDPTEPPADVTFDPATEKADPQTEEFLAEFEKLSQLDQEWRDHYAST 120 Query: 95 GTPSGTSGDYIDDELPVYQGETTQT-LQDYLMWQVELTPFSDTDRAIATSIVDAVDETGY 153 P+ S D + ++ T LQ+ L+ QV + + R I ++ +D+ GY Sbjct: 121 NAPTRQSADEEEKRQFMFDSLVAGTSLQEVLLEQVRESGLPEDLRPIGEMLIGNIDDYGY 180 Query: 154 LTVPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQF-DKTTPW 212 L ++++ S + I+EV LK IQ FDP GV A+DLR+CLL+QL + D+ + Sbjct: 181 LKANIDELSFSTNIPAVKIEEV---LKVIQTFDPPGVGARDLRECLLLQLERAGDQESIE 237 Query: 213 LEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYV 272 + II D++D L + R L+ D ++EA+ I L+PRPG++ +Y+ Sbjct: 238 YK----IIRDYMDALGKRRIPEIARGLGLEVDEVQEAIASIGRLEPRPGRAFLADNHQYI 293 Query: 273 IPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARNDGDS-QFIRSNLQDAKWLIK 331 +P+V V K + V N++ IP L+I+ Y + + N + +IR ++ K+LIK Sbjct: 294 LPEVFVNKVGDDFVVTTNNEQIPHLRISNTYKDLMAQSGNSSEVINYIREKIRAGKFLIK 353 Query: 332 SLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLH 391 SL R T+L ++ IV++Q+ F E+G +KPM + +A+AV +HE+T+SR + KY+ Sbjct: 354 SLHQRQQTILNIAIEIVKRQREFMEKGVSLLKPMTMVQVAEAVGVHETTVSRAVSSKYMQ 413 Query: 392 SPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGI 451 +P+GIFE+KYFF++ + T G S+T+++ ++ ++ E+ KPLSD ++ +L E+GI Sbjct: 414 TPQGIFEMKYFFTAGIQTASGEGLSNTSVKDMIAEMFKKEDTTKPLSDQEIVKMLQEKGI 473 Query: 452 MVARRTVAKYRESLSIPPSNQRK 474 ++ARRTVAKYR L+I PSN RK Sbjct: 474 VIARRTVAKYRSELNILPSNLRK 496 >UniRef50_B6FY84 Putative uncharacterized protein n=1 Tax=Clostridium hiranonis DSM 13275 RepID=B6FY84_9CLOT Length = 451 Score = 288 bits (737), Expect = 3e-76, Method: Compositional matrix adjust. Identities = 158/478 (33%), Positives = 281/478 (58%), Gaps = 31/478 (6%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 K L+L SQ+L +T QL+Q++ +L +S LE+++E+++ ESNPLLE E ID Sbjct: 3 FKNTLELNQSQKLILTTQLKQSLAILNMSRLEVEEEIRKESESNPLLEAEKNEEGIDW-- 60 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 + + +++ ++ + P +S + +D E + +T L Sbjct: 61 ---EKYIKHMESINIRQDKNDAPY---------------SSENAVDFENMI---RSTSNL 99 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 DYL+ +++ + ++ I I+D++DE GYL + ++I +++ +D L Sbjct: 100 YDYLIDELKYFKLTFEEKRICKYIIDSLDEDGYLRINDKEIYDAL---RVDASLFRRCLD 156 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 +Q+ DP G+ A+++ +CL++QL + + +E II + L+L+ + + + + + Sbjct: 157 IVQQLDPPGIGARNISECLILQLERMGISNNIVEN---IIMNDLELIGRNKLKDIAKKYK 213 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQIN 300 + + KEA+ +I+ LDP+PG++ + YV PDV+V K +G + V N + ++IN Sbjct: 214 ISIEKCKEAIEIIRHLDPKPGRACSNDKCVYVQPDVIVDKIDGKYIVHTNEKDVYNIKIN 273 Query: 301 QHYASMCNNARNDGDS-QFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE 359 Y +M + +D ++ +FI+ L A LIK++ESR T+LR++ I+++QQ F ++GE Sbjct: 274 DFYRNMMTDKDSDKEAKEFIKDRLNSAATLIKNIESRKSTILRIAEAIIDEQQEFIQKGE 333 Query: 360 EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGE-ASST 418 +Y+KPM + DIA +E+HEST+SR KY+ +P G++E K+FF++ + T+ + ASS Sbjct: 334 KYIKPMKMKDIADKLEIHESTVSRGVNGKYMLTPFGLYEFKFFFNAALETDNSSDGASSA 393 Query: 419 AIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 I+ +K +I EN KPLSD ++ +L E+G+ VARRTVAKYRE L IP S++RK+ Sbjct: 394 GIKRDIKDIIDGENKKKPLSDDAISKMLKEKGVSVARRTVAKYREELGIPSSSRRKEF 451 >UniRef50_A4GID2 DNA-directed RNA polymerase specialized sigma subunit sigma54 n=1 Tax=uncultured marine bacterium HF10_19P19 RepID=A4GID2_9BACT Length = 504 Score = 287 bits (734), Expect = 6e-76, Method: Compositional matrix adjust. Identities = 183/503 (36%), Positives = 286/503 (56%), Gaps = 39/503 (7%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 + Q ++LR Q L MTPQLQQAI+LLQ++ LEL Q LQ+ + NP LE ++ E + E Sbjct: 3 LSQSIKLRQKQSLVMTPQLQQAIKLLQMTNLELSQHLQEQMYDNPFLE-VNGATETELSE 61 Query: 61 TQ-------DSETLDT----------ADALEQKEMPEELP-----LDASWDTIYTAGTPS 98 T DSE L+ AL + + P ++ +DT PS Sbjct: 62 TAKHTSGPADSEVLNKNLTATEGQNDVSALRESAALADDPTQNQEIENRFDTALV-DMPS 120 Query: 99 --GTSGDYIDDEL-PVYQGETTQTLQDYLMWQVELTPFSD-TDRAIATSIVDAVDETGYL 154 G + D + P+ + L Q+ LT FSD DR IAT ++A++ +G++ Sbjct: 121 NPGVRNKFADGDFDPIDSLTSEDGFYPMLFKQMNLT-FSDPADRIIATHFINALEPSGWI 179 Query: 155 TVPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLE 214 +E I E G +++ E VL +Q F+P G+ A+DL +CL IQL + ++ + Sbjct: 180 GNSVEAIAEESG---CSVEQAETVLAALQGFEPAGLFARDLAECLKIQLIENNQFSHLFG 236 Query: 215 EARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIP 274 + + D+L+ L + + L R + + + E +++I++L+P+PG+ + E P Sbjct: 237 Q----LLDNLEQLGRGEIKQLARKFKCAPEDIVEMLSIIRTLNPKPGEHLGIEFREMPSP 292 Query: 275 DVLVRKHNGHWTVELNSDSIPRLQINQHYAS-MCNNARNDGDSQ-FIRSNLQDAKWLIKS 332 DV+V + W+VELN ++P + +N+HYA M R D Q + L +A+WL ++ Sbjct: 293 DVIVTRKKQGWSVELNRSTLPSVLVNEHYAELMAKQKRTDQAVQDYSAETLTNARWLKRA 352 Query: 333 LESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHS 392 +E RN T L++S I+ Q F E+G +Y+KP+ L D+A AV MHEST+SRVTT + + Sbjct: 353 VEQRNQTTLKISAEIIRHQTDFLEKGLDYLKPLSLRDVALAVGMHESTVSRVTTGLLIST 412 Query: 393 PRGIFELKYFFSSHVNT-EGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGI 451 PRG LK FFS ++ + + AS+ ++R +VKK+I+ E P KPLSD ++ ++SEQGI Sbjct: 413 PRGGMPLKSFFSVNIASRDSDMNASAASVRNMVKKIISQEVPGKPLSDEAISKVISEQGI 472 Query: 452 MVARRTVAKYRESLSIPPSNQRK 474 +ARRTVAKYRE L+IP S+QR+ Sbjct: 473 DLARRTVAKYREMLNIPSSSQRR 495 >UniRef50_C8N804 RNA polymerase sigma-54 factor n=1 Tax=Cardiobacterium hominis ATCC 15826 RepID=C8N804_9GAMM Length = 474 Score = 284 bits (726), Expect = 7e-75, Method: Compositional matrix adjust. Identities = 169/483 (34%), Positives = 269/483 (55%), Gaps = 24/483 (4%) Query: 3 QGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQI-DTHEEIDTRET 61 Q L L L Q L +TPQLQQAI+LL +++L+LQ E+ L N +LE+ D+ +E + Sbjct: 5 QSLDLSLKQGLTLTPQLQQAIKLLNMNSLDLQVEISAMLMQNIMLERKNDSLQERGSGSD 64 Query: 62 QDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQ 121 ++ + D + + EL D++WD Y D+ D + P ++ E+ L Sbjct: 65 ENENSEHDPDNGLIQTLSGELEYDSTWDEHY--------DHDWKDHQ-PYHEEESNLELY 115 Query: 122 -----DYLMW---QVELTP-FSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDI 172 D W Q+ P S+ R A + +D+ GY + E ++ Sbjct: 116 LSGRPDLGAWLEEQINQMPHLSEARRRAALIVAFELDDDGYYRADNHKLAEQY---QLSA 172 Query: 173 DEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDF 232 ++ L+ +Q+ P G+AA+DL +CL +Q++ TPW EE + I+ + ++ + Sbjct: 173 ADIADGLRIVQQCQPTGIAARDLEECLNLQIAALPADTPWREELQKIMQRYFGFISKNPA 232 Query: 233 RTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSD 292 R+ + E A+ L++SLDPRPGQS P+Y+ P+++VR+ NG +E + Sbjct: 233 MIRQRLG-MNEATYNHAIALLRSLDPRPGQSYTEQAPQYIEPEIIVREKNGISYIETGEN 291 Query: 293 SIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQ 352 P L INQ YA + A+ D +++ LQ+A+W + +++ R DT+ RV+ IV QQ Sbjct: 292 IRPELTINQDYAKIAEIAKG-ADKTLLQAQLQEARWFLTAIDKRADTIRRVAHIIVALQQ 350 Query: 353 AFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGG 412 FF++GE M+P+ +A+ +E+HEST+SR KYL RGI+EL+YFFS+ + G Sbjct: 351 DFFQEGEAAMRPLSRQKVAEMLEIHESTVSRAVNGKYLMCKRGIYELRYFFSAQLENSEG 410 Query: 413 GEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQ 472 + S AI+AL+ ++I E P KPLSD K+T LL+EQG +ARRTV KYRES+ IP + Sbjct: 411 DDQSIIAIKALIAEIINGEKPEKPLSDQKITDLLNEQGHKIARRTVTKYRESMDIPTTTL 470 Query: 473 RKQ 475 R++ Sbjct: 471 RRK 473 >UniRef50_C9R8T3 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Ammonifex degensii KC4 RepID=C9R8T3_AMMDK Length = 453 Score = 282 bits (721), Expect = 2e-74, Method: Compositional matrix adjust. Identities = 179/474 (37%), Positives = 279/474 (58%), Gaps = 27/474 (5%) Query: 2 KQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRET 61 K ++L +Q+LA P+LQQA+ +LQ ST EL Q +QQ L NPLLE + E + E Sbjct: 4 KADIRLETAQKLAFRPELQQAVAVLQFSTQELWQYVQQQLTENPLLELKEEGEGGEPPEE 63 Query: 62 QDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQ 121 + SE D L DAS D + P+ + + +PV G + L Sbjct: 64 EASED-SWVDYL----------CDAS-DLGLSQQEPASSP-----EPVPVAPGPS---LY 103 Query: 122 DYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKR 181 ++L+ Q+ P + T+RA+A + +D+ GYL +PL + +G I + V LK Sbjct: 104 EHLLQQLAFLPLNSTERAVAEFLAGNLDQDGYLRLPLAEAASLLG---ISEEAVARGLKV 160 Query: 182 IQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRL 241 +Q +P GV A+DLR+CLL+QL +++ P AR ++ +HL+ LA ++ L+R + Sbjct: 161 LQSLEPPGVGARDLRECLLLQL---ERSHPEDHLARKLVGEHLEELAEGEWAKLVRKLGV 217 Query: 242 KEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQ 301 ++ L AV I+ L+PRPG + + EYV+PD++V++ G + V LN PRL IN Sbjct: 218 SQEELDRAVERIRQLNPRPGSNFGSNWVEYVVPDIVVQEVEGDYEVLLNESVYPRLVINS 277 Query: 302 HYASMCNNARNDGDSQ-FIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 Y + + + +++ F++ L+ A WLIK+LE R TL RV+ +VE+Q++FF+QG Sbjct: 278 TYRDLLRHPQLGPEAKTFLQQRLKQALWLIKNLEQRRLTLYRVAVALVEKQRSFFDQGLS 337 Query: 361 YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAI 420 +KP+ L +IA+ + +HEST+SR KYL RGIF L++FF+S V++ G E ++ A+ Sbjct: 338 GLKPLTLREIAEEIGVHESTVSRAIANKYLQCSRGIFPLRFFFASGVSSSRGQEVAAQAV 397 Query: 421 RALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRK 474 + L+K+LI E+PA PLSD + L QGI ++RRTVAKYR + IP + +RK Sbjct: 398 KWLIKQLIDKEDPAAPLSDQAIARELKRQGIELSRRTVAKYRMEMGIPNAAKRK 451 >UniRef50_P33984 RNA polymerase sigma-54 factor n=12 Tax=Alphaproteobacteria RepID=RP54_AZOC5 Length = 514 Score = 280 bits (716), Expect = 7e-74, Method: Compositional matrix adjust. Identities = 193/506 (38%), Positives = 282/506 (55%), Gaps = 38/506 (7%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHE--EIDT 58 M ++ R SQ L MTPQL QAI+LLQLS LEL ++ LE NPLLE+ E E D Sbjct: 3 MSPKMEFRQSQSLVMTPQLMQAIKLLQLSNLELVAYVEAELERNPLLERASEPESPEHDP 62 Query: 59 RETQ-------DSETLDTADALEQKEMPE----ELPLDASWDTIYTAGTPS--------- 98 Q DS + D +E E LD ++ P+ Sbjct: 63 PNPQEEAPTPPDSGAPVSGDWMESDMGSSREAIETRLDTDLGNVFPDDAPAERIGAGSGS 122 Query: 99 ------GTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETG 152 G+ GD +D P TL D+L Q+ + R I +++ +DETG Sbjct: 123 GSSIEWGSGGDRGEDYNPEAFLAAETTLADHLEAQLSVAEPDPARRLIGLNLIGLIDETG 182 Query: 153 YLTVPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPW 212 Y + L+ + E +G D+V VL+ IQ F+P GV A+ L +CL +QL D+ P Sbjct: 183 YFSGDLDAVAEQLGATH---DQVADVLRVIQSFEPSGVGARSLSECLALQLRDKDRCDPA 239 Query: 213 LEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYV 272 ++ + D+L+LLA HD L R+ + + L + + I+ LDP+PG + G + Sbjct: 240 MQ----ALLDNLELLARHDRNALKRICGVDAEDLADMIGEIRRLDPKPGLAYGGGVVHPL 295 Query: 273 IPDVLVRK-HNGHWTVELNSDSIPRLQINQHY-ASMCNNARNDGDSQFIRSNLQDAKWLI 330 +PDV VR+ +G W VELNS+++PR+ +NQ Y A++ AR+ + F+ LQ A WL Sbjct: 296 VPDVFVREGSDGSWIVELNSETLPRVLVNQTYHATVAKAARSAEEKTFLADCLQSASWLT 355 Query: 331 KSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYL 390 +SL+ R T+L+V+ IV QQ AF G +++P+ L +A A+ MHEST+SRVT+ KY+ Sbjct: 356 RSLDQRARTILKVASEIVRQQDAFLVHGVRHLRPLNLRTVADAIGMHESTVSRVTSNKYI 415 Query: 391 HSPRGIFELKYFFSSHVNTEGGGEA-SSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQ 449 +PRG+ E+K+FFSS + + GGGEA ++ A+R +K LI AE+ LSD L L + Sbjct: 416 STPRGVLEMKFFFSSSIASSGGGEAHAAEAVRHRIKSLIEAESADDVLSDDTLVQKLKDD 475 Query: 450 GIMVARRTVAKYRESLSIPPSNQRKQ 475 GI +ARRTVAKYRES++IP S QR++ Sbjct: 476 GIDIARRTVAKYRESMNIPSSVQRRR 501 >UniRef50_Q3SF03 RNA polymease sigma-54 factor protein n=1 Tax=Thiobacillus denitrificans ATCC 25259 RepID=Q3SF03_THIDA Length = 476 Score = 277 bits (709), Expect = 5e-73, Method: Compositional matrix adjust. Identities = 180/484 (37%), Positives = 271/484 (55%), Gaps = 24/484 (4%) Query: 2 KQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQ-----IDTHEEI 56 + L L Q +TP+LQQA+RLLQLST + ELQ+ + SNP LE D Sbjct: 3 RPALALEPRQTQTLTPRLQQAVRLLQLSTFDFALELQELVSSNPFLELEDGEFADEDAAA 62 Query: 57 DTRETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDEL-PVYQGE 115 T ++T AD + ++ E + D G S + D ID PV Sbjct: 63 PDTATTAADTPPAADGAQAEDYAETAYEERLGDGGEAPGRYSEANADAIDFACAPV---- 118 Query: 116 TTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDE-EIDIDE 174 TL+ ++ Q+ + + +A I +A+D+ GYL V L+ + G E +D E Sbjct: 119 ---TLRQHVHSQLNMLDLPPREHFLAWIIAEALDDDGYLRVELDALRAMAGLEPRVDARE 175 Query: 175 VEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDF-R 233 + A L R+Q DP G+AA+D+ +CL +QL + +P E A I+ D L LL D R Sbjct: 176 MLAALTRVQSLDPAGLAARDVPECLTLQLRR-RPPSPQRELALRIVRDELKLLQQRDLQR 234 Query: 234 TLMRVTRLKEDVLKEAV-NLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSD 292 RV +V EAV I+ L+PRPG + PDV+VRK G WT LNS Sbjct: 235 IAQRVGSTPAEV--EAVCAYIRRLEPRPGACFGHHVAAAIRPDVIVRKIRGQWTALLNSS 292 Query: 293 SIPRLQINQHYASMCNNAR--NDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQ 350 ++PR+ +N+ YA + R + GD + +L++A+W ++++E R T+LRV++ +V++ Sbjct: 293 AVPRVSLNRTYAELFQRHREPHHGD---LAGHLREARWAVQNMEQRFSTILRVAQALVDR 349 Query: 351 QQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTE 410 QQ FFE G M+P+ L DIA + +HEST+SR T K++ +P G+FELKYFFS +NTE Sbjct: 350 QQHFFEHGTLAMQPLGLKDIADELGLHESTVSRATCNKFMVTPLGVFELKYFFSRALNTE 409 Query: 411 GGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPS 470 G + S+TAIR ++K+I +E+ P SD+ + +L +QG+ VARRTV KYR+ ++IP Sbjct: 410 QGSQCSTTAIREAIRKMILSEDARSPHSDADIARILMQQGLRVARRTVTKYRQMMAIPNV 469 Query: 471 NQRK 474 + R+ Sbjct: 470 DMRR 473 >UniRef50_D0MG37 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Rhodothermus marinus DSM 4252 RepID=D0MG37_RHOM4 Length = 522 Score = 277 bits (708), Expect = 8e-73, Method: Compositional matrix adjust. Identities = 146/375 (38%), Positives = 228/375 (60%), Gaps = 16/375 (4%) Query: 119 TLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESI---GDEEIDIDEV 175 ++ ++L Q+ L ++T+R IA I+ ++DE GYL PLE I++ + + ++V Sbjct: 135 SMIEHLREQLVLLDLNETERLIAEQIIGSIDEDGYLRRPLESIVDDLMFTHGVSVTEEDV 194 Query: 176 EAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTL 235 E VLK+IQR DPVG+AA+DLR+CL++QL + TP E A ++ + A F L Sbjct: 195 ERVLKQIQRLDPVGIAARDLRECLIVQLEAMPEDTPGREVALRMLREAFKDFAMKHFEAL 254 Query: 236 MRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTG-EPEYVIPDVLVRKHNGHWTVELNSDSI 294 R + E LKEA +LIQ L+P+PG+ + Y++PD V +G + + LNS + Sbjct: 255 QRKLGVSEAELKEAYDLIQHLNPKPGEGGDVAPQQNYIVPDFTVTYQDGEFIITLNSRNA 314 Query: 295 PRLQINQHYASMC--------NNARNDG-DSQ---FIRSNLQDAKWLIKSLESRNDTLLR 342 P+L+I++ Y M R +G D Q F+++ L+ A+W I S+ R T+L+ Sbjct: 315 PQLRISRRYRQMLEQMAAEKKKGKRTNGLDEQTRAFLKNKLESARWFINSINQRRQTMLK 374 Query: 343 VSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYF 402 V + IVE Q+ FF+ GE ++KPM+L D+A + M ST+SRV KY+ + G++ LKYF Sbjct: 375 VMKAIVELQEDFFKYGEGHLKPMILKDVADRIGMDISTVSRVVNGKYVQTDFGVYPLKYF 434 Query: 403 FSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYR 462 FS + TE G E S+ ++AL++++I E+ PLSD K+ LL++QG +ARRTV KYR Sbjct: 435 FSEGLATESGEEVSNREVKALIQRMIEQEDKRNPLSDQKIAELLAKQGFKIARRTVTKYR 494 Query: 463 ESLSIPPSNQRKQLV 477 E L IP + R+++V Sbjct: 495 EQLGIPVARLRREIV 509 >UniRef50_C9XR96 RNA polymerase sigma-54 factor n=5 Tax=Clostridium RepID=C9XR96_CLODC Length = 448 Score = 276 bits (707), Expect = 1e-72, Method: Compositional matrix adjust. Identities = 165/477 (34%), Positives = 282/477 (59%), Gaps = 34/477 (7%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 L+L SQ+L MT QL+Q++ +L +S LEL++E+++ E+NPL+E ++ EI+ E Sbjct: 3 FNNSLELTQSQKLIMTTQLKQSLSILNMSKLELEEEIKREAENNPLVE-VEKSGEINWEE 61 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQ-GETTQT 119 + +D + L++ E+ + P D+E+ + + + Sbjct: 62 Y--IKDMDRSRRLDRTEI---------------SYNP--------DNEVNLENLVKYSSN 96 Query: 120 LQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVL 179 L + L +Q+ L +D + + I+D++DE GYL + I++++ +ID + E L Sbjct: 97 LYEDLKFQISLYKLTDKELEVCEYIIDSLDEDGYLRTEEKVIVDTL---KIDEELFEKCL 153 Query: 180 KRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVT 239 +Q+ +P GV A+ L +CL+IQ++ LEE I++ L+L+AN+ ++ + + Sbjct: 154 ISVQQLEPSGVGARSLSECLMIQMASLGIYNEILEE---IVTKDLNLIANNKYKEISKKY 210 Query: 240 RLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQI 299 + E +N+I++LDP+PG++ + Y+ PDV V K + + V LN +++I Sbjct: 211 NMSLQKCVELINIIKTLDPKPGRTCSVEKSVYIQPDVTVEKIDDEFIVYLNEKDSYQIRI 270 Query: 300 NQHYASMCNNARNDGDS-QFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQG 358 N +Y + N+++D + +FI+ L A L+K++ESR T+L+++ IV+ Q F +G Sbjct: 271 NSYYKDILKNSQSDESAKEFIKERLNSATGLMKNIESRKTTVLKIAEEIVKAQDEFLRKG 330 Query: 359 EEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASST 418 +Y+KP+ + DIA+ +E HESTISR KY+ +P G++E +YFFSS + TE ASST Sbjct: 331 TKYIKPLKMKDIAEKLEFHESTISRGVNGKYMLTPFGVYEFRYFFSSAIETENNEMASST 390 Query: 419 AIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 +I+ ++K+ I EN KPLSD ++ LL E+GI VARRTVAKYRE L IP S++RK+ Sbjct: 391 SIKKIIKETIKDENKKKPLSDDHISKLLKEKGINVARRTVAKYREELGIPSSSKRKE 447 >UniRef50_A5EVL1 RNA polymerase sigma-54 factor n=1 Tax=Dichelobacter nodosus VCS1703A RepID=A5EVL1_DICNV Length = 469 Score = 276 bits (706), Expect = 1e-72, Method: Compositional matrix adjust. Identities = 168/477 (35%), Positives = 263/477 (55%), Gaps = 19/477 (3%) Query: 3 QGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTH---EEIDTR 59 Q L + L QQL++TPQLQQAI++L ++ +LQ E+ Q L N +LE +D H + +D+ Sbjct: 6 QNLNINLKQQLSLTPQLQQAIKILNMNQQDLQVEIAQMLTQNFMLE-LDDHLQMQRVDSE 64 Query: 60 ETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQG-ETTQ 118 E E L E+ EL D W+ +Y + Y + E+ E Sbjct: 65 EEPPKEGL-------LDELNAELEYDCDWEEVYDSDW--HDHAPYREQEIDFDAIIEARP 115 Query: 119 TLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAV 178 L YL Q++ P S A + + +DE GYL D+ + I + EA Sbjct: 116 ALLPYLREQLQQMPLSPEVLGAAEAFISHLDEDGYLREKCADLAQQY---RIKMPVAEAA 172 Query: 179 LKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRV 238 ++ I+ P GV A DL DCL +Q++ + TP+L + I++ H L + + + Sbjct: 173 IQAIKNCQPSGVGAFDLEDCLNLQIALLPENTPYLSVLKRIMTRHF-LFIGKNPQLICNR 231 Query: 239 TRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQ 298 L E ++AV L+++L+PRP Q +Y+ P+V+VR+ G +E + P L+ Sbjct: 232 LDLNESDYEQAVLLLKTLNPRPAQEFAHEHGQYIRPEVIVREKGGISFIETDEHIQPLLR 291 Query: 299 INQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQG 358 IN YA + +A D D +++ L +A+W I +++ R DT+ RV+ IV QQ FF++G Sbjct: 292 INAEYAKLTQSAV-DQDKVLLQAQLNEARWFINAIDKRADTIQRVASVIVALQQDFFQEG 350 Query: 359 EEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASST 418 E+ M+P+ +A+ + +HEST+SR KYL RGIFEL+YFFSS + T G E SST Sbjct: 351 EKAMQPLTRQKVAELLNVHESTVSRAVNGKYLMCKRGIFELRYFFSSQLETTDGEEQSST 410 Query: 419 AIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 A++A++ +++ E+P KPLSD K+ +L ++G +ARRT AKYRE L I S R++ Sbjct: 411 AVKAVISEIVRQEDPKKPLSDQKIADILLKKGYKIARRTAAKYREELGIATSTMRRE 467 >UniRef50_Q0G1W5 DNA-directed RNA polymerase subunit N n=1 Tax=Fulvimarina pelagi HTCC2506 RepID=Q0G1W5_9RHIZ Length = 470 Score = 276 bits (705), Expect = 2e-72, Method: Compositional matrix adjust. Identities = 173/475 (36%), Positives = 264/475 (55%), Gaps = 24/475 (5%) Query: 5 LQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDS 64 LQ R SQ L MTPQL Q+IRLLQ EL+ L+ +E NPLL ++ Sbjct: 7 LQFRQSQSLVMTPQLLQSIRLLQYGHGELKTFLEAEIERNPLLSMAPAKPL-----SKSI 61 Query: 65 ETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYL 124 + +D E MP S Y + SG D +D +T +L + Sbjct: 62 QAVDGPQPGEGSAMP-------SRSERYGGTSGSGQRFDGLDTGF-ANVADTNISLLGHA 113 Query: 125 MWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQ- 183 + + S+ R IA + D +DE GY + + G D D VL ++Q Sbjct: 114 LAEARDIAGSNDTRTIAEAFADELDENGYCRCDPAEFAIANG---FDPDRTTEVLLKLQA 170 Query: 184 RFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKE 243 P G+ A++L+DC+ IQL + ++ P + A++I D+L+LLAN DF L R+T + Sbjct: 171 EAAPAGLFARNLKDCMAIQLKRRNRYDPII--AKVI--DNLELLANRDFAALRRLTGEDD 226 Query: 244 DVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHN-GHWTVELNSDSIPRLQINQH 302 L + + I+SLDP+PG + E + PDVL+ G W VELN ++PR+ ++ Sbjct: 227 HGLLDILAEIKSLDPKPGHAFDGRGGEGIEPDVLISADGEGGWVVELNPATLPRVLTDRT 286 Query: 303 YASMC-NNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEY 361 Y +A + + F+ LQ A WL ++LESR T+++V+ IV++Q F +G Sbjct: 287 YLKRVRKHAATEEERSFLSECLQSASWLERALESRAQTIMKVAEEIVKRQGGFLVEGISG 346 Query: 362 MKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEA-SSTAI 420 MKPM LA +A A+ MHEST+SRVT K++ +PRG+FE+++FF+ + GG+A S+ ++ Sbjct: 347 MKPMTLAAVADAIGMHESTVSRVTNMKFVATPRGVFEMRFFFTRAIAAANGGDAHSAESV 406 Query: 421 RALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 + +K+LI AE P K LSD ++ ++L ++GI +ARRTVAKYRE+ SIP S QR++ Sbjct: 407 KLRIKRLIDAEVPGKVLSDDEIAAILKKEGIDLARRTVAKYREAQSIPSSIQRRR 461 >UniRef50_UPI0001C42E0E RNA polymerase sigma factor (sigma54) n=1 Tax=Bacillus pseudofirmus OF4 RepID=UPI0001C42E0E Length = 446 Score = 271 bits (692), Expect = 5e-71, Method: Compositional matrix adjust. Identities = 170/482 (35%), Positives = 269/482 (55%), Gaps = 45/482 (9%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQEL-QQALESNPLLEQIDTHEEIDTR 59 M+ GL + + L MT QL+QAI LLQ ST +L + +QALE NPL++ Sbjct: 1 MQFGLFQQQTTTLIMTQQLRQAINLLQYSTTDLSAFIHEQALE-NPLID----------- 48 Query: 60 ETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTP---SGTSGDYIDDELPV-YQGE 115 + ++ + A ++ Y G P SG++ D+ P+ Y Sbjct: 49 ------------------LQDQASMQAGSESSYI-GAPAPRSGSTRKSEDEASPIDYALV 89 Query: 116 TTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEV 175 ++L ++L+ Q S+ + ++ E GY P E++ D I +E Sbjct: 90 DHKSLSEHLVSQAGEIALSEELERQLHYFIFSLREDGYFCRPFEEV---CSDLAISTEEG 146 Query: 176 EAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTL 235 E VL+ +Q F+P GV A+ L +CLL+QL P A +I+S H++ LA+ ++TL Sbjct: 147 EDVLRILQSFEPAGVGARSLSECLLLQLKHLSNKAPL---AEIIVSRHMEDLASKKWKTL 203 Query: 236 MRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEP-EYVIPDVLVRKHNGHWTVELNSDSI 294 + +++ +LIQ+LDPRPG +GEP Y+IPD+ + NG V+L DS+ Sbjct: 204 ATELDVTMSDIQDVYDLIQTLDPRPGTQY-SGEPTNYLIPDLSITWKNGELVVQLIDDSL 262 Query: 295 PRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAF 354 P +++N+ Y + + + + +++ + Q +WL+KS+E R T+ +V+ IV Q+ F Sbjct: 263 PPIRLNRDYEQLLHRSNHAEATEYAKQKYQQIQWLLKSIEQRQQTIKKVAEAIVRHQRDF 322 Query: 355 FEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGE 414 FE +KP+ L DIA+ ++MHEST+SR TT KY +PRG++ELK FF+S V G Sbjct: 323 FESKSGVLKPLTLKDIAEEIDMHESTVSRATTHKYAQTPRGLYELKAFFTSSVKNGFGES 382 Query: 415 ASSTAIRALVKKLIAAENPAKPLSDSKLTSLL-SEQGIMVARRTVAKYRESLSIPPSNQR 473 SS +I+ L+K+LIA E+ KPLSD K+ + L SE+GI V+RR +AKYR+ L IP S++R Sbjct: 383 TSSQSIKELIKELIAGESKQKPLSDQKIVTWLESEKGITVSRRAIAKYRDELGIPSSSKR 442 Query: 474 KQ 475 K+ Sbjct: 443 KR 444 >UniRef50_A5G033 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Acidiphilium cryptum JF-5 RepID=A5G033_ACICJ Length = 490 Score = 270 bits (690), Expect = 8e-71, Method: Compositional matrix adjust. Identities = 175/483 (36%), Positives = 270/483 (55%), Gaps = 19/483 (3%) Query: 5 LQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEID---TRET 61 L LR +Q L MTPQL+QAI+LLQ + E+ Q ++ L NPLLE+++ + R Sbjct: 7 LDLRHTQSLVMTPQLRQAIQLLQFTNAEVSQFIEDELLKNPLLERVEPEADAALPVPRND 66 Query: 62 QDSETLDTAD-ALEQKEMPE----ELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGET 116 S T D E P+ PLD + +Y AG +G + E + G+ Sbjct: 67 AASTEKPTGDIGAEHVVDPDPSGASTPLDVDFSNVYDAGGVGDGTGSGLSPERDDWIGQI 126 Query: 117 TQ---TLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDID 173 L++ L Q L R IA +++ A+D G L P E I E + + D Sbjct: 127 ADRPPGLRESLDQQARLAFADPVRRRIAFALIMALDPAGRLADPPEQIAERLA---VAPD 183 Query: 174 EVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFR 233 +EAV + + RFDP G+ A+DL +CL +QL + ++ P + +L+LLA D R Sbjct: 184 MLEAVRQTMMRFDPTGMFARDLAECLAVQLDERNRLDPAMRAL----LANLELLARRDLR 239 Query: 234 TLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKH-NGHWTVELNSD 292 +LM + + + L++ + I+ L+P+PG +IPDVL+R +G + +ELN + Sbjct: 240 SLMEICGVDAEDLRDMIAEIRRLNPKPGAIFDVTPMTPLIPDVLMRPGPDGDYFLELNPE 299 Query: 293 SIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQ 352 ++PR+ I + + + + QF+ +Q A WL+++LESR +T+LRV+ IV Q Sbjct: 300 TMPRVLIRRGFHAQIVARASRETRQFLSERVQSANWLVRALESRAETILRVAGEIVRHQD 359 Query: 353 AFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGG 412 AFF G +++P+ L +IA A+E+HEST+SRVT+ K + +PRGIFE+K+FF++ + G Sbjct: 360 AFFRHGIGFLRPLTLREIAAALEIHESTVSRVTSNKVIATPRGIFEMKFFFTTALAGANG 419 Query: 413 GEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQ 472 S+ A+R + LI E + LSD L LL ++GI +ARRTVAKYRE+L IP S Q Sbjct: 420 ESHSAEAVRHRISTLIEGEAANRILSDDALARLLQKEGIDIARRTVAKYREALRIPGSAQ 479 Query: 473 RKQ 475 RK+ Sbjct: 480 RKR 482 >UniRef50_C0Z6M1 RNA polymerase sigma-54 factor n=1 Tax=Brevibacillus brevis NBRC 100599 RepID=C0Z6M1_BREBN Length = 455 Score = 270 bits (690), Expect = 8e-71, Method: Compositional matrix adjust. Identities = 179/481 (37%), Positives = 272/481 (56%), Gaps = 31/481 (6%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M GL + +L MTP+L+QAI +LQ S ++L LQ NP+ + ++ E+ Sbjct: 1 MGLGLFQEQTLKLVMTPELRQAITILQYSAIDLISYLQDQANENPVFD-LEVAGEV---- 55 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDEL--PV-YQGETT 117 A A +K PE W I +G G ++ P+ Y + Sbjct: 56 ---------ASAKAEKPAPE-----IDWKEI-VGNRATGEYGSSKNESTYNPLDYVQQGA 100 Query: 118 QTLQDYLMWQVE-LTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVE 176 +TL ++L Q+ + FS + IA ++ +DE GYL + LE+ E +G E ++I++V Sbjct: 101 ETLYEHLERQLGYVKGFSSLQKQIALFLIGNLDEKGYLEITLEEASERLGAEMLEIEDVL 160 Query: 177 AVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLM 236 +VL Q FDPVGVA++ L +CLL+QL E+ ++ +HL LA++ ++ + Sbjct: 161 SVL---QHFDPVGVASRSLEECLLLQLEHLALDD---EKIVQVVRNHLQDLADNRYQRIA 214 Query: 237 RVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPR 296 ++ +LI++L+PRPG + + E YVIPDV V K + V +N + PR Sbjct: 215 DKIGCTPQEVQTIADLIRTLNPRPGAAFSSVETRYVIPDVTVEKVGNDYVVLVNDVAAPR 274 Query: 297 LQINQHYASMCNNARN-DGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFF 355 L+IN Y M + ++ D QFI L A WL KSLE R TL+RV++ I++ Q+ FF Sbjct: 275 LKINSFYEKMLSQQKSQDEAKQFIHDKLNAAMWLAKSLEQRRLTLMRVTQAILDMQREFF 334 Query: 356 EQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEA 415 ++G Y+KPM +IA+ V +HESTISR T+ KY+ +PRGIFELKYFF+S ++T G Sbjct: 335 DRGIHYLKPMTQKEIAERVGLHESTISRATSNKYVQTPRGIFELKYFFTSALSTSSGEAT 394 Query: 416 SSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 SS +++ +K LI E+ PLSD KL +L +GI ++RRTVAKYRE + IP S +RK+ Sbjct: 395 SSESVKRRIKALIEQEDRKAPLSDQKLGEMLLTEGIEISRRTVAKYREEMLIPSSAKRKR 454 Query: 476 L 476 Sbjct: 455 F 455 >UniRef50_C1A8U9 RNA polymerase sigma factor n=1 Tax=Gemmatimonas aurantiaca T-27 RepID=C1A8U9_GEMAT Length = 497 Score = 269 bits (687), Expect = 2e-70, Method: Compositional matrix adjust. Identities = 172/508 (33%), Positives = 280/508 (55%), Gaps = 43/508 (8%) Query: 1 MKQGLQ--LRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDT 58 M+ GLQ L Q+L + P+L QA+ LL + L+LQQ L+Q L +NP LE ++ +E + Sbjct: 1 MRTGLQQTTGLRQELKVNPRLYQAMDLLYMPLLDLQQHLKQELLTNPFLELVEPEDEEED 60 Query: 59 R-------ETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSG---TSGDYIDDE 108 E QD + E ++ ++ + W+ + G +G + + Sbjct: 61 SSDADDVPEPQDMAEPEAPAEPEPEKSGDD---EVDWEAVLLDGFETGGQREEHEQQEWH 117 Query: 109 LPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGD- 167 PV + L D+L Q+ L S +A V +++ GYL LE+I + Sbjct: 118 EPVTV--AGRDLADHLTEQLSLLALSPRQAFMAEEFVGNINDDGYLACTLEEIRDGANQV 175 Query: 168 -----EEIDID---------EVEAVLKRIQRFDPVGVAAKDLRDCLLIQL---SQFDKTT 210 EE DID E+EA+L IQ DP GV A++LR+CLL+QL Q D Sbjct: 176 LRREAEERDIDGEVPEFSEEEIEALLLIIQELDPPGVGARNLRECLLLQLRADGQADSLA 235 Query: 211 PWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPE 270 RL+ +L+A R + ++ A + I LDP+PG G Sbjct: 236 -----GRLVAEAFEELIARRWGEVAKRFG-ISPQAVQAAADEIAKLDPKPGLRFSAGSDN 289 Query: 271 YVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMC-NNARNDGDSQ-FIRSNLQDAKW 328 Y+IPD++V K +G++ + LN ++PRL+I++ Y + + R D +S+ FI + L A W Sbjct: 290 YIIPDLVVEKIDGYYHIFLNDGNLPRLKISRIYTDIARDKKRFDTESKDFIATKLNSANW 349 Query: 329 LIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQK 388 +I+++E R T+L+V IV++Q+ FFE+G + ++P+ L ++A+AV MHEST+SRVT +K Sbjct: 350 MIQAIEQRRQTMLKVMHYIVDRQREFFERGVQGLRPLTLREVAEAVGMHESTVSRVTNEK 409 Query: 389 YLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSE 448 ++ +PRG+ LK+FFSS ++T G + S+ I+ ++KL++ E+P PL+D + +L E Sbjct: 410 FVQTPRGVLPLKFFFSSGLSTSDGDDVSARGIKDQIEKLVSGEDPRNPLTDQAIVEILQE 469 Query: 449 QGIMVARRTVAKYRESLSIPPSNQRKQL 476 G+ +ARRTVAKYR+ L + P+ RK++ Sbjct: 470 TGVQIARRTVAKYRDQLGVLPARMRKRV 497 >UniRef50_Q0EWW0 DNA-directed RNA polymerase subunit N n=1 Tax=Mariprofundus ferrooxydans PV-1 RepID=Q0EWW0_9PROT Length = 464 Score = 268 bits (686), Expect = 2e-70, Method: Compositional matrix adjust. Identities = 163/478 (34%), Positives = 280/478 (58%), Gaps = 23/478 (4%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M+ L +L Q+LA+TPQL Q++++L ++++EL L++++ESNP+L+ ID + T Sbjct: 1 MQTKLAHKLGQRLALTPQLTQSLKVLAMNSMELDAYLEESIESNPMLD-IDFNATPTTDA 59 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 + L+ ++ + +E D W+T+Y S + DY + E P++Q E Q+L Sbjct: 60 AGEERALEISEQDQWREQG-----DNRWETMYA----SASRDDYNERE-PLWQQE--QSL 107 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDE-EIDIDEVEAVL 179 + L QV+ P S+ + IA ++D++D+ GY + + + + DE D + V+ VL Sbjct: 108 SESLHEQVDRQPMSEAEHRIAHMLIDSLDDDGYFRLGTDAFVREVADEITTDAEAVDNVL 167 Query: 180 KR-IQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRV 238 IQ+ DP G+ A+DL +CLL+QL + W++ L SD L LL + + L Sbjct: 168 HNVIQQLDPSGLGARDLTECLLLQLDGSQEIDIWVKRLLLHYSDKL-LLPDDE---LAAA 223 Query: 239 TRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKH-NGHWTVELNSDSIPRL 297 + ++ A + ++ LDP PG ++ E Y+ P+++ R++ N V++ + Sbjct: 224 ADCDVETVQLARSRMRRLDPFPGHGLRGEENYYIRPEIVFRRNSNNDIEVDIPGTGWRGI 283 Query: 298 QINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQ 357 ++N+ + + D +F+ +++AKWL+ +L+ R++TL++V+ C+ E+Q+AF E Sbjct: 284 RLNEQWKEHEWKGK---DKEFMSQAMKEAKWLLHALDQRSETLMKVALCLAERQRAFLEY 340 Query: 358 GEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASS 417 G +KP+ L D+A+ V +HESTISRVT KY +P G+ EL+ FFS+ + T GGG S Sbjct: 341 GILGLKPLTLQDVAEDVGLHESTISRVTNSKYAETPIGLIELRRFFSAGLPTRGGGTISV 400 Query: 418 TAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 ++ VK LI +E +P+SD + L +GI +ARRTVAKYRE L +PPS+QR++ Sbjct: 401 YRVQQRVKALIDSEPAGRPISDQAIADRLQAEGIEIARRTVAKYREQLGLPPSSQRRR 458 >UniRef50_Q4JMT6 Predicted DNA-directed RNA polymerase specialized sigma subunit, sigma54 homolog n=1 Tax=uncultured bacterium BAC17H8 RepID=Q4JMT6_9BACT Length = 499 Score = 268 bits (684), Expect = 5e-70, Method: Compositional matrix adjust. Identities = 170/499 (34%), Positives = 263/499 (52%), Gaps = 54/499 (10%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQ-QALESNPLLEQIDTHEEIDTR 59 M LQ++ Q L MTPQLQQAI+LLQ++ L++ LQ QALE NP LE Sbjct: 3 MMPSLQVKQKQALVMTPQLQQAIKLLQMTNLDICNYLQDQALE-NPFLE----------- 50 Query: 60 ETQDSETLDTADAL---EQKEMPEELPLDASWDTIYTAGTP------------------- 97 ++ + +TA L Q E P ++P + D G Sbjct: 51 -VENGPSHETASDLGNGRQDEAPSDMPETRTLDKDMAGGAALADDPTANADLENRFGSQG 109 Query: 98 -------SGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDE 150 G D D L + ++L + ++ Q++LT F R IA ++ +A++ Sbjct: 110 LDFGHSQRGRPSDLDWDALANLAEQGPESLVECVLRQIDLTIFDPHQRVIAYALSEALEP 169 Query: 151 TGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTT 210 TG+L L DI E+ G +E D++EV A+ +QR +P GV A++L +CL IQ + Sbjct: 170 TGWLGRELSDIAEACGADERDVEEVLAL---VQRLEPEGVFARNLAECLRIQA----REK 222 Query: 211 PWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPE 270 L+ ++ D+L +LAN D L R + + + LI+ +P+PG++ ++ Sbjct: 223 GVLDAVMTVVLDNLQMLANGDIAQLARRADASTEDVSRCLKLIREFNPKPGEAYESAPLR 282 Query: 271 YVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARN----DGDSQFIRSNLQDA 326 PDV+V + W V+LN ++P L IN+ YA+ A + +QF L A Sbjct: 283 VHAPDVIVTRGPDGWVVDLNRSTLPALVINEAYAAEIGKAARGKAAEAGAQFASEALGSA 342 Query: 327 KWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTT 386 +WL ++LE RN T L+++ IV QQ AF G +KP+ L D+A+AV MHEST+SRVT+ Sbjct: 343 RWLRRALEQRNSTTLKIAGEIVRQQAAFLTDGLSALKPLALKDVAEAVGMHESTVSRVTS 402 Query: 387 QKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLL 446 + +P+G F LK FS + T+ G ++ A+R +++ ++ +E KPLSD + L+ Sbjct: 403 GLLMATPKGCFPLKSLFSVSLATDEGDARAAAAVRNMIEAIVKSEPAGKPLSDDAIAKLV 462 Query: 447 SEQGIMVARRTVAKYRESL 465 S QG+ +ARRTVAKYRE L Sbjct: 463 SGQGVKLARRTVAKYREML 481 >UniRef50_A9BWZ4 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Delftia acidovorans SPH-1 RepID=A9BWZ4_DELAS Length = 520 Score = 267 bits (683), Expect = 5e-70, Method: Compositional matrix adjust. Identities = 138/358 (38%), Positives = 222/358 (62%), Gaps = 3/358 (0%) Query: 119 TLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIG-DEEIDIDEVEA 177 TL +L Q+ + + D +A +IV+++D+ GYL L+++ + D E+ Sbjct: 163 TLAMHLHGQLNVMAMTPRDLCMARAIVESLDDDGYLRTDLQELAGLLALSPAPDAQEMLI 222 Query: 178 VLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMR 237 L+ +Q DP GVAA+ + +CLL+Q Q + A+ ++ DH+D LA D L R Sbjct: 223 ALRLVQSLDPAGVAARSVGECLLLQCPQIGDAR-LRQLAQAMVQDHMDALAARDVPRLAR 281 Query: 238 VTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRL 297 ++ + +A++ I+ L+PRPG + + +Y++PDV+VR+ W V LN +PR+ Sbjct: 282 ALQVPPAQITQALDCIRRLNPRPGWNFGSSHVDYIVPDVIVRRGQNGWNVHLNPAVVPRV 341 Query: 298 QINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQ 357 ++N+ Y + R G +Q +LQDA+W ++++E R T+L V++ IV +QQ F E Sbjct: 342 RLNRVYEQLFQRHRRSGQNQLA-DHLQDARWTVRNVEQRFSTILDVAQAIVRKQQLFLEF 400 Query: 358 GEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASS 417 G MKP+VL +IA+ V +HEST+SRVT KY+ +P G+FELK+FFS + + G S+ Sbjct: 401 GAMAMKPLVLREIAEEVGVHESTVSRVTNNKYMATPTGVFELKHFFSRPMLSASGNACSA 460 Query: 418 TAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 TAIR L+ +IAAE+ A+PLSD ++ LS QG++VARRTV KYR+ L I P+++R++ Sbjct: 461 TAIRELIGDIIAAESDARPLSDVEIARQLSAQGLVVARRTVTKYRQLLRIEPADRRRR 518 >UniRef50_A8W0U1 SUF system FeS assembly protein, NifU family n=1 Tax=Bacillus selenitireducens MLS10 RepID=A8W0U1_9BACI Length = 444 Score = 266 bits (680), Expect = 1e-69, Method: Compositional matrix adjust. Identities = 163/475 (34%), Positives = 260/475 (54%), Gaps = 33/475 (6%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M G+ + S +L MT +L+QAI +LQ S +L L + NPL+E D + R Sbjct: 1 MDYGMYQQQSMKLVMTTELRQAITILQFSAQDLTDYLHEQQLENPLIEISDPPMTEEARR 60 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 TA+ +MPE PSG SGD L + E + L Sbjct: 61 R-------TAEV----DMPE------------PGRMPSGKSGDSDVTALDFLR-EPEEGL 96 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 +D+L+ Q+ ++ + R I + ++DE GYL ++ +G+E D V L Sbjct: 97 RDHLLHQIRMSEAPEAIRHIMNYLALSLDENGYLEHEIDVYAGELGEEPGD---VAKALG 153 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 +Q+ DP GV A++L +CLLIQL+ + P A I+ DHLD LAN F+ + + Sbjct: 154 ELQQLDPPGVGARNLTECLLIQLNGHEARDPL---AEAIVRDHLDQLANKQFQKIAKALD 210 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQIN 300 + + ++ + +++L+P+PG + EY+ PDV V K V+L +PR+ +N Sbjct: 211 VGVEDVEVVSDFLKTLNPKPGAVFHSTPAEYITPDVHVIKTGNELVVKLADGHLPRMTMN 270 Query: 301 QHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 + Y + + ++ S +++ + W+ +S++ R +T+L V++ IV Q+ FF +G + Sbjct: 271 REYEQLLQSGGSEVAS-YMKQKQEQFHWIKRSIQQRQETILNVTKAIVRHQEDFFLRGAD 329 Query: 361 YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAI 420 Y+KP+ L IA+ +E+HEST+SR T +KY +P+G+FELKYFF S G G+ S+ + Sbjct: 330 YLKPLNLKTIAEEIEVHESTVSRATVKKYAQTPKGLFELKYFFRSGFT--GEGDDSADKV 387 Query: 421 RALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 + +K+LI E KP SD K+ LL +GI V+RRTVAKYRE LSIP S++RK+ Sbjct: 388 KLYLKRLIDEEEKKKPYSDQKIADLLEVKGIQVSRRTVAKYREELSIPSSSKRKR 442 >UniRef50_C1SGY5 RNA polymerase, sigma 54 subunit, RpoN/SigL n=1 Tax=Denitrovibrio acetiphilus DSM 12809 RepID=C1SGY5_9BACT Length = 476 Score = 265 bits (677), Expect = 3e-69, Method: Compositional matrix adjust. Identities = 157/474 (33%), Positives = 267/474 (56%), Gaps = 19/474 (4%) Query: 8 RLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSETL 67 +LSQ+L +TPQ++Q++ +LQ+ EL QEL L NP+LE+I+ + + E ++ + Sbjct: 13 KLSQKLHITPQMKQSLAILQMPLTELLQELNTCLAENPVLEEIEQEPDEEKTEKKEEKEE 72 Query: 68 DTADALEQKEMPEELPLDASWDTIY-----TAGTPSGTSGDYIDDELPVYQGETTQTLQD 122 A Q E E++ W+ +Y + TPS G D E V + L Sbjct: 73 KDAKDDVQNEDLEKI----DWEELYRDSGEVSYTPSDDEG--YDLEKFV---SGQENLYG 123 Query: 123 YLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRI 182 +LM+Q+++T S I+ ++ + GY + ++ E G +D D V L+ I Sbjct: 124 HLMYQLKVTGSSQDILTAGQYIIGSLTDEGYFDLEFSEVAEETG---VDEDTVAKALELI 180 Query: 183 QRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLK 242 Q FDP G+ A++LR+C+ IQL QF+ +++ ++ +H L + + + ++ Sbjct: 181 QTFDPAGIGARNLRECIAIQLCQFEVEQVYIDFIAELLENHEKDLIAYRYDEIKNSLSIE 240 Query: 243 EDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQH 302 +D + LI+ DP+PG + V PDV + K + + + LN D +P L++N + Sbjct: 241 DDTFDHMLFLIRKTDPKPGMNYAKDSNHSVTPDVYIVKKDDGYDIILNEDGMPALRMNSY 300 Query: 303 YASMCNNARNDGDS-QFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEY 361 Y S+ N DGD+ ++I +++A WLIKSL R + +V + + E Q F E G ++ Sbjct: 301 YLSLLRNKELDGDTKEYIEEKIKNAIWLIKSLNKRQKAIYKVVKVLTEVQADFLEMGVDF 360 Query: 362 MKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIR 421 +KP+ L DIA +HEST+SRVT+ KY + +G+FELK FF ++T+ G+ S+ ++ Sbjct: 361 LKPLKLKDIADETGLHESTVSRVTSGKYAMTEQGLFELKSFFVKGLDTD-DGDMSTQKVK 419 Query: 422 ALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 ++++ ++ +E+ KP SD K+ LL+ GI +ARRTVAKYR+ L+IP +QRK+ Sbjct: 420 SMIRSIVDSEDADKPYSDQKIVELLNGDGIKIARRTVAKYRDELNIPTKSQRKR 473 >UniRef50_C6HU23 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Leptospirillum ferrodiazotrophum RepID=C6HU23_9BACT Length = 496 Score = 265 bits (676), Expect = 4e-69, Method: Compositional matrix adjust. Identities = 179/502 (35%), Positives = 271/502 (53%), Gaps = 44/502 (8%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 MK L LRL+Q++ MTPQLQQAI LL L+ L+L QE+Q+A+ NP+LE ++ +E D Sbjct: 1 MKPQLDLRLTQKMVMTPQLQQAINLLMLNRLDLAQEMQEAVLENPVLEIVEGEDEGDWTP 60 Query: 61 TQDSET-LDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDY-IDDEL--PVYQ--- 113 + E T D +E PE D D + ++ DY +D+ L +Q Sbjct: 61 GDEGEAPAQTMDDRMGREDPEAGEDDRMVDPL--------SNWDYSVDESLDNEAFQREE 112 Query: 114 --------GETT--------QTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVP 157 GE + TL D+L WQ+ T S +R A+ +V +DE GYL + Sbjct: 113 RTLRESDAGEFSYEKVLSQPTTLADHLEWQLSFTDLSPEEREAASYLVGNIDEDGYLALE 172 Query: 158 LEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEA- 216 E + + D+D + L+ IQ DP GV A+ L++CL IQ + EEA Sbjct: 173 GEGLPSDLFPG-CDMDRI---LRTIQTLDPPGVGARTLKECLQIQARLLGQ-----EEAL 223 Query: 217 -RLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPD 275 I+ D D + + R TR + + A+ +++L+P+PG+ P V+PD Sbjct: 224 PGRILDRAFDEFLAMDVKAMARKTRATPEEVGTALGFLRALEPKPGRPYYRESPSIVVPD 283 Query: 276 V-LVRKHNGHWTVELNSDSIPRLQINQHYASMCNNA-RNDGDSQFIRSNLQDAKWLIKSL 333 + NG V ++ +PRL+I Y +M A + D ++ ++ A+W +KS+ Sbjct: 284 LRFYEDDNGEMRVAISEQGLPRLRIQPSYRAMLREAPKKDELRDYLEEKMRAAQWFLKSI 343 Query: 334 ESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSP 393 E R T+LRV ++ Q FF +G ++P+VL IAQ + +HESTISRVT QKY +P Sbjct: 344 EQRKKTILRVGESLLVHQADFFREGPRGLRPLVLRTIAQELGLHESTISRVTNQKYAETP 403 Query: 394 RGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMV 453 GI ELK FFS V + GGG S+T++R ++ ++ +E+P PL+D ++ L E GI++ Sbjct: 404 FGIVELKSFFSGGVPSVGGGSHSATSVRERIRLMVRSESPESPLTDQEIMKKLEEAGIVI 463 Query: 454 ARRTVAKYRESLSIPPSNQRKQ 475 ARRT+AKYR L IPP +QRK+ Sbjct: 464 ARRTIAKYRAELDIPPVSQRKR 485 >UniRef50_B0TGK6 RNA polymerase sigma-54 factor n=1 Tax=Heliobacterium modesticaldum Ice1 RepID=B0TGK6_HELMI Length = 433 Score = 261 bits (667), Expect = 5e-68, Method: Compositional matrix adjust. Identities = 173/476 (36%), Positives = 255/476 (53%), Gaps = 54/476 (11%) Query: 4 GLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQD 63 G Q+ SQ+L MTP+L+QA+ +LQ++TLEL + + L NPLLE D E + E ++ Sbjct: 6 GQQIEQSQRLVMTPELRQALAILQMNTLELSLFIGRELVQNPLLESPDPPREREMAERRE 65 Query: 64 SETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDY 123 S G I E P TLQ++ Sbjct: 66 S-----------------------------------PFGREIQAEGP--------TLQEH 82 Query: 124 LMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIG-DEEIDIDEVEAVLKRI 182 L Q+ L R++ I+ +D+ GYL +I + G EEI V VL I Sbjct: 83 LELQLGLALSDGLRRSVGRYIIGNIDDKGYLRSDPAEIAAATGVGEEI----VGEVLATI 138 Query: 183 QRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLK 242 Q FDP GV A+DL +CL IQL + K TP LE I+ DHL +A + + ++ Sbjct: 139 QSFDPPGVGARDLAECLRIQLCRQGKLTPHLER---ILEDHLPDVAAGRLHRIAQRLKVT 195 Query: 243 EDVLKEAVNLIQSLDPRPGQSI-QTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQ 301 ++ V+ ++ L P+PG + G+ ++PDV++ + +G + V +N +PRL IN+ Sbjct: 196 VGEVQAMVDRLKELAPKPGTPFGREGDNRPILPDVIIEQIDGEYLVLVNDGLLPRLTINR 255 Query: 302 HYASMCNNARNDGDSQ-FIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 Y + N G+++ ++ L A LI+++E R TL +V IVE+Q+ F EQG Sbjct: 256 TYRHILNEEGAPGEAKAYVEERLHSALSLIRAIEQRRLTLHKVVSAIVERQRPFLEQGLA 315 Query: 361 YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGE-ASSTA 419 +KPM L D+A +HEST+SR KY +PRGIFELK+FF S V T G E A++ A Sbjct: 316 GLKPMTLRDVALKTGVHESTVSRSVAGKYAQTPRGIFELKFFFGSGVRTATGEEKATAGA 375 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 I+ L+++LI E+ PLSD ++ L EQGI ++RRTVAKYRE L IPP+ QR++ Sbjct: 376 IKPLIRQLIDGEDKHHPLSDQQIAESLHEQGIPLSRRTVAKYREELGIPPTAQRRR 431 >UniRef50_A0RKT0 RNA polymerase sigma-54 factor n=75 Tax=Bacillus RepID=A0RKT0_BACAH Length = 458 Score = 261 bits (666), Expect = 5e-68, Method: Compositional matrix adjust. Identities = 149/467 (31%), Positives = 267/467 (57%), Gaps = 46/467 (9%) Query: 10 SQQLAMTPQLQQAIRLLQLSTLELQQEL-QQALESNPLLEQIDTHEEIDTRETQDSETLD 68 S +LAMT +L+QAI +LQ + EL + L +Q+LE NPL+E Sbjct: 33 SLRLAMTQELRQAITMLQYNVQELSEFLYEQSLE-NPLIE-------------------- 71 Query: 69 TADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQV 128 L + S ++ +++++ +Y ++T T+Q +L+ Q+ Sbjct: 72 ---------------LGGFEREKKKSSNNSKSTSKQVENQMEIYSVDST-TIQQHLLNQI 115 Query: 129 ELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQRFDPV 188 + + +R +A+ I+ +D GYL E++ + + V+ ++ +Q +P Sbjct: 116 QYYKIEEEERKVASFIIMNMDGNGYLQETNEELANLLS---APLHVVDRSVELVQSLEPA 172 Query: 189 GVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKE 248 GV A+++++CL +QL + + EE ++ DH D+R L++V + + L++ Sbjct: 173 GVGARNIQECLTLQLKRLQRRNGLAEE---VVEDHFAYFVKKDWRKLVQVLKCSNEELQD 229 Query: 249 AVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCN 308 AVN I SL P+PG + + +P Y++PD+ V+K +++N ++PR++I+ Y+++ N Sbjct: 230 AVNCITSLQPKPGLAFSSDKPLYIVPDMAVKKDGDRLVLQMNERNMPRIEIHSEYSALLN 289 Query: 309 NARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLA 368 N+ ++ S ++ Q +W+++SL+ R TLL+V I+E+Q+ FF +G EY+KP+ L Sbjct: 290 NSESEVAS-YVSEKYQHVQWIMRSLKQRKQTLLQVMTIIMEKQRDFFWKGPEYLKPLALK 348 Query: 369 DIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLI 428 ++A+ + +HESTISR T KY+ +P G+FE+K FFS+ V+T S+ ++ ++ L+ Sbjct: 349 EVAEELSVHESTISRATRNKYVQTPHGLFEMKSFFSNAVSTTEDEAVSTKRVKQFIQTLV 408 Query: 429 AAENPAKPLSDSKLTSLLSEQG-IMVARRTVAKYRESLSIPPSNQRK 474 AEN KPLSD K++ LL E+ I+++RRTVAKYRE + IP S+ RK Sbjct: 409 EAENKKKPLSDQKISKLLEEEHEIVISRRTVAKYREQMHIPASSLRK 455 >UniRef50_C7IQW3 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Thermoanaerobacter ethanolicus CCSD1 RepID=C7IQW3_THEET Length = 470 Score = 260 bits (665), Expect = 6e-68, Method: Compositional matrix adjust. Identities = 160/450 (35%), Positives = 260/450 (57%), Gaps = 26/450 (5%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M+ L+L+ +Q+L MTP+L+QAI +LQL++LEL ++Q LE+NP+LE+ +T EE + E Sbjct: 3 MEFELKLQQAQKLIMTPELKQAIEILQLNSLELNALIEQELETNPVLEKEETSEEENAYE 62 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 E E++ ++ + + Y +S L Sbjct: 63 YDLYELSKYIRETEERMYYDDSDDEEIEEVNYENFVSPKSS------------------L 104 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 D+L++Q+ +TP + I I+ ++ +GYL ++DI E + E +EV L Sbjct: 105 SDHLLFQLHITPVPPKIQKICEYIIFSLSPSGYLREDIKDIAEILECSE---EEVLDGLS 161 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 +Q FDP G+AA++L++CL +QL D +++ ++ HL+ +A + L ++ Sbjct: 162 VVQSFDPPGIAARNLQECLKLQLLAQDSYKGIVKK---LVDYHLEEIAEGKYSYLAKLYN 218 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQ-TGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQI 299 + +++AV+ I+ L+P+PG S T + Y+IPDV V K G + V +N P+L+I Sbjct: 219 ISLKEVQQAVDFIKKLNPKPGSSFSSTTDVGYIIPDVEVIKREGEYFVIVNDSVTPKLKI 278 Query: 300 NQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE 359 N +Y S+ N + ++ ++I S LQ A WLIKSLESR +TL +V + IVE Q+ F ++G Sbjct: 279 NNYYHSILN-SHDEEAKKYINSKLQSAMWLIKSLESRKETLYKVVKAIVELQRDFLDKGI 337 Query: 360 EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTA 419 Y+KPM IA V +HEST+SR KY+ +PRG+FE+K+FF S ++ G E S+ + Sbjct: 338 NYLKPMTQKQIADIVGIHESTVSRAINGKYVATPRGLFEIKFFFQSGISNRNGNEISAES 397 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQ 449 I+ L+KKLI E+PA PLSD K+ +L E+ Sbjct: 398 IKNLIKKLIEEEDPANPLSDQKIADILKEK 427 >UniRef50_B9JZG8 RNA polymerase sigma-54 factor n=1 Tax=Agrobacterium vitis S4 RepID=B9JZG8_AGRVS Length = 482 Score = 259 bits (662), Expect = 2e-67, Method: Compositional matrix adjust. Identities = 143/381 (37%), Positives = 225/381 (59%), Gaps = 31/381 (8%) Query: 119 TLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAV 178 +L+D+L Q+ S +DR IA +++D +DE GYL L+++ +G D++E + Sbjct: 99 SLRDHLGQQLPFVLSSASDRMIALALIDQLDEAGYLRADLDEVATQMGASR---DDMERI 155 Query: 179 LKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRV 238 L +Q +P G+ A+ L +CL IQL Q D+ P + A LI +LD LA DF +L R+ Sbjct: 156 LAALQTMEPAGLFARSLGECLAIQLRQRDRLDPAM--AALI--GNLDYLAKRDFASLKRL 211 Query: 239 TRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKH-NGHWTVELNSDSIPRL 297 + E+ L + + I+ L+P+PG +T E V+PD+LV G W VELN++++PR+ Sbjct: 212 CGVDEEDLLDMLAEIRKLNPKPGAGFETDALETVVPDILVAPSLEGGWLVELNAETLPRV 271 Query: 298 QINQHY----------------------ASMCNNARNDGDSQFIRSNLQDAKWLIKSLES 335 +N Y S ++ +G+ F+ LQ A WL +SL+ Sbjct: 272 LVNNAYFTEIRRSSLREGAMKTANGQSGNSKTGQSKAEGEQAFLTDCLQTANWLTRSLDQ 331 Query: 336 RNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRG 395 R T+++V+ I+ QQ AF G ++++P+ L +A A++MHEST+SRVT+ KY+ +PRG Sbjct: 332 RAKTIMKVATEIIRQQDAFLRHGVDHLRPLNLKTVADAIKMHESTVSRVTSNKYMLTPRG 391 Query: 396 IFELKYFFSSHVNT-EGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVA 454 +FELKYFFS + + EGG S+ A+R ++ LIA E+P LSD + L G+ +A Sbjct: 392 LFELKYFFSVSIGSAEGGDSHSAEAVRHRIRMLIAQESPENILSDDDIVESLKNGGVELA 451 Query: 455 RRTVAKYRESLSIPPSNQRKQ 475 RRTVAKYRE+++I S QR++ Sbjct: 452 RRTVAKYREAMNIASSVQRRR 472 >UniRef50_B2A6Z6 RNA polymerase, sigma 54 subunit, RpoN n=4 Tax=Firmicutes RepID=B2A6Z6_NATTJ Length = 479 Score = 259 bits (661), Expect = 2e-67, Method: Compositional matrix adjust. Identities = 163/490 (33%), Positives = 277/490 (56%), Gaps = 27/490 (5%) Query: 1 MKQGLQLRL--SQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDT 58 MK G L L QQL +TP+L++AI+LLQLS++EL +++ L NP+LE T E + Sbjct: 1 MKLGFDLNLEQKQQLVITPELRKAIKLLQLSSIELDNYIEKELVENPMLEISSTEE---S 57 Query: 59 RETQDSETLDTADALE--QKEMPEELPLDASWDTIYTAGTPSGTSG-------DYIDDEL 109 D+ D+ + LE Q+ E D W + + G D D Sbjct: 58 ESGDDNGKEDSVEKLENSQESAQSEDRFDIDWQKYFEDSSDVGKYNNLPKENYDEGKDGF 117 Query: 110 PVYQGETTQTLQDYLMWQVELTPFSDTD---RAIATSIVDAVDETGYLTVPLEDILESIG 166 + T +L ++L +Q+ L +SD + + +A ++ +D GYL L++I E + Sbjct: 118 ETFTPSTI-SLTEHLYFQLSL--YSDQEEHIKPLAEFLIGNLDANGYLNGTLQEIAEFL- 173 Query: 167 DEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDL 226 +++ E+E L+ +Q DP GV A+ L++CLL+Q+ + D +P + A +I + L Sbjct: 174 --DVEEKELEKALELVQSLDPPGVGARSLKECLLLQV-ETDSHSP--DSAYELIENFLSE 228 Query: 227 LANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSI-QTGEPEYVIPDVLVRKHNGHW 285 +A + + + +L ++E V+ I+SL P+P + G P Y+ PD+++++ + Sbjct: 229 IAENRLDKIAKELKLPIKEVQEIVDYIRSLTPKPASPFSEEGLPSYITPDIVIKRVEDEY 288 Query: 286 TVELNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSR 345 + LN PRL+IN Y + + G ++F+ S L A WLIKS+E R TL + + Sbjct: 289 EIILNDSMSPRLKINSKYRQLLKTEKGSGVAKFLNSRLDSAMWLIKSIEQRRITLYNIMQ 348 Query: 346 CIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSS 405 +VE Q+ F + G Y+KP+ L ++A +++HEST+SR T KY+ +P+G++ L++FFSS Sbjct: 349 KLVEMQRPFLDNGVRYLKPLTLKEVADEIDVHESTVSRATANKYVQTPQGVYPLRFFFSS 408 Query: 406 HVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESL 465 ++ SST+I+ +K+L+ E+ KPLSD K+ +L E I ++RRTVAKYR+ L Sbjct: 409 KLDNNQDDYNSSTSIKQKIKELVEEEDKKKPLSDQKIAEILQESSINISRRTVAKYRKEL 468 Query: 466 SIPPSNQRKQ 475 ++P S++RK+ Sbjct: 469 NLPSSSKRKR 478 >UniRef50_C6W3I8 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Dyadobacter fermentans DSM 18053 RepID=C6W3I8_DYAFD Length = 480 Score = 258 bits (660), Expect = 3e-67, Method: Compositional matrix adjust. Identities = 161/490 (32%), Positives = 263/490 (53%), Gaps = 53/490 (10%) Query: 13 LAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSETLDTADA 72 L +P Q + LL L+T+EL+Q +++ LE NP+LE+ +E SE Sbjct: 12 LKYSPLQIQMLNLLHLTTMELEQRIKEELEENPILEE--------GKEDSTSE------- 56 Query: 73 LEQKEMPEELPLDASWDTIYTAGTPSGTSGDYID------DELPVYQGETTQ-------- 118 E PEE D ++G T DY D D++P Y+ Sbjct: 57 ----EAPEEFD-----DADISSGGDDNTVQDYYDWDEFRDDDIPDYKTYANNQSADNELY 107 Query: 119 --------TLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEE- 169 + +D L QV + + IA I+D++DE G+L + I + I Sbjct: 108 TRPMVEAISFRDDLKQQVHFLQLDERQQLIADFILDSLDEDGFLRRESDVIADDISFANS 167 Query: 170 --IDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLL 227 ID DEV +LK IQ+ DP G+AA DLR+CLLIQL++ D + A I+ D D L Sbjct: 168 MFIDTDEVNTMLKVIQQLDPPGIAASDLRECLLIQLNRMDNQNDTWKWAYKIVCDAFDEL 227 Query: 228 ANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGE--PEYVIPDVLV-RKHNGH 284 + ++ +MR+T L E+ LK+A+ LI +L+P+P ++ E + PD ++ +G Sbjct: 228 GSRNYDKIMRITGLDEESLKKAIQLITTLNPKPASGLRNDAIVNESIKPDFMLWYTEDGE 287 Query: 285 WTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVS 344 V+L + P L++N+ + M R+ +QF+++ + AKW I +++ R +T+L Sbjct: 288 IEVQLTWGNSPALKLNKVFTQMAEEKRDKATNQFLKNKMNSAKWFIDAIKQRENTMLNTL 347 Query: 345 RCIVEQQQAFFEQGE-EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFF 403 + IV+ Q +F+ G+ + ++PM+L D+A+ ++M ST+SRVTT KY+ +P GI LK F Sbjct: 348 KAIVKLQYDYFQTGDIKKLRPMILKDVAEIIDMDISTVSRVTTNKYVQTPFGIVLLKDLF 407 Query: 404 SSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRE 463 + V E G E S+ I+ ++++++ E+ P +D ++T +L+ +G VARRTVAKYRE Sbjct: 408 TEGVTNEDGTEVSNREIQEAIREIVSEEDKRHPYNDQQITDMLAVKGYSVARRTVAKYRE 467 Query: 464 SLSIPPSNQR 473 L+IP + R Sbjct: 468 QLNIPTARLR 477 >UniRef50_B8CYG5 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Halothermothrix orenii H 168 RepID=B8CYG5_HALOH Length = 436 Score = 258 bits (660), Expect = 3e-67, Method: Compositional matrix adjust. Identities = 165/476 (34%), Positives = 269/476 (56%), Gaps = 51/476 (10%) Query: 5 LQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDS 64 L L Q+L MTP+L+ AI+LLQ S EL+ L++ L+ NPLLE +E+ + Sbjct: 7 LDLNQKQELVMTPKLKLAIKLLQYSYQELENYLEEELKRNPLLE----------KESSNG 56 Query: 65 ETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYL 124 + + + D +++ T Y+ T+ L+ L Sbjct: 57 DYFQNHKNYSDYDYSNDRNSDNNYENFVT------------------YKINLTEYLESQL 98 Query: 125 MWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQR 184 +QV D + IA I+ +D+ GYL + +I EE EVE VLK++Q+ Sbjct: 99 -YQV----CEDHELKIARYIIGNLDDRGYLRTTVSEIGHHFKVEE---SEVEKVLKKVQQ 150 Query: 185 FDPVGVAAKDLRDCLLIQLSQF--DKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLK 242 DPVGV A+++R+ LL++L D+ T E A+ I+++ LD LA+ + +++ + Sbjct: 151 LDPVGVGARNIREALLVKLGNLGDDENT---EIAKNIVTNFLDELASGKIKEIIKKIKKD 207 Query: 243 EDVLKEAVNLIQSLDPRPGQSIQTGE-PEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQ 301 ++ + +A+NLI+ L+P P E +++PDV+VRK G + VE+NS P L+IN Sbjct: 208 KEQVLKAINLIKELEPYPAAGFAAKENTGFIVPDVIVRKVEGKFVVEMNSSLTPSLKINP 267 Query: 302 HYASMCNNARNDGDS-QFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 +Y M + G+S +++ N + A WLI+S+E R T+ R++ I +QQ F E+G + Sbjct: 268 YYYKMLQDV--GGESREYLEKNYKSALWLIRSIEQRRITIYRIAMAITNRQQEFLEKGIK 325 Query: 361 YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAI 420 Y+KP+ + ++A + +HEST+SR TT KY+ +P+GI+ELK+FFS VN S+T+I Sbjct: 326 YLKPLTMEELADTLGIHESTVSRATTSKYIQTPQGIYELKFFFSGGVNG-----VSTTSI 380 Query: 421 RALVKKLIAAENPAKPLSDSKLTSLLSEQ-GIMVARRTVAKYRESLSIPPSNQRKQ 475 +A +K+ I E PLSD KL +L ++ G+ ++RRTVAKYR+ + IP S +RK+ Sbjct: 381 KAYLKEYIDKEGAKNPLSDKKLARILKDEIGVNISRRTVAKYRKQMGIPSSRKRKK 436 >UniRef50_A9H5R6 RNA polymerase sigma-54 factor 1 n=3 Tax=Gluconacetobacter diazotrophicus RepID=A9H5R6_GLUDA Length = 469 Score = 258 bits (660), Expect = 3e-67, Method: Compositional matrix adjust. Identities = 156/472 (33%), Positives = 268/472 (56%), Gaps = 27/472 (5%) Query: 6 QLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSE 65 + + +Q L M+ +++Q+I++LQLS EL + L +E NPLLE+ T Sbjct: 11 EFKQNQGLFMSARMRQSIQILQLSNAELHEFLDAEVEKNPLLERDPT------------- 57 Query: 66 TLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLM 125 +A E+ + P+ + AG + SG +DD+ E+ L+D + Sbjct: 58 --TSAPLAERPGLAAPPPMMRAPGATGDAGRWTSDSG--LDDDGTGRLAESAPALRDVMF 113 Query: 126 WQVELTPFSDTDRAIATSIVDAVDETGYLTV-PLEDILESIGDEEIDIDEVEAVLKRIQR 184 Q+ L+ + T+R I ++ A+D G L +DI ++ ++ + +VEA+ +R+ R Sbjct: 114 EQLVLSGCTTTEREIGAHLIAALDPAGRLAGGATDDIAATL---QVTLRDVEAIRQRMMR 170 Query: 185 FDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKED 244 FDP G+ A LR+CL QL + ++ P + ARL+ D+LDLLA HD + L + + Sbjct: 171 FDPAGLFATSLRECLAAQLQERNRFGPAM--ARLL--DNLDLLARHDLKRLRQACDVSAT 226 Query: 245 VLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRK-HNGHWTVELNSDSIPRLQINQHY 303 L++ + +++LDP+PG ++PD+L+ + G WT+ELN +S PR+ +N Sbjct: 227 DLEDMIAELRTLDPKPGAE-HGSTLTVIVPDILMEQTAEGGWTLELNPESTPRVVLNSAL 285 Query: 304 ASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMK 363 ++ + + + ++ L A WLI++L+ R+ T+LRVS I+ +Q+ F + G + ++ Sbjct: 286 STRMSLRAHGAERTYLNDTLTSANWLIRALQQRSMTILRVSTEILRRQEDFLQHGPQALQ 345 Query: 364 PMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRAL 423 P+ L +A+A+ +HEST+SRVT KY+ +PRG+ LK+FF + + G S+ AI+++ Sbjct: 346 PLNLRTVAEALNIHESTVSRVTANKYVATPRGVLPLKFFFVAAMTGNDGEIRSNIAIQSV 405 Query: 424 VKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 ++++I E P LSD ++ L QGI +ARRTVAKYRE++ P S QR Q Sbjct: 406 IRRMIQGERPDAVLSDEAISLTLRRQGIDIARRTVAKYREAMGFPNSLQRLQ 457 >UniRef50_C1P7Z1 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Bacillus coagulans 36D1 RepID=C1P7Z1_BACCO Length = 444 Score = 256 bits (655), Expect = 1e-66, Method: Compositional matrix adjust. Identities = 154/476 (32%), Positives = 263/476 (55%), Gaps = 43/476 (9%) Query: 4 GLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTH-EEIDTRETQ 62 GL + S +LAMT +L+QAI +LQ S+ EL L++ NPL+E + + +D+R + Sbjct: 6 GLWQKQSMKLAMTQELKQAIEVLQFSSQELASFLEEKAAENPLIELSSANIKLVDSRFSG 65 Query: 63 DSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQD 122 S G ++I +++P T+TL D Sbjct: 66 LSR---------------------------VKGQKKSQDKNWI-EQIPA----QTETLPD 93 Query: 123 YLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRI 182 +L+ Q+++ S+ +D GYL + ++ E+ I ++ E L + Sbjct: 94 FLISQLDMKALSNKILKAVQLYARHLDANGYLAISVQ---EAAKMAAISEEDAEKALGIL 150 Query: 183 QRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLK 242 Q DP G+ A+ L++CLLIQ+ + D P A +IS H A +R + + + Sbjct: 151 QSLDPAGIGARSLQECLLIQIKR-DPDAPG--HAEELISRHFLDFAEKKWRGIAKKLDIS 207 Query: 243 EDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQH 302 ++ + +Q+L+PRPG P+Y++PD+LV+ H G + L + +P+L++N+ Sbjct: 208 LQEIQRVSDYVQTLNPRPGSGFMADRPQYIVPDLLVKNHAGKLELYLVENQVPKLRLNES 267 Query: 303 YASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYM 362 YASM N A + G +++++ Q+ W+ KS+ESR TLL+V ++E+Q+ FF G+ ++ Sbjct: 268 YASM-NPAGDAGVTRYLKEKTQEYYWIRKSIESRKKTLLKVGAALLEKQRDFFLYGKGHL 326 Query: 363 KPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSH--VNTEGGGEASSTA- 419 KP+ + +I+ + MHEST+SR +KY+ +P G F LK FF++ V + GG EA+S+A Sbjct: 327 KPLTMKEISDDIGMHESTVSRAVREKYMETPFGTFPLKTFFTTALPVRSAGGEEAASSAE 386 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 ++ + LI+ E+ KPLSD + ++L+E+G ++RRTVAKYRE L IP S++RK+ Sbjct: 387 VKNEISALISGEDKRKPLSDQAIVTVLNEKGFEISRRTVAKYREQLGIPSSSKRKR 442 >UniRef50_B5ZLK5 RNA polymerase, sigma 54 subunit, RpoN n=2 Tax=Gluconacetobacter diazotrophicus PAl 5 RepID=B5ZLK5_GLUDA Length = 458 Score = 255 bits (651), Expect = 3e-66, Method: Compositional matrix adjust. Identities = 171/475 (36%), Positives = 260/475 (54%), Gaps = 38/475 (8%) Query: 5 LQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTH--EEIDTRETQ 62 L LR +Q L MTPQL+QAI LLQLS L+ ++Q LE NPLLE+ + EE+ + Sbjct: 7 LALRQAQTLVMTPQLRQAIHLLQLSNLDACSFIEQELERNPLLERANLAGLEELRPKVV- 65 Query: 63 DSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQD 122 A E +P D W T GT G + +L + Sbjct: 66 -------AHGARHDPRLERVP-DQDWAA--TTGTLPGPA----------------PSLHE 99 Query: 123 YLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRI 182 L QV L+ DR + ++ +D G L P I +S+G D VE V + + Sbjct: 100 RLAQQVRLSWRDAGDRLVGAYLITLLDADGRLVPPTAVIAQSLG---TTFDHVERVRQTM 156 Query: 183 QRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLK 242 +F+P G+ A DL +CL QL + D+ P A ++ HLDLLA D R L + + Sbjct: 157 MQFEPTGLFAHDLGECLAAQLRERDRLDP----AMAVLLRHLDLLARRDLRRLQGLCGVD 212 Query: 243 EDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKH-NGHWTVELNSDSIPRLQINQ 301 + L + + +++L PRP + VIPDVL++ +G W +ELN +++P + +N Sbjct: 213 AEDLADMIAEVRTLSPRPARDFGDPAACSVIPDVLLQPAPDGDWMLELNPETMPSVVVNS 272 Query: 302 HYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEY 361 ++ D F+ L A WL+++L+ R DT++RV+ I+ +Q+ F + G + Sbjct: 273 ALSTRVALRARREDRPFLNERLASANWLVRALQQRADTIIRVATAIMRRQRGFLDHGIGH 332 Query: 362 MKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHV-NTEGGGEASSTAI 420 ++P+VL DIA+ V +HEST+SRVT KY+ +PRG+FELKYFF++ + GG + S+ AI Sbjct: 333 LRPLVLRDIAETVGLHESTVSRVTANKYIATPRGLFELKYFFTTAIPGRAGGADHSAEAI 392 Query: 421 RALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 R +K LI+ E+ K LSD + + L ++GI ++RRTVAKYR++L IP S QRK+ Sbjct: 393 RHRIKTLISQESDGKILSDDAIVTRLRKEGIDISRRTVAKYRDALRIPNSAQRKR 447 >UniRef50_A6CFS8 RNA polymerase subunit sigma-54 n=3 Tax=Planctomyces RepID=A6CFS8_9PLAN Length = 496 Score = 253 bits (645), Expect = 1e-65, Method: Compositional matrix adjust. Identities = 160/494 (32%), Positives = 268/494 (54%), Gaps = 30/494 (6%) Query: 6 QLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSE 65 Q++L QQ+ + P++ Q++ +LQL L++ + Q L N LE+I +E +T ET+ + Sbjct: 8 QMKLGQQMKLAPRMIQSMEILQLPLQALEERIDQELAENVCLERISDNE--NTPETESEQ 65 Query: 66 TLDTADA------LEQKEMPEE------------LPLDASW--DTIYTAGTPSGT--SGD 103 + A++ +++KEM L + W D + +A PS S D Sbjct: 66 MREQANSDSNSHEIDEKEMVAGSEQNNESDFERLLEMAEQWPEDNVTSATKPSSNRVSED 125 Query: 104 YIDDELPVYQ-GETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDIL 162 + V E QT+ +YL+ Q S + ++ +D G L L +I+ Sbjct: 126 IERNNDAVANITERQQTINEYLIEQFHYFSCSPEVKEFGEYLIQNLDHNGRLQSSLPEIV 185 Query: 163 ESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISD 222 + G ++I +E E L IQ+ DP GV A+DL++CLL+QL P+ + +I+ Sbjct: 186 QVYG-QKITQEEAETALSLIQKCDPPGVGARDLQECLLLQLK---PDAPYRDVLVTLITA 241 Query: 223 HLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVR-KH 281 HLD L + + R T D++K A++ ++ LDP PG+ ++ V PDV V+ Sbjct: 242 HLDDLGQNRLPVIQRKTGYSIDMIKNAMSYLRYLDPFPGRGFESEPVLKVTPDVFVKLDK 301 Query: 282 NGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLL 341 +G + VEL ++ P L+I++ YA M N +D ++I+ + AKWLI+++E R+ TL Sbjct: 302 DGKYVVELENEYTPPLRISRGYAQMLRNKADDQTKEYIKKKIDAAKWLIEAIEQRHSTLK 361 Query: 342 RVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKY 401 RV++ IV+ Q F + G E++ P+ + IA V +H +T+SR K++ +PRG++ LK Sbjct: 362 RVAQAIVDFQTEFLDNGPEFIVPLKMQQIADVVGVHVTTVSRAVDDKWIQTPRGLYPLKR 421 Query: 402 FFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKY 461 FF T G + + IR +K++I E+ KPLSD L LS++G +ARRTV KY Sbjct: 422 FFGGGTKTSDGEDVAWGIIRLKLKEIIDGEDKNKPLSDDALVDALSKEGYNLARRTVTKY 481 Query: 462 RESLSIPPSNQRKQ 475 R++++IP S QR++ Sbjct: 482 RKAMNIPSSRQRRE 495 >UniRef50_B5YI16 RNA polymerase sigma-54 factor n=1 Tax=Thermodesulfovibrio yellowstonii DSM 11347 RepID=B5YI16_THEYD Length = 471 Score = 250 bits (639), Expect = 8e-65, Method: Compositional matrix adjust. Identities = 146/446 (32%), Positives = 247/446 (55%), Gaps = 25/446 (5%) Query: 37 LQQALESNPLLEQIDTHEEIDTRETQDSETLD--TADALEQKEMPEELPLDASWDTIYTA 94 +Q L NP+LE + E I E E + D LE+ D + Sbjct: 39 IQLELMENPILELDEETENIQENEVSSEEYEEPVAVDKLEK----------IMIDEYFAE 88 Query: 95 GTPSGTSGDYID---DELPVYQ--GETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVD 149 G Y + +E P ++ TT L ++L+WQ+ L+ D RA+A ++ +D Sbjct: 89 RADDGRDLGYFNPGVEEKPSFELFYSTTTDLWEHLLWQLRLSKAPDKIRAVAEVVIGNID 148 Query: 150 ETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKT 209 E GYL E+I + + D + V+ + +Q FDP GVAA+D+++CL++Q+ Sbjct: 149 EDGYLKATEEEIAKM---SDTDNETVKQAIALVQEFDPAGVAARDIKECLILQIKALGLG 205 Query: 210 TPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEP 269 ++ I +HL+ + + + + + D + ++V +I+ L+PRPG++ + Sbjct: 206 DTLVQS---FIEEHLEDIKKKKYENIAKRFGISIDEVIKSVKIIEKLEPRPGRNFSKTQV 262 Query: 270 EYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARND-GDSQFIRSNLQDAKW 328 +PDV V K G + + LN + IP+L++++ Y + + +++R ++A Sbjct: 263 NIPVPDVYVTKVEGEYQIILNDEGIPKLRLSKIYRELFTEKNLPVQEKKYLREKFKNAVE 322 Query: 329 LIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQK 388 L++S+E RN T+ RV+ +V+ Q+ FF++G Y+KP+ L DIAQ + +HESTISRVT+ K Sbjct: 323 LLRSIEQRNKTIYRVTESLVKFQKEFFDKGVSYVKPLNLKDIAQDLGLHESTISRVTSNK 382 Query: 389 YLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSE 448 YL G+F ++FFS+ +++ GG S+T ++ L++K+I EN PLSD +++ +L + Sbjct: 383 YLACEHGLFNFRFFFSNALSSNHGG-ISTTLVKDLIQKIINEENHTNPLSDKEISDMLKK 441 Query: 449 QGIMVARRTVAKYRESLSIPPSNQRK 474 QGI +ARRTVAKYRE L IPP RK Sbjct: 442 QGIDIARRTVAKYREELKIPPKPLRK 467 >UniRef50_B3E042 DNA-directed RNA polymerase specialized sigma subunit n=1 Tax=Methylacidiphilum infernorum V4 RepID=B3E042_METI4 Length = 458 Score = 249 bits (637), Expect = 1e-64, Method: Compositional matrix adjust. Identities = 168/479 (35%), Positives = 256/479 (53%), Gaps = 36/479 (7%) Query: 4 GLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQD 63 GL + A++PQ+Q ++ +LQ +EL +QQ L SNPLLE E E Q Sbjct: 6 GLYQSIKLHQALSPQMQHSLAILQAPAVELSTIIQQELLSNPLLEI----SEDKPLEGQS 61 Query: 64 SETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQ----T 119 E L +KE W Y G I+DE +Q + Sbjct: 62 LEGL-----FHEKE---------KWYD-YLGPNFEGAQRS-IEDERKRQFFFDSQVVPPS 105 Query: 120 LQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVL 179 + L Q+ L +T A I+ +DE GYL LE+I +G + D VE L Sbjct: 106 MASELSRQLSLVCSDNTLLQAAQYIIGNLDERGYLNTELENIAHELG---LAYDLVEKAL 162 Query: 180 KRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVT 239 + +Q DP G+AA++L +CLL+QL K E R IIS++L LL + + Sbjct: 163 ELVQSLDPPGIAARNLSECLLLQLKALGKENSL--EFR-IISEYLTLLERKKLTEIAKQL 219 Query: 240 RLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIP-DVLVRKHNGHWTVELNSDSIPRLQ 298 ++ ++EAV I+SL+P PG ++ E E +I D++V K W V N + +PRL+ Sbjct: 220 KVSLKQVQEAVESIRSLNPFPGSKYRSEEKEKIIQVDLMVVKEAQDWKVYFNDEFMPRLR 279 Query: 299 INQHYASMCNNARNDGD---SQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFF 355 IN HY S+ ++ND D +++ + +LIK L R +TLL+V+ IV Q+ FF Sbjct: 280 INHHYESLL--SKNDKDPSLKNYLKEKKRSGLFLIKCLRMRENTLLKVAEAIVHCQKDFF 337 Query: 356 EQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEA 415 + G +KP+ +++IAQ +++HE+T+SR KY+ +P GIFELKYFF+S + G Sbjct: 338 DSGPHALKPLTMSEIAQKIDVHETTVSRAIANKYVKTPHGIFELKYFFNSGFQKQTGEFV 397 Query: 416 SSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRK 474 ++ I+ +++LI E+P PLSD ++ LL+++GI +ARRTVAKYR L I PS+ R+ Sbjct: 398 ANQTIKEAIERLIRNEDPRSPLSDQQIVELLAKEGIKMARRTVAKYRAHLKILPSHLRR 456 >UniRef50_Q2S3F8 RNA polymerase sigma-54 factor n=2 Tax=Sphingobacteriales RepID=Q2S3F8_SALRD Length = 504 Score = 249 bits (636), Expect = 2e-64, Method: Compositional matrix adjust. Identities = 138/404 (34%), Positives = 222/404 (54%), Gaps = 18/404 (4%) Query: 89 DTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAV 148 D +Y G GD D + P+ Q+L + L Q+ +TD IA I+ ++ Sbjct: 95 DDMYGYNASPGYQGDDEDRDRPM---PADQSLPEQLQGQISFLNLDETDEIIADQIIGSI 151 Query: 149 DETGYLTVPLEDILESI---GDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQ 205 DE GYL ++ IL+ I EI+ ++V+ VL+++Q +P G+AA+DL++CLL+QL + Sbjct: 152 DEDGYLKREIDSILDDILFNHGIEIEEEDVQKVLRQVQSLEPAGIAARDLQECLLLQLRR 211 Query: 206 FDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLI-QSLDPRPGQSI 264 + + A ++ D + F L + + E LK A +LI Q LDP+PG+ Sbjct: 212 MPEDVDGRDTAIAMLEDEYEAFTKKHFDKLQKRLDVDERELKTAFDLIRQRLDPKPGEGE 271 Query: 265 QTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQ------- 317 + E Y+ PD VR +G + + LN + P L +++HY M + S Sbjct: 272 FSEETNYITPDFSVRYVDGEFVITLNGRNAPDLHVSRHYRKMLEKLKAQKKSDDVDEVDE 331 Query: 318 ----FIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQA 373 F++ A+W I S+ R T+ V IV+ Q+ FF GE ++KPM+L DIA+ Sbjct: 332 ETEEFLKDKFSSAQWFIDSINQRRHTMYLVMDAIVQLQEDFFRYGEGHLKPMILKDIAEI 391 Query: 374 VEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENP 433 ++M ST+SRV KY+ + G++ELKYFFS + T G E S+ ++A +++++ AE+ Sbjct: 392 IDMDISTVSRVVNGKYVQTEWGVYELKYFFSEGLETVDGEEVSNKEVKAELQRIVDAEDK 451 Query: 434 AKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQLV 477 P+SD L L E+G +ARRTV+KYR+ LSIP + R+++V Sbjct: 452 TDPMSDQDLADALEEKGFKIARRTVSKYRKQLSIPVARLRREIV 495 >UniRef50_A1TNE5 RNA polymerase, sigma 54 subunit, RpoN n=2 Tax=Acidovorax RepID=A1TNE5_ACIAC Length = 468 Score = 248 bits (634), Expect = 3e-64, Method: Compositional matrix adjust. Identities = 158/491 (32%), Positives = 252/491 (51%), Gaps = 53/491 (10%) Query: 4 GLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQD 63 L R +Q ++P+LQ+A++LLQ+ T E Q + A++ NP LE+ + + Sbjct: 5 ALGARQTQTPHLSPRLQKAVQLLQMPTAEFIQSVMAAVDENPFLEEDEAAAPAAPGPEEG 64 Query: 64 SETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYID--DELPVYQGETTQTLQ 121 +W + +P SGD + D P T TLQ Sbjct: 65 P----------------------AWTAAPGSRSPQAGSGDGLSMLDREP-----ATATLQ 97 Query: 122 DYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDE-EIDIDEVEAVLK 180 ++L Q+ L D +A+ +V+ + + GYL L+ + G E E +E++A L+ Sbjct: 98 EHLHSQLRLLRLPDRAFLLASLVVEELSDDGYLLASLDSLCRDYGVEPEATAEELDAALR 157 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 +Q +P GV A+DL++CL +QL P R + L A MR Sbjct: 158 TVQSLEPAGVGARDLQECLRLQLPAV--ACPL---QRALCDAVLARAAEGSGPQAMRQLA 212 Query: 241 LKEDV----LKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPR 296 + DV ++EA+ ++ LDP PG + +Y++PDV+ K G WTV LN +PR Sbjct: 213 ARLDVPAHAVREAMERLRHLDPHPGWRHGSQPVQYIMPDVIAHKARGQWTVSLNEAVMPR 272 Query: 297 LQINQHYASMCNNARNDGDSQF--------------IRSNLQDAKWLIKSLESRNDTLLR 342 +++++ Y + + + D + + L +A+W ++ ++ R T+L Sbjct: 273 VRVHRQYQQLLQSPADAPDGPAPAPEDTGARNAHRDLAAQLAEARWTVRHVQQRFSTVLD 332 Query: 343 VSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYF 402 V+R I+ +Q F E G M+P+ L DIA+ + +H ST+SRVT KYL +P G+FELKYF Sbjct: 333 VARAILRRQPHFLEYGPIGMRPLALKDIAEELGVHVSTVSRVTNNKYLQTPFGLFELKYF 392 Query: 403 FSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYR 462 FS + T G ++S TAIR LV++++AA++ +PLSD + L QGI +ARRTV KYR Sbjct: 393 FSRAMTTPAGRDSSPTAIRGLVQEILAADDGQRPLSDVDIARQLERQGIRIARRTVTKYR 452 Query: 463 ESLSIPPSNQR 473 + L IPP+ QR Sbjct: 453 QQLRIPPAEQR 463 >UniRef50_Q01PW4 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Candidatus Solibacter usitatus Ellin6076 RepID=Q01PW4_SOLUE Length = 535 Score = 248 bits (632), Expect = 5e-64, Method: Compositional matrix adjust. Identities = 173/535 (32%), Positives = 282/535 (52%), Gaps = 75/535 (14%) Query: 5 LQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQI--DTHEEI------ 56 LQL+++Q+ +TP L Q + +LQL+ LEL++ + Q + NP+LE+ + EEI Sbjct: 8 LQLKVAQKQILTPGLVQMVTVLQLNRLELKEMITQEIVKNPVLEESTNEPGEEITPEELL 67 Query: 57 ---------DTRETQ--------DSETLDTAD--ALEQKEMPEELPLDASW-----DTIY 92 D + Q D+ ++D ++ A+ P+ A+ DTI Sbjct: 68 PLLEAEHVQDPADRQLLEAAVLTDANSVDGSNGSAINGNLFPDAEESAAAAAVAENDTIA 127 Query: 93 T----AGTPSGTS-------GDYIDDEL-PVYQGETTQ---------------TLQDYLM 125 T A P+ T G + D+ L P Y+ ++ TL D+L Sbjct: 128 TNDPLAEAPAATDPFDEIDFGSFFDEYLDPGYKSPASESVEKPSFETFLTAPITLGDHLR 187 Query: 126 WQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQRF 185 Q+ ++ SD R A SI+ +DE GYL+ L++I ++G EVE L +Q Sbjct: 188 SQLSVSLASDEVRDAAESIIGNLDEDGYLSASLDEI-AAMGSHTAA--EVEQALIVVQSL 244 Query: 186 DPVGVAAKDLRDCLLIQLSQFDK--TTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKE 243 DP GV A++LR+CLL+Q+ + W I+S+ L LL ++ + +V Sbjct: 245 DPAGVGARNLRECLLLQIESINGRGGVAWQ-----IVSNCLRLLETKQYKEIAKVLSRPL 299 Query: 244 DVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHY 303 + ++ AV++IQ L+PRPG V PDV K + +++N + +P+L++N Y Sbjct: 300 EHIETAVHMIQHLNPRPGLRYSGAGARVVEPDVFFTKDGDDYIIQMNDEDVPQLRLNAQY 359 Query: 304 ASMCNNARNDGDSQ----FIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE 359 M + R +G ++ ++R A L+K++E R T+L+V + IV +Q F G Sbjct: 360 RRMLD--RENGATKEVRDYVRERYTSAIQLMKNIEQRKQTILKVCQAIVRRQTEFLSHGL 417 Query: 360 EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTA 419 +Y+KPM++ ++A+ V +H ST+SR KY+H+P+G+FEL+YFFS V GG Sbjct: 418 DYLKPMMIKEVAEEVGVHPSTVSRAVASKYVHTPQGVFELRYFFSEAVQGPSGGGTPLLL 477 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRK 474 ++ VKK+I E+ +KPL+D ++T LL +GI V RRTVAKYRE + IP ++QR+ Sbjct: 478 LKRKVKKMIDDEDRSKPLTDEQITLLLQGEGINVTRRTVAKYREDMKIPSTHQRR 532 >UniRef50_Q7UQ69 RNA polymerase subunit sigma-54 n=2 Tax=Planctomycetaceae RepID=Q7UQ69_RHOBA Length = 526 Score = 247 bits (631), Expect = 6e-64, Method: Compositional matrix adjust. Identities = 162/498 (32%), Positives = 261/498 (52%), Gaps = 33/498 (6%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQ--------IDT 52 M GLQ R SQ + P++ Q++ +LQ+ TL LQ+ ++Q + NPLLEQ D Sbjct: 31 MSVGLQARQSQVQKLAPRMIQSMEILQMPTLALQERIEQEMNENPLLEQQTGDPLNPDDG 90 Query: 53 HEEI---DTRETQDSETLDTADALEQKEMPEELPLDASW-----DTIYTAGTPSGTSGDY 104 +EI DTR + E + D + + L +D+ D+ + D Sbjct: 91 DDEIPDKDTRSESEKELVVDNDHDNKDDFERLLNMDSDLPSTFDDSFRQSANRMSEDADR 150 Query: 105 IDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDET--GYLTVPLEDIL 162 D + Q ++L DYL+ Q+ D IA I+ ++ + GYL +PL D+L Sbjct: 151 RHDMMANAQSRP-ESLNDYLLHQLAEMDIDDEVEQIAERIISTLNASDGGYLRMPLADLL 209 Query: 163 ESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISD 222 S G + D ++ E L +Q +P G+AA+DL +CL+ SQ D + +E +I Sbjct: 210 PS-GHSKEDFEKAEEALAVVQSLEPSGIAARDLSECLI---SQLDPSVAHFDELSTLIRS 265 Query: 223 HLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRK-H 281 HL+ LA + + + T ++++E + L+P+PG + V PD+++ + Sbjct: 266 HLNDLAENRLPQISKKTGFSIELIQELREELHLLNPKPGAAFLETYVPNVTPDIILEQDE 325 Query: 282 NGHWTVELNSDSIPRLQINQHY-----ASMCNNARNDGDSQFIRSNLQDAKWLIKSLESR 336 +G + V L+ D +P L I+++Y AS C+ D + +FI+ + A+WLI S+E R Sbjct: 326 SGEYRVRLDDDRVPTLFISEYYRRRLQASDCS----DAEREFIKQKINGAQWLIDSIEQR 381 Query: 337 NDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGI 396 TL RVS IVE Q+ F ++G E ++P+ + IA V +H +T+SR K++ +PRGI Sbjct: 382 RSTLTRVSEAIVEHQKRFLDEGPEAIEPLKMQQIADKVGVHVTTVSRAVDDKWIQTPRGI 441 Query: 397 FELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARR 456 L+ FF TE G + + IR +++LI E+ +KP SD L L + G+ VARR Sbjct: 442 LPLRRFFVGGTQTEDGDDVAWDTIRLKLQELIDKEDKSKPYSDENLVDELKKAGMTVARR 501 Query: 457 TVAKYRESLSIPPSNQRK 474 TV KYR+ + IP S QR+ Sbjct: 502 TVTKYRKKMGIPSSRQRR 519 >UniRef50_C5D7M8 RNA polymerase, sigma 54 subunit, RpoN n=5 Tax=Geobacillus RepID=C5D7M8_GEOSW Length = 437 Score = 247 bits (630), Expect = 7e-64, Method: Compositional matrix adjust. Identities = 163/472 (34%), Positives = 242/472 (51%), Gaps = 54/472 (11%) Query: 12 QLAMTPQLQQAIRLLQLSTLELQQEL-QQALESNPLLEQIDTHEEIDTRETQDSETLDTA 70 +L++T +L QAI LLQ S +ELQ L +Q+LE NP LE D + + R D E Sbjct: 12 KLSLTKELTQAIELLQYSAVELQSFLYEQSLE-NPFLEIRDYRLKRNFRNLSDKE----- 65 Query: 71 DALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVEL 130 W I T S T Y+ +LP Sbjct: 66 --------------KQQW--IENMSTYSETLSSYLTAQLPA------------------- 90 Query: 131 TPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGV 190 S+ + I ++ +DE GYL V +E+I E I E E L+ IQ +P GV Sbjct: 91 LSLSEHEERIVHYMIACLDEDGYLRVNIEEIAERFA---ISKQEAEKALQIIQSLEPAGV 147 Query: 191 AAKDLRDCLLIQLSQFDKTTPWLEE-ARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEA 249 A++L++CL +QL K P+ +E A II H L ++TL + + L+ Sbjct: 148 GARNLQECLYLQL----KRLPYRDEFAEQIIQHHFSLFVEKAWKTLAKQLGVDIASLQRV 203 Query: 250 VNLIQSLDPRPGQSIQTGEPEYVIPDVLV-RKHNGHWTVELNSDSIPRLQINQHYASMCN 308 +LI++L+PRPG P +++PD++V R G W + N D P L N+ Y + Sbjct: 204 WDLIRTLEPRPGIHYTKERPHFIVPDIIVQRSEEGDWRIFYNEDVHPELIWNRGYEQKIS 263 Query: 309 NARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLA 368 + ++ F++ + WL KSLE R TLL + IV++Q+ FE G +KP+ + Sbjct: 264 SCQDGQVHAFVKDKYRQFLWLAKSLEQRKQTLLNIMHVIVDKQKQCFETGFAALKPLTMR 323 Query: 369 DIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGE--ASSTAIRALVKK 426 ++A+ + +HEST+SR KY+ +P G EL+ FFSS V++ E ASS ++ +++ Sbjct: 324 EVAEELGIHESTVSRAVKNKYVQAPFGTVELRRFFSSAVSSVYMDEDAASSVKVKMFIRQ 383 Query: 427 LIAAENPAKPLSDSKLTSLLSEQ-GIMVARRTVAKYRESLSIPPSNQRKQLV 477 LI EN +PLSD KL LL EQ G++++RRTVAKYRE L IP S +RKQ V Sbjct: 384 LIEQENKQEPLSDQKLADLLHEQYGVVISRRTVAKYREQLHIPSSAKRKQYV 435 >UniRef50_C1F1M0 RNA polymerase sigma-54 factor n=1 Tax=Acidobacterium capsulatum ATCC 51196 RepID=C1F1M0_ACIC5 Length = 557 Score = 245 bits (626), Expect = 2e-63, Method: Compositional matrix adjust. Identities = 160/552 (28%), Positives = 278/552 (50%), Gaps = 87/552 (15%) Query: 5 LQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTH----EEIDTRE 60 L L+++Q+ +TP L Q + +L L+ LEL++ +Q + NP+LE+++ +++ RE Sbjct: 8 LNLKVAQRQILTPGLMQMVSVLALNKLELKEMIQAEIAENPVLEEMEESVPLLDDVARRE 67 Query: 61 TQDSETLD---TADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQG--E 115 L+ +++ E+K+ +E+ + + G + S + E P + Sbjct: 68 EDHDRGLEIKASSEESEKKDPFDEIDFGSYFQDYLDPGFRTPNSFELT--EKPSIENFLS 125 Query: 116 TTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEV 175 TL D+L+WQ+ + R A ++ ++E GYL ED+LE E++ + Sbjct: 126 APSTLSDHLLWQLGALTLTPAIRDAAEYLIGNLNEDGYLPADEEDLLEGYLREQLAPEGA 185 Query: 176 EAV--------------------------LKRIQRFDPVGVAAKDLRDCLLIQL------ 203 E+V L+ +++ DP+G+A +DLR+CL++Q+ Sbjct: 186 ESVNGHAPSALTALPPAMAERARAHLASALEVVRQLDPIGIATRDLRECLMVQVAAQRRE 245 Query: 204 -----------SQFDK----------------TTPW----------LEEARLIISDHLDL 226 S FD+ + P E A I+ H+ L Sbjct: 246 FDLIYQRTAVVSAFDEQAEDSAPAESTAQPESSAPGDPERLQRISVFETAAAILDRHMLL 305 Query: 227 LANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWT 286 L D R L + + + A++ I++LDPRPGQ E + PDV K + + Sbjct: 306 LQKRDPRELSKAVARSVEETQRAIDFIRTLDPRPGQRYNRSEARLIEPDVAFVKRDDEYV 365 Query: 287 VELNSDSIPRLQINQHYASMCNNARNDGDSQ-FIRSNLQDAKWLIKSLESRNDTLLRVSR 345 V +N + +P L++N Y + N + D + +++ + A L++++E R +T+L+ Sbjct: 366 VVMNDEDLPSLRLNHGYRRLLNKDGAEKDVKDYVKERYRSALQLMRNIEQRKNTILKTCE 425 Query: 346 CIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSS 405 I+ +Q F E G E MKPM++ ++A+ + +H ST+SR + KY+H+P+G++EL++FFS Sbjct: 426 SIIRRQTDFLENGIEAMKPMMIKEVAEEIGVHPSTVSRAVSNKYVHTPQGVYELRFFFSE 485 Query: 406 HVNTEGGGEASSTAIRAL---VKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYR 462 VN G E S T + L VKKLI E+P+KPL+D ++ +L QGI V RRTVAKYR Sbjct: 486 GVN---GPEGSGTPLMLLKRKVKKLIEDEDPSKPLTDDQIAQMLQSQGIEVTRRTVAKYR 542 Query: 463 ESLSIPPSNQRK 474 E + IP ++QR+ Sbjct: 543 EDMKIPSTHQRR 554 >UniRef50_C5TQ27 RNA polymerase sigma-54 factor n=8 Tax=Neisseriaceae RepID=C5TQ27_NEIFL Length = 451 Score = 245 bits (626), Expect = 3e-63, Method: Compositional matrix adjust. Identities = 167/477 (35%), Positives = 253/477 (53%), Gaps = 39/477 (8%) Query: 5 LQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDS 64 L L+L Q + +LQQ++R+LQ+S LEL++E++ L NPLLE+ +T E D+ + Sbjct: 4 LVLKLKQTQQLNQRLQQSLRILQMSGLELEREVEDWLLDNPLLERPETDEFADSGLNR-- 61 Query: 65 ETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYL 124 T+ SGD +D E + + YL Sbjct: 62 -------------------------TVTMPRAGQQLSGDDAEDIWSNIAEE--EDFKHYL 94 Query: 125 MWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDE-EIDIDEVEAVLKRIQ 183 QV P S + A ++D + E GYLT LE+I++ E +D + ++ +Q Sbjct: 95 HAQVCEHPLSQVEAAYVHVLIDFLGEQGYLTDSLEEIIDHTPLEWMLDEEALQNAQDILQ 154 Query: 184 RFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKE 243 FDP GVAA DL + L++QL + + A L+ S DL N + ++R +L Sbjct: 155 TFDPPGVAAADLTESLMLQLMRLPASPARQMAAHLVQSSLQDLGKNRK-QNVLRFRKLYP 213 Query: 244 DV----LKEAVNLIQSLDPRPGQSIQTGEPE-YVIPDVLVRKHNGHWTVELNSDSIPRLQ 298 D ++ A+++I L+P P + P Y+ PDV V++ W V N + P+LQ Sbjct: 214 DTDSETIEAALDMIAELNPYPAYGFASATPTPYIQPDVWVKEGKDGWEVISNEAAWPKLQ 273 Query: 299 INQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQG 358 +NQ Y + +A + + +AK I SLE R T+LR++ IV+ Q+ FF G Sbjct: 274 LNQEYCDLMKSAEEGALG--WKEKINEAKQRIDSLELRKSTVLRLAEYIVKNQEDFFIFG 331 Query: 359 EEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEA-SS 417 E + PM++ D A + + ESTISR QKYL PRG+F L+YFF+ VN + GE S Sbjct: 332 EIGLSPMLMKDAAAELGLAESTISRAANQKYLSCPRGLFALRYFFTQAVNADDDGEGFSQ 391 Query: 418 TAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRK 474 AI+A++ +LI +E+ +KP SD L LL ++GI +ARRTVAKYRESL IPP+++RK Sbjct: 392 GAIKAVLSQLIESEDSSKPYSDETLVKLLKQRGIEIARRTVAKYRESLDIPPAHKRK 448 >UniRef50_B3QT08 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Chloroherpeton thalassium ATCC 35110 RepID=B3QT08_CHLT3 Length = 517 Score = 245 bits (626), Expect = 3e-63, Method: Compositional matrix adjust. Identities = 167/515 (32%), Positives = 272/515 (52%), Gaps = 46/515 (8%) Query: 3 QGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQI-DTHEEIDTRE- 60 Q L R Q + ++PQ +LLQL ++L+Q ++Q LE NP+LE+ ++ EE E Sbjct: 4 QSLSQRQVQTMRLSPQQLLYTKLLQLPLIQLEQRVKQELEENPMLEEFSESDEEAGQPEE 63 Query: 61 --TQDSETLDTADALEQK-----------EMP---EELPLDASW--------DTIYTAGT 96 T S+ D + L +K E P E LP D + + + G Sbjct: 64 MATDLSQNNDDENKLNEKSEQNEEDLYIAEKPTKDEPLPKDDDYTKEFDQEIEEYFPDGD 123 Query: 97 PSGTSGDYIDDE-------LPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVD 149 G + +E PV+ T+ + + L +Q ++ + AIA IV +D Sbjct: 124 EEGFNVPSFREEPSDESYFQPVFHESFTERVLNDLRYQ----DVTEKELAIAEEIVGNID 179 Query: 150 ETGYLTVPLEDILESIGDEEIDIDEVE--AVLKRIQRFDPVGVAAKDLRDCLLIQL-SQF 206 E GYL P+E I + + I++ E E VL++I DPVG+ A++L++CLLIQL +++ Sbjct: 180 EDGYLRCPIEVIADGLMTTGIEVTEAEILKVLEKIWYIDPVGIGARNLQECLLIQLEAKY 239 Query: 207 DKTT----PWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQ 262 +T E+A+LI++ + F LM + + + L +A+ LIQS +P+PG Sbjct: 240 QRTEDIDDTLYEQAKLILNKYYHEFTMKHFEKLMTLLSISPEELTQALLLIQSFNPKPGG 299 Query: 263 SIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMC-NNARNDGDSQFIRS 321 + + Y+IPD +V + N + +++I++ Y + + ++ G +F+R+ Sbjct: 300 DV-SASSNYIIPDFIVTFDGKNLVAFSNERNSFQIRISEQYKPLLEDKSQPKGAKEFVRN 358 Query: 322 NLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTI 381 + AK + ++E R TL RV ++ Q FF G +KPM+L D+A+ + ST+ Sbjct: 359 KYEAAKNFMTAIEMRRQTLQRVMNALLNLQYEFFTIGPNRLKPMILKDVAEVAGVDISTV 418 Query: 382 SRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSK 441 SRV KY+ + +GI ELKYFFS+ + TE G E S+ I+ +K I E+ KPLSD K Sbjct: 419 SRVVNGKYVQAHKGILELKYFFSTGLETESGDEISNKLIKEKIKSFIEKEDTRKPLSDDK 478 Query: 442 LTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 ++ +L + G VARRTVAKYRE ++IP + RKQ+ Sbjct: 479 ISEMLQQNGFKVARRTVAKYREQMNIPVARLRKQI 513 >UniRef50_D1N390 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Victivallis vadensis ATCC BAA-548 RepID=D1N390_9BACT Length = 472 Score = 244 bits (623), Expect = 6e-63, Method: Compositional matrix adjust. Identities = 155/483 (32%), Positives = 262/483 (54%), Gaps = 26/483 (5%) Query: 2 KQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQ------IDTHEE 55 +Q L L Q+ ++ + Q++ LL L LEL++ L Q L +NPLLE ++ + Sbjct: 5 QQTLSTTLRQEQQLSARQLQSLELLNLPALELEERLTQELAANPLLEAEVQSEPVELPAQ 64 Query: 56 IDTRETQDSETLDTADALEQKEMPEELPLD-ASWDTIYTAGTPSGTSGDYIDDELPVYQG 114 + E +D TLD A+E +E +ELP+ + + +T D++ + L Sbjct: 65 PEAPEKEDESTLDE-RAVENEEWADELPMPPGTGEAGFT-----NEENDFMLNSL----- 113 Query: 115 ETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDE 174 TLQ+ L ++ + R +A I+ ++D+TGY D+ S E ++ + Sbjct: 114 SDAPTLQEQLFSELATCDATPEVRRLAEEIIGSIDDTGYFRSTPADLAMS---ENAELAD 170 Query: 175 VEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRT 234 EA LK +Q FDP GV +DL +CL +QL + + TP E I+ HL+ +A + Sbjct: 171 AEAALKLVQSFDPPGVGCRDLAECLKLQLERTGELTPLYRE---ILDHHLEEIARNHLPQ 227 Query: 235 LMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDV-LVRKHNGHWTVELNSDS 293 L R R+ + L + ++ L+P PG ++ ++V+P+V +VR +G + V + Sbjct: 228 LARTLRISLEELNRCLARLRRLNPYPGSALAPEHADFVMPEVSIVRGADGEYEVAPRRNG 287 Query: 294 IPRLQINQHYASMCNNAR-NDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQ 352 +PRL + + Y + D ++R LQ A+ L+++L+ R T++R++ IV Q+ Sbjct: 288 MPRLFLAERYLKLLETPDLPTADKAYLRDKLQQARELMRALDLRQSTIVRIAGVIVATQR 347 Query: 353 AFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGG 412 F + G +KP+ + + +E+HE+T+SR KY+ +P+GIF K+FF++ E G Sbjct: 348 DFLDNGVAALKPLTMKQAGEMLELHETTVSRAVANKYVETPQGIFPFKFFFTAGFTGEDG 407 Query: 413 GEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQ 472 S+ A+ +K+LI ENPAKPLSD +L +L G+ VARRTVAKYRE ++IP S+ Sbjct: 408 TSVSNRAVMEKIKELIDKENPAKPLSDEQLAQMLKAGGLAVARRTVAKYREGMNIPSSSL 467 Query: 473 RKQ 475 R++ Sbjct: 468 RRK 470 >UniRef50_C4GJ01 Putative uncharacterized protein n=1 Tax=Kingella oralis ATCC 51147 RepID=C4GJ01_9NEIS Length = 453 Score = 242 bits (618), Expect = 2e-62, Method: Compositional matrix adjust. Identities = 168/487 (34%), Positives = 265/487 (54%), Gaps = 53/487 (10%) Query: 4 GLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQD 63 +QL+L Q ++ +QQ++R+LQ+S +E+++E++ L NPLL++++ E+ T E Sbjct: 5 NIQLKLRQTQQLSQNMQQSLRVLQMSGIEIEREVEDWLADNPLLDRVEQPEK--TYEPPQ 62 Query: 64 SETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQG-ETTQTLQD 122 + TAD ++ G S D DD+ ++ +TL Sbjct: 63 T----TADIAKR-----------------------GVSLD--DDDSSAWENLAQEETLNA 93 Query: 123 YLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDE-EIDIDEVEAVLKR 181 YL QV P + ++ A ++D +D+ GYLT +E+I+E E ++ D++E L+ Sbjct: 94 YLHKQVAEHPLTPSEAARVHILIDFLDDKGYLTESIEEIIEHTPLEWMLEEDDMEIALEH 153 Query: 182 IQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARL----IISDHLDLLANHDFRTLMR 237 ++ FDP G+A DL LL QL + L EAR II+ HLD + + + L R Sbjct: 154 LRAFDPAGIATPDLTQSLLYQLDRLP-----LSEARRCAAQIITRHLDQITQNTPKNLNR 208 Query: 238 VTRL----KEDVLKEAVNLIQSLDPRPGQSIQTGEP-EYVIPDVLVRKHN-GHWTVELNS 291 ++L E VL++A+ +I +L P P + EP +YV PDV V+K++ G W N Sbjct: 209 FSKLLPEYSETVLRDALEIITNLRPYPSYGFASEEPTQYVRPDVFVQKNDKGEWYAISNE 268 Query: 292 DSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQ 351 +S+P+++IN N R + AK I L+ R T+LRV+ I+ Q Sbjct: 269 ESLPQIKINTEIIEALQEESNLDP--IWREKINGAKQKIDMLQQRKSTILRVAEYILAHQ 326 Query: 352 QAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHV---N 408 Q FF GE + PM+L D A+ +E+ ESTISR + KYL P+G+F L+YFFS + + Sbjct: 327 QDFFYFGEIGLVPMLLKDCAKHLELAESTISRAVSNKYLACPQGLFALRYFFSQNAAIND 386 Query: 409 TEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIP 468 +E G S+ AI++++ +++ E+ KP SD L LL +QGI +ARRTVAKYRE L IP Sbjct: 387 SETGNAISANAIKSVIAQIVEHEDKTKPHSDCSLHRLLQQQGINIARRTVAKYREQLGIP 446 Query: 469 PSNQRKQ 475 QR++ Sbjct: 447 TVQQRRE 453 >UniRef50_UPI00016C46F0 RNA polymerase subunit sigma-54 n=1 Tax=Gemmata obscuriglobus UQM 2246 RepID=UPI00016C46F0 Length = 488 Score = 241 bits (615), Expect = 4e-62, Method: Compositional matrix adjust. Identities = 167/495 (33%), Positives = 261/495 (52%), Gaps = 58/495 (11%) Query: 21 QAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSETL----DTADALEQK 76 Q++ +LQLS +LQ ++ AL+ NP LE + E D T + D LE Sbjct: 3 QSMEILQLSITDLQAKIDDALQENPFLELKEKLGETDEPPTDFNPDAPLKHDETGDLEFN 62 Query: 77 EMPEELPLDASWDTIYTA---GTPSG--TSGDYIDDELPVYQGETTQTLQDYLMWQVELT 131 + E L+ WD + G+ + GD + + + +LQDYL Q+ Sbjct: 63 RLEE---LNRDWDDHFNEEHRGSRASLEEEGDRKLEAM-ANMPDRPPSLQDYLADQIGEL 118 Query: 132 PFSDTDRAIATSIVDAVDETGYL----------------TVPLEDILESIGDEEIDIDEV 175 + DR +A I VD TGYL TV LE+I ++ D + ++V Sbjct: 119 DIEEDDRRLARHICSFVDRTGYLGARERANENDDKDTFRTVTLEEIA-ALYDRLVTPEDV 177 Query: 176 EAVLKRI-QRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRT 234 E VL + QR +P GVAA+DL++CLL+Q+ P + R +I DHL+ +A + Sbjct: 178 EDVLVHVVQRLEPAGVAARDLKECLLLQVPH---DAPHADALRTLIRDHLEDVAYNRIPV 234 Query: 235 LMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLV-RKHNGHWTVELNSDS 293 + + TRL+ ++EA+ I LDP+PG +YV+PDV+V R + +TV L + Sbjct: 235 IQKATRLEIAAIQEAIEEIHHLDPKPGLKFSDSGTQYVMPDVVVERADDNDYTVRLTDEW 294 Query: 294 IPRLQINQHYASMCNNARNDGDSQF---IRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQ 350 +PR+++++ MC R D D + +R LQ A WL+K++E R +TL++V++ I++ Sbjct: 295 VPRIRVSKRVVDMCK--RQDLDDKVKDKLRQKLQQADWLVKAVEQRRNTLMKVTKAIIDH 352 Query: 351 QQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTE 410 Q+AF + G E+++P+ + IA V++H +T+SR K++ +PRG+F LK FF Sbjct: 353 QRAFLDFGPEHIQPLKMQQIADQVKVHVTTVSRAVDDKWVQTPRGVFPLKRFF------- 405 Query: 411 GGGEASS--------TAIRALVKK---LIAAENPAKPLSDSKLTSLLSEQGIMVARRTVA 459 GGG+A A + +K L++ E+ A PLSD +L + L G VARRTV Sbjct: 406 GGGKAKDENDVNSEVVAYEVMKQKLLELVSNEDKANPLSDEELVARLKAGGCPVARRTVT 465 Query: 460 KYRESLSIPPSNQRK 474 KYR+ L IP S QRK Sbjct: 466 KYRKMLKIPSSRQRK 480 >UniRef50_P38944 Putative RNA polymerase sigma-54 factor n=34 Tax=Clostridium RepID=RP54_CLOK5 Length = 453 Score = 239 bits (611), Expect = 1e-61, Method: Compositional matrix adjust. Identities = 156/480 (32%), Positives = 260/480 (54%), Gaps = 31/480 (6%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M L L Q+LAMT ++Q +I+LLQ+S+ ELQ+ +++ L+ NP+L D +E Sbjct: 1 MDFALNLTQEQRLAMTQEMQLSIKLLQMSSFELQEYVEKELQENPVL---------DIKE 51 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTS-GDYIDDELPVYQGETTQT 119 + + D LE KE+ + L D Y S ++I +E ++ Sbjct: 52 SNVDKV--EKDKLEYKEIIKNLDFDNYSHHSYDRNPDEEVSPFNFISEE---------KS 100 Query: 120 LQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEA-V 178 L++YL Q+ + + I I++ +D+ GYL + E+I E + + E+ A Sbjct: 101 LKEYLKDQIRDLDENQCIKTICLYIIENIDDRGYLILENEEIEEELKISK----ELAAYC 156 Query: 179 LKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRV 238 + I +P G+ A++L +CL IQ+ Q D E ++I +L+ +A + + + + Sbjct: 157 VDLIHSLEPHGIGARNLAECLKIQIKQKDMDE---ENIFIMIDKYLEFIAENKYNVIAKE 213 Query: 239 TRLKEDVLKEAVNLIQSLDPRPGQSIQTGEP-EYVIPDVLVRKHNGHWTVELNSDSIPRL 297 + +E +LI++L P+P + TGE Y+ PD ++K + + + +N D PRL Sbjct: 214 LNIDVKQAQEYGDLIKTLSPKPSRGFYTGESVRYISPDAYIKKIDSEYFIIMNDDLTPRL 273 Query: 298 QINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQ 357 IN Y + NN + +++ L A +LIKS++ R T+ RV IVE Q+ +F+ Sbjct: 274 TINAIYKDIINNDTDKDAVSYVKEKLNSALFLIKSIQHRKSTIYRVLEKIVEIQKDYFDY 333 Query: 358 GEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGE-AS 416 GE Y+KPM L +IA +++MHEST+SR KY+H RGI ++K F++ + E S Sbjct: 334 GESYLKPMTLKEIASSMDMHESTVSRAIRDKYIHINRGIVKIKDLFTTGMAASFSEENVS 393 Query: 417 STAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 S I+ +KK+I E+ KPLSD K+ L++E+G+ ++RRTVAKYRE + I S RK+ Sbjct: 394 SLIIKNSIKKMIDNEDRKKPLSDQKICDLINEEGMNISRRTVAKYREEMGIKSSKGRKRF 453 >UniRef50_B1ZUW1 RNA polymerase, sigma 54 subunit, RpoN n=3 Tax=Verrucomicrobia RepID=B1ZUW1_OPITP Length = 498 Score = 239 bits (611), Expect = 1e-61, Method: Compositional matrix adjust. Identities = 160/495 (32%), Positives = 257/495 (51%), Gaps = 34/495 (6%) Query: 5 LQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQI-------------- 50 L+ R +Q L + PQL+Q++++LQ++ L+L+ +Q+ L++NP LE++ Sbjct: 10 LRQRQTQSLVLAPQLRQSLKILQVAALDLRSVIQEELQANPTLEELPMEGESVEKPAETD 69 Query: 51 ---DT-----HEEIDTRETQDSETLDTADALEQKEMPEELPLDASW-DTIYTAGTPSGTS 101 DT HE++ DS T D D +Q E+ ++ D W D G + Sbjct: 70 APNDTSTPGEHEDV-APPGDDSPTRDELDFTKQFEILGKI--DEDWRDHFANVGGAQPFT 126 Query: 102 GDYIDDELPVYQGETTQT-LQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLED 160 + + + ++T LQ++LM QV L + ++ +D+ GYL D Sbjct: 127 AEDAEKRQHFFDSLVSETSLQEHLMQQVVLNDLAPPVHEALHQLIGNLDDRGYLAQSPSD 186 Query: 161 ILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLII 220 I + V LK +Q FDP G+ ++ L DCLL QL + A ++ Sbjct: 187 IALQAN---LPYATVTEALKLLQSFDPPGIGSQTLADCLLAQLHAKGRGDTL---AARML 240 Query: 221 SDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRK 280 DH +LL+ L R + D ++ A+ I LDP PG+ V+PDV+V K Sbjct: 241 RDHFELLSRRRIPELSRKLGVAADDVQAAIEEIGKLDPAPGRRFAEDSNRVVVPDVVVEK 300 Query: 281 HNGHWTVELNSDSIPRLQINQHYASM-CNNARNDGDSQFIRSNLQDAKWLIKSLESRNDT 339 W + LNSD IPRL+++ Y + + + ++R ++ K+LI S+E R T Sbjct: 301 EGDEWKIHLNSDYIPRLRLSSTYRELIAKGTLSKEERDYLRERMRSGKFLIDSIEQRQRT 360 Query: 340 LLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFEL 399 + R++R I+ Q FFE G ++P+ + IA V +HE+T+SR KY+ +P G+FE Sbjct: 361 IERITREIINAQLPFFEHGVSQLRPLTMTQIADVVGVHETTVSRAIANKYMKTPHGVFEF 420 Query: 400 KYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVA 459 KYFF++ E G S+T+++ ++ LIA E+ + PLSD ++ + L E+GI +ARRTVA Sbjct: 421 KYFFTTGYQAESGDSVSNTSVKEMLADLIALEDKSAPLSDQEIVAKLQEKGITLARRTVA 480 Query: 460 KYRESLSIPPSNQRK 474 KYRE L I PSN R+ Sbjct: 481 KYREELGILPSNLRR 495 >UniRef50_C9KMQ5 RNA polymerase sigma-54 factor n=1 Tax=Mitsuokella multacida DSM 20544 RepID=C9KMQ5_9FIRM Length = 455 Score = 239 bits (609), Expect = 2e-61, Method: Compositional matrix adjust. Identities = 129/360 (35%), Positives = 209/360 (58%), Gaps = 12/360 (3%) Query: 119 TLQDYLMWQVELTPFSDTD--RAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVE 176 TL++ L+ QV T F + + RA+AT +V ++D GYLT+P + ++G E +I + Sbjct: 104 TLEEELLEQVNFT-FKENEYERAVATFLVGSLDSRGYLTLPTAEAARAMGCSEAEILRIL 162 Query: 177 AVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLM 236 AV IQ F+P GV A+DL +CL +Q ++ + +I HLD +A H + + Sbjct: 163 AV---IQSFEPAGVGARDLAECLRLQA---ERQGIYEGLIAAVIDRHLDEVAAHRIKEIA 216 Query: 237 RVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPR 296 ++ ++ AV++++ L+P+PG + TG P Y+ PDV++R+ + VE+ +P+ Sbjct: 217 AAEHVEPAAVQMAVDIVRRLNPKPGAAYGTGAPAYITPDVIIRRGEQGYEVEVEESDVPQ 276 Query: 297 LQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFE 356 L I+ Y ++ + ++I S L A WLI S+E R T+ RV IV +Q A+FE Sbjct: 277 LHISALYRQ--SDTFDKATQKYIASRLHAASWLINSIEQRRATIRRVVEEIVRRQPAYFE 334 Query: 357 QGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFS-SHVNTEGGGEA 415 +G +++PM + D+A + +HEST+SR KY P GI L+ FF+ +E G + Sbjct: 335 KGPAFLQPMTMKDVADTIGVHESTVSRAVANKYAELPTGIVALRSFFTLRSTRSETGEDV 394 Query: 416 SSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 ++ ++ ++ LI ENP KPLSD KL +LL +GI ++RRTV KYRE L S +RK+ Sbjct: 395 AAAQAKSAIEALIKGENPKKPLSDQKLCTLLKSKGIALSRRTVMKYREQLGYDSSVKRKR 454 >UniRef50_Q1Q3A8 Strongly similar to RNA polymerase subunit sigma-54 n=1 Tax=Candidatus Kuenenia stuttgartiensis RepID=Q1Q3A8_9BACT Length = 485 Score = 238 bits (608), Expect = 3e-61, Method: Compositional matrix adjust. Identities = 144/485 (29%), Positives = 264/485 (54%), Gaps = 15/485 (3%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M+ L +L Q++ ++PQ+ Q+I +LQL L L + +QQ L NP+LE++ + D+ Sbjct: 3 MQSSLLPQLQQKMKLSPQIIQSIEILQLPLLALAERIQQELLDNPVLEEVVEQPKEDSPV 62 Query: 61 TQDSETLDTA------DALEQKEMPEELPLDASWDTIYTAGTPSGTS-GDYIDDELPVYQ 113 ++DS D ++ E+ + W+ Y+ T ++ D D + + Sbjct: 63 SEDSSIAGENAAQTEWDDAKKAEVDRHNEMAEDWNEYYSKTTIRKSALSDERDQKQEALE 122 Query: 114 GETTQ--TLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEID 171 T+ +L DYL+ Q+ L + +I+ +VD +GYL+ LE+I+ S ++ + Sbjct: 123 NTATKPMSLHDYLLGQLSLMEVPEHLYEACENIIYSVDTSGYLSGSLEEIVSSF-EKPVS 181 Query: 172 IDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHD 231 + + E L+ +Q +P G+ A++L++CLL+QL D P + ++ ++L + + Sbjct: 182 LADAEKALEIVQTLEPPGIGARNLQECLLLQL---DNRDPNYHITKDLLQNYLLEIESRK 238 Query: 232 FRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVEL-N 290 + + + T + +K+ V I++L+P+PG YV+P+V V + +G + V L + Sbjct: 239 YPAIAKKTGYSLETIKKQVEFIRTLNPKPGSVFNDETIPYVVPEVKVEQIDGEYEVFLID 298 Query: 291 SDSIPRLQINQHYASMCNNARNDGDS-QFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVE 349 + +IP L I+ Y + + D + Q+I+ ++ AKWL+ ++E R TL +V+ IV Sbjct: 299 NANIPHLHISSFYRKSLSESNIDSSTRQYIQKKIESAKWLVDAIEQRRSTLYKVACKIVS 358 Query: 350 QQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNT 409 Q+ F ++G ++ + + D+A V +H ST+SR KY+ +P+G+FE+K+FF+ Sbjct: 359 MQKGFLDEGVHRLRTLKMQDVADIVGVHVSTVSRAIAHKYIQTPQGVFEMKFFFTGGFQN 418 Query: 410 EGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPP 469 G S +IR + +++A E+ + PLSD ++ L G+ +ARRTV KYR L IP Sbjct: 419 ADGNMESWESIRQKLIEIVAKEDKSNPLSDEEVADKLGASGVDIARRTVTKYRRILKIPS 478 Query: 470 SNQRK 474 S QRK Sbjct: 479 SRQRK 483 >UniRef50_B0S8M7 DNA-directed RNA polymerase sigma-54 subunit n=6 Tax=Leptospira RepID=B0S8M7_LEPBA Length = 473 Score = 238 bits (608), Expect = 3e-61, Method: Compositional matrix adjust. Identities = 157/479 (32%), Positives = 267/479 (55%), Gaps = 14/479 (2%) Query: 1 MKQGLQL--RLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDT 58 MK G L R +Q+L MT L+Q+I LL LSTLEL ++Q L NPLL+++ E+ Sbjct: 1 MKLGASLSHRQTQKLVMTQDLRQSIELLSLSTLELSDKIQNELLENPLLDELGVDEKTKM 60 Query: 59 RETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGET-T 117 E ++D LE+ + E D +W Y+ P + D + T Sbjct: 61 PELF---SIDEVKRLEK--LNHEKSTDVNWQDSYSLEGPRTYDSEASDRNQKYIESSTRG 115 Query: 118 QTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEA 177 +TL+++L+ Q+ L + + I ++ +D+ G++T L + + +G E ++ Sbjct: 116 ETLEEHLLNQLRLIKLTKLEFEIGEVLISMIDDKGFITDDLTLVAKEMGYPE---PKLRR 172 Query: 178 VLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMR 237 VL+ I DP+G+ AKD+++ LLIQ L + +I + L L D++ + + Sbjct: 173 VLQVINELDPIGIGAKDMQETLLIQGRILFPENTLLHQ---LIGEFLSDLEKVDYKKIAK 229 Query: 238 VTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRL 297 ++ E+ + LI+ L+P P + Q + +YV+ DV+V++ + + +N + +P+L Sbjct: 230 NLKITEEEILSLARLIKKLEPYPATTYQGRKIDYVVADVVVKEVGNEFNIFINDEWLPKL 289 Query: 298 QINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQ 357 I + Y + + ++ ++ A+WLI+S++ R TL RV CI++ Q FF Sbjct: 290 TIQEEYKELLGQKLPPKEKEYFQTKYSSAQWLIRSIQQRRQTLQRVVSCIIDFQVDFFRG 349 Query: 358 GEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASS 417 G ++KP+ L ++A+ + +HESTISR+TT KY+ + GIFELK+FFSS V + GG+ SS Sbjct: 350 GIGFIKPLTLKEVAEKLGLHESTISRITTNKYIQTTWGIFELKWFFSSGVKSAEGGKESS 409 Query: 418 TAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 I +++ L+ E+ PLSD + L+ ++GI +ARRTVAKYR+ L I PSN+RK++ Sbjct: 410 KKIHEIIRNLVKEEDEQNPLSDQDIVELMEKKGIEIARRTVAKYRKVLRILPSNERKRI 468 >UniRef50_UPI0001C34EB5 RNA polymerase factor sigma-54 n=1 Tax=Clostridium sp. M62/1 RepID=UPI0001C34EB5 Length = 469 Score = 238 bits (607), Expect = 4e-61, Method: Compositional matrix adjust. Identities = 129/367 (35%), Positives = 208/367 (56%), Gaps = 10/367 (2%) Query: 112 YQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEID 171 ++ E ++LQDYL Q+ L S D I T +++++D+ GYL PL+ + E + + Sbjct: 106 FRQEDGESLQDYLWSQISLKELSGKDEEIITYLMESLDDRGYLDEPLDSVAERFHEPK-- 163 Query: 172 IDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHD 231 + VE +L ++Q +P GV AKDL +CLL+QL + +P EE I+ +HL+LLA + Sbjct: 164 -ERVEEILSQLQTLEPAGVFAKDLSECLLLQLKRNRMDSPAAEE---IVREHLELLAANK 219 Query: 232 FRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEP-EYVIPDVLVRKHNGHWTVELN 290 + + L + E I++L+PRPG + E Y+IPDV V K + + LN Sbjct: 220 IPVIAKKVHLSVEETAEICQAIRNLNPRPGSHFASREQLSYLIPDVTVVKFADRFEILLN 279 Query: 291 SDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQ 350 + P ++IN +Y M + + ++R L+ A+W+ +E R T++ V++ I+ Sbjct: 280 ESTYPTIEINDYYRKMAVQSDSSQVHDYLREKLRQAEWIRTCMEQRGRTIMNVTKTILML 339 Query: 351 QQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTE 410 Q FFE+G ++KP+ +++A+ + +HEST+SR QKYL GI+ + YFFS ++ E Sbjct: 340 QSEFFEKGPSHLKPLKQSEVAEMIGIHESTVSRAVRQKYLQCSWGIYPMNYFFSRGISEE 399 Query: 411 ---GGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSI 467 GG S ++ + ++I EN KP SD L L E+G ++RRTVAKYRE L I Sbjct: 400 KGRGGRAVSVQEVKNALTEIIREENKKKPFSDRILAEKLEERGFTISRRTVAKYREELGI 459 Query: 468 PPSNQRK 474 P + RK Sbjct: 460 PDAGGRK 466 >UniRef50_A6NQ00 Putative uncharacterized protein n=1 Tax=Bacteroides capillosus ATCC 29799 RepID=A6NQ00_9BACE Length = 459 Score = 237 bits (605), Expect = 6e-61, Method: Compositional matrix adjust. Identities = 149/479 (31%), Positives = 253/479 (52%), Gaps = 35/479 (7%) Query: 5 LQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLE---QIDTHEEID--TR 59 L + L Q ++PQ+ Q++ +LQ+ + EL + +++ ++NP+LE + D +E D R Sbjct: 3 LSMNLRQTQTLSPQMVQSMEILQMGSQELLEFIEETTQANPVLEVDEKYDRQDEFDLMRR 62 Query: 60 ETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQT 119 + + E+ D ++ ++ EE DA P G + E +Y+ Sbjct: 63 KLEWLESTDVQNSWYHRQDAEE---DAD---------PMANYGGVENGEEDLYR------ 104 Query: 120 LQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVL 179 Y++ Q+ + A A +V+++++ G+L + + + G + +E L Sbjct: 105 ---YVLSQLGMLSLERDVMAAAVFVVESLNQNGWLDDDVPALAAAFGCGQ---SVMERAL 158 Query: 180 KRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVT 239 + +Q +P GVAA++L +CL +QL + + E I+ HLD LA F + + Sbjct: 159 EAVQSLEPAGVAARNLSECLRLQLLRRGEGNALALE---IVEHHLDALARSRFGLIAKEL 215 Query: 240 RLKEDVLKEAVNLIQSLDPRPGQSIQTGEP-EYVIPDVLVRKHNGHWTVELNSDSIPRLQ 298 + ++EA LI++L+P+PG E Y+ PD++V H+ V N P L Sbjct: 216 GASAEEVREACALIKTLNPKPGTGFAAREHLTYINPDIIVVSFPDHFEVLANDYFFPSLH 275 Query: 299 INQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQG 358 ++ +Y + + + ++ ++ AKW+++S+E R TLL ++CI+ Q+ FF QG Sbjct: 276 MSGYYQQLMKDTDDQEVKDYLTDKVRQAKWVVRSIEQRRSTLLSCAQCILALQEPFFRQG 335 Query: 359 EEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGE--AS 416 ++ PM LAD+AQ +E+HEST+SR KYL G++ L YFFS + G GE AS Sbjct: 336 PGHLSPMSLADVAQRLEVHESTVSRAIRDKYLQCSMGVYPLSYFFSRGLGGSGDGEEGAS 395 Query: 417 STAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 A + L++KLI E+ A P SD KL L+ EQG ++RRTVAKYR+ L IP + R+Q Sbjct: 396 PEAAKILLRKLIEEEDKAHPHSDQKLRELMGEQGCTISRRTVAKYRDELGIPSTTGRRQ 454 >UniRef50_Q6M9X4 Putative RNA polymerase sigma-54 factor (Sigma-N) n=1 Tax=Candidatus Protochlamydia amoebophila UWE25 RepID=Q6M9X4_PARUW Length = 492 Score = 237 bits (604), Expect = 8e-61, Method: Compositional matrix adjust. Identities = 155/486 (31%), Positives = 267/486 (54%), Gaps = 19/486 (3%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEE---ID 57 M+Q + L+Q+L M+ +QQAI LLQL LEL+ +++ + SNPLL+ I +E I+ Sbjct: 13 MQQKQGMNLTQRLMMSTHMQQAIHLLQLPILELEPFIEEQVVSNPLLDIIPIEKEGAFIE 72 Query: 58 TRETQDSETLDTADALEQKEMPEELPLDASWDTIYTAG--TPSGTSGDYIDDELPVYQGE 115 R T SE ++ ++ +++ LD + + TP S + +++L Y Sbjct: 73 ER-TSASEKMEKEITIDDRDLAILNRLDEDYREHFAGSETTPMKRSSE--EEKLKSYLEN 129 Query: 116 TT---QTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDI 172 + +L + L Q T + + AIA ++ +D G+L PL++I EE Sbjct: 130 SICADPSLLEKLHQQAIDTFNNQQELAIADILIGYIDANGFLKTPLQEICLLHNLEE--- 186 Query: 173 DEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDF 232 V+ +L+ +Q F+P G+AA +++ LLIQL K RLI + +LL NH Sbjct: 187 SAVKDILREMQEFEPYGIAAASIQESLLIQLRCLHKEGKL--AYRLIKDYYNELLHNH-I 243 Query: 233 RTLMRVTRLKEDVLKEAVNL-IQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNS 291 + + + ++EA+ I LD PG + +IPDV +R+ V+++ Sbjct: 244 PLIQKQLKCSFSEIQEAIEKDIAKLDLHPGTHFSAQTSQVLIPDVTLRQEGEKLIVDVDR 303 Query: 292 DSIPRLQINQHYASMCNNARNDGDS-QFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQ 350 D P L+IN+ Y + N++ ++ QFI+ +L A+WL+++L+ R T+ R++ + Sbjct: 304 DRAPTLKINRKYLRLLNDSSTSNETKQFIKRHLFSARWLVRNLQQRYSTIERIAEFLAVN 363 Query: 351 QQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTE 410 Q FF Q + +KP+ + IA A+E+HESTI+R + KY++SP+GIF L+ FF++ +E Sbjct: 364 QYEFFTQPDGQLKPLTMKTIADALELHESTIARTVSNKYINSPKGIFSLRSFFTTKYTSE 423 Query: 411 GGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPS 470 G + S+ ++ + ++I+ EN +P SD K++ L +GI ARRTVAKYR++L + + Sbjct: 424 EGEDLSAKTVKEAILEIISGENKLRPFSDEKISEFLKSKGITCARRTVAKYRQALDLGNT 483 Query: 471 NQRKQL 476 QRK+ Sbjct: 484 QQRKKF 489 >UniRef50_A6CNF4 DNA-directed RNA polymerase subunit N n=1 Tax=Bacillus sp. SG-1 RepID=A6CNF4_9BACI Length = 430 Score = 237 bits (604), Expect = 9e-61, Method: Compositional matrix adjust. Identities = 145/476 (30%), Positives = 252/476 (52%), Gaps = 51/476 (10%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLE-QIDTHEEIDTR 59 + GL R S +L MT QL QAI LLQ S+ EL L+ NPLL+ + ++EE + Sbjct: 3 LNTGLWQRQSLKLNMTQQLTQAIELLQYSSQELNAYLESKALENPLLQLEPVSYEERTRK 62 Query: 60 ETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQT 119 Q+ +G S D+I+ E+ V Q + Sbjct: 63 RNQEY---------------------------------NGMSIDWIE-EIAVQQ----HS 84 Query: 120 LQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVL 179 L ++L Q+ L + DR + + D++DE GYL +E + + ++ + Sbjct: 85 LWEHLNAQLNLKTLNHEDRNTLSLLFDSLDENGYLPSNIESLFR--------VSDLSTYI 136 Query: 180 KRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVT 239 + +Q +P G+ A++L++CLL+Q+ Q D P E A II H ++T+ + Sbjct: 137 EMLQSLEPAGIGARNLKECLLLQI-QRDTEAP--EHAHSIIEHHFAAFCEKTWKTITKEL 193 Query: 240 RLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQI 299 + ++ + +++L+PRPG + P+Y+ P++ V + V+L S+ +++ Sbjct: 194 GITLSDIQLTADYVKTLNPRPGARFTSEAPQYIRPEMNVTRSKDGLEVQLVDGSVMKIKY 253 Query: 300 NQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE 359 N Y + ++++ +F+R Q+ +WL+K L+ R TL++V +C+VE+Q+AFF G Sbjct: 254 NSEYDELIASSKDKEGLKFMRDKKQEFQWLLKMLDQRKTTLMKVGKCLVERQEAFFRYGP 313 Query: 360 EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTA 419 + +KP+ L ++A+ + +HESTISR KY+ +P G +E+K F S V + SS Sbjct: 314 KELKPLTLKEVAETIGVHESTISRAVRGKYIGTPCGTYEMKALFVSGVGKDEDA-VSSEG 372 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 I+A + +++ E+ KPLSD + +L E+G+ V+RRTVAKYR+ L+IP S +RK+ Sbjct: 373 IKAEIMQMVTTEDKKKPLSDQAIAVMLQEKGLHVSRRTVAKYRDQLNIPSSTRRKR 428 >UniRef50_B6YQD2 RNA polymerase sigma-54 factor n=1 Tax=Candidatus Azobacteroides pseudotrichonymphae genomovar. CFP2 RepID=B6YQD2_AZOPC Length = 471 Score = 236 bits (602), Expect = 1e-60, Method: Compositional matrix adjust. Identities = 149/487 (30%), Positives = 248/487 (50%), Gaps = 41/487 (8%) Query: 6 QLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEE--IDTRETQD 63 QL QQ +PQ Q +LL+L+TLE++ + + LE NP+LE+I +E + Sbjct: 5 QLSYKQQQKFSPQQIQQTKLLELTTLEVENRINEELEENPVLEEIPEPDEYGLQIERLNK 64 Query: 64 SETLDTADALEQKEMPEELPLDAS---WDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 S+T E + + S W+ +Y ++ Sbjct: 65 SDTFLGGSLREDNVHSYKFQQNGSLNRWEMVYAE----------------------PESF 102 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIG---DEEIDIDEVEA 177 +YL+ Q++L S+ + I I+ +D+ GY+ + + + I ++ I E++ Sbjct: 103 HEYLLNQLKLKELSEEEIKIGQYIIGNMDDNGYIRQSFQTLSDDISFQYGHDVSISEIKK 162 Query: 178 VLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMR 237 VL+ IQ DP G+ A DL++CLL+QL + K TP I+ H + A + +L + Sbjct: 163 VLESIQGLDPPGIGAGDLQECLLLQLRR-KKITPIRCLVIDILEKHFAIFAKKHYDSLCK 221 Query: 238 VTRLKEDVLKEAVNLIQSLDPRPG---QSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSI 294 + + ++ LK+ + + L+P+PG +S + ++IPD +V +G + ++ Sbjct: 222 IYNISKENLKDVIREVALLNPKPGNICESSMESKLAHIIPDFIVEIIDGKLIFTMAKRNM 281 Query: 295 PRLQINQHYAS-MCNNARNDGDSQ-----FIRSNLQDAKWLIKSLESRNDTLLRVSRCIV 348 P L++N+ Y+ + NN N + F++ + A+W I +++ RN TL I+ Sbjct: 282 PTLKVNEGYSEILSNNVGNKSLKKREVVAFVKKKINSAQWFIDAIKQRNTTLYNTMLAII 341 Query: 349 EQQQAFFEQGEE-YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHV 407 E QQ FF GEE +KPM L D++Q ST+SR T KY+ S GI+ L++FFS + Sbjct: 342 ELQQDFFLTGEEQALKPMKLKDVSQLCGYDISTVSRATINKYIQSDWGIYPLRFFFSEAM 401 Query: 408 NTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSI 467 E G E S+ I+A++K I E+ P +D L +LL ++G +ARRTVAKYRE L+I Sbjct: 402 INEEGEEISTREIKAILKFFIKTEDKKNPFTDDVLANLLKKKGYNIARRTVAKYREQLNI 461 Query: 468 PPSNQRK 474 P S RK Sbjct: 462 PVSRLRK 468 >UniRef50_D1R8J1 Putative uncharacterized protein n=1 Tax=Parachlamydia acanthamoebae str. Hall's coccus RepID=D1R8J1_9CHLA Length = 500 Score = 235 bits (600), Expect = 2e-60, Method: Compositional matrix adjust. Identities = 157/484 (32%), Positives = 258/484 (53%), Gaps = 22/484 (4%) Query: 7 LRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSET 66 L+ +Q++ M+PQ+QQAI LLQ+ +EL ++ LE NP+LE I + E D T+ E Sbjct: 17 LKQTQRMIMSPQMQQAIHLLQMPLMELVDRIETELEQNPILESIQDYPEEDQDLTRLEED 76 Query: 67 LDTADALEQKEMPEELPLDASWDTIYTAGTPS-----GTSGDYI------DDELPVYQGE 115 AD E++ +EL D I SG+Y +++ +Q Sbjct: 77 NSEADLDEEQPPEKELLFDEQDFEILKQIDEDFRDHFAESGNYYTKRTEEEEKQKNFQLN 136 Query: 116 TTQ---TLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDI 172 + Q +L ++LM + T + D IA SI+ DE G+L L +I + D + Sbjct: 137 SIQAHVSLFEHLMTIAQETFANPKDIQIAESIIGNFDERGFLQTSLTEI-AVLND--FSV 193 Query: 173 DEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISD-HLDLLANHD 231 E++ VLK IQ FDP GV A DL++ LIQL K A II D + DLL N Sbjct: 194 KELQRVLKTIQTFDPFGVGASDLQESFLIQLRCQKKEHSL---AYKIIEDCYEDLLHNRL 250 Query: 232 FRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNS 291 + ED+ K I LD PG S + ++PD ++++ +G + + S Sbjct: 251 PIIKKHLNCSIEDIQKAIDKDISKLDLHPGASFSGEIAQTIVPDAMIKEEDGKLDIVVTS 310 Query: 292 DSIPRLQINQHYASMCNN-ARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQ 350 D +P +++N+ Y M + + +D FIR + AKWL++++ RN T+ R+++ + +Q Sbjct: 311 DFLPPIRLNKRYMKMLEDESLSDATRDFIRQRVISAKWLLRNIHHRNTTIDRIAQFLAQQ 370 Query: 351 QQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTE 410 Q AFF+ + + P+ + +A + +HEST++R KY+ +PRG+ ++FF++ T+ Sbjct: 371 QHAFFQNPDGQLVPLTMKTVADNLGLHESTVARAVAGKYVETPRGLLPFRFFFTNAYMTD 430 Query: 411 GGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPS 470 G + S+ +R +K +I E+ +KPLSD K++ LL +GI ARRTV+KYR L++ + Sbjct: 431 EGSDISAETVREAIKDIIDKEDKSKPLSDHKISDLLEIKGIHCARRTVSKYRAELNLGNT 490 Query: 471 NQRK 474 QR+ Sbjct: 491 QQRR 494 >UniRef50_C7PK09 RNA polymerase, sigma 54 subunit, RpoN n=35 Tax=Bacteroidetes RepID=C7PK09_CHIPD Length = 497 Score = 234 bits (597), Expect = 5e-60, Method: Compositional matrix adjust. Identities = 157/490 (32%), Positives = 253/490 (51%), Gaps = 36/490 (7%) Query: 16 TPQLQQAIRLLQLSTLELQQELQQALESNPLLEQI-DTHEE--IDTRETQDSETLDTADA 72 +PQ Q ++LLQ+ T L++ +++ LE NP LE D HE+ D +E ++ D Sbjct: 15 SPQQIQLMKLLQVPTAVLEERIKEELEENPALEYGEDAHEDEYKDPQEEYNNNEEGDDDE 74 Query: 73 LEQKEMPEELPLDASWDTIYTAGTPSGTSGDYID-----------DELPVYQGETTQTLQ 121 E E +D I + S D D DE + Sbjct: 75 FEPDGSENE------YDNIDISEYVSEGDDDIADYKLRDDNYPDQDENKTIPVRVETSFH 128 Query: 122 DYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIG---DEEIDIDEVEAV 178 ++L+ Q+ + + AIA I+ ++D+ GYL + I++ + + D +E+ + Sbjct: 129 EHLLEQLGMLELDERQNAIAEQIIGSIDDDGYLRREVSAIVDDLSFSQNVATDEEEIREL 188 Query: 179 LKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRV 238 ++ IQ FDP G+ A DL++CLL+QL + + + A LI+ ++ D + + + Sbjct: 189 IRMIQEFDPPGICATDLKECLLLQLRRKPQDDFGVVGAYLILENYFDEFTKKHYEKIQKG 248 Query: 239 TRLKEDVLKEAVNLIQSLDPRPGQSIQT--GEPEYVIPDVLVRKHNGHWTVELNSDSIPR 296 + +D LKEA+ I L P+PG + T YV+PD + +NG + LNS + P Sbjct: 249 LNMSDDALKEAIGQIIKLTPKPGGNFATLNKAESYVVPDFFILNNNGKLELTLNSKNAPD 308 Query: 297 LQINQHYASMCNNARNDGDSQ---------FIRSNLQDAKWLIKSLESRNDTLLRVSRCI 347 L+I++ Y M + GD + FI+ + AKW I +++ R TLL I Sbjct: 309 LRISEGYRDMLKEY-DRGDKKDKRQKEAVLFIKQKIDAAKWFIDAIKQRQHTLLSTMESI 367 Query: 348 VEQQQAFFEQGEEY-MKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSH 406 + Q+ FF G+E M+PM+L DIA ++ ST+SRV KY+ + G F+LK+FFS Sbjct: 368 MGYQREFFLTGDETTMRPMILKDIADITQLDISTVSRVANSKYVQTEFGTFKLKFFFSES 427 Query: 407 VNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLS 466 ++T+ G E S+ ++ ++ LI EN KPLSD LT +L ++G +ARRTVAKYRE L+ Sbjct: 428 LSTDSGEEVSTREVKKILSDLIEGENKRKPLSDENLTKMLQDKGYNIARRTVAKYREQLN 487 Query: 467 IPPSNQRKQL 476 IP + RK+L Sbjct: 488 IPVARLRKEL 497 >UniRef50_C7ILW5 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Clostridium papyrosolvens DSM 2782 RepID=C7ILW5_9CLOT Length = 452 Score = 234 bits (596), Expect = 6e-60, Method: Compositional matrix adjust. Identities = 144/477 (30%), Positives = 256/477 (53%), Gaps = 32/477 (6%) Query: 4 GLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRET-- 61 +++ L+Q++A++PQ+QQ++ +LQ+ST EL ++Q NP++E D + D E Sbjct: 2 NIEINLNQKMAISPQMQQSMEILQMSTQELMDYVKQLAVDNPVVEFDDQPYDNDRSEILR 61 Query: 62 QDSETLDTADALEQKEMPEELPLDASWDTI--YTAGTPSGTSGDYIDDELPVYQGETTQT 119 + E LD+ + E + +L D + Y G DE +YQ Sbjct: 62 KKLEWLDSVNK-EYRVYNHDLEEDEENKDVAHYMRG-----------DEEDLYQ------ 103 Query: 120 LQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVL 179 +L Q+ L ++ +D+ GYL +D+ +++ ID + E L Sbjct: 104 ---HLQSQLNLMKAPKELCKTIQYMIGCIDKNGYLQEKTDDMAKAL---RIDEKKAEMAL 157 Query: 180 KRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVT 239 ++Q +P GV A++L++CLL+QL + ++ P + +++ +L+LL + + + Sbjct: 158 HQLQLMEPAGVGARNLKECLLLQLERLNQNNPLV---ITLVNCYLELLGKNQLNLIAKTL 214 Query: 240 RLKEDVLKEAVNLIQSLDPRPGQSIQTG-EPEYVIPDVLVRKHNGHWTVELNSDSIPRLQ 298 + D + +A +I+ L+PRPG + Y PD+++ K ++ V LN+ S P + Sbjct: 215 GVSIDKVNDAFKIIKKLNPRPGMGFGAKRDIHYQTPDLVIVKFCDYYEVLLNNFSDPHIS 274 Query: 299 INQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQG 358 I+ +Y ++ + +D +I L++A W IK + RN+TLL V++ +V QQ FF++G Sbjct: 275 ISSYYRNVLSQNPSDNVKNYISDKLKEADWAIKCITQRNNTLLNVTKMLVNQQIGFFDKG 334 Query: 359 EEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASST 418 Y+ PM IA +++HEST+SR KYL GIF L YFF++ ++ + Sbjct: 335 PSYLIPMNQKCIADKLQIHESTVSRAIRGKYLQCSWGIFGLDYFFTNGLSIGYDSQIVPD 394 Query: 419 AIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 AI++ +KK+I E+ KP SD K+ +L+++GI +ARRT+ KYRE + IP + RK+ Sbjct: 395 AIKSDIKKIITEEDRKKPYSDQKIAEILNKKGISIARRTITKYREDMEIPKAGMRKE 451 >UniRef50_P24219 RNA polymerase sigma-54 factor n=7 Tax=Bacillus RepID=RP54_BACSU Length = 436 Score = 233 bits (594), Expect = 1e-59, Method: Compositional matrix adjust. Identities = 124/362 (34%), Positives = 207/362 (57%), Gaps = 12/362 (3%) Query: 118 QTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEA 177 +TLQD L Q ++T++ I ++ ++D GYL EDI E+ + E EA Sbjct: 81 KTLQDALKQQSLDMNLTNTEKKIFNYLIHSLDSNGYLE---EDIEEAARRLSVSAKEAEA 137 Query: 178 VLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMR 237 VL ++Q +P G+ A+ L++C+L+QL + E+A +++S H D A ++TL Sbjct: 138 VLAKLQSLEPAGIGARSLQECILLQLQRLPNRN---EQAEMLVSAHFDAFAQKKWKTLSV 194 Query: 238 VTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPE---YVIPDVLVRKHNGHWTVELNSDSI 294 T + +++ + I +L PRPG + PE Y+ PD+ + NGH ELN+ S Sbjct: 195 ETGIPLHTIQDISDDIAALHPRPG--LLFARPEQDVYIEPDIFITVKNGHIAAELNTRSF 252 Query: 295 PRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAF 354 P + ++ Y ++ ++ ++ + Q+ +WL ++L R T+ R+ ++ +Q+ F Sbjct: 253 PEIDLHPQYRTLLSSGSCQDTVSYLSAKYQEWRWLSRALRQRKQTITRIINELITRQKDF 312 Query: 355 FEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGE 414 F +G MKP+ L ++A + +HEST+SR K + +P G+FE+K FFS+ G G+ Sbjct: 313 FLKGRSAMKPLTLREVADCLSLHESTVSRAIKGKTIQTPYGLFEMKLFFSAKAEASGDGD 372 Query: 415 ASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQ-GIMVARRTVAKYRESLSIPPSNQR 473 AS+ A++ ++ LI E+ KPLSD KL LL EQ GI ++RRTVAKYR+ ++IP S R Sbjct: 373 ASNYAVKTHLENLINQEDKTKPLSDQKLVDLLYEQHGIQISRRTVAKYRDQMNIPSSAAR 432 Query: 474 KQ 475 K+ Sbjct: 433 KR 434 >UniRef50_Q2B706 DNA-directed RNA polymerase subunit N n=1 Tax=Bacillus sp. NRRL B-14911 RepID=Q2B706_9BACI Length = 443 Score = 229 bits (585), Expect = 1e-58, Method: Compositional matrix adjust. Identities = 153/477 (32%), Positives = 257/477 (53%), Gaps = 40/477 (8%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M GL + S +LAMT +L QAI LLQ S LEL L+ NPL+ QI+T E + + Sbjct: 3 MNAGLFQQQSLKLAMTQELSQAIALLQYSALELTAFLESRALENPLM-QIET-ENVRAMD 60 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 + + L++ D SW A D L L Sbjct: 61 PRRDRVRGASSKLKKD--------DRSWIEQIRA-----------KDNL----------L 91 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 +DYL+ Q+E+ S I I+ ++DE GYL + +I + + E D E L Sbjct: 92 EDYLISQLEIKYISPLMDKIIRRIIKSIDENGYLRESVTEIADELCVSEGDAAE---ALA 148 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 +Q +P G+ A+ L++CLL+Q+ + +P + A +I+ +H + A+ ++ L + Sbjct: 149 ELQLLEPAGIGARTLQECLLLQVQRL--LSP-DDLAEVIMEEHFEWFADKKWKQLASLLG 205 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQIN 300 ++ ++ +L+++L+PRP + Y++PDV V + + + + +P++ N Sbjct: 206 VELKDIQRVSDLVRTLNPRPAAAFSKESAGYIVPDVAVSWDGSSFLITVQDELLPKVSFN 265 Query: 301 QHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 Y + + ++++ QD W+++SLE R DT+ +V+ +VE+QQ FF +G Sbjct: 266 SQYYESFKSTGDKEVRKYLQDRSQDYNWIVRSLEQRKDTIKKVTMKLVEKQQDFFIEGPA 325 Query: 361 YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAI 420 ++PM + +IA +E+HEST+SR +KY+ +P G FELK FF+S V T G ASS ++ Sbjct: 326 KLRPMTMKEIADELEIHESTVSRTVREKYVQTPFGTFELKTFFTSAVKTTGADGASSASV 385 Query: 421 RALVKKLIAAENPAKPLSDSKLTSLLSEQG--IMVARRTVAKYRESLSIPPSNQRKQ 475 + + ++ AE+ KPLSDS++ S+L E+G I+++RRTVAKYR+ L IP S +RK+ Sbjct: 386 KKKIAAMVEAEDKLKPLSDSEIMSIL-EKGDAIVISRRTVAKYRDQLGIPSSAKRKR 441 >UniRef50_A6DS74 Putative uncharacterized protein n=1 Tax=Lentisphaera araneosa HTCC2155 RepID=A6DS74_9BACT Length = 470 Score = 228 bits (582), Expect = 3e-58, Method: Compositional matrix adjust. Identities = 140/476 (29%), Positives = 253/476 (53%), Gaps = 25/476 (5%) Query: 9 LSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSETLD 68 + Q+ + P ++ +L L +ELQQ++ + L NP LE E + T Sbjct: 11 MRQEQTLAPHQLLSLEILSLPVMELQQKINEELALNPTLELDKALGENLAGDPLSESTEM 70 Query: 69 TADALEQKEMPEELPLDASWDTIY--TAGTPS--GTSGDYIDDELPVYQGETTQTLQDYL 124 T++A+ + E L ++ Y +A P Y D Q L +L Sbjct: 71 TSEAMNAVDKDESLIGMVQLESYYGDSAFNPDQDKKRQHYFD------SLSCEQDLSSFL 124 Query: 125 MWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQR 184 + Q+ SD D IA I+ +++ GYL +E++ + + + VL+ +Q Sbjct: 125 LSQIHQGEISDEDIEIANVIIALLNDRGYLNASIEEV---AFNAMCPLKDASRVLELLQT 181 Query: 185 FDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLI---ISDHLDLLANHDFRTLMRVTRL 241 FDP G+AA+DLR+CLLIQL E+ LI + HL+ L + + + R ++ Sbjct: 182 FDPPGIAARDLRECLLIQLKN--------EKGSLIYRLVDKHLEKLEKNKIKEIARSLKI 233 Query: 242 KEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQ 301 +++ + +Q L+P PG + P+++ PD++ + V + D +PRL++++ Sbjct: 234 SPIEVQDLIEYLQRLNPAPGLAYSNKRPDFISPDIIFELKDDEIEVTSSKDFVPRLRLSE 293 Query: 302 HYASMCNNARNDGDSQ-FIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 ++ +M + + + +++ ++R L +++ L+ SL+ R TLLR+SR + Q++FF Sbjct: 294 NFMNMLEDPKVEAETKTYLREKLAESRSLLASLDLRESTLLRISRLVARDQKSFFTGKSS 353 Query: 361 YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAI 420 ++P+ + +I+ +E+HE+TISR KYL SP+GIF L+ FF+ V G E ++ I Sbjct: 354 SLQPVTMREISGELELHETTISRAVAGKYLDSPKGIFPLRDFFNHAVKVNEGEEMTAEGI 413 Query: 421 RALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 + +++++I E+P KP+SD K+ + L E GI +ARRTVAKYRE+ +++RK + Sbjct: 414 QEIIREIINDEDPEKPISDGKILTQLEEMGINIARRTVAKYREAAGFSAASKRKMI 469 >UniRef50_A4ISQ1 RNA polymerase sigma-54 factor RpoN n=3 Tax=Bacillaceae RepID=A4ISQ1_GEOTN Length = 435 Score = 228 bits (581), Expect = 3e-58, Method: Compositional matrix adjust. Identities = 158/467 (33%), Positives = 241/467 (51%), Gaps = 51/467 (10%) Query: 12 QLAMTPQLQQAIRLLQLSTLELQQEL-QQALESNPLLEQIDTHEEIDTRETQDSETLDTA 70 QL++T +L QAI LLQ S L+L+ L +Q+LE NP L EI + + Sbjct: 12 QLSLTKELVQAIELLQYSALDLEAFLYEQSLE-NPFL-------EIRRGRMRRRTSRTDK 63 Query: 71 DALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVEL 130 D +K+ E + SG T+TL +L+ Q+ Sbjct: 64 D---RKQWLENI------------------SG-------------RTETLAGHLLAQLPG 89 Query: 131 TPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGV 190 + + ++ A+DE GYL VPL ++ E EVE L+ +Q DP GV Sbjct: 90 LMLPAKEERMVRHLIAALDEDGYLRVPLAELAARFSVSE---QEVERALRFVQSLDPPGV 146 Query: 191 AAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAV 250 A+DL +CLL+QL + + E A I+ H A ++TL + + L+ Sbjct: 147 GARDLAECLLLQLERRPERD---ELAETIVRHHFVAFAEKAWKTLAKQLGVSLGELQRVF 203 Query: 251 NLIQSLDPRPGQSIQTGEPEYVIPDVLV-RKHNGHWTVELNSDSIPRLQINQHYASMCNN 309 LI++L+PRPG P +++PD++V R+ +G W V N D P L N+ Y Sbjct: 204 ELIRTLEPRPGIHYANETPHFIVPDLIVTRQADGGWIVTYNDDIHPELGWNKEYERHIVA 263 Query: 310 ARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLAD 369 + +F++ + WL KSLE R TL+ + I+++Q++ FE G +KPM + + Sbjct: 264 VGDRHAERFMKEKYRQFTWLAKSLEQRKQTLVHLMGIIIDRQRSCFESGLSALKPMTMRE 323 Query: 370 IAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIA 429 +A+ + +HEST+SR KY+ +P G+ EL+ FFSS G ASS ++A+++ LI+ Sbjct: 324 VAEELGVHESTVSRAVRHKYVQTPFGMIELRRFFSSAATAGAGETASSVQVKAIIQTLIS 383 Query: 430 AENPAKPLSDSKLTSLLSEQ-GIMVARRTVAKYRESLSIPPSNQRKQ 475 AE+ PLSD +L LL +Q GI ++RRTVAKYRE L IP S +RKQ Sbjct: 384 AEDRRAPLSDQQLADLLRDQHGIAISRRTVAKYREQLRIPSSAKRKQ 430 >UniRef50_D2R5L0 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Pirellula staleyi DSM 6068 RepID=D2R5L0_9PLAN Length = 494 Score = 228 bits (580), Expect = 5e-58, Method: Compositional matrix adjust. Identities = 153/495 (30%), Positives = 257/495 (51%), Gaps = 35/495 (7%) Query: 4 GLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQID------------ 51 GL+ R Q + P++ Q++ +LQL ELQ+ ++Q L NPLLE +D Sbjct: 6 GLEARQVQVQKLAPRMIQSMEILQLPLQELQERIEQELAENPLLEMLDRDPSLPDEQVER 65 Query: 52 ---THEEIDTRETQDSETLDTADALEQ-----KEMPEELPLDASWDTIYTAGTPSGTSGD 103 +++D + E + AD E+ +E+P+ D S + S + D Sbjct: 66 ELPNEKDVDDKPIVVDEAHNNADDFERLLNLDREVPDYF--DESRRSSNRMEEDSDRAHD 123 Query: 104 YIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVD--ETGYLTVPLEDI 161 I + + ++LQD+L+ Q+ S +A I+ +D + GY L D+ Sbjct: 124 VISN-----VADRPESLQDHLLHQLGEMDLSLELMQMAERIISTLDPLDGGYFRSSLRDL 178 Query: 162 LESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIIS 221 L +E I E L IQ+ DP G+ A+DLR+CLL+QL+ T EE + +I+ Sbjct: 179 LPIDATKE-QIALAERALALIQQLDPPGIGARDLRECLLLQLT---PTMFMYEELKTLIT 234 Query: 222 DHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDV-LVRK 280 HL+ L ++ + + T D +++A + ++ L+P+P V PDV +VR Sbjct: 235 SHLEDLRDNRLPLIQKSTGYSIDRIQKAWSELRKLNPKPASGFSEAFVPNVTPDVAVVRG 294 Query: 281 HNGHWTVELNSDSIPRLQINQHYAS-MCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDT 339 +G + V+++ P L I+++Y + + + ++I+ + A+WLI+S+E R T Sbjct: 295 EDGQYLVQVDESRTPTLHISKYYRERLASGTATPEEREYIKRKINAAQWLIESIEQRRST 354 Query: 340 LLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFEL 399 L +VS+ IV+ Q F ++G E+++P+ + IA V +H +T+SR K++ +PRGIF L Sbjct: 355 LTKVSQAIVDHQTKFLDEGPEHIEPLKMQQIADKVGVHVTTVSRAVDDKFIQTPRGIFPL 414 Query: 400 KYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVA 459 K FF T G + + IR +++++ EN PLSD L L +QG+ VARRTV Sbjct: 415 KRFFVGGTQTAEGDDVAWDIIRIRLQEIVDKENKQAPLSDDDLVEELKKQGLNVARRTVT 474 Query: 460 KYRESLSIPPSNQRK 474 KYR+ + IP S QR+ Sbjct: 475 KYRQKMGIPSSRQRR 489 >UniRef50_A3V230 Sigma-54 factor (RpoN2) n=1 Tax=Loktanella vestfoldensis SKA53 RepID=A3V230_9RHOB Length = 445 Score = 227 bits (578), Expect = 9e-58, Method: Compositional matrix adjust. Identities = 149/479 (31%), Positives = 247/479 (51%), Gaps = 46/479 (9%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M L Q L TPQLQQAI+LL + LEL +++ E NP +E Sbjct: 1 MTPNAHLAQKQSLVFTPQLQQAIKLLLFNNLELSNYVEKIAEENPFVE------------ 48 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 E+PE + + + D D + + +TQ Sbjct: 49 ---------------VELPEM--------RVPAPRVMASSQRDPSFDPISLLADRSTQGF 85 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 L QV+ ++RAI +I VD +G+L++P + +++G +D V VL+ Sbjct: 86 AAQLFAQVDDILTEQSERAIGYAIASHVDPSGWLSIPTPLLADNLG---VDDACVCTVLR 142 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 ++Q +P G+ A++L +CL++Q+ D A LII +L L+ L R T Sbjct: 143 KLQSAEPAGLFARNLAECLVLQIVADDPD----RSALLIIMQNLVLVERGAIPELRRKTG 198 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYV-IPDVLV-RKHNGHWTVELNSDSIPRLQ 298 + +K + ++ +P+PG ++ PD+L R +G W VELN ++P L+ Sbjct: 199 CSAEEVKRLLRRLREFNPKPGLALSDDVMMSARAPDILAARGQDGEWYVELNGATLPILK 258 Query: 299 INQHYASMCNN-ARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQ 357 +++ ++D D ++R L +A+WL +++ RN+T ++V+ IV Q+AF E Sbjct: 259 VDEVEGRRVRKLVKHDSDQAYVRDTLGNARWLKRAIAQRNETSIKVAAEIVRFQKAFLEH 318 Query: 358 GEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEA-S 416 G ++M+P+ L +A AV +HESTISRVT+ + +P+G F LK FFS+ ++ +G E S Sbjct: 319 GMQHMRPLKLKTVADAVGLHESTISRVTSSLMMQTPQGSFPLKTFFSTAIDLDGTDEGVS 378 Query: 417 STAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 + +R ++ LI AENP+ PLSD + L +G+ +ARRT+AKYR+ IP S+QR++ Sbjct: 379 ARMVREKIRNLIGAENPSGPLSDEFIAQSLQCEGLSIARRTIAKYRKLDKIPSSSQRRR 437 >UniRef50_Q9K710 RNA polymerase sigma factor (Sigma54) n=1 Tax=Bacillus halodurans RepID=Q9K710_BACHD Length = 445 Score = 226 bits (577), Expect = 1e-57, Method: Compositional matrix adjust. Identities = 155/479 (32%), Positives = 260/479 (54%), Gaps = 40/479 (8%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M+ GL + + L MT +L+QAI LLQ ST++L +++ NPL+E D + + Sbjct: 1 MEFGLFQQQTTSLVMTNELRQAISLLQYSTVDLAAFIEEQALENPLIELKDRSDRV---- 56 Query: 61 TQDSETLDTADALEQKEMPE-ELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQT 119 L + ++E PE E LD S + + DY+ E Sbjct: 57 ------LSEHIRMMREERPEGEGTLDWSQSSPF----------DYLHVE--------RLN 92 Query: 120 LQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVL 179 L DYL+ Q P + + + ++ + GYL+ L + +G + E E L Sbjct: 93 LSDYLIQQARDLPLNKNEFEWLCYFIYSLRDDGYLSRSLHSLQADLG---LTDQEAEKTL 149 Query: 180 KRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVT 239 +Q +P G+ A+ L++CLL+QL + + P A I+ +++LLA ++ + Sbjct: 150 YHLQHLEPAGIGARSLQECLLLQLQRKKQRDPL---AETIVEHYMELLAEKRWKMIADDL 206 Query: 240 RLKEDVLKEAVNLIQSLDPRPGQSIQTGEP-EYVIPDVLVRKHNGHWTVELNSDSIPRLQ 298 ++ ++ + IQ LDPRPG I GEP Y++PDV + G T+ L D +P++ Sbjct: 207 QISLADVQRVYDCIQQLDPRPGSQI-GGEPTNYLVPDVTIDWVEGELTILLQDDYLPKIT 265 Query: 299 INQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQG 358 +N+ Y ++ + + +Q+ + +WL+KS++ R TLL+V+ I+ +Q+AFFE+ Sbjct: 266 LNRQYQTLLTDGEGEA-AQYAKEKYHQMQWLVKSIQQRQQTLLKVTEAILRKQRAFFEEK 324 Query: 359 EEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEA-SS 417 E ++P+ L ++A+ + +HEST+SR TT KY +PRG+ ELK FF S +++ G + SS Sbjct: 325 EGALQPLTLREVAEEIGVHESTVSRATTNKYAQTPRGLLELKSFFVSSISSRFGEKGPSS 384 Query: 418 TAIRALVKKLIAAENPAKPLSDSKLTSLLSEQ-GIMVARRTVAKYRESLSIPPSNQRKQ 475 +++ LV+KL+ EN AKPLSD K+ LL +Q + +RR +AKYR+ L IP S +RK+ Sbjct: 385 DSVKKLVRKLVEEENKAKPLSDQKIAHLLKDQYNVEASRRVIAKYRDELGIPSSTKRKR 443 >UniRef50_B2RK26 RNA polymerase sigma-54 factor n=2 Tax=Porphyromonas gingivalis RepID=B2RK26_PORG3 Length = 485 Score = 225 bits (574), Expect = 2e-57, Method: Compositional matrix adjust. Identities = 161/511 (31%), Positives = 255/511 (49%), Gaps = 61/511 (11%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 +KQ L R Q L++ Q+QQ I+LL+L +EL++ +Q+ LE+NP LE+ Sbjct: 2 LKQTLAQRQQQNLSVQ-QIQQ-IKLLELPAIELEERIQKELEANPALEE----------G 49 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDY-IDDELPVYQGETTQ- 118 D E +AD E D + T + GDY ++++P Y+ Q Sbjct: 50 AYDEEVAGSADGTE--------------DNLMGDDTSDLSLGDYRTEEDIPEYKLREIQD 95 Query: 119 ---------------TLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILE 163 +L D L+ Q++ P +D + +A I+ ++E GYL LE+IL+ Sbjct: 96 RNSRREEIPFSAAVPSLNDRLVEQLKFLPLTDRQQQLAPYIIGNIEEDGYLHRDLEEILD 155 Query: 164 SIGDE---EIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLII 220 + E D EVE V+ +Q DP G+ A+DL++CLL+QL + TT + A I+ Sbjct: 156 DLAFRAGIEADKKEVEEVIGLVQSLDPPGICARDLKECLLLQLKRLPDTTAR-QTALHIL 214 Query: 221 SDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSI---QTGEPEYVIPDVL 277 ++H D + F L L + +KEA LI L+P+P V PD + Sbjct: 215 TNHYDDFVSKRFEQLQEGASLSDSEMKEAFELIMQLNPKPANGWGDDAEATMNRVHPDFI 274 Query: 278 VRKHNGHWTVELN-SDSIPRLQINQHYASMCNNARNDGDSQ---------FIRSNLQDAK 327 V + V L I L+++ Y M + ++ ++ F++ + A+ Sbjct: 275 VERMGDDLVVSLTRGRDIQPLRVSPVYQEMMQDYQSSAKNRSRERKQTLLFVKQKVDQAQ 334 Query: 328 WLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE-EYMKPMVLADIAQAVEMHESTISRVTT 386 W I++L R +TL R IV Q A+F GE +KPM+L D+A STISRV+ Sbjct: 335 WFIEALRQRRETLQRTMEAIVRLQDAYFRSGELADLKPMILKDVADPTGYDVSTISRVSN 394 Query: 387 QKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLL 446 KY+ + GIF LK+FFS + G E S+ ++ ++ + I +E+ PL+D++L +L Sbjct: 395 SKYVQTDFGIFSLKHFFSDGTVNDKGEEVSTREVKRVLAEAIDSEDKRSPLNDTELAEVL 454 Query: 447 SEQGIMVARRTVAKYRESLSIPPSNQRKQLV 477 +E G +ARRTVAKYRE L P + RK++V Sbjct: 455 AENGYRLARRTVAKYREQLGYPTARMRKEVV 485 >UniRef50_C5ELZ1 RNA polymerase n=3 Tax=Clostridiales RepID=C5ELZ1_9FIRM Length = 461 Score = 225 bits (574), Expect = 3e-57, Method: Compositional matrix adjust. Identities = 144/487 (29%), Positives = 257/487 (52%), Gaps = 42/487 (8%) Query: 5 LQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQID------THEEIDT 58 L+L++ Q ++ ++ Q+ +LQ+++ EL + + NP+++ ++ E I+ Sbjct: 3 LKLQVKQTQTLSQRMIQSAEILQMTSQELNTYINELALENPVIDIVEPPAGNQQKESIEE 62 Query: 59 RETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQ 118 ++ +S + +++ ++ SW+ T G + Sbjct: 63 QQWLNSFNEENYYLYQRQNNDDDYDFKNSWNI----NTDDG------------------E 100 Query: 119 TLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAV 178 TLQDYL Q+ FS + + +++++D GYL +EDI + D+ VE + Sbjct: 101 TLQDYLWSQLVTEEFSSLETDMIKFMLESLDNKGYLGEGVEDIASYF---QTDLSVVERL 157 Query: 179 LKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRV 238 L +Q+ DP GV A++L +CL +QL + TP L II+ L+++A + + R Sbjct: 158 LYTLQQLDPAGVCARNLEECLSLQLERRQMLTPVLSS---IINGCLEMVARNQIPAIARK 214 Query: 239 TRLKEDVLKEAVNLIQSLDPRPGQSIQTGEP-EYVIPDVLVRKHNGHWTVELNSDSIPRL 297 L + +I+SL+P+PG S + E Y+IPDV + K H+ + LN P + Sbjct: 215 LHLSQAEAAGYCQIIKSLNPKPGVSFSSREKLRYIIPDVTIVKFKEHFDILLNESMYPNI 274 Query: 298 QINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQ 357 +IN +Y+ M N + +++ + ++ A+W+ + + R TL++VS+ I+E Q+ FF Sbjct: 275 EINSYYSQMNRNPDSAELKEYLSNKIRQAEWVRQCVTQRGKTLMQVSKSILEHQEGFFTY 334 Query: 358 GEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHV----NTEGGG 413 G ++ P+ LADIAQ +++HEST+SR ++KYL G++ + +FFS V NT Sbjct: 335 GPSHLAPLKLADIAQELDIHESTVSRAVSKKYLQCSWGVYPMNFFFSRKVSVQENTADPD 394 Query: 414 EASSTA---IRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPS 470 AS+ I+ ++++I AE+ KP SD L L+E+GI ++RRTVAKYRE I + Sbjct: 395 NASAVTAADIKRALREIIDAEDKKKPYSDRLLGEKLAERGISISRRTVAKYREEEGIADA 454 Query: 471 NQRKQLV 477 + RK+ V Sbjct: 455 SGRKEYV 461 >UniRef50_A4SER6 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Chlorobium phaeovibrioides DSM 265 RepID=A4SER6_PROVI Length = 447 Score = 225 bits (573), Expect = 3e-57, Method: Compositional matrix adjust. Identities = 159/481 (33%), Positives = 240/481 (49%), Gaps = 47/481 (9%) Query: 6 QLRLSQQLAMTPQLQQAI--RLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQD 63 + RL Q+ QQ I +LLQL L+Q + + L+ NPLLE ++ +E Sbjct: 3 EFRLQQKQKAQLSTQQIISSQLLQLPLANLEQRIYEELQENPLLEAVEAEKE-------- 54 Query: 64 SETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDY 123 ++L+++E S + +Q + + Sbjct: 55 -------NSLDERERSSASSGGQSSGEHF-------------------FQAVQFDSFHEI 88 Query: 124 LMWQVELTPFSDTDRA---IATSIVDAVDETGYLTVPLEDILES--IGDEEIDIDEVEAV 178 L+ Q+ L + +R +A I+ +D GY E I++S I E+D DEVEA+ Sbjct: 89 LLKQLALQ--ENIERGEVEVAIEILGNLDSDGYFVEDPEVIVDSLRIAGLEVDGDEVEAI 146 Query: 179 LKRIQRFDPVGVAAKDLRDCLLIQL--SQFDKTTPWLEEARLIISDHLDLLANHDFRTLM 236 +I DP GVAA DLR+ LL+QL S+ + A I+ H D + F L+ Sbjct: 147 RLKILHLDPPGVAALDLRERLLVQLHSSRGKASVRVRGVAEAILIHHFDDFIHRRFERLV 206 Query: 237 RVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPR 296 + + + + A+N I +LDP PG Q Y+ PD LV NG T LN S Sbjct: 207 KKLPHQPEEIDAAINAIVALDPHPG-IFQDEGGHYISPDFLVSFDNGELTASLNDRSALS 265 Query: 297 LQINQHYASMCNNARNDG-DSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFF 355 ++++ Y + + D QFIR N+Q A +LESR TLL+V +++ Q AFF Sbjct: 266 VKVSDRYRDILGKRQGSKEDLQFIRRNMQRANDFASALESRRQTLLKVIESLMKHQYAFF 325 Query: 356 EQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEA 415 G ++ P+ + IA + STISR KY+ + G+FELKYFF+ + T+ G + Sbjct: 326 ADGPAFLAPLGMKTIAADTGLDISTISRAANSKYVQTRFGVFELKYFFTGAIQTDDGEDV 385 Query: 416 SSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 SS I+ + +I AE P+KPLSD +LT++LSEQG +ARRTVAKYRE + IP + RK+ Sbjct: 386 SSKVIKQHLADMIEAEEPSKPLSDDRLTAMLSEQGFQIARRTVAKYREQMQIPVARLRKK 445 Query: 476 L 476 + Sbjct: 446 I 446 >UniRef50_Q1IR37 Sigma-54, RpoN n=1 Tax=Candidatus Koribacter versatilis Ellin345 RepID=Q1IR37_ACIBL Length = 577 Score = 225 bits (573), Expect = 3e-57, Method: Compositional matrix adjust. Identities = 112/312 (35%), Positives = 184/312 (58%), Gaps = 10/312 (3%) Query: 173 DEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFD---------KTTPWLEEARLIISDH 223 D + + IQ DPVGVA +DLR+CLLIQL F+ +++ ++SDH Sbjct: 263 DALREAIHIIQNLDPVGVATQDLRECLLIQLRYFEGLPHKNGNGHIAQAIDDGIRMVSDH 322 Query: 224 LDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNG 283 + L N ++ + + + + A++ I++LDP+PG E + PDV K Sbjct: 323 MHELQNKQYKEISKALGRPIESITAALDFIRTLDPKPGLRYNKQETRLIEPDVAFVKQGD 382 Query: 284 HWTVELNSDSIPRLQINQHYASMCNNARNDGDSQ-FIRSNLQDAKWLIKSLESRNDTLLR 342 + V +N + IP+L++N Y + N + D + +++ + A LIK++E R T+L+ Sbjct: 383 EYIVVMNDEEIPQLRVNPGYKRLLNRDAAEKDVRNYVKERYKSAIQLIKNIEQRKQTILK 442 Query: 343 VSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYF 402 V I+ +Q+ F + G + +KPM++ ++A+ + +H ST+SR KY+H+ +G++EL+YF Sbjct: 443 VCYSIINRQRDFLDHGIDQLKPMMIKEVAEEIGVHPSTVSRAVANKYVHTSQGVYELRYF 502 Query: 403 FSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYR 462 FS VN GG S ++ VKKLI E+PA+PL+D ++T +L QGI V RRTVAKYR Sbjct: 503 FSESVNGPEGGATSLLILKRRVKKLIEEEDPARPLTDEQITRILQSQGIQVTRRTVAKYR 562 Query: 463 ESLSIPPSNQRK 474 E + IP ++QR+ Sbjct: 563 EDMRIPSTHQRR 574 Score = 59.3 bits (142), Expect = 3e-07, Method: Compositional matrix adjust. Identities = 53/177 (29%), Positives = 87/177 (49%), Gaps = 15/177 (8%) Query: 5 LQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTH----EEIDTRE 60 L L++SQ+ +TP L Q + +L L+ +EL++ + + + NP+LE++D + ++I +E Sbjct: 8 LNLKVSQKQILTPGLVQMVSVLALNKMELKEMINEEMIENPVLEELDENVPLIDDISAKE 67 Query: 61 TQDSETLDTADALEQKEMP------EELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQG 114 Q A A E P EE+ + + G S S + D E P ++ Sbjct: 68 EQRDRDSSLATAEEAPATPEAKDPFEEIDFGSFFQEYLDPGYRS--SSEIEDVERPSFEN 125 Query: 115 ETTQ--TLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEE 169 ++ TL D+LMWQ+ D A A I+ +++ GYLT ED L I EE Sbjct: 126 FLSKPTTLTDHLMWQLGSMHLKDDVLAAAELIIGNLNDEGYLTAS-EDELLGISTEE 181 >UniRef50_B2V793 RNA polymerase, sigma 54 subunit, RpoN n=5 Tax=Aquificales RepID=B2V793_SULSY Length = 439 Score = 224 bits (570), Expect = 7e-57, Method: Compositional matrix adjust. Identities = 150/481 (31%), Positives = 254/481 (52%), Gaps = 50/481 (10%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 MKQ L L+L +L +T L+ + ++ + EL QE+ LE NP LE EEI Sbjct: 1 MKQNLGLKLQHKLNLTLSLKHQLNIMVMPKQELLQEIIHELEENPFLE-----EEIHINN 55 Query: 61 TQDSETLDTADALEQKEMPEEL-PLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQT 119 + D + + + E EEL PL+ Y+ +T Sbjct: 56 DYQEKLTDLSVSYSEDE--EELNPLNRL-----------------------TYKPSLLKT 90 Query: 120 LQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVL 179 L+ Q++L F ++ IA I+D +DE GY + E + E +DI+ VE + Sbjct: 91 LE----IQIDLE-FDGKEKEIALDIIDNLDEKGYASQ--ESLNEIASKYNVDIEAVEKIR 143 Query: 180 KRIQRFDPVGVAAKDLRDCLLIQL-SQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRV 238 K++ + +P G+ AK L + L+ + +F + + A II + L+ + + ++ L++ Sbjct: 144 KKLMKLEPTGLGAKSLTEFLITEYREKFGRDSI----AEQIIQEDLNKIKDKEY--LLKK 197 Query: 239 TRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGH---WTVELNSDSIP 295 ++ E+ L+E ++ I++L P P + E YV PD+ + + N + + +N +P Sbjct: 198 YQIDEEALEEIISNIKALRPYPLYGYEDFEAHYVEPDIFIYETNDKDQPFEIVINEQDLP 257 Query: 296 RLQINQHYASMCNNAR-NDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAF 354 +L + Y + N N+ +F+ LQ A LI+ +E R + L + +V QQ+ F Sbjct: 258 KLNLTNQYKKILNRKDINEETKKFLYEKLQKAIGLIRGIEQRRENLKNLVESLVNQQKDF 317 Query: 355 FEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGE 414 G+E++KP+ L D++Q + +HESTISR+ + K+ +P G+ LK FFS+ V+ E G Sbjct: 318 LLYGKEHLKPLTLKDVSQKIGLHESTISRIVSNKFAQTPIGVLPLKAFFSNKVSKESGN- 376 Query: 415 ASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRK 474 SS ++ L++ LI E+P KPLSD+ + +LL ++GI +ARRTV KYRE L+IP S +RK Sbjct: 377 ISSDRVKYLIQNLIENEDPKKPLSDNDIVNLLKKEGIHIARRTVTKYREELNIPDSRKRK 436 Query: 475 Q 475 + Sbjct: 437 K 437 >UniRef50_B5J6Z7 RNA polymerase sigma-54 factor n=3 Tax=Bacteria RepID=B5J6Z7_9RHOB Length = 448 Score = 224 bits (570), Expect = 7e-57, Method: Compositional matrix adjust. Identities = 158/470 (33%), Positives = 248/470 (52%), Gaps = 46/470 (9%) Query: 10 SQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSETLDT 69 +Q L TPQLQQAI+LL L+ +EL + E NP LE ID E+ +Q + Sbjct: 13 NQSLVFTPQLQQAIKLLLLNNIELSSYAESIAEENPFLE-IDL-PEVRMPASQGAN---- 66 Query: 70 ADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVE 129 + QK ++ +D I LP GE+ L QV+ Sbjct: 67 ---VAQK--------NSEFDPISL---------------LPDKAGES---FGARLFAQVD 97 Query: 130 LTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVG 189 T +RAI ++ +D TG+LT PL + +++ EE V AVL ++QR +P G Sbjct: 98 DTLKDQAERAIGYALASHLDPTGWLTTPLSLLAQNLNVEE---KYVAAVLSKLQRAEPTG 154 Query: 190 VAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEA 249 + A+DL +CL +Q+ TT + II +L LL + R D L+ Sbjct: 155 LFARDLSECLSLQIP----TTDLDHTSMGIIIANLALLERGLLNEMRRKVGCSADELRYF 210 Query: 250 VNLIQSLDPRPGQSIQTGEPEYV-IPDVLVRKH-NGHWTVELNSDSIPRLQINQHYASMC 307 + ++ L+P+PG ++ G+ + PD+L K NG W V+LN ++P +++++ Sbjct: 211 LRRLRGLNPKPGLALSEGDQAPIRAPDLLTAKGPNGEWFVKLNGSTLPIIKVDEAAGQRV 270 Query: 308 NN-ARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMV 366 + + D ++R NL +A+WL +++ RN+T ++V+ IV Q F E G ++M+P+ Sbjct: 271 RKFLKLEIDQIYVRENLGNARWLKRAIAQRNETSIKVAAEIVRIQLPFLEHGIKHMRPLK 330 Query: 367 LADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGE-ASSTAIRALVK 425 L IA+AV +HESTISRVT+ + +P+G LK FFS+ + G E AS+ +R V+ Sbjct: 331 LKTIAEAVGLHESTISRVTSALMIQTPQGTLPLKTFFSNAIELNGSDEGASARMVREKVR 390 Query: 426 KLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 LI E P KPLSD + L+ +G+ +ARRT+AKYR+ IP S QR++ Sbjct: 391 TLIGQEVPIKPLSDEFIMQKLNSEGLSIARRTIAKYRKLDKIPSSCQRRR 440 >UniRef50_B3ESG5 Putative uncharacterized protein n=1 Tax=Candidatus Amoebophilus asiaticus 5a2 RepID=B3ESG5_AMOA5 Length = 479 Score = 223 bits (568), Expect = 1e-56, Method: Compositional matrix adjust. Identities = 152/499 (30%), Positives = 270/499 (54%), Gaps = 50/499 (10%) Query: 6 QLRLSQQLA--MTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQD 63 +LRL+Q+L +TPQ Q ++LLQ+ ++++ +QQ L NP+LE + + E +E +D Sbjct: 3 KLRLTQKLTQKLTPQQIQLVKLLQIPSIDINARIQQELAENPVLEPANDNVEY-LQEAED 61 Query: 64 SETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDE--------LPVYQGE 115 + +DT E+P++ L T DY +E +P Sbjct: 62 NSAIDTMTVGYIDELPQKNYL---------------TYRDYEAEERWLRKEASVPNRYSL 106 Query: 116 TTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEI---DI 172 Q L+ M +++ + I ++ +++ GY+ L + + + + Sbjct: 107 QEQLLEQLEMLRLD-----EGQHKIGEYLIGSLETDGYIRRDLAALANDLLLTQYIQTNE 161 Query: 173 DEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDF 232 EVE +LK+IQ FDP G+ A+ L++CLLIQL++ + P A I++ +L + Sbjct: 162 TEVETILKKIQTFDPPGIGARSLQECLLIQLNR-QPSKPVRNMAIQILNQTFELFTKKHY 220 Query: 233 RTLMRVTRLK-EDVLKEAVNLIQSLDPRPGQSIQTG--EPEYVIPDVLVRKHNGHWTVEL 289 +++ ++ +++ KEA+ LI L+P+PG ++ + + + + PD LV KHN V L Sbjct: 221 SQIIKKLAIEDQELFKEALELIAKLNPKPGGTLGSDIQQNQILYPDFLVTKHNQQLEVRL 280 Query: 290 NSDSIPRLQINQHYASMCNNARNDGD-----------SQFIRSNLQDAKWLIKSLESRND 338 N+ + P L++++ Y + ++ G S F++ + AKW I++L R Sbjct: 281 NAYNTPELRLSRSYIHILETSQKLGKDKKKSPSLQAASSFVKQKAESAKWFIEALNQRKK 340 Query: 339 TLLRVSRCIVEQQQAFF-EQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIF 397 TLLR + IV+ Q FF E+ E +KPM+L D+A+ +EM ST+SR+ K + + GI+ Sbjct: 341 TLLRTMQAIVQLQYDFFMEEDESKLKPMILKDVAKIIEMDISTVSRIVNNKSVQTQFGIY 400 Query: 398 ELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRT 457 LK+FF+ ++T G + SS A++ + +LI E+ +P +D +LT++L ++G +ARRT Sbjct: 401 PLKFFFTEAISTTMGEDVSSKAVKQALLELIQQESKQQPYADEQLTAMLVDKGYHIARRT 460 Query: 458 VAKYRESLSIPPSNQRKQL 476 VAKYRE L++P + RK+L Sbjct: 461 VAKYREQLNMPVARLRKEL 479 >UniRef50_B2UL79 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Akkermansia muciniphila ATCC BAA-835 RepID=B2UL79_AKKM8 Length = 465 Score = 223 bits (568), Expect = 1e-56, Method: Compositional matrix adjust. Identities = 152/483 (31%), Positives = 264/483 (54%), Gaps = 34/483 (7%) Query: 5 LQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDS 64 LQ +++Q+A++ +Q +++LQ S LEL+Q ++QALE+NP+LE++ + D Sbjct: 6 LQHGMTRQMAVSQSMQTGMQILQASALELRQIIRQALETNPMLEELPDASPEALEDGPD- 64 Query: 65 ETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETT-QTLQDY 123 DA ++E W+ G SG + D +Y+ ++L+ + Sbjct: 65 -----GDAWNERE--------DGWNEFTAEGRLSGDAAARRDF---MYESVVAPESLKTH 108 Query: 124 LMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQ 183 LM Q + + + R ++DA+DE G+LT +++ E D++E A L+ + Sbjct: 109 LMDQAQHSALTGRARDALFLLIDALDERGFLTESPQELEEQGCFSMRDMEEALAALREM- 167 Query: 184 RFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKE 243 DP GV A +LRD LLIQL Q A ++ LA H + R+ ++ Sbjct: 168 --DPPGVGAANLRDSLLIQLEQRGLKRSL---AFRLVKRCWRELAAHKYEEAARLLDVEP 222 Query: 244 DVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKH-NGHWTVELNSDSIPRLQINQH 302 + A+ +I+SL P PG + G +++PDV+V + +G V L S+ +PRL +N+ Sbjct: 223 GAVAAALEVIRSLTPDPGGAYAPGGNPHLLPDVIVEEGPSGVLEVILTSEYLPRLSMNER 282 Query: 303 YASMCNNARNDGD-SQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEY 361 Y + + Q++R ++ + L+++L+ R +T+LR++R IV +Q+ FF G Sbjct: 283 YMELMAEGSGSRELRQYLRRAFREGQELLRALDMRQETVLRLARVIVRRQEDFFRSGPSR 342 Query: 362 MKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGG--------G 413 +K M + ++A+ + +H ST+SR KYL G+ EL+ FFS+ V +EGG G Sbjct: 343 LKAMGMEEVAEEMGVHVSTVSRACRDKYLLCRWGMKELRSFFSAGVPSEGGVSPDGAASG 402 Query: 414 EASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQR 473 ++ A++ L+++LIA E+ +KPLSD+ L + L E+G+ +ARRTVAKYRE + I P++ R Sbjct: 403 AVAAGAVQELMRRLIAEEDSSKPLSDAGLAAALREKGVNIARRTVAKYREQMKILPASLR 462 Query: 474 KQL 476 + + Sbjct: 463 RGI 465 >UniRef50_B8DD95 RNA polymerase sigma-54 factor n=20 Tax=Listeria RepID=B8DD95_LISMH Length = 447 Score = 222 bits (566), Expect = 2e-56, Method: Compositional matrix adjust. Identities = 138/469 (29%), Positives = 242/469 (51%), Gaps = 45/469 (9%) Query: 13 LAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSETLDTADA 72 L MT QL Q+I +LQ +T +L L+ NPL+E I Sbjct: 19 LNMTQQLSQSIAMLQFATADLVAFLEDKALENPLIEVIPGS------------------- 59 Query: 73 LEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTP 132 D + D Y++ +G+S D D L + TL D L Q+ L Sbjct: 60 ------------DFATDFSYSSRKSTGSSDD--TDWLEQI-ADNKLTLADALKEQLHLMD 104 Query: 133 FSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAA 192 + T + I +++++++ GYL + L+D+ ++ +D V L+ +Q +P GV A Sbjct: 105 VTQTQKIIVLYLIESLNDNGYLQIDLKDVSAALL---MDDSSVLEGLEILQSMEPAGVGA 161 Query: 193 KDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNL 252 +D R+C+L+Q+ + P++ A +I A ++ + + ++E + Sbjct: 162 RDARECILLQIER-SPDAPYI--AYDVIQKFFTEFAEKKWKKIAAEMDVSLQDIQEVSDW 218 Query: 253 IQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARN 312 IQ+L+P+PG ++ +YV+PD+++ +H + V L +P+++ + Y Sbjct: 219 IQTLNPKPGSEFESERVQYVVPDLILLQHEDEFAVSLAKQFLPQVRFQEAYYETMRATEE 278 Query: 313 DGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQ 372 +QF+R + W+ K +E R +TL RV IV Q+A+F +++P+ L ++A+ Sbjct: 279 KDVAQFLREKAGEFDWIKKGIEQRENTLQRVGEAIVSHQKAYFLDNSAHLQPLTLKEVAE 338 Query: 373 AVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVN-----TEGGGEASSTAIRALVKKL 427 + +HEST+SR KY+ + G++ELK FF+S + E G+ SST I+ LV++ Sbjct: 339 ELGVHESTVSRAVNGKYMETTNGVYELKRFFASGLQKKSSENENTGDISSTTIKKLVQEF 398 Query: 428 IAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 +AAE+ KPLSD K+ +L+E+ I V+RR +AKYR L+IP S++RK+ Sbjct: 399 VAAEDKLKPLSDQKIVDMLAEKEIQVSRRAIAKYRLELNIPSSSKRKRF 447 >UniRef50_D2LXG7 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Bacillus cellulosilyticus DSM 2522 RepID=D2LXG7_BACS4 Length = 433 Score = 219 bits (559), Expect = 2e-55, Method: Compositional matrix adjust. Identities = 138/465 (29%), Positives = 238/465 (51%), Gaps = 50/465 (10%) Query: 14 AMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSETLDTADAL 73 MT +L+Q I +LQ S +ELQ + + L NPL+E I++ E + + AD Sbjct: 16 VMTNELRQGIAMLQCSAMELQDYIHELLLENPLIE-------IESFENNNWTAITHADE- 67 Query: 74 EQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPF 133 + S D++D L+ +L Q+ Sbjct: 68 -------------------STSAIEHISKDFVD-------------LKQFLQNQITFLDL 95 Query: 134 SDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAK 193 + + IA VDE GYL P +I + + + EV + IQ +P GV A Sbjct: 96 DKSIKNIALYAAQCVDENGYLLHPPSEIAIELN---VSLTEVTKAIDIIQTLEPAGVGAS 152 Query: 194 DLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLI 253 L+ CLLIQ+ Q + E+A I+ ++ + LAN +T+ + L++ + I Sbjct: 153 SLQQCLLIQMRQQKERD---EQAEFILENYFEELANKQLKTIANKENISVLKLQKITDKI 209 Query: 254 QSLDPRPGQSIQTGEP-EYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARN 312 Q L+P+PG +I + EP YV+PDV V+ + + ++ + +P+L +N++Y + N+ + Sbjct: 210 QQLNPKPG-AIFSNEPCTYVVPDVSVKSTIEGFKLYIHDELLPKLTLNKNYQELMKNS-D 267 Query: 313 DGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQ 372 +++I+ + W+ K +E R TL V+ I+E+Q F + G ++P+ L +A Sbjct: 268 TTINKYIQKKYEQYVWIKKCIEQRQKTLFDVASTIIEKQLDFLKGGAVNLRPLTLKTVAD 327 Query: 373 AVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAEN 432 + +HEST+SR T KY+ +P G++ KYFF++ V + G SS +++ +K++I E+ Sbjct: 328 HLGIHESTVSRATMNKYIETPMGLYPFKYFFTASVGSNKGQTNSSESVKTHLKQMIDNED 387 Query: 433 PAKPLSDSKLTSLLSEQ-GIMVARRTVAKYRESLSIPPSNQRKQL 476 KP SD KL +++ E I V+RRTVAKYR+ ++IP S +R++ Sbjct: 388 KTKPFSDDKLATMIHENYAIAVSRRTVAKYRDEMNIPGSRKRRRF 432 >UniRef50_Q5FPW5 RNA polymerase sigma-54 factor RpoN n=1 Tax=Gluconobacter oxydans RepID=Q5FPW5_GLUOX Length = 438 Score = 219 bits (557), Expect = 2e-55, Method: Compositional matrix adjust. Identities = 159/481 (33%), Positives = 254/481 (52%), Gaps = 59/481 (12%) Query: 4 GLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQD 63 GL R SQ L MTPQL+QAI LLQ + +L Q L+Q E+NPLL Sbjct: 5 GLIQRQSQSLVMTPQLRQAIALLQYTQTDLAQHLRQVCETNPLL---------------- 48 Query: 64 SETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQ----- 118 L+ D +PE +P S D+ DD+ + + + Sbjct: 49 --ILEPGDT-----VPEAVP----------------ASEDFHDDDPDRFTTASDRPEAAA 85 Query: 119 ---TLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEV 175 + +D L+ Q+ + ++ A ++D++DETG L V + D+ +G +D ++ Sbjct: 86 PPPSDRDELILQIRHS-IPPEEQHAAFHLLDSLDETGRLPVSVTDLAAELG---MDAPKL 141 Query: 176 EAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTL 235 EA+ + + +P G+ A+ L +CL QL ++ P ++ + D+LDLLA D+R L Sbjct: 142 EAIRQTLMHLEPAGLFARSLEECLAAQLRVRNRLDPAMQ----TLLDNLDLLARRDWRRL 197 Query: 236 MRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIP 295 L +D L + + IQ+LDPRPG S+ P D++VR + + + LN+ +P Sbjct: 198 REKCALDQDDLLDMLAEIQALDPRPGLSLPPPAPPIEP-DLIVRPNGTGFRLTLNTRLLP 256 Query: 296 RLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFF 355 ++++ + + G + + + +A LI++L SR +LL V R IV+ Q AF Sbjct: 257 AVRLDDTLRAQIDGHTEAG--RMLLAYAGEATALIRALHSRKQSLLNVGRAIVQHQAAFL 314 Query: 356 EQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEA 415 G ++P+ + +IA+ E+HESTISR+ + KY+ +PRG LK FFS+ + +E G Sbjct: 315 RDGPTALRPLTMREIAERTELHESTISRIVSSKYIDTPRGTVPLKLFFSTALASEDGTTQ 374 Query: 416 SSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 S+ AI+ ++ L+AAE + LSD LT LL ++G + RRTVAKYRE L I S+QRK+ Sbjct: 375 SAHAIQHRLQALVAAEGDSV-LSDDALTGLLQKEGFSIQRRTVAKYREGLGIAKSSQRKR 433 Query: 476 L 476 L Sbjct: 434 L 434 >UniRef50_B0P364 Putative uncharacterized protein n=3 Tax=Clostridiales RepID=B0P364_9CLOT Length = 434 Score = 218 bits (556), Expect = 3e-55, Method: Compositional matrix adjust. Identities = 137/454 (30%), Positives = 229/454 (50%), Gaps = 44/454 (9%) Query: 21 QAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSETLDTADALEQKEMPE 80 Q++++L L EL LQ NPLL D E +P Sbjct: 21 QSLKILSLDNFELNNFLQNEYIENPLL-----------------------DYNENSNLP- 56 Query: 81 ELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAI 140 SW+ Y + + + D I E+P + + ++++L+ Q+ FSD Sbjct: 57 ------SWNQ-YVSYSSAKEDED-IYKEIPDF---SENGIKEFLLDQLNQRNFSDLQWTA 105 Query: 141 ATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLL 200 +++D +D+ GY + L+D + G IDI V+ L + +P+G+ +KDL CLL Sbjct: 106 MQTMIDCLDDCGYFKLSLKDFSQWFG---IDISTVKYCLDILSSLEPLGIFSKDLPHCLL 162 Query: 201 IQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRP 260 QL + TP L + II HLD +A T+ + + +++ + I+ L+PRP Sbjct: 163 RQLEARQELTPELNQ---IIRYHLDDIAAGKINTITQKLSMSTQDVRKCIAKIRELNPRP 219 Query: 261 GQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIR 320 T +Y++PD+L+ + W + LN I + +Y +M + +++ ++ R Sbjct: 220 ISGFLTNSTDYIVPDILIDYQDSSWIIRLNDQWIGNYSLCDYYLNMMHTSQSPELKEYFR 279 Query: 321 SNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHEST 380 + ++ S+E R +T+L+++ ++E+Q+ +F G +KPM LADIA + MH ST Sbjct: 280 KKYNRVQLIMHSIEQRRETILKITSAVLERQKDYFT-GNSTLKPMTLADIASDISMHTST 338 Query: 381 ISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDS 440 ISR KYL P G+ LK F+S + S ++ +K +IA+ENP KP SDS Sbjct: 339 ISRGIKNKYLQYPFGVVYLKDLFTSSAGKKDNN--SPITVKKQLKAIIASENPNKPYSDS 396 Query: 441 KLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRK 474 L++LL ++GI ++RRTVAKYRE + I + RK Sbjct: 397 TLSNLLKQKGIKISRRTVAKYREEIGIKSTYNRK 430 >UniRef50_C3J8N1 RNA polymerase sigma-54 factor n=2 Tax=Bacteria RepID=C3J8N1_9PORP Length = 488 Score = 218 bits (554), Expect = 6e-55, Method: Compositional matrix adjust. Identities = 163/486 (33%), Positives = 264/486 (54%), Gaps = 27/486 (5%) Query: 11 QQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTH-----EEIDTRETQDSE 65 Q+LA+ Q Q I+LL++S EL +++ L +NP LE ++ E+ E S Sbjct: 10 QKLAIDVQQIQQIKLLEVSGEELADRIREELATNPALEVVEESEETTPEDNFLDEEPLSN 69 Query: 66 TLDTADALEQKEMPEELPLDASW-DTIYTAGTPSGTSGDYIDDELPVY-QGETTQTLQDY 123 T + + L+ PE+ D D + PS DD+ P Y Q +L D Sbjct: 70 TENEQEGLQDDFSPEDYTADDEREDALREPPRPSAG-----DDDGPSYVQPNEAPSLSDE 124 Query: 124 LMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESI-GDEEIDID--EVEAVLK 180 L Q+ SD + IA I+ + + GYL+ L +I +++ +E +D E+E ++ Sbjct: 125 LHEQLISLTLSDRELTIAEYIIGNLSDDGYLSASLHEISDALLFNENLDASDAEIEEMIH 184 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 RIQ+ DP G+AA+DLR+ LL+QL + K A II + + LA H + ++R Sbjct: 185 RIQQLDPPGIAARDLRESLLLQLRRLPKDEVH-SLALSIIEGYFEDLAAHRYDRIIRGLA 243 Query: 241 LKEDVLKEAVNLIQSLDPRP----GQSIQTGEPEYVIPDVLVRKHNGHWTVELN-SDSIP 295 + D EA +I+ L+PRP G +++ ++PD V HNG + +N + ++P Sbjct: 244 ITPDRFSEAQRIIRQLNPRPASGYGSNLEAAVAR-IVPDFTVHLHNGELQLWINDAPNLP 302 Query: 296 RLQINQHYASMCNNA-RNDGDS---QFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQ 351 +L I+ Y ++ R++ + F S + +A+ I +L+ R TLL V IV+ Q Sbjct: 303 QLGISPAYLAITKAPIRSEAEKTSRAFASSRIAEARQFIDALKRRRKTLLHVVGAIVQAQ 362 Query: 352 QAFFEQGE-EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTE 410 + FF G+ + ++P+VL IA+ V + S+ISR+T +KY+ S GI+ LK+FFS Sbjct: 363 EDFFRTGDIQQLRPLVLRQIAETVALDISSISRITQRKYIQSDYGIYPLKFFFSEGTTGS 422 Query: 411 GGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPS 470 G SS + + L+++LI E+ PLSD++L +LLS++GI +ARRTVAKYRE L IP + Sbjct: 423 DGEAVSSRSTKDLLRQLIEKEDKRTPLSDTELGALLSQEGIPIARRTVAKYREQLGIPIA 482 Query: 471 NQRKQL 476 R++L Sbjct: 483 RLRREL 488 >UniRef50_C0QWG2 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Brachyspira hyodysenteriae WA1 RepID=C0QWG2_BRAHW Length = 434 Score = 214 bits (545), Expect = 6e-54, Method: Compositional matrix adjust. Identities = 133/468 (28%), Positives = 238/468 (50%), Gaps = 52/468 (11%) Query: 9 LSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSETLD 68 + L + Q + + ++ L +EL++++++A+E NP LE Sbjct: 16 IKNDLRLNYQTRVWLDVIALPAIELKEKIEKAMEENPFLE-------------------- 55 Query: 69 TADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQV 128 +D PS D I+ + ++L +L Q+ Sbjct: 56 -------------------YDFNDNYSKPSSAGSD-INSIIENTVENNKESLFSHLKSQI 95 Query: 129 ELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQRFDPV 188 ++T + +A I ++E GYLT+ ++I + DI ++E ++ I+ FDP Sbjct: 96 DITFNDKKEIELAEQICSFINEDGYLTIESDEISNILN---ADIKQIEKIISIIKTFDPY 152 Query: 189 GVAAKDLRDCLLIQLSQFDKTTPWLE---EARLIISDHLDLLANHDFRTLMRVTRLKEDV 245 GV AK++ +CL IQL K E A I+ ++LD L+ ++ + ++ + Sbjct: 153 GVGAKNINECLSIQLKMKKKEADEKEIYDTAINIVENYLDELSKKNYDKIALNLNIEVNT 212 Query: 246 LKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYAS 305 + +A+ LIQ+L+P P + T +Y++P++ + K N +W V+ + IP L+I++ Y Sbjct: 213 VLKALKLIQTLEPYPAREYDTSSVKYIVPELFIFKENDNWFVKTDETFIPHLKISKKYIK 272 Query: 306 MCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPM 365 + + + F++ ++A+ LI + R TLL++ +++ Q FFE G+E+MKP+ Sbjct: 273 LLDREESKDSINFLKEKKKEAESLINASNDRKKTLLKIGEALLKFQINFFEYGKEFMKPL 332 Query: 366 VLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVK 425 L D++ V + ESTISR+ KYL++ G F +KYFFS VN G S ++ ++K Sbjct: 333 TLKDMSLEVNLSESTISRIANGKYLNTVWGTFSIKYFFSRAVN----GGLGSRGVKEIIK 388 Query: 426 KLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQR 473 ++I EN LSD K+ +L +GI ++RRTVAKYR+S++I S R Sbjct: 389 RII--ENSPAKLSDEKIRLILKSEGIDISRRTVAKYRKSMNIFSSRNR 434 >UniRef50_C1QAL1 RNA polymerase, sigma 54 subunit, RpoN/SigL n=1 Tax=Brachyspira murdochii DSM 12563 RepID=C1QAL1_9SPIR Length = 436 Score = 213 bits (543), Expect = 9e-54, Method: Compositional matrix adjust. Identities = 115/364 (31%), Positives = 209/364 (57%), Gaps = 20/364 (5%) Query: 118 QTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVP---LEDILESIGDEEIDIDE 174 ++L +L Q+E++ S + +A I ++ GYL + + +IL + + E Sbjct: 85 ESLFSHLKSQIEISFKSKKEMELAEQICSFINHDGYLKITSGEMSNILNA------SVSE 138 Query: 175 VEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKT----TPWLEEARL-IISDHLDLLAN 229 +E ++ I+ FDP GVAAKD+ +CL IQL K +L + + I+ ++LD L+ Sbjct: 139 IEKIVSVIKTFDPYGVAAKDINECLSIQLKMKKKEDLKENGFLYDTAIDIVENYLDKLSK 198 Query: 230 HDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVEL 289 D+ + +++D + +A+ LIQ+L+P P + T +Y++P++ + K NG W V+ Sbjct: 199 KDYDYIASSIGVEKDTVIKALKLIQTLEPYPAREYDTSAVKYIVPELFILKENGIWIVKT 258 Query: 290 NSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVE 349 + IP L+I++ Y + + ++ F++ ++A+ LI + R +LL++ +++ Sbjct: 259 DETFIPPLKISKKYIKLLDREKSKDSINFLKEKKKEAESLINAANERKKSLLKIGEALLK 318 Query: 350 QQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNT 409 Q FFE G+E++KP+ L D++ V + EST+SR+ KYL++ G F +KYFFS +N Sbjct: 319 FQLDFFEYGKEFIKPLTLKDMSLEVNLSESTVSRIANGKYLNTVWGTFSIKYFFSRAIN- 377 Query: 410 EGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPP 469 G S ++ ++K++I EN LSD K+ +L +GI ++RRT+AKYR+S++I Sbjct: 378 ---GGLGSRGVKEIIKRII--ENSQAKLSDEKIRLILKSEGIDISRRTIAKYRKSMNIFS 432 Query: 470 SNQR 473 S R Sbjct: 433 SRNR 436 >UniRef50_Q11E47 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Chelativorans sp. BNC1 RepID=Q11E47_MESSB Length = 456 Score = 213 bits (542), Expect = 1e-53, Method: Compositional matrix adjust. Identities = 147/476 (30%), Positives = 247/476 (51%), Gaps = 36/476 (7%) Query: 5 LQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDS 64 L + + Q L ++ ++ QA+ +LQ EL L++ +E NPLL D Sbjct: 7 LGVGVRQSLTISREMVQAVEILQYDREELAAFLREQVEKNPLLRMKDR------------ 54 Query: 65 ETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYL 124 A+A + + E D S D + +G +GD D + GE TL +L Sbjct: 55 -----AEAAPGQGLGERWRRD-SGDRAFA----TGAAGDAPDIASSI--GEEV-TLSAHL 101 Query: 125 MWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQR 184 Q+ L + R A ++D+++E GYL + E +G + DE++A + +Q Sbjct: 102 HLQLALVKCTPEVRVRAGQVIDSLEEDGYLRQDPVKLAELLGCSQ---DEMDAAIALVQT 158 Query: 185 FDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKED 244 FDP GV A++L +CL +QL + + P + + H DL+ + + L + + E Sbjct: 159 FDPAGVCARNLAECLQLQLREQGELRPAMAA----LLTHTDLIVKGEVKRLAAICGVSES 214 Query: 245 VLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVR-KHNGHWTVELNSDSIPRLQINQHY 303 ++ + ++SLDP PG+++ +PDVLV G VELN D IP+L +++ Y Sbjct: 215 EVRVMLRKLRSLDPAPGRALDCTPVCPALPDVLVDLTPTGALKVELNPDLIPKLLLDRSY 274 Query: 304 -ASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYM 362 A + + R + ++ ++ L+++L+ R T+LR+ R IV +Q+A+F G ++ Sbjct: 275 HAEVSSQIREKDEKSYLDECMRSGALLMRNLDRRFTTMLRICREIVRRQEAYFRHGLSHL 334 Query: 363 KPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEA--SSTAI 420 +P+ +IAQ + +HEST+SR T KY+ RG+ +K+FFS + G +S I Sbjct: 335 RPLTQGEIAQELGIHESTVSRATANKYILCSRGLLPVKFFFSEALGGTGTDGLGHASETI 394 Query: 421 RALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 R +++++ E P K LSD + +LL +GI +ARRTVAKYR L IP S R++L Sbjct: 395 RRRIREVVDGETPEKILSDDVIAALLHGEGIDIARRTVAKYRSQLKIPSSADRRRL 450 >UniRef50_B1HSZ7 RNA polymerase sigma-54 factor n=2 Tax=Bacillaceae RepID=B1HSZ7_LYSSC Length = 428 Score = 211 bits (537), Expect = 4e-53, Method: Compositional matrix adjust. Identities = 144/475 (30%), Positives = 240/475 (50%), Gaps = 57/475 (12%) Query: 5 LQLRLSQ----QLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 +QL + Q Q+ M+ QL+QAI LLQ ST EL+Q +++ NPL+E Sbjct: 1 MQLSIKQTQELQIVMSAQLRQAIELLQYSTQELEQYIREQELVNPLIE------------ 48 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 L + E L + + Y S I DEL Sbjct: 49 ------------LSEPTFKEHLQISKTCGRHYNNWHLSTKCEKNIRDEL----------- 85 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 QV LT ++ D + I+ +D+ GY +SI D+ E+E + Sbjct: 86 ----FQQVRLTFDNEKDIQLLKHIIYHLDDNGYYE-------QSIQSSYNDL-EIEKGIH 133 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 +Q P+G+ A++L++CLL+Q + + +P A IIS++L+ LA+++++ + + Sbjct: 134 LLQTIGPLGIGARNLKECLLLQ-TIYGPNSP--AHADTIISNYLEELAHNNWKKISKELD 190 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQIN 300 + + L+ IQSL P+ IPD++V +G T LN +P++ I+ Sbjct: 191 ISLNDLQIIYLFIQSLQPKLSSLFYQELVHTTIPDIIVDIVDGGITFSLNDYYLPKVSIH 250 Query: 301 QHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 Y + + + + +L D WL+ S+E R +T++ + + ++E+Q+ FF G + Sbjct: 251 ADYFPYIK--AHSSEKSYFKKHLADYHWLVNSIEQRRNTMINIMKALIEKQRKFFLDGLD 308 Query: 361 YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAI 420 ++P+ L +IA +++HEST+SR+TT KY+ + G FELK FSS ++T G S + Sbjct: 309 AIQPLTLREIADQIDVHESTVSRITTNKYVQTAFGTFELKELFSSKLSTANGHSVSQIKV 368 Query: 421 RALVKKLIAAENPAKPLSDSKLTSLL-SEQGIMVARRTVAKYRESLSIPPSNQRK 474 ++L+ I +EN AKP SD K+ S GI ++RRT+AKYRE +SIP S +RK Sbjct: 369 KSLLSDYIKSENKAKPFSDQKIAEYFNSALGIEISRRTIAKYREDMSIPSSARRK 423 >UniRef50_B0NX39 Putative uncharacterized protein n=1 Tax=Clostridium sp. SS2/1 RepID=B0NX39_9CLOT Length = 431 Score = 210 bits (535), Expect = 9e-53, Method: Compositional matrix adjust. Identities = 135/473 (28%), Positives = 239/473 (50%), Gaps = 54/473 (11%) Query: 5 LQLRLSQQLAMTPQLQ-QAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQD 63 L+ LSQQL Q Q Q++++L EL++ LQ NPL+E ++ +E Sbjct: 7 LEQGLSQQLN---QFQVQSLKILSFDNYELEKFLQDEYAENPLMEHKESGKEF------- 56 Query: 64 SETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDY 123 T G +G Y D E + + + + + Sbjct: 57 -------------------------------FTLHGNAGGYQDIEQSDIEDKKIEDPEAF 85 Query: 124 LMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQ 183 M Q+ ++ + + + ++E+G L V ++I +G EE D E +L ++ Sbjct: 86 FMEQLNAKDYTKKEWNVMKYMAQCLEESGLLLVSTKEISHKLGIEEKD---CERLLDHLK 142 Query: 184 RFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKE 243 + +P GV A+ + +CLL+QL ++ ++ R I+ +HL+ +A T+ R +K Sbjct: 143 QLEPAGVFAESVSECLLLQL---EREGILNDDLRYIVENHLEDIAMGHLSTVSRALDIKT 199 Query: 244 DVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHY 303 +++ + IQ L+PRP G +Y++PD+L+ K + LN D I IN +Y Sbjct: 200 SQVRKYIFKIQELNPRPLSGYTGGTDQYIVPDILMEKDGEELKIRLNDDWIGDYSINDYY 259 Query: 304 ASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMK 363 M A + ++ R + +++I S+E R +T+L++S+ I+++Q+ +F + ++ +K Sbjct: 260 VKMMEQAEDSELKEYFRKKYERCRFIITSIEQRRETMLKISKAILDRQREYFMKHKQ-LK 318 Query: 364 PMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTA--IR 421 PM + +IA +EMH ST+SR KY+ P G ++ F+ NT+ G+ ST I+ Sbjct: 319 PMTMQNIADDIEMHVSTVSRAVKGKYIQYPGGTIGMRDIFN---NTQTFGDQDSTTEEIK 375 Query: 422 ALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRK 474 +++L+ E+ KPLSDSK+ SLL + + ++RRTVAKYR L I + QRK Sbjct: 376 EEIRRLVKEEDKKKPLSDSKIVSLLEQNNMKISRRTVAKYRAQLGIAGTTQRK 428 >UniRef50_Q3J1U1 Sigma-54 factor (RpoN2) n=4 Tax=Rhodobacter sphaeroides RepID=Q3J1U1_RHOS4 Length = 444 Score = 210 bits (535), Expect = 9e-53, Method: Compositional matrix adjust. Identities = 149/482 (30%), Positives = 241/482 (50%), Gaps = 55/482 (11%) Query: 1 MKQGLQLRLSQQLA------MTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHE 54 M G+QL +Q A +T QLQQAI LLQ+ EL ++ E NP +E Sbjct: 3 MTPGMQLYTAQSFAQRQSLVVTAQLQQAICLLQMPNAELSSFIESQSEENPFIELRLPPA 62 Query: 55 EIDTRETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQG 114 + + A K PE+ WD + +G + D Sbjct: 63 PVPS-------------APLGKTAPED------WDRV------AGLAAD----------- 86 Query: 115 ETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDE 174 +L ++ ++ F A A +DA++ G+L P+E++ G + ++ Sbjct: 87 -PGPSLYVHVAAEIARLGFDAPQAAAAQVFLDALEPWGWLGRPMEELAFRAG---LSLEA 142 Query: 175 VEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRT 234 EA+L R+Q+ +P G+ A+ L +CL +Q + TP HL LLA D + Sbjct: 143 AEALLARLQKIEPAGLFARTLAECLQLQAEEQGLLTPLFAAV----LAHLPLLAAADLKG 198 Query: 235 LMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSI 294 L R + LK + ++ L+P+PG P PD++V + W V+LN ++ Sbjct: 199 LCRACGCGMEDLKAVLRSLRGLNPKPGALFDAAPPPQRPPDLVVSRGAEGWRVDLNRSTL 258 Query: 295 PRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAF 354 P + + A AR + ++ L AKWL +++E RN T L++ +V +Q+ F Sbjct: 259 PSVVVRSDAAE--GFARTA--APYVGERLSVAKWLARAVEHRNQTTLKIGAEVVRRQRGF 314 Query: 355 FEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNT-EGGG 413 E+G M PM L ++A AV +HEST+SRV++ + +P+G F LK FF++ + EG Sbjct: 315 LEEGLARMAPMTLREVADAVGVHESTVSRVSSGLMIATPQGTFPLKSFFTAALAAREGDT 374 Query: 414 EASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQR 473 S+ A+R V++L+ AE+P PLSD + ++S++G+ +ARRTVAKYRE L+IP S QR Sbjct: 375 AGSAAAVRHRVRQLVQAESPDDPLSDDAIAKIISDEGVTLARRTVAKYREQLNIPSSVQR 434 Query: 474 KQ 475 ++ Sbjct: 435 RR 436 >UniRef50_C9BP10 RNA polymerase sigma-54 subunit n=11 Tax=Enterococcus faecium RepID=C9BP10_ENTFC Length = 444 Score = 207 bits (527), Expect = 8e-52, Method: Compositional matrix adjust. Identities = 143/473 (30%), Positives = 250/473 (52%), Gaps = 52/473 (10%) Query: 10 SQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSETLDT 69 +Q+LAMT QLQQ+I++LQ ++ EL ++ NPL+E ++ Sbjct: 14 TQKLAMTQQLQQSIQVLQYNSEELLAFVENQAMENPLVEVVE------------------ 55 Query: 70 ADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYID--DELPVYQGETTQTLQDYLMWQ 127 PE W Y + S G+ + +++P +T +L D L+ Q Sbjct: 56 ---------PE-------WQPDYIKASSSSYEGEETNYLNQIP----DTKGSLFDSLIEQ 95 Query: 128 VELTPFSDTD-RAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQRFD 186 V L + DT R I +V+ +D G+LT+ LE+ + IG I + + L IQ+ + Sbjct: 96 VHLN-YRDTFLRKIVLYLVEYIDLNGFLTISLEEAGKEIGATPIQMLDA---LTLIQQLE 151 Query: 187 PVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVL 246 P GV A+ L++CL++Q ++ D P L A +++ + + L ++ + + + + Sbjct: 152 PAGVGARSLQECLMLQ-TERDDYAPEL--AYIVLEECFEELVERKWKEIAQRFSVDLHAV 208 Query: 247 KEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVR-KHNGHWTVELNSDSIPRLQINQHYAS 305 ++ + +Q+L P PG+ Y+IPDV V + + V N + P ++ + Y Sbjct: 209 QQIFDYLQTLSPSPGRIFDRSSELYIIPDVRVLVDDDKNVQVISNRKNQPNIRFQESYFK 268 Query: 306 MCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPM 365 + + +++ Q+ +WL K++ R DT+LRV++ IV +Q+AFF E +KP+ Sbjct: 269 QMSQQADKETENYLKERKQEFEWLKKTILQRGDTILRVAQVIVSRQKAFFIDKERPIKPL 328 Query: 366 VLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHV---NTEGGGEASSTAIRA 422 L ++A +++HEST+SR KYL + G+FELK FF++ + +TE + S+ + Sbjct: 329 TLKEVATEIDVHESTVSRAVNGKYLETDFGVFELKKFFTTRIPTNSTEQTEDLSADTAKK 388 Query: 423 LVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 +++L+ E+ KPLSD KL LL + I ++RRTVAKYR+ L IP S++RK+ Sbjct: 389 KLQELVDQEDKNKPLSDQKLVELLKKDEIAISRRTVAKYRDLLGIPSSSKRKR 441 >UniRef50_Q8ENP0 RNA polymerase sigma-54 factor n=1 Tax=Oceanobacillus iheyensis RepID=Q8ENP0_OCEIH Length = 430 Score = 204 bits (518), Expect = 7e-51, Method: Compositional matrix adjust. Identities = 139/481 (28%), Positives = 247/481 (51%), Gaps = 65/481 (13%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 MKQ L + S Q M L Q+I +LQL+ +EL ++Q E NPL+E++ Sbjct: 1 MKQKLVINQSLQWKMNQSLYQSIEILQLTGMELYDYMKQVAEENPLIEEVQ--------- 51 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 P+D + + + DY DE+ Q+L Sbjct: 52 ----------------------PIDKELISQFR-------TTDYSIDEM----NTAEQSL 78 Query: 121 QDYLMWQVELTPFSDTDRAIATSIV---DAVDETGYLTVPLEDILESIGDEEIDIDEVEA 177 D L + L D+++ IV D+++E GYL + +ED E+++ VE Sbjct: 79 YDQL--KSNLYVLELEDKSLLPVIVFGIDSLNEDGYLEITMEDWAYYC---EVELTTVER 133 Query: 178 VLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMR 237 L IQ +P G+ A++L +C+ +QL+Q + P++ ++++ + LLA + + Sbjct: 134 ALSYIQSLEPAGIGARNLTECIQLQLNQMNIDAPYISS---LMNEGITLLAEENSHQIAL 190 Query: 238 VTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRL 297 + E+ ++ + I+ P+PG+ + + E++IP+ + K + W + + S P + Sbjct: 191 NYGITEEAAQKLIESIKLCHPKPGKLLSPTKTEFIIPEASIYKDDTEWKISFFNWSSPAI 250 Query: 298 QINQHYASMCNNARNDGD---SQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAF 354 QIN Y+ ++D D + F++ ++ L ++++ R+ TL ++ R IVE+Q F Sbjct: 251 QINSDYS------KHDLDREAASFVKKKQKEVDMLQQAIDYRSSTLEKIIRIIVEKQLPF 304 Query: 355 FEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGE 414 FE+G + +KP+ L++++ +++H STISR QKY+ + G+ LKYF V + G Sbjct: 305 FERGPKMLKPLTLSELSAQLDLHISTISRAIRQKYVQTAHGVLPLKYFLQREV--QKGAG 362 Query: 415 ASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQ-GIMVARRTVAKYRESLSIPPSNQR 473 +S I+ L+K+L+ E+ +KPLSD K+ L+ E+ I +ARRT+ KYRE L I S +R Sbjct: 363 VASIVIKQLLKELVDLEDKSKPLSDQKIKQLMEERYQIKIARRTIVKYREELQIASSVKR 422 Query: 474 K 474 K Sbjct: 423 K 423 >UniRef50_B0PGS4 Putative uncharacterized protein n=1 Tax=Anaerotruncus colihominis DSM 17241 RepID=B0PGS4_9FIRM Length = 447 Score = 202 bits (515), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 140/479 (29%), Positives = 231/479 (48%), Gaps = 47/479 (9%) Query: 5 LQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLE-----QIDTHEEIDTR 59 L +RL Q + P+++Q++R+LQ+ +++L + L++ NP+ E Q + E++ R Sbjct: 3 LGVRLEQNQILAPRMEQSVRILQMDSVQLGEYLKELALENPVAEVEPPPQREQKEKLAQR 62 Query: 60 ETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQT 119 + E L+ EQ+ M D D TP+ ++ Sbjct: 63 KL---EWLENQTRREQENMGY---YDDDGDLTPEQNTPA----------------PQDES 100 Query: 120 LQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVL 179 L D+L+ QVE A A ++ +D+ GYL E + G +A+L Sbjct: 101 LTDHLLAQVESAAVPRALAAAARYVIGCLDDNGYLKADPEQMRAKAG-------ACDALL 153 Query: 180 KR----IQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTL 235 +R +Q FDP GV A+DL +CL +Q+ D AR + D L +A L Sbjct: 154 ERAIALVQSFDPPGVGARDLAECLCLQIPASDAL------ARRLARDFLPEIAKKRVGVL 207 Query: 236 MRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGE-PEYVIPDVLVRKHNGHWTVELNSDSI 294 T ++ AV I+ L+P+PG Y+ PD++V H+ V L + Sbjct: 208 AAKTGASAGEVEAAVARIRRLNPKPGALYGAHVVAHYITPDIVVTSFGDHYNVMLCEFAY 267 Query: 295 PRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAF 354 P+++++ Y + + ++I + W+IK +E+RN TL+ V+R IV QQ+ F Sbjct: 268 PQVRLSDSYLQIARETADPEVIKYIGEKIDQVNWVIKCIENRNRTLVEVARAIVRQQERF 327 Query: 355 FEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGE 414 F G +++ + + +IA V +HEST+SR KYL G++ L+YFF E GG Sbjct: 328 FRYGPQHLGVLRMREIAGLVGLHESTVSRAVRGKYLQCAHGVYPLRYFFVK--GPEHGGA 385 Query: 415 ASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQR 473 SS ++ ++ LI E+ P SD L LL+ GI ++RRTVAKYR + +P ++ R Sbjct: 386 VSSETVKYKLRALIDTEDHTHPFSDRALCELLAADGISISRRTVAKYRGEMGVPGASGR 444 >UniRef50_Q5WDK1 DNA-directed RNA polymerase sigma-54 factor sigma-L n=1 Tax=Bacillus clausii KSM-K16 RepID=Q5WDK1_BACSK Length = 445 Score = 202 bits (514), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 152/481 (31%), Positives = 249/481 (51%), Gaps = 48/481 (9%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQEL-QQALESNPLLEQIDTHEEIDTR 59 M+ GL R + L MT +L+QA+ LLQ S++++ L +QALE NPLLE HE+ + Sbjct: 1 MEIGLLQRQTTSLVMTQELRQALHLLQYSSVDVIAYLREQALE-NPLLE---LHEQ--ST 54 Query: 60 ETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQ--GETT 117 +++ E + T P P+ + DD+ Q + Sbjct: 55 LSRERELVGT--------RPIRQPMSS-------------------DDKQAALQNVAQRG 87 Query: 118 QTLQDYLMWQVELTP-FSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVE 176 +TL D L Q+ +P S+ D+ T ++ + E GYL L + D I E E Sbjct: 88 RTLADELYEQLIESPTLSENDKCELTYLIGNLREDGYLGEALPQL---CADRNITESEGE 144 Query: 177 AVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLM 236 +L +Q F+P GV A+ L +CL +QL + P A I+ +HL+ LA ++ L Sbjct: 145 RLLAILQSFEPAGVGARSLGECLALQLKRMPDCHPL---AIDIVLNHLEALAARKWKQLA 201 Query: 237 RVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRK-HNGHWTVELNSDSIP 295 + + ++ + ++ LDP+PG YV PDVL+ K +G V +N D +P Sbjct: 202 KQYGVAVQDIQHLYDQLKELDPKPGLRYSKETAIYVQPDVLMAKDESGKLLVFMNDDILP 261 Query: 296 RLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFF 355 +++++ Y + S + + Q +WL +SLE R T+ RV+ + Q + Sbjct: 262 AIRVHEEYDHLLKQQVET--SAYAKQKRQHVEWLKRSLEQRQQTVRRVAEVLASMQADYL 319 Query: 356 EQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEA 415 Q +KP+ L D+AQ + +HEST+SR T KY +PRG+ ELK FS HV ++ + Sbjct: 320 LQPSGVLKPLTLNDVAQVLGIHESTVSRATANKYAQTPRGLVELKTLFSGHV-SKSDAQL 378 Query: 416 SSTAIRALVKKLIAAENPAKPLSDSKLTSLLS-EQGIMVARRTVAKYRESLSIPPSNQRK 474 ++ ++ +K++I+ E+ +KPLSD KL L ++G+ ++RR VAKYR+ L I PS++RK Sbjct: 379 TNHHVKVWLKEMISVEDKSKPLSDQKLAEQLRIDKGVALSRRVVAKYRDELGILPSSKRK 438 Query: 475 Q 475 + Sbjct: 439 R 439 >UniRef50_Q01194 RNA polymerase sigma-54 factor n=7 Tax=Rhodobacter RepID=RP54_RHOSH Length = 434 Score = 202 bits (514), Expect = 3e-50, Method: Compositional matrix adjust. Identities = 146/470 (31%), Positives = 239/470 (50%), Gaps = 50/470 (10%) Query: 8 RLSQQLAMTPQLQQAIRLLQLSTLELQQEL-QQALESNPLLEQIDTHEEIDTRETQDSET 66 R + QLAMT ++Q+++R+LQ+S +L L QALE NP LE + E Sbjct: 8 RQTTQLAMTQRMQESLRILQMSNADLADYLTAQALE-NPCLE------------VRVPEG 54 Query: 67 LDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMW 126 A AL + G D +G+ L ++ Sbjct: 55 ASVAPALPSR----------------------GIQAGLDRDAFATVEGQPPSLLA-HVEA 91 Query: 127 QVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQRFD 186 Q++L F DR A + +A++ +G+L P+ ++ + E++ +E +L+R+Q + Sbjct: 92 QIDLAFFDPGDRRTALAFAEALEPSGWLGQPVSEVAAA---AEVEEEEALVILERLQALE 148 Query: 187 PVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVL 246 P G+ A+ L +CL +QL T W E R ++ DHL LLA L R + + + Sbjct: 149 PAGLFARSLAECLALQLEDLGLLT-W--ELRTML-DHLPLLAEGRIADLARRCDCEPEHI 204 Query: 247 KEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASM 306 +E + LI+SL P+PG++ PDV V + W VEL +PR+++++ Sbjct: 205 RENLALIRSLSPKPGEAFAADRTPIQPPDVRVLRGPEGWEVELTRAQLPRIRVSEAG--- 261 Query: 307 CNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMV 366 + D+ R+ Q A+WL +++E R TLLR + C+V Q F +QG ++P+ Sbjct: 262 -DTGDRQADAWLARARSQ-ARWLERAVERRQATLLRTAVCLVRHQADFLDQGPRALRPLS 319 Query: 367 LADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGG-GEASSTAIRALVK 425 + ++A +++H STISR T + + +PRG+ L+ FFS V+++G S A+ ALV+ Sbjct: 320 MEEVALELDLHPSTISRATATRLIETPRGLIPLRAFFSRSVSSDGPEAPQSQDALMALVR 379 Query: 426 KLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 ++IA E+ KP SD + G ++ARRTV KYRE+L IP S RK+ Sbjct: 380 EIIAREDRTKPFSDDAIVKQAKLAGAVLARRTVTKYRETLGIPSSYDRKR 429 >UniRef50_C6VM89 RNA polymerase factor sigma-54 n=5 Tax=Lactobacillaceae RepID=C6VM89_LACPJ Length = 445 Score = 202 bits (513), Expect = 3e-50, Method: Compositional matrix adjust. Identities = 137/474 (28%), Positives = 239/474 (50%), Gaps = 44/474 (9%) Query: 6 QLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSE 65 Q R SQ+LAMT +LQQ+I++LQ + EL+ L Q NPL+ ++DT + Sbjct: 10 QQRQSQKLAMTQRLQQSIQMLQFNVEELRDFLTQKALENPLI-------DVDTNWNNNHA 62 Query: 66 TLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLM 125 +L+ A + T D+I+ +L +YL+ Sbjct: 63 SLNAAKNV-------------------------TTKADFIER----VSTSNQHSLFEYLL 93 Query: 126 WQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQRF 185 Q+ LT R I +++ VD GYL + + + I++ + +L Q+ Sbjct: 94 DQIHLTMRDTHLRQIVLYLIEYVDVNGYLRIDERQVRQETKATPIELLDAITLL---QQL 150 Query: 186 DPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDV 245 DP GV A+ L++ L++Q ++ D P L A +++ + D L N + L + ++ Sbjct: 151 DPPGVGARSLQEALMLQ-TENDDHAPNL--AYIVLEESFDELVNRQWDLLAKKYQVTLAD 207 Query: 246 LKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYAS 305 + + +++L P PG +I Y+ PD++V G + S + P ++ Y Sbjct: 208 ISSIYDYVRTLTPVPGAAIGQETTGYIFPDLVVTNQGGQLALRTASMAQPVVKFRSRYYQ 267 Query: 306 MCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPM 365 + +++++ + W+ SL+ R T+ RV I+E+Q FF + ++P+ Sbjct: 268 QMGQHDDQEVTEYLKEKKSEYDWIANSLQQREATIFRVGTAIIERQADFFLEKTTDLRPL 327 Query: 366 VLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTE--GGGEASSTAIRAL 423 +L D+AQ +++HESTISR KY+ + G+FELK FF+ V+ GG S+ +++ Sbjct: 328 LLRDVAQQLKVHESTISRSINGKYIQTDFGMFELKRFFTKAVSKRPTGGKIVSADSVQHR 387 Query: 424 VKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQLV 477 + LI EN KPLSD K+ +L+ + + ++RRTVAKYRE+L+IP S++RKQ + Sbjct: 388 IVTLIEQENKEKPLSDQKIVQILNAENVELSRRTVAKYRENLNIPSSSRRKQYL 441 >UniRef50_B0VJD8 RNA polymerase sigma-54 factor n=1 Tax=Candidatus Cloacamonas acidaminovorans RepID=B0VJD8_9BACT Length = 485 Score = 201 bits (510), Expect = 6e-50, Method: Compositional matrix adjust. Identities = 151/495 (30%), Positives = 257/495 (51%), Gaps = 33/495 (6%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLE-QIDTHEEIDTR 59 M+Q L L+ Q+LA+ P++ Q++++L L LEL+ ++Q L +NPLLE + + E+ Sbjct: 4 MEQYLSLKQKQELALKPKMLQSLKMLALPILELESYIKQELVNNPLLELREEKDEDDIDE 63 Query: 60 ETQDSETLDTADALEQKEM----------PEELP--LDASWDTIYTA--GTPSGTSGDYI 105 + T +++ +E+ +M EEL LD +W+ +++ G S + D+ Sbjct: 64 SNFEQSTPESSTPIEESDMSENHLETLAEAEELTEILD-TWNEYHSSYEGWSSDSETDHT 122 Query: 106 DDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESI 165 + + + + L+ ++ +EL P ++ D T IVD+ D G+L +I+ Sbjct: 123 EALIRYEENGKEKFLEQ--LFPLEL-PENEID--FITDIVDSCDSYGFLPKGF-NIVNLA 176 Query: 166 GDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLD 225 I + E + I P G++A+++ +CL+ QL++ K L ++S+H + Sbjct: 177 KKYLITAERAEGLHNIILSLSPKGISARNITECLMAQLTEEQKQNRILVG---LVSEHFE 233 Query: 226 LLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHW 285 L + ++ + + E+ + A I LDP+PG I + YV PDV ++ +G + Sbjct: 234 NLIHRRYQKIASAYGVSEETILLAKEQISKLDPKPGLRILSTSAVYVFPDVTMKLIDGKY 293 Query: 286 TVELNSDSIPRLQINQHYASMCNNARNDGDS-QFIRSNLQDAKWLIKSLESRNDTLLRVS 344 + +N P + I+ Y M N D ++ Q++R + AK+LIKS+ R TL RVS Sbjct: 294 EIIINDHITPNIIISPRYRKMINRGYFDKETMQYVRERINSAKFLIKSIYMRMRTLERVS 353 Query: 345 RCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFS 404 I+ Q FF G MKP+ A IA+ + ++ESTISRV KY +P GI+ K FF+ Sbjct: 354 LSIINHQYDFFYLGTGQMKPLTYAVIARDLGVNESTISRVVKHKYAETPYGIYAFKDFFT 413 Query: 405 SHVNTEGGGEASSTAIRALVK----KLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAK 460 S T G + + R VK +LI E+ KP SD +L LL +G+ ++RR + K Sbjct: 414 S---TAGFDDDYQSVSRQKVKTHLIRLIETEDKKKPYSDQELVELLKAEGLNISRRIITK 470 Query: 461 YRESLSIPPSNQRKQ 475 YR+ L I S+ R+Q Sbjct: 471 YRDELGILNSHLRRQ 485 >UniRef50_C2ME31 RNA polymerase sigma-54 factor n=1 Tax=Porphyromonas uenonis 60-3 RepID=C2ME31_9PORP Length = 492 Score = 200 bits (509), Expect = 9e-50, Method: Compositional matrix adjust. Identities = 154/496 (31%), Positives = 245/496 (49%), Gaps = 60/496 (12%) Query: 18 QLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSETLDTADALEQKE 77 Q+QQ I+LL+L EL+Q + +E NP LE+ T + +E +D++ Sbjct: 20 QIQQ-IQLLELPVTELEQRISAEIERNPALEEAYTARDDSNESNATNEQVDSS------- 71 Query: 78 MPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQ----GETTQ------------TLQ 121 L S A G DDE+P Y+ E Q +L Sbjct: 72 ------LSQSDQDRLEARNEFGN-----DDEIPAYRLRMIAEREQQREEIPFAAHGLSLT 120 Query: 122 DYLMWQVELTPFSDTDRAIATSIVDAVDETGYL--TVPL--EDILESIGDEEIDIDEVE- 176 DYL Q+ ++ + + IV + E GYL ++PL +D+L G ID E E Sbjct: 121 DYLDNQLSTLELTERQQLLVPYIVGNLREDGYLDRSLPLIAQDLLLKEG---IDASEQEL 177 Query: 177 -AVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTL 235 +L+ IQ DP GV A+ L++CLL+QL + +++ + A I+S + D A F L Sbjct: 178 AELLQIIQSLDPPGVGARTLQECLLLQLHRMEQSETVVN-AEKIVSSYFDDFAYKRFERL 236 Query: 236 MRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEP---EYVIPDVLVRKHNGHWTVEL-NS 291 + + L+ +LI L P+PG + V PD ++ +H G T+ L + Sbjct: 237 TKRG-FDQKQLEAVSSLIHQLSPKPGNGFDSSAETLLSKVTPDFIITEHEGELTLTLTDQ 295 Query: 292 DSIPRLQINQHYASMCNNARNDGDS---------QFIRSNLQDAKWLIKSLESRNDTLLR 342 IP L ++ Y M + R+ S Q+ R ++DA+W I +L+ R DTL Sbjct: 296 REIPALTVSPSYKQMIADYRDASTSERAKLKETIQYTRDRVKDAEWFISALQQRYDTLRT 355 Query: 343 VSRCIVEQQQAFFEQGEEY-MKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKY 401 I+ Q+ FF G+ ++PM+L D+A+ + STISRV+ KY+ GI+ +K+ Sbjct: 356 TMTIIMTLQRDFFLSGDIIDLRPMILKDVAELARLDISTISRVSNSKYVQCQWGIYPVKF 415 Query: 402 FFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKY 461 FFS + + G + S+ I+ +K++I E+P +PL+D +LT LS QG +ARRT AKY Sbjct: 416 FFSESMQAKDGSDVSTKVIKDCLKQIIDGEDPRQPLTDDQLTEELSRQGYDIARRTTAKY 475 Query: 462 RESLSIPPSNQRKQLV 477 R+ L +P + R++L Sbjct: 476 RQQLGLPTARLRRKLT 491 >UniRef50_B4S818 RNA polymerase, sigma 54 subunit, RpoN n=10 Tax=Chlorobiaceae RepID=B4S818_PROA2 Length = 489 Score = 199 bits (506), Expect = 2e-49, Method: Compositional matrix adjust. Identities = 119/351 (33%), Positives = 197/351 (56%), Gaps = 14/351 (3%) Query: 136 TDRAIATSIVDAVDETGYLTVPLEDILESI-GDEEIDID--EVEAVLKRIQRFDPVGVAA 192 T+ IA+ I+ +D+ GYL L+ + + + + +D++ +++ VL IQR DP G+A Sbjct: 142 TELLIASEILGNLDDDGYLQDGLDIVADGLLTNHGVDVEPRDIQRVLHIIQRMDPPGIAV 201 Query: 193 KDLRDCLLIQL-----SQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLK 247 LR+ LL+QL + T + A+ ++ + D N+ + +++ +++ + L+ Sbjct: 202 ASLRERLLVQLELNQAASGSGGTAII--AKKLLDSYFDDFLNNRYEKIIKRMQIRPEQLE 259 Query: 248 EAVNLIQSLDPRPGQSIQ-TGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASM 306 A+ I +LDP P Q TG+ Y++PD +V NG T LN S +Q++ Y + Sbjct: 260 AAIKEIAALDPHPFVVYQDTGD--YIMPDFIVTYENGRLTAALNDRSNLSVQVSDAYRDV 317 Query: 307 CNNAR-NDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPM 365 N + GD QF+R L AK ++E R TLL V +++ Q FF G + P+ Sbjct: 318 LKNRKIPRGDKQFVRQKLNRAKEFASAIEQRRHTLLSVIDALMQFQYEFFVSGPSMLVPL 377 Query: 366 VLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVK 425 + D+A+ STISR KY+ + G FELKYFFS T+ G E S+ ++ ++ Sbjct: 378 GMKDVAEKSGFDLSTISRAVNGKYVQTRFGTFELKYFFSGGTTTDEGEELSTKIVKQYLQ 437 Query: 426 KLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 ++++AE+ KPLSD +L +L E+GI +ARRTVAKYRE + IP + RK++ Sbjct: 438 EMVSAEDSKKPLSDDRLAQMLEEKGIRIARRTVAKYREQMQIPVARLRKKI 488 >UniRef50_B9KSN5 RNA polymerase, sigma 54 subunit, RpoN n=3 Tax=Rhodobacter sphaeroides RepID=B9KSN5_RHOSK Length = 424 Score = 198 bits (504), Expect = 3e-49, Method: Compositional matrix adjust. Identities = 115/356 (32%), Positives = 196/356 (55%), Gaps = 20/356 (5%) Query: 120 LQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVL 179 L +L Q+ + DRA+A +++A++ +G+L PL + + G EE + VL Sbjct: 67 LHAWLGSQIRMAMADPEDRALAFRLLEALEPSGWLGQPLSRL--APGTEE----QAARVL 120 Query: 180 KRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVT 239 R+Q+ +P G+ A+DLR+CL++Q + L+ A + D LD LA+ + R Sbjct: 121 HRLQQMEPAGIFARDLRECLMLQARDRGQ----LDPAMAAVLDRLDCLASDGPAAVARAA 176 Query: 240 RLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQI 299 L+E + + LI+ +DP+PG + G+ PD++ R+ W+VELN +P +++ Sbjct: 177 GLEEQTVLRCLELIRRMDPKPGAAFAPGDAPLREPDLIARRTASGWSVELNRSMLPEVRV 236 Query: 300 NQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE 359 DG +R Q+A L K+ R TLL V +VE+Q+AF ++G Sbjct: 237 TPL---------PDGSPADVRQMHQEALSLAKATGLRGRTLLAVGALVVERQRAFLDEGP 287 Query: 360 EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTA 419 + + + + A A+ +H STISR T + +PRG+ ++ FS+ + EG G S+ A Sbjct: 288 AALVALGIGEAADALALHPSTISRTVTGLLMATPRGLVAVRDLFSARL-AEGTGALSAPA 346 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 ++AL+++ IAAE+ PL D ++ +L+ +GI VARRTVAK+R +PP+ R++ Sbjct: 347 LQALIRETIAAESAQAPLEDGEIVEVLARRGIHVARRTVAKHRTLAGLPPAAVRRR 402 >UniRef50_C9LEP5 RNA polymerase sigma-54 factor n=1 Tax=Prevotella tannerae ATCC 51259 RepID=C9LEP5_9BACT Length = 491 Score = 198 bits (504), Expect = 3e-49, Method: Compositional matrix adjust. Identities = 147/490 (30%), Positives = 248/490 (50%), Gaps = 62/490 (12%) Query: 24 RLLQLSTLELQQELQQALESNPLLEQI--DTHEEIDTRETQDSETLDTADALEQKEMPEE 81 RLL+L ++L+Q ++ LE N LE++ D +EE ET +++ ++ A ++ +E Sbjct: 26 RLLELPVMDLEQRVRNELEDNAALEEVGPDKNEEDMAAETTEADDNESETAEDEPHADDE 85 Query: 82 LPLDASWDTIYTAGTPSGTSGDYI-DDELPVY-------------QGETTQTLQDYLMWQ 127 + DY+ +D++P Y Q T D L Q Sbjct: 86 -------------------TADYLTEDDIPDYLLRQRNEAEEREVQLAATNNAYDELYRQ 126 Query: 128 VELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDE-------EIDIDEVEAVLK 180 + + R I ++ ++D GYL L +IGDE ++ +E+E +L Sbjct: 127 IGEHDLDEQQRRIMEYLIGSLDNDGYLRKDLR----TIGDELAIYQNLDVSEEELERLLH 182 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 +QRF+P G+ A+DL++CL +QL + + + A I+ H + T+ + Sbjct: 183 LLQRFEPRGIGARDLQECLRVQLESPEFKSSFKALAIAIVDRCFKDFTYHHWNTIKVRLK 242 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQ---TGEPEYVIPDVLVR-KHNGHWTVELNSDSIPR 296 ++ L++A LI+ L+P+PG ++ G IPD V + +G +V LN+ +P Sbjct: 243 TDDESLQQAAQLIRRLNPKPGSALNETTIGTAPTAIPDFYVHVEDDGSISVRLNNGDVPE 302 Query: 297 LQINQHYASMC---------NNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCI 347 L++++ + N ++ D + R + DA+ ++ + R TL+ V R I Sbjct: 303 LRVSKAFKDTVREFGGHKDLNKSQRDA-YVYARKKVGDAQLFLELINRRRKTLMGVMRGI 361 Query: 348 VEQQQAFF--EQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSS 405 VE+Q+ FF + E + PM L D+A+ + ST+SRVT KY+ + RG++ LK+FFSS Sbjct: 362 VERQRDFFLNDDDEMLLVPMTLRDVAEKAGVDISTVSRVTGSKYVQTQRGLYPLKFFFSS 421 Query: 406 HVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESL 465 + G E SS +A +++ IAAE+ PL+D LT ++ E+G ++RRTVAKYRE L Sbjct: 422 QFTSGEGEELSSRQAKAALREAIAAEDKRHPLADEALTIVMKEKGFPISRRTVAKYREQL 481 Query: 466 SIPPSNQRKQ 475 IP S RKQ Sbjct: 482 GIPKSGLRKQ 491 >UniRef50_B6BVF1 RNA polymerase sigma-54 factor n=1 Tax=beta proteobacterium KB13 RepID=B6BVF1_9PROT Length = 422 Score = 195 bits (496), Expect = 2e-48, Method: Compositional matrix adjust. Identities = 138/480 (28%), Positives = 237/480 (49%), Gaps = 65/480 (13%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M L L L ++P ++Q++ LL+ + +E++ + L NP L Q+D E+I+ Sbjct: 1 MALSAHLALKNSLKLSPNIEQSVNLLKSNEIEIELLINDFLSKNPYL-QLDDSEKINLNY 59 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 + A+ +E E + S D IY G S L Sbjct: 60 S--------ANVIENNEE------NISEDNIY------GLS------------------L 81 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIG-DEEIDIDEVEAVL 179 +DYL+ + D +A I+D +D+ GYL + + + D + +++ ++ Sbjct: 82 KDYLLNNLFDLGLDYEDELLARLIIDYIDDNGYLKEGYDFFITELALDSDTANKKIKNLI 141 Query: 180 KRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVT 239 ++ G+ A++L++CL QL QF + L+ + II +HL LAN +F+ + Sbjct: 142 LKLNTISSPGIGARNLQECLDFQLDQFIQNQIVLDSKK-IIENHLVDLANKNFKKIATNL 200 Query: 240 RLKEDVLKEAVNLIQSLDPRPGQS-IQTGEPEYVIPDVLVRKHNGHWTVEL--NSDSIPR 296 L+ D + + I +L+P+PG + + + +++ PD++V+ + + V L N DS+ Sbjct: 201 NLQTDHIIKCNEFIVTLNPKPGLAYLSSDTSQFITPDIIVKNNGDKFNVSLKNNYDSLKL 260 Query: 297 LQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFE 356 + + + ND D+ AKW IK+L R ++RV I + F Sbjct: 261 FNLKK-------DEINDKDAY------NQAKWFIKNLNYRKINIIRVVNAIFSHHKEFL- 306 Query: 357 QGEEYMK-PMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEA 415 E +K P+ + IA +E+HEST+SR+ K++ +P GIFELKYFF + VN Sbjct: 307 -NENILKSPLNIKTIANQLEIHESTVSRIVNNKFIETPHGIFELKYFFINEVNN-----T 360 Query: 416 SSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 S+ I +K +I EN KPLSDS++ L ++ I ++RRTVAKYRE L I +++RK+ Sbjct: 361 SNKTILDKIKAIIRDENKVKPLSDSEILLTLGQENITISRRTVAKYREQLGILSASKRKK 420 >UniRef50_C8WN98 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Eggerthella lenta DSM 2243 RepID=C8WN98_EGGLE Length = 474 Score = 194 bits (494), Expect = 4e-48, Method: Compositional matrix adjust. Identities = 143/481 (29%), Positives = 237/481 (49%), Gaps = 27/481 (5%) Query: 2 KQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRET 61 + + +R Q A P Q + +L L L ++ +E NPLL+ H + E Sbjct: 14 RSNVSVRTKQHFA--PTAIQGLEVLSLPVARLDAYVRDLVERNPLLDFDYDHGSLSFEE- 70 Query: 62 QDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQT-- 119 L +E + + + A PS + D +L + E +QT Sbjct: 71 -----------LPDEEDGDAAADAETAAEGFDARPPSAIAWDARGFDLARLRDECSQTET 119 Query: 120 LQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVL 179 L ++ Q+ + DRA+ ++++ +D+ GY + + + G I++ + +L Sbjct: 120 LHSHVRMQLTGVRVGEEDRALLDALIENIDDDGYFSGSMHALCAEAGRS---IEDGQRLL 176 Query: 180 KRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVT 239 + +Q+ P GV A+DL +CL +Q+ D P+ + R ++ LD LA + LMRV Sbjct: 177 ELVQQLSPRGVGARDLAECLALQI---DDGLPYADVIRDMLRTGLDDLAENRTTKLMRVY 233 Query: 240 RLKEDVLKEAVNLIQSLDPRPGQSI-QTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQ 298 L D L +I +LDPRPG S Q YVIPD+ +R+ ++V++ + L Sbjct: 234 HLTIDDLAAIREVICTLDPRPGSSFSQRKGTVYVIPDITIRRDGTAFSVQVTGELSETLV 293 Query: 299 INQHYASMCNNARNDGDS-QFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQ 357 +N Y M D ++ +++ +A + +++ R TL R + E Q FF Sbjct: 294 LNGSYDRMEQRGGMDDEAREWLHEKRAEADAALANIDQRRQTLHRFGVYLAEVQYDFFMG 353 Query: 358 GEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNT---EGGGE 414 GE M+P+ + A A+ +H STISR KY +P G+F LK+FFSS V E Sbjct: 354 GEARMRPLTMQQAADALGVHVSTISRTVQDKYALTPWGVFPLKHFFSSSVACTAEERRHA 413 Query: 415 ASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRK 474 SS AI+ +K L+A E+ PLSD+ +T++L+ +G+ + RRTVAKYRE+L I +QR+ Sbjct: 414 LSSLAIKDRIKDLVAQEDRRTPLSDATITAILNGEGVDIKRRTVAKYREALGIGRQSQRR 473 Query: 475 Q 475 + Sbjct: 474 R 474 >UniRef50_A6L093 RNA polymerase sigma-54 n=31 Tax=Bacteroidales RepID=A6L093_BACV8 Length = 489 Score = 194 bits (494), Expect = 5e-48, Method: Compositional matrix adjust. Identities = 144/487 (29%), Positives = 256/487 (52%), Gaps = 41/487 (8%) Query: 14 AMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSETLDTADAL 73 ++PQ ++LL+L T+EL++ + + NP LE+ +E+ E ++E ++ D Sbjct: 18 TLSPQQILVVKLLELPTVELEERIHSEILDNPALEE---GKEMPENEDDNTEYVENEDGN 74 Query: 74 EQKEMPEELPLDASWDTIYTAG-TPSGTSGDYIDDELPVYQGET-TQTLQDYLMWQVELT 131 L ++ D I S + + +E+P + + L+D L Q ELT Sbjct: 75 TDSNEDFSLGDYSNEDDIPDYKLQEHNRSKEGVAEEIPFSDAVSFYEILKDQLQMQ-ELT 133 Query: 132 PFSDTDRAIATSIVDAVDETGYLTVPLEDILESIG-------DEEIDIDEVEAVLKRIQR 184 P R IA ++ ++D+ G L +E I++ + EE E+ +L+ IQ Sbjct: 134 P---EQRDIAEYLIGSLDDDGLLRKNMESIMDELAIYRGIYTTEE----ELNKILEIIQD 186 Query: 185 FDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARL-IISDHLDLLANHDFRTLMRVTRLKE 243 FDP G+ A+ L++CLL+Q+ + K L++ L II D + +++ + E Sbjct: 187 FDPAGIGARSLQECLLLQIQR--KADSPLKQIELDIIGKCCDEFTRKNKERIIQKLGITE 244 Query: 244 DVLKEAVNLIQSLDPRPGQSIQTGEP-----EYVIPDVLVRKH-NGHWTVELNSDSIPRL 297 + EAV+ + L+PRPG S+ GE + +IPD +V + + T+ LN+ ++P L Sbjct: 245 EQYNEAVSDLTKLNPRPGSSL--GEAMGKNMQQIIPDFIVETYEDDTITLSLNNRNVPEL 302 Query: 298 QINQHYASMCNNARNDGDSQ---------FIRSNLQDAKWLIKSLESRNDTLLRVSRCIV 348 ++++ + + + + D+Q F++ + A+ I +++ R TLL + I+ Sbjct: 303 RLSRQFTELLDEHTRNKDNQSKASKDALMFLKQKVDAAQGFINAVKQRQHTLLTTMQAII 362 Query: 349 EQQQAFFEQGEE-YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHV 407 + Q+ FF +G+E +KPM+L D+A+ + STISRV+ KY+ + GI+ LK+FFS Sbjct: 363 DIQRPFFLEGDESLLKPMILKDVAERSGLDISTISRVSNSKYVQTNYGIYSLKFFFSDGY 422 Query: 408 NTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSI 467 TE G E S I+ ++K+ + E+ KP +D +L L +G +ARRTVAKYR+ L+I Sbjct: 423 TTEDGEELSVREIKRILKECVDTEDKEKPYTDDELAETLKTKGYPIARRTVAKYRQQLNI 482 Query: 468 PPSNQRK 474 P + R+ Sbjct: 483 PVARLRR 489 >UniRef50_A7B1W8 Putative uncharacterized protein n=1 Tax=Ruminococcus gnavus ATCC 29149 RepID=A7B1W8_RUMGN Length = 442 Score = 193 bits (491), Expect = 1e-47, Method: Compositional matrix adjust. Identities = 136/475 (28%), Positives = 251/475 (52%), Gaps = 41/475 (8%) Query: 4 GLQLRLSQ-QLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQ 62 GL+L++ Q Q Q++QA R+LQ++ E+ +Q+ NPL+E + E + Sbjct: 2 GLELKVEQKQRVYQKQIEQA-RILQMNAQEIAVYIQEVALENPLIEVEELAEAPLEELVR 60 Query: 63 DSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQD 122 E + +D E + AS DT + S G + ++ Q E+ L D Sbjct: 61 --EDMRKSD---------ETGVTASEDTDW-----SYAGGHQLLEDWWTLQEES---LVD 101 Query: 123 YLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRI 182 + Q+ P + ++ I + ++D GYL + ++ + E I + E+ + L+ + Sbjct: 102 IIHQQLLTMPIGEKEKKIVEKLAGSLDSRGYLEISVKKLAEYI---PCSVRELRSALEIL 158 Query: 183 QRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARL---IISDHLDLLANHDFRTLMRVT 239 + +P G+ A DL++CL++QL + +++RL ++ ++L+ L+ H + + Sbjct: 159 KSLEPAGIGAADLKECLILQLKR-------QKDSRLAITLVKNYLEDLSKHKISAIAKEL 211 Query: 240 RLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQI 299 +E +++A + I++L+P+PG+ YVIPD++V K +G + ELN L++ Sbjct: 212 GEEEAAVRDAFSRIRTLNPKPGRIYGRNTGGYVIPDIIVSKEHGKYIAELNEAVYRELRL 271 Query: 300 NQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE 359 N+ Y + +++ ++I A+WL +E R+ TL R++ +V+ Q+ F + G+ Sbjct: 272 NEFYVKL-RDSKEAEVREYIMQKQAQAEWLRACIEQRSHTLQRIADILVDFQRMFLDSGK 330 Query: 360 EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTA 419 + MKP+ D+AQ +E++ESTISR KYL G++ L F +G E SS + Sbjct: 331 D-MKPIRQKDVAQIMEVNESTISRAVKGKYLQCGWGVYALSDFMP-----KGTEEVSSDS 384 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRK 474 ++ +++ I +E+ KPLSD KL L E+GI ++RRTVAKYR ++I + R+ Sbjct: 385 VKLMLRNFIQSEDKKKPLSDQKLAQKLGEEGIQISRRTVAKYRMQMNILDAAGRR 439 >UniRef50_C8WRI0 RNA polymerase, sigma 54 subunit, RpoN n=2 Tax=Alicyclobacillus acidocaldarius RepID=C8WRI0_ALIAD Length = 421 Score = 193 bits (490), Expect = 1e-47, Method: Compositional matrix adjust. Identities = 137/472 (29%), Positives = 231/472 (48%), Gaps = 55/472 (11%) Query: 4 GLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQD 63 GL+L + Q+L +T +++ ++R+L LS+ +L EL++ E P I +R Sbjct: 5 GLELSMRQELRLTAEMRLSLRVLALSSADLADELERFAEEEPWFRYERPRPAIVSR---- 60 Query: 64 SETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDY 123 +E +D P+ + + + L++ Sbjct: 61 AEDVD-----------------------------------------PLARVASREPLEER 79 Query: 124 LMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQ 183 L ++ L +A + D +DE GYL P++ I E +G + E A +Q Sbjct: 80 LKHELRLMDLPAPVLRVALYLADDLDERGYLAEPIDVIAERLGASPAEAREALAA---LQ 136 Query: 184 RFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKE 243 DP G+ A+DL CLL+QL ++ P II HL +A + + Sbjct: 137 SCDPPGIGAEDLTSCLLLQLR--NEREPLKSLMASIIRFHLSDVAEGRLDDIASSLSVSL 194 Query: 244 DVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHY 303 ++EAV I+ L P P + ++PDVLVRK G WTVE+ + PRL++ Y Sbjct: 195 AQVEEAVRRIRRLTPAPAIAASNDPVAPLMPDVLVRKVAGEWTVEVTEWAAPRLELRAEY 254 Query: 304 ASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMK 363 + + + +F+ + L+ A WL +++E R TL V+ +V Q+ + E+G ++ Sbjct: 255 RRLMQSGEEEA-RRFVSARLKRAAWLTRAIERRRMTLQSVAEALVRWQEGYLERGAVAIR 313 Query: 364 PMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRAL 423 P+ LADIA+ + +HEST+SR K L SP+G+ ++ FS V EA+ +A Sbjct: 314 PLRLADIAEEIGVHESTVSRAVKDKILGSPQGLIPMERLFSVEVAPGWSQEAA----KAR 369 Query: 424 VKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 + +++ AE+ A PLSD + +LL+ +G ++RR +AKYRE+L IP S QR++ Sbjct: 370 LAEIVRAEDKASPLSDQAIANLLASEGCRLSRRAIAKYREALRIPNSFQRRR 421 >UniRef50_C2ECN0 RNA polymerase factor sigma-54 n=1 Tax=Lactobacillus ruminis ATCC 25644 RepID=C2ECN0_9LACO Length = 449 Score = 193 bits (490), Expect = 1e-47, Method: Compositional matrix adjust. Identities = 135/468 (28%), Positives = 230/468 (49%), Gaps = 53/468 (11%) Query: 13 LAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSETLDTADA 72 LAMT Q+QQ+IR+L+ + +L L NP + +H + +E A Sbjct: 29 LAMTQQMQQSIRILKYGSEDLHNFLSNVELENPFMIVNVSHSYVTGGLDHQNEHDIAEFA 88 Query: 73 LEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTP 132 +E+K Q+L DYLM QV+LT Sbjct: 89 VEKK----------------------------------------AQSLYDYLMDQVKLTM 108 Query: 133 FSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAV--LKRIQRFDPVGV 190 R + + +D+ GYL LE + + G ID+V + L +Q+ DP G Sbjct: 109 RKTPIRDMVVYFISQLDQNGYLKADLEKLSKEKG-----IDKVLMLDALTLLQQLDPPGT 163 Query: 191 AAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAV 250 A++L++CL++Q+ Q+D + P A I+ + + N + + + + +++ + Sbjct: 164 GARNLQECLILQV-QYDSSAPL--NAEKILKEDFEDFTNRKWSKIAKKHCISIGDVQKIL 220 Query: 251 NLIQSLDPRPGQSIQTGEPEYVIPDVLV-RKHNGHWTVELNSDSIPRLQINQHYASMCNN 309 + +Q+L P PG E Y+ PD+++ +K +G V+L +S P ++ + Y N Sbjct: 221 DYVQTLSPAPGAIYDQSEVGYIEPDLVIEKKLDGSLEVKLTKESNPEIRFKKEYYESLKN 280 Query: 310 ARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLAD 369 + + +++ + + + + + R +TLLR+ R IVE+Q FF + +KP +L D Sbjct: 281 SSDKHVLDYLKEKRNEFEKIQEDVLMRGNTLLRLGRLIVERQHDFFTESNRPLKPFLLRD 340 Query: 370 IAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEG--GGEASSTAIRALVKKL 427 AQ +++HESTISR + KYL + ELK FFS V+ G G S+ I+ ++ + Sbjct: 341 AAQKLQLHESTISRAVSGKYLLYEGKVMELKEFFSRAVSYAGENGENVSADEIQQKIRLI 400 Query: 428 IAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 + E+ PLSD K+ + E+G+ V+RRT+AKYRE L IP S+ RK+ Sbjct: 401 VEKEDKKNPLSDQKIVDKMKEEGLKVSRRTLAKYRERLGIPASSFRKR 448 >UniRef50_A8UBI0 RNA polymerase sigma-54 factor n=28 Tax=Lactobacillales RepID=A8UBI0_9LACT Length = 449 Score = 193 bits (490), Expect = 1e-47, Method: Compositional matrix adjust. Identities = 138/470 (29%), Positives = 242/470 (51%), Gaps = 38/470 (8%) Query: 11 QQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSETLDTA 70 QQLAMTPQLQQ+I++LQ + +L + L+Q NP + I + T ++ T Sbjct: 13 QQLAMTPQLQQSIQMLQYNRKDLVEFLKQKSLENPFIS-------ISVKSTPRNQGTSTQ 65 Query: 71 DALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVEL 130 + ++ + WDT+ A TP+ + + D++ + ET L+D ++W Sbjct: 66 KYNSNQSRTDQTSNGSVWDTV--ATTPAASLYATVIDQIHLSFRETA--LRDLIIW---- 117 Query: 131 TPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGV 190 + +D GYLTV LED + + D ++ L +Q+ +P GV Sbjct: 118 -------------LAQYLDNNGYLTVSLED---ACTLTQADPLQLLDALTLLQQLEPAGV 161 Query: 191 AAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAV 250 A++L++CL++Q ++ + P L A LI+ + + AN + + + + ++E Sbjct: 162 GARNLQECLMLQ-TERKEEAPNL--AYLILEEEFEAFANRKWECIAKRYAISLSEVQEVS 218 Query: 251 NLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDS-IPRLQINQHYASMCNN 309 + I++L P PG + +Y+ PD+ V+ + V + S +P + + Y Sbjct: 219 DFIKTLTPHPGAIFSSTPTQYIRPDLSVKVTDEQEIVVSSVKSGLPVIIFQKEYYEELKV 278 Query: 310 ARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLAD 369 ++ S F+ + +WL ++L R DT+L++ IV Q+AFF + ++ + L Sbjct: 279 LKDKEVSTFLTEKQSEYEWLKRTLIQREDTILKIGIAIVNAQKAFFLSEDHPIQSLTLKT 338 Query: 370 IAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHV---NTEGGGEASSTAIRALVKK 426 IA+ + +HEST+SR KYL + G+FELK+FF++ + + + G SS I+ ++ Sbjct: 339 IAEELSIHESTVSRAINGKYLTTEFGLFELKHFFTNALLSTSEDHDGAISSNQIKKEIQS 398 Query: 427 LIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 LI E+ KPLSD K+ +L + GI ++RRTV KYRE+L I S +RK+ Sbjct: 399 LIQNEDTKKPLSDQKIVDILQKDGIKISRRTVTKYREALFIASSPKRKRF 448 >UniRef50_C3WCT3 RNA polymerase sigma-54 factor rpoN n=1 Tax=Fusobacterium mortiferum ATCC 9817 RepID=C3WCT3_FUSMR Length = 413 Score = 190 bits (483), Expect = 8e-47, Method: Compositional matrix adjust. Identities = 136/480 (28%), Positives = 247/480 (51%), Gaps = 72/480 (15%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M L+L+ +L +T +++ ++ +LQ+S+ +L++ L++ +NP +E Sbjct: 1 MDFSLKLKQETKLILTQEMKTSMNILQMSSSQLKEYLEKEAVTNPAIEI----------- 49 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 T ++ T Y + PS + D+ P+ +TL Sbjct: 50 TYNNYT-------------------------YKSYNPSSSE----DNFSPLDLVSEEETL 80 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 DYL Q+ S + I IV+ +D GYL P +I + + I+ +++ + Sbjct: 81 FDYLEEQLGYLKISSKIKNICLFIVNNLDARGYLATPKLEIKKLLN---INNQQLKEAFE 137 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARL-IISDHLDLLANHDFRTL---M 236 I DP+GV A++L+DCL IQL ++ ++E +I ++L+ +A+ +F + + Sbjct: 138 IIYTLDPIGVGAENLKDCLKIQL----RSKNIIDETLFSLIDNYLEEIASQNFSLIEEEL 193 Query: 237 RVTRLKEDVLKEAVNLIQSLDPRPGQS-IQTGEPEYVIPDVLVRKHNGHWTVELNSDSIP 295 +T KED+L + ++LI++L P P + + + Y++P+ + + T ++N + IP Sbjct: 194 NIT--KEDIL-DYLDLIRTLSPIPARGYVVSTSNNYIVPEAKIEIKDNKLTFKINEELIP 250 Query: 296 RLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFF 355 ++ IN Y+ N + N ++++ +A ++K LE R TL + ++ +Q+ FF Sbjct: 251 KININSSYSD--NPSAN-------KNSIANAINIMKCLEKRYQTLNGILELLIIKQKDFF 301 Query: 356 EQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEA 415 +GE ++ ++L DIA + +HESTISR KYL +P+GI +K F ++ Sbjct: 302 FKGENFLHSLILKDIANELNLHESTISRAIKDKYLDTPQGIISMKSLFVI--------DS 353 Query: 416 SSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 S+ I+ L+++ I EN P SD KL+ LL E+G VARRTVAKYRE L + +RK+ Sbjct: 354 STIIIKKLIEEFITEENKKNPFSDEKLSLLLKEKGYSVARRTVAKYREELGFGSTRERKK 413 >UniRef50_D1PTK8 DNA-directed RNA polymerase sigma subunit RpoN n=8 Tax=Prevotella RepID=D1PTK8_9BACT Length = 525 Score = 190 bits (482), Expect = 1e-46, Method: Compositional matrix adjust. Identities = 143/496 (28%), Positives = 247/496 (49%), Gaps = 62/496 (12%) Query: 23 IRLLQLSTLELQQELQQALESNPLLEQI--DTHEEIDTRETQDSETLDTAD--------- 71 ++LL++ EL++ + L+ NP LE+ D + R+ +D D D Sbjct: 38 VKLLEMPLAELEENVLSELDDNPALEERRDDPDDSGRERDGEDGMLSDPEDEPYEQKTER 97 Query: 72 ---------ALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQD 122 ALE +ELP A + G+ G+ DY + + G+ T++ D Sbjct: 98 EEREEALNNALENLGSDDELPAPAGY-----TGSQGGSDADYEE----IVWGD-TRSFYD 147 Query: 123 YLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIG-DEEIDIDE--VEAVL 179 L Q+ + ++ R++ ++ ++D+ G L L+ I + + ID+ E +E VL Sbjct: 148 KLKEQMGVLVLTEEQRSVMEYLIGSLDDDGLLRKSLDTISDELAIYHNIDVSEEFIEDVL 207 Query: 180 KRIQRFDPVGVAAKDLRDCLLIQLS--QFDKTTPWLEEARLIISDHLDLLANHDFRTL-- 235 R+Q FDP G+ A+ L++CLL+Q+ Q K T + E ++ + D + + Sbjct: 208 HRLQAFDPPGIGARSLQECLLLQIERRQDSKLTRLMRE---VVEQYYDEFTKKHWGRIAQ 264 Query: 236 -MRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGE-----PEYVIPDVLV-RKHNGHWTVE 288 +++T + DV+ E ++ L+P+PG S+ GE + + PD L+ GH + Sbjct: 265 ALQLTHEQADVVHEE---LRKLNPKPGASL--GETLGRNTQQITPDFLIDTDEEGHVSFT 319 Query: 289 LNSDSIPRLQINQHYASMCNNARNDGDSQ---------FIRSNLQDAKWLIKSLESRNDT 339 +N IP L+++ ++ M R+ + + ++ A+ I+++ R T Sbjct: 320 INRGRIPELKVSPSFSDMVKTYRSSKHQMNRQEKEALLYAKQKVEKAQGFIEAVRQRRHT 379 Query: 340 LLRVSRCIVEQQQAFFEQGEEY-MKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFE 398 L + I+ Q+ FF+ G+E +KPM+L DIA+ + STISRV+ KY +P G F Sbjct: 380 LYVTMKAIINWQKKFFQDGDEADLKPMILKDIAEKTGLDISTISRVSNIKYAQTPWGTFP 439 Query: 399 LKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTV 458 L++FF+ TE G E S+ I+ ++K+L+ EN P SD L L ++G +ARRTV Sbjct: 440 LRFFFTDGYVTEDGEELSTRKIKMVLKELVRKENKKMPFSDEALARELKKKGYPIARRTV 499 Query: 459 AKYRESLSIPPSNQRK 474 AKYRE L +P + RK Sbjct: 500 AKYREQLGLPVARLRK 515 >UniRef50_UPI0001906882 RNA polymerase factor sigma-54 n=2 Tax=Rhizobium etli RepID=UPI0001906882 Length = 340 Score = 190 bits (482), Expect = 1e-46, Method: Compositional matrix adjust. Identities = 125/349 (35%), Positives = 188/349 (53%), Gaps = 24/349 (6%) Query: 5 LQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLE--QIDTHEEIDTRETQ 62 L R Q L +TPQL +IRLLQL+ EL Q ++Q +E NP L+ D + Sbjct: 7 LHQRQQQSLVITPQLIASIRLLQLAHTELNQFVEQEIEKNPFLDLASNDGGASGVSPTAA 66 Query: 63 DSETL----DTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQ 118 D + D D + +MPE L + W +I G S +D+ +T+ Sbjct: 67 DDPNISAREDHVDGPARTDMPE---LSSPWKSIRDTGNLSPGERPSLDEF-----AASTE 118 Query: 119 TLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAV 178 TL +++ Q+ LT F+ +R IA ++ D +D+TGYL V L+++ E + E V+ V Sbjct: 119 TLHEHVAHQIALTAFTPQERLIAGALADHLDDTGYLQVNLQELAERLNSPEAG---VKRV 175 Query: 179 LKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRV 238 L+ +Q FDP G+ A+ L +CL IQL Q D+ P A + +L+LLA DFR L R Sbjct: 176 LEALQLFDPPGIFARSLGECLEIQLRQRDRFDP----AMAALVANLELLARRDFRALKRR 231 Query: 239 TRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKH-NGHWTVELNSDSIPRL 297 R+ ED L + +N I++LDP+PG Q+ E +IPDV V G W VELN + +P++ Sbjct: 232 CRVDEDDLLDMLNEIRALDPKPGNQFQSARSESIIPDVFVLPSPGGGWHVELNREILPKV 291 Query: 298 QINQHYASMCN--NARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVS 344 INQ Y + A++ D F+ Q A WL++SL+ R T+L+V+ Sbjct: 292 LINQTYFAQVTRLTAQSSKDQSFLNECFQSASWLVRSLDQRATTILKVA 340 >UniRef50_C9RQK6 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Fibrobacter succinogenes subsp. succinogenes S85 RepID=C9RQK6_FIBSS Length = 543 Score = 184 bits (468), Expect = 5e-45, Method: Compositional matrix adjust. Identities = 163/547 (29%), Positives = 271/547 (49%), Gaps = 76/547 (13%) Query: 1 MKQGLQLRL--SQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLE---------- 48 M G+Q + +Q+ ++P L Q++++LQ ++ EL+ +++ +E NPLLE Sbjct: 1 MNLGMQANIGQTQEQTLSPALLQSVKMLQKTSQELETAIKEEVEVNPLLEVDDGDFDDQD 60 Query: 49 -QIDTH-EEIDTRETQDSETLDTADALEQKEMPEELPLDAS----------WDTIYTAGT 96 +D EE+D R D D D + + + + +D+S WD+ GT Sbjct: 61 VSVDKDPEELDPRADSDDLPDDIED-MARGSLDDTADVDSSYLDGESSDVNWDSYLGDGT 119 Query: 97 P----------SGTSGDYIDDELPVYQ-GETTQT-LQDYL-MW------QVELTPFSDTD 137 SG D + P+ G++ Q L+D L +W Q +L T+ Sbjct: 120 SYDDAPFNDLNSGGKDPDEDWDRPIKDVGKSLQEQLEDQLRLWNGTRELQEQLQENGVTE 179 Query: 138 ---RAIATSIVDAVDETGYLT-VPLEDILESIGDEEID--IDEVEAVLKR---------- 181 R + +++++++ G+L V ++ E++ + D IDE+E VL+ Sbjct: 180 EHFRKLVQYLINSINDDGFLCDVNRDNESEAMIVQSDDKYIDEIERVLRGELKLEDASLP 239 Query: 182 -------IQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRT 234 +Q F P G+ A+D R+C LIQ P L A I+ + + L + Sbjct: 240 VREAVHVLQSFKPSGIGARDQRECFLIQAYAI-PNFPSL--AIRILEEEYENLLQLRYAK 296 Query: 235 LMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSI 294 + + + D +K AV + L P PG + + D+ V + G++ V + Sbjct: 297 IAKALNVSADEVKTAVASLSRLRPHPGFQLSHSYSHIINADLKVVEKKGNYEVVCFKTKM 356 Query: 295 PR-LQINQHY-ASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQ 352 + L+INQ Y A + + + + D +++++ L A LIK++++R T+ V R IV++Q+ Sbjct: 357 QKSLRINQTYKAILTDPSASKQDKEYVKAQLAKATDLIKAVDNRFSTIELVMRAIVKRQR 416 Query: 353 AFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGG 412 FFE G ++KPM+L D+A V + ST+ R T QKY+ +P G++ELK FF+S V Sbjct: 417 GFFENGPAFLKPMILQDVADDVHLAVSTVQRATDQKYVETPYGMYELKQFFTSGVKQGSA 476 Query: 413 GEA---SSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRES-LSIP 468 +A S I +K LI E+ + PLSD ++ L +QGI VARRTVAKYRE L I Sbjct: 477 PDAEEVGSAQIIDAIKTLIDEEDKSSPLSDQDISDELLKQGIKVARRTVAKYREKELKIL 536 Query: 469 PSNQRKQ 475 P NQRK+ Sbjct: 537 PKNQRKR 543 >UniRef50_A9B5F2 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Herpetosiphon aurantiacus ATCC 23779 RepID=A9B5F2_HERA2 Length = 461 Score = 184 bits (467), Expect = 7e-45, Method: Compositional matrix adjust. Identities = 142/474 (29%), Positives = 240/474 (50%), Gaps = 50/474 (10%) Query: 16 TPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSETLDTADALEQ 75 +P L +L LST ELQQ +QQ LE NP LE +D ++ ET + L Sbjct: 22 SPALIALNNMLVLSTHELQQLIQQELEENPALENVD----LEPDETCSRCGRPLIEMLCL 77 Query: 76 KEMPEELPLDASWDTIYTAGTPSGTSGDYIDDEL-PVYQGETTQTLQDYLMWQVELTPFS 134 + E+ L + YTA +G+ DDE P+ T L + L+ + + Sbjct: 78 YCVHEDQRLAEAERGDYTA------AGE--DDEFDPLMMVATPAQLSEVLLRDLRAS-LP 128 Query: 135 DTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKD 194 + D IA +V +D+ G+L DI ++ ID + V AVL ++Q PVGV A+D Sbjct: 129 EQDYFIAEYLVGCLDDQGFLDANTGDIAATLT---IDEERVIAVLLKLQDIAPVGVGARD 185 Query: 195 LRDCLLIQLSQFDK---TTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVN 251 +++CLL+QL + D+ P++E +I++ + LA H + + + + D + E Sbjct: 186 VQECLLLQLRRLDEEDVRHPYVER---VITEFWNDLAEHRYGAIAQALNAEYDAVVEVRE 242 Query: 252 LI-QSLDPRP----GQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASM 306 I + L P P G+ + Y++PDV++R++ G E+ L+IN Y S+ Sbjct: 243 FIREHLRPYPLALSGEG--SARTNYIMPDVIIRENEGKLEAEVLMSDRSFLRINPLYQSL 300 Query: 307 CNNAR------NDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 R + D + + A+ + ++ R +T+ R+S ++E Q+ F QG Sbjct: 301 VKRGREAEAEMSSEDRDHLSQYVARAQMFLTNIRQRRETIRRISEFLIETQEDFLRQGVR 360 Query: 361 YMKPMVLADIAQAVEMHESTISRVTTQKYLHSP-RGIFELKYFFSSHVNTEGGGEASSTA 419 +++PM A++A + +HEST+SR T KY+ P R + +FF++ +N Sbjct: 361 FLRPMTRAEVADGIGVHESTVSRATANKYVQLPNRSVIPFSHFFTASLN----------- 409 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQR 473 ++ ++ +L+ +N +PL+D +L LL+E+G VARRT+AKYR L+I PS R Sbjct: 410 VKDVLLELV--QNEVRPLTDQELVELLAERGFEVARRTIAKYRNQLNILPSTLR 461 >UniRef50_C9LBN7 RNA polymerase sigma-54 factor n=1 Tax=Blautia hansenii DSM 20583 RepID=C9LBN7_RUMHA Length = 438 Score = 184 bits (467), Expect = 7e-45, Method: Compositional matrix adjust. Identities = 134/478 (28%), Positives = 244/478 (51%), Gaps = 56/478 (11%) Query: 5 LQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE-TQD 63 +Q R+SQ++ QA+ +LQ++ +L++ +Q+A+ NP++E +T + D E + Sbjct: 9 IQARVSQEMV------QAVSILQMTAWDLKEYVQEAMLENPVIELEETTRKQDNEEIVRK 62 Query: 64 SETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDY 123 E ++ D + +EL S ++ ++ P L++Y Sbjct: 63 LEWMENGDYQNKVYYQQELE----------------ESNEFWEENEP--------DLREY 98 Query: 124 LMWQVELTPFSDTDRAIATSI---VDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 L+ Q+ F D D+ A+ I + ++DE GYL E+I + +G ++E++ + Sbjct: 99 LLEQM---AFMDLDKKAASIIRYMIQSLDERGYLLENEEEIADILGR---SLEEIQRARQ 152 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 + +P+GV A +L++CLLIQL + T+ E I+ ++++ + +++ T Sbjct: 153 ILCTMEPLGVGALNLQECLLIQLRKKGCTSLACE----IVENYIEEFGKNQLSKIVKKTG 208 Query: 241 LKEDVLKEAVNLIQSLDPRP-GQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQI 299 + +A I+ +P+P G Y+IPDV+V K ++ + +N P + I Sbjct: 209 RDLKEIAQACEQIKEQNPKPAGYFPARPYKNYIIPDVIVVKLKDYFEILVNDYDSPEIFI 268 Query: 300 NQHYASMCNNARNDGD--SQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQ 357 + Y M R G+ ++I+ ++ A+WL +E RN TLL+++ I+ Q FF++ Sbjct: 269 SPFYRQM---MREQGEETGKYIKEKIRQAEWLKSCIEQRNRTLLQLTEEILRSQTEFFQR 325 Query: 358 GEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASS 417 G+ Y+KPM + A+ +++H STISR KYL G+F L +FFSS G + + Sbjct: 326 GKNYLKPMTQKEAAEKLQVHPSTISRAVQGKYLQCTWGMFPLSFFFSS------GTDKGA 379 Query: 418 TAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 I+ +K++I E+ P SD L L E I ++RRT+AKYR S+ I + RK+ Sbjct: 380 EYIKECLKRIIENEDKKNPYSDRVLAEKLQEMDIDISRRTIAKYRNSMHISEALGRKE 437 >UniRef50_C8S196 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Rhodobacter sp. SW2 RepID=C8S196_9RHOB Length = 441 Score = 184 bits (466), Expect = 9e-45, Method: Compositional matrix adjust. Identities = 120/369 (32%), Positives = 203/369 (55%), Gaps = 21/369 (5%) Query: 110 PVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEE 169 P +L ++M ++E +R IA + +A++ +G++ LE I +S G Sbjct: 73 PPEAASAAPSLMAHVMDRIEALTRPGRERQIAHLLAEALEPSGWVGRSLEAIADSAG--- 129 Query: 170 IDIDEVEAVLKRIQR-FDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLA 228 + E EAVL ++Q+ +PVG+ A++L +CL +Q D P ++ + HLDLLA Sbjct: 130 ASLPEAEAVLAKLQKGIEPVGLFARNLAECLRLQAQDADCLDPVMQA----VLGHLDLLA 185 Query: 229 NHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVE 288 + F L R+ + E + + LI+ DP+PG G PD+L + W V Sbjct: 186 DGQFSRLARLCGVTEAEITARLRLIRGFDPKPGAQFDHGAAPLREPDLLATRGPTGWQVA 245 Query: 289 LNSDSIPRLQINQ--HYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRC 346 LN ++P L+++ H + ++ A+ L + L++RN TLLRV+ Sbjct: 246 LNRSALPMLELHAPDHRPV----------PEAAKAQWAAAQALNRMLQNRNATLLRVAAE 295 Query: 347 IVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSH 406 ++ +Q+A E+G + P+ +A +A+A+ +HESTISR+ + +P G + L+ FS+ Sbjct: 296 VLRRQEAALERGLSALVPLTMAQVAEALGLHESTISRIVAGTAVDTPLGCWWLRQMFSTR 355 Query: 407 VNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLS 466 + E G S+ A+RA + +L+A E+P KPL D L L++ G++VARRTVAKYRE L Sbjct: 356 LGNETDG-VSAAALRAALARLVAGEDPGKPLGDQALVEALAQDGMVVARRTVAKYREMLH 414 Query: 467 IPPSNQRKQ 475 IPP+++R++ Sbjct: 415 IPPAHRRRR 423 >UniRef50_C6JNV9 RNA polymerase sigma-54 factor n=2 Tax=Fusobacterium RepID=C6JNV9_FUSVA Length = 427 Score = 182 bits (461), Expect = 3e-44, Method: Compositional matrix adjust. Identities = 128/472 (27%), Positives = 247/472 (52%), Gaps = 66/472 (13%) Query: 5 LQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDS 64 L+L+ +L++T +++ ++ +LQ+S+ L+ +++ NP+LE T+ ++ D Sbjct: 20 LKLKQEMKLSLTQEMKISMNILQMSSSNLKDFIEKEALKNPMLEV--TYSTPSSKYNSDE 77 Query: 65 ETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYL 124 ET + D+I +E +TL D+L Sbjct: 78 ET--------------------------------TSPFDFIIEE---------KTLIDFL 96 Query: 125 MWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQR 184 Q+ S ++I +++ +D+ GYL++ +I +++ +I +++ + I Sbjct: 97 EEQLGYLKISPKIKSICEYVINNLDDRGYLSISKLEIKKAL---KISTAQLKEAMDIIYT 153 Query: 185 FDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKED 244 +P G+ A++L++ L IQL D E+ +I D+L+ L + + + + + Sbjct: 154 LEPAGIGAENLKESLKIQLITKDIID---EKLFTLIDDYLEELGDRKYSLISEKLHVSVE 210 Query: 245 VLKEAVNLIQSLDPRPGQSIQTGE-PEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHY 303 +++ +++I+SL+P P + G YV+P+ + + TV LN ++IP+++IN Y Sbjct: 211 QIEDYLDIIKSLEPIPARGYFVGNRTNYVVPEAKIEIVDDELTVTLNEEAIPKIKINSSY 270 Query: 304 ASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMK 363 S N+ +D ++N+ A LIKS+E R TL RV ++ +Q+ FF +G+++++ Sbjct: 271 KS--TNSLSD------KNNMYTAINLIKSIEKRYITLERVLNQLIVKQKNFFFRGKDFLQ 322 Query: 364 PMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRAL 423 + L DIA+ + +HESTISR K++ +P+GI +K F +N+E I+ Sbjct: 323 TLTLKDIAKELNLHESTISRAIRDKFIETPQGIIAIKSLFI--LNSE------CLEIKKT 374 Query: 424 VKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 +++LI +EN + PLSD K++ +G +ARRT+AKYRE L IP + +RK+ Sbjct: 375 IEELIKSENKSSPLSDEKISLYFKNKGCSIARRTIAKYREELGIPSTRERKR 426 >UniRef50_D1W3B9 RNA polymerase sigma-54 factor n=1 Tax=Prevotella buccalis ATCC 35310 RepID=D1W3B9_9BACT Length = 556 Score = 182 bits (461), Expect = 4e-44, Method: Compositional matrix adjust. Identities = 148/494 (29%), Positives = 248/494 (50%), Gaps = 64/494 (12%) Query: 23 IRLLQLSTLELQQELQQALESNPLLEQIDTHE----EIDTRETQDSE------------T 66 ++LL++ EL++ + L+ NP LE+ + E E D R+ ++ + Sbjct: 86 VKLLEMPLTELEESVNAELDDNPALEKAEGDERHEDETDGRDEREEDFAERTEREEREEA 145 Query: 67 LDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMW 126 LD A LE +E+P DA Y A P D D E VY T++ D L Sbjct: 146 LDKA--LENIGRDDEMP-DA-----YGAYHPQ----DNADYEEIVYGD--TKSFYDKLKE 191 Query: 127 QVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDE-----EIDID--EVEAVL 179 Q+ + +DT + + ++ ++D+ GYL +D+ ESI DE ID+ ++E VL Sbjct: 192 QMMMENLTDTQKDVMEYLIGSLDDDGYLR---KDV-ESISDELAIYHNIDVTPTQIEEVL 247 Query: 180 KRIQRFDPVGVAAKDLRDCLLIQLSQF--DKTTPWLEEARLIISDHLDLLANHDFRTLMR 237 +Q FDP G+ A+ L++CLL+Q+ + K L++ +++ D + + Sbjct: 248 YILQWFDPAGIGARSLQECLLLQVERRPESKLKDILQQ---VVTRQFDAFTKKHWDKIQA 304 Query: 238 VTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEP-----EYVIPDVLVR-KHNGHWTVELNS 291 +L + L+ I+ L+P+PG S+ GE + + PD ++ N + + LN Sbjct: 305 NLKLSDLQLRAVQEEIRKLNPKPGASM--GETMGRNVQQITPDFIIDVDDNNNISFTLNQ 362 Query: 292 DSIPRLQINQHYASMCNNARNDGDSQ---------FIRSNLQDAKWLIKSLESRNDTLLR 342 IP+L I+ ++ M + +N+ ++ + + + A+ I +++ R TL Sbjct: 363 GKIPQLTISPSFSDMVDTYKNNKENMNRQEKEALLYAKQKVDKAQGFIDAIKQRRHTLYI 422 Query: 343 VSRCIVEQQQAFFEQGEEY-MKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKY 401 + I++ Q+ FF G+E +KPM+L DIA E+ STISRV+ KY + G F L++ Sbjct: 423 TMKAIIDWQRKFFIDGDESDLKPMILKDIADKTELDISTISRVSNIKYAQTKWGTFPLRF 482 Query: 402 FFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKY 461 FF+ TE G E S+ I+ +K++I E+ KP SD L L + G VARRTVAKY Sbjct: 483 FFTDSYTTEDGEELSTRKIKLALKEIIDHEDKRKPFSDEALAKELKKMGYPVARRTVAKY 542 Query: 462 RESLSIPPSNQRKQ 475 RE L + + RK+ Sbjct: 543 REQLGLSVARLRKE 556 >UniRef50_Q3IW74 Sigma54-2 (RNA polymerase sigma-54 factor) n=5 Tax=Rhodobacter sphaeroides RepID=Q3IW74_RHOS4 Length = 432 Score = 179 bits (455), Expect = 2e-43, Method: Compositional matrix adjust. Identities = 117/362 (32%), Positives = 195/362 (53%), Gaps = 22/362 (6%) Query: 114 GETTQ----TLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEE 169 GET +L ++M +++ +R IA + +A++ TG+L ++I Sbjct: 79 GETVAAAGPSLMAHVMARIDTLYPRGPERRIAILLAEALEPTGWLGTGPDEIAR---QAR 135 Query: 170 IDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLAN 229 + EVEAVL +Q+ +P G+ A+ L +CL +Q + ++ L+ + DHLDL+A Sbjct: 136 VPSAEVEAVLAGLQKIEPAGLFARTLAECLRLQAIEAER----LDSTLSCLLDHLDLVAE 191 Query: 230 HDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVEL 289 L R+ E + + L+++ DP+PG G PD++ K W V L Sbjct: 192 GALGRLARLCNTDEAGVTARLRLLRTFDPKPGAQFDPGAAPVREPDLIATKGEAGWEVSL 251 Query: 290 NSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVE 349 N ++P +QI + A R+ A+ + + +E+RN TLLRV+R I+ Sbjct: 252 NRSAMPTVQIRKPDKRPTTPA--------ARAAWTQAQAVGRMIENRNATLLRVAREILA 303 Query: 350 QQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNT 409 +Q+A ++G + + + ++A+A+ +HEST+SRV + +PRG + L+ FS + Sbjct: 304 RQEAALDEGPSALVALTMTEVAEALGIHESTVSRVVAGTCVDTPRGTWWLRRMFSGRL-A 362 Query: 410 EGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPP 469 EGG S+ AIRA + +L+A E+PA PLSD L L+ + + +ARRTVAKYRE L+IPP Sbjct: 363 EGG--PSAAAIRAAIARLVAQEDPAAPLSDGALVEALAAEDMQLARRTVAKYREMLNIPP 420 Query: 470 SN 471 + Sbjct: 421 GH 422 >UniRef50_D1CE57 RNA polymerase, sigma 54 subunit, RpoN n=2 Tax=Bacteria RepID=D1CE57_THET1 Length = 478 Score = 178 bits (451), Expect = 5e-43, Method: Compositional matrix adjust. Identities = 141/489 (28%), Positives = 244/489 (49%), Gaps = 55/489 (11%) Query: 13 LAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHE------------EIDTRE 60 + +P L +A +L LS EL+Q + L NP LE +D HE + + Sbjct: 17 IKASPSLIEANYILSLSLPELRQTILNELSQNPALELVD-HETCPFCGEVMVGGKCENCS 75 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 +DS+T D D + + LD+ + Y+A + S S D DD P+ + Q Sbjct: 76 REDSKT-DHTDTVNED-------LDSLYYESYSATSRSLVSDDE-DDFDPMSIVASEQDF 126 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 + L + + + D IA +++++DE GYL PL+ I +G D+ VE VL+ Sbjct: 127 HESLRSDLH-SILPEEDYEIADYLIESLDENGYLRQPLDAIARELGR---DVQRVEWVLQ 182 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEE-ARLIISDHLDLLANHDFRTLMRVT 239 R+Q P GV A++L++CLL+QL ++ + E R I+ ++++ L +H + + R Sbjct: 183 RLQEIAPAGVGARNLQECLLLQLRYLEQEGEIIPEYVRAILENYIEELGSHKYGYIARKL 242 Query: 240 RLKEDVLKEAVNLIQ-------SLDPRPGQSIQT-GEPEYVIPDVLVRKHNGHWTVELNS 291 + + + EA I+ SLDP G++ ++ Y+ PDV++ + G VE+ Sbjct: 243 KTSPEKVAEARQFIKQKLSPYPSLDPAVGRTWKSPSRSTYISPDVIIFEREGKLEVEVVE 302 Query: 292 DSIPRLQINQHYASMCN------NARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSR 345 L+++ Y + N+ ++ + I+ + K I ++ R T+ +++ Sbjct: 303 GRQFELRLSPAYQQIAKDLEAHPNSYSENERTHIKEYISRTKMFISNVNQRRKTIYKIAS 362 Query: 346 CIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSP-RGIFELKYFFS 404 +VE Q+ F G ++KP+ A +A + +HEST+SR T KY+ P R + FF+ Sbjct: 363 ALVELQEDFIRYGVRHLKPLTRAMLADYIGVHESTVSRATAGKYVMLPNRKVIPFSDFFT 422 Query: 405 SHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRES 464 +S +I+ ++K++I +E+ K L+D ++ L E+GI VARRTVAKYR Sbjct: 423 -----------ASLSIKDVIKEIIMSED--KALTDRQICDKLRERGIRVARRTVAKYRAE 469 Query: 465 LSIPPSNQR 473 L I PS R Sbjct: 470 LGILPSTLR 478 >UniRef50_D0GPK2 RNA polymerase sigma-54 factor n=1 Tax=Leptotrichia goodfellowii F0264 RepID=D0GPK2_9FUSO Length = 453 Score = 175 bits (443), Expect = 4e-42, Method: Compositional matrix adjust. Identities = 129/481 (26%), Positives = 242/481 (50%), Gaps = 63/481 (13%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDT-- 58 +KQ L +L + A++ + ++ +L++S EL + L++ E NPLLE I+ E + Sbjct: 26 IKQQLINKLVNKQAISQKQLYSLEILKMSEQELFEFLKKEKEENPLLE-IENEESFFSSF 84 Query: 59 -RETQDSETLDTAD-ALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGET 116 + ++ + + D + K + E + L + + YI++E+ +Y Sbjct: 85 WKSEKNDKAFEVKDETVASKNLIENIKLQIN-----------NQNFSYIENEVLIY---- 129 Query: 117 TQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVE 176 I++++DE+G+L + +++I + +ID + + Sbjct: 130 ---------------------------ILNSIDESGFLDLGIKEIRKKF---DIDNKKFK 159 Query: 177 AVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLII--SDHLDLLANHDFRT 234 +L+ I+ +P G+ K+ +D QL +++ +LII ++L+ L N + Sbjct: 160 YILELIKEAEPNGIGTKNTKDFFKYQL-----LKKRIKDKKLIILIDNYLEKLTNQ--KE 212 Query: 235 LMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSI 294 L + + E L E + +I+ L +P ++I + EY+ PD++V+K N W V LN Sbjct: 213 LCKELDIFEGKLSEYIGIIKGLKLKPIENINE-KIEYIFPDIIVKKINNEWKVMLNEGFY 271 Query: 295 PRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAF 354 ++IN+ Y+++ + + +I ++ ++IK +E R TL ++ I+E+Q+ + Sbjct: 272 KNIKINREYSNLLEKSEDQEMINYINKKIKRIDFIIKCIEQRRQTLYKIGNVILEKQKKY 331 Query: 355 FEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGE 414 FE+ E+ + PM DIA + +HESTISR KYL S RGI ++K FFS + + Sbjct: 332 FEKNEDII-PMKQKDIALELNVHESTISRAIKNKYLESLRGIVKIKSFFSIGYDKKNIS- 389 Query: 415 ASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQG-IMVARRTVAKYRESLSIPPSNQR 473 SS I+ + ++I+ E SD K+ ++E+ I ++RRTVAKYR+ L I N R Sbjct: 390 ISSLTIKKYISEIISNEKNGVIYSDEKIRKFINEKYEINISRRTVAKYRKELKIYNKNVR 449 Query: 474 K 474 K Sbjct: 450 K 450 >UniRef50_UPI000196CE77 hypothetical protein CATMIT_02522 n=1 Tax=Catenibacterium mitsuokai DSM 15897 RepID=UPI000196CE77 Length = 414 Score = 168 bits (426), Expect = 4e-40, Method: Compositional matrix adjust. Identities = 108/364 (29%), Positives = 202/364 (55%), Gaps = 22/364 (6%) Query: 115 ETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDE 174 +T TL++ + WQ L ++ + S+V+ +D+ GYL + + DI + +E + E Sbjct: 69 KTEPTLKEVIHWQ--LINKDIDNKELVESLVELLDDNGYLRLSINDICTYLKCDEKEYLE 126 Query: 175 VEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRT 234 + L ++ DP G+ A L++CLL+QL + K T + ++++ + L+ L+ + Sbjct: 127 AKDTLSKL---DPPGLGADTLKECLLLQLERL-KETKDIHLTKILVDECLEDLSKSHYHA 182 Query: 235 LMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTG-EPEYVIPDVLVRKHNGHWTVELNSDS 293 + + + ++ ++E + +I +LDPRP + + E Y +PD++++ +G V+LN Sbjct: 183 VSKKLGISQNKVRELLQIILTLDPRPASNYSSSLEVNYPVPDIIIK--DG--IVQLNPMI 238 Query: 294 IPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQA 353 + IN +Y S+ N ++I S L+ WL + L R + + ++ + + QQ Sbjct: 239 YKDININTNYLSLDENKET---KKYIESKLRQVSWLQQCLSQRKNLIYDIAVFLFDYQQD 295 Query: 354 FF-EQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGG 412 FF QG + P++ D+A + +HESTISR KY++ +G + S + +G Sbjct: 296 FFMNQGSCH--PLLQKDLAMLLGVHESTISRAIKDKYIYCDKG-----FILLSDLIPKGT 348 Query: 413 GEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQ 472 + S +I+ +K++I E+ KPLSD K+T+LL ++GI ++RRTVAKYR L+IP ++ Sbjct: 349 EDNSVDSIKEKIKEVIDNEDKKKPLSDQKITNLLKDKGIEISRRTVAKYRSELNIPDASG 408 Query: 473 RKQL 476 RK + Sbjct: 409 RKHV 412 >UniRef50_C8PMB8 RNA polymerase sigma-54 factor n=1 Tax=Treponema vincentii ATCC 35580 RepID=C8PMB8_9SPIO Length = 499 Score = 164 bits (416), Expect = 5e-39, Method: Compositional matrix adjust. Identities = 145/518 (27%), Positives = 250/518 (48%), Gaps = 68/518 (13%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M Q L RL Q+++ + Q+Q ++ +L + TLEL++ + + L NP LE I Sbjct: 4 MGQTLGQRLEQRMSQS-QIQ-SLDVLAMPTLELRERIAEELVENPALELI---------R 52 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYID------DELPVYQG 114 + + A+ QKE D TPS S + D + +P Q Sbjct: 53 SSGKPAVPEAERTPQKERNVPYYRDDR--------TPSAVSLEASDAFQTFLENIPAPQ- 103 Query: 115 ETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILES-IGDEEIDID 173 Q+LQ +L+ Q+ + + A I+ + G+ VPL ++ ++ + + D D Sbjct: 104 --RQSLQSHLLEQLFVHKLDPLTTSFAERIIGNLTTDGFYVVPLNELFKTELSAKSADKD 161 Query: 174 ------EVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQF--DKTT--PWLEEARLIISDH 223 ++ L ++R DP+G A +D + LL+Q DK P I+++H Sbjct: 162 SALTRHKISHALSIVRRLDPIGCATQDFKQSLLVQAKILFHDKIAIDPVYAYTIDILTNH 221 Query: 224 LDLLANHDFRTLMRVT--------RLKEDVLKEAVNLIQSLDPRPGQSIQ--TGEPEYVI 273 L +L+R +L ++ ++ ++LI SL+P PG+++ EY+I Sbjct: 222 FAYLEKARPYSLVRAVNGNADIPYKLTQENAEDILSLIASLNPFPGRALAADVTPDEYII 281 Query: 274 PDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSL 333 P + ++ +TV +N+ IP L ++ + S+ ++ ++ +I+ +Q AK I SL Sbjct: 282 PTAFIERNGQEFTVRINNLEIPLLTVSPEFQSLISHTKDAAAKTYIKEQMQKAKAFIGSL 341 Query: 334 ESRNDTLLRVSRCIVEQQQAFFEQGEE-YMKPMVLADIAQAVEMHESTISRVTTQKYLHS 392 R T++ V IV Q+AFF G++ + P+ IA+ +++HEST+SR KY+ Sbjct: 342 NQREKTIVAVLGKIVAVQEAFFLTGDKRRLVPLTQQQIAKELDIHESTVSRTVAGKYVQC 401 Query: 393 PRGIFELKYFFSSHVNTEGGGEASST--------------AIRALVKKLIAAENPAK--P 436 G FE++YFF++ V + +SS ++ +K+L+ E+ AK Sbjct: 402 QWGTFEIQYFFTNSVAVQPPPGSSSQPNASAPAATPATREGVKDCIKELL-TEHAAKDAK 460 Query: 437 LSDSKLTSLLSEQ-GIMVARRTVAKYRESLSIPPSNQR 473 LSD K++ LL + GI VARRTVAKYR+ L I S R Sbjct: 461 LSDQKISDLLQARFGISVARRTVAKYRKELDIGSSYSR 498 >UniRef50_B9L984 RNA polymerase sigma-54 factor n=1 Tax=Nautilia profundicola AmH RepID=B9L984_NAUPA Length = 410 Score = 164 bits (416), Expect = 6e-39, Method: Compositional matrix adjust. Identities = 110/364 (30%), Positives = 196/364 (53%), Gaps = 35/364 (9%) Query: 116 TTQTLQDYLMWQVELTPFSDTDRA--IATSIVDAVDETGYLTVPLEDILESIGDEEIDID 173 + +TL + L+ Q+E + T R+ IA I++ ++ G+ ++I + +G +D + Sbjct: 70 SEETLYESLLKQIEDSNLFPTKRSKDIALEIIEDINNEGFFEGDEKEIAKRLG---VDEE 126 Query: 174 EVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFR 233 +V+ V +R +P GV AKDL++C++ QL D E+ + S+ + L N D Sbjct: 127 KVKRVRERFMYLNPAGVGAKDLKECMIFQLQNID----MPEDVYKLASEMITYLENID-- 180 Query: 234 TLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDS 293 + E KEA+ +I+ L+ P +++ + E +IP+++V +G + +N + Sbjct: 181 -----KFVNEPKYKEAMKIIKQLNVVP--AMEYIKDEEIIPEIIVLNIDGQLEIRINDEH 233 Query: 294 IPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQA 353 P + + + + F + ++A+ ++ +LE R TL +++ IVE Q Sbjct: 234 YPEINVKDP----------ENKNSFSKEKFKEARNIVDALEMRKATLKKIALMIVELQYE 283 Query: 354 FFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGG 413 FF+ G +KPM + D+A +E STISR + KYL RGI LK FFS ++ Sbjct: 284 FFQGG--VIKPMKIKDLADELEYAPSTISRAISNKYLLCDRGIIPLKNFFSIALDE---- 337 Query: 414 EASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQ-GIMVARRTVAKYRESLSIPPSNQ 472 + SS I+ +K LI E+ KPLSD KLT +++++ + + RRT++KYR+ L IP S + Sbjct: 338 DTSSNQIKEEIKNLIKNEDKNKPLSDDKLTEIINQKYNLNLVRRTISKYRDQLKIPTSRE 397 Query: 473 RKQL 476 RK++ Sbjct: 398 RKRI 401 >UniRef50_B3W836 Sigma 54 transcription factor n=2 Tax=Lactobacillus casei RepID=B3W836_LACCB Length = 441 Score = 164 bits (415), Expect = 7e-39, Method: Compositional matrix adjust. Identities = 132/479 (27%), Positives = 226/479 (47%), Gaps = 55/479 (11%) Query: 1 MKQGLQLRLSQ--QLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDT 58 M Q ++L Q +L +T ++Q+I++LQL ++L L+ ESNP +E + +H E Sbjct: 11 MDQSIRLNQRQINKLVLTQGMRQSIQMLQLDAVDLDAYLKDVAESNPFIE-VRSHFE--- 66 Query: 59 RETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQ 118 +DS SG ++ + G +T+ Sbjct: 67 -RAEDS-----------------------------------LSGATFEE---MSAGSSTE 87 Query: 119 TLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAV 178 L D+L+ QV+L+ + R I +++ ++ GYL + I++ IG I +++ Sbjct: 88 NLFDHLLMQVQLSLAGNPLRQIVVYLINQLNNNGYLILEDRQIVDEIG---ISPEKLTEA 144 Query: 179 LKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRV 238 ++ +Q DP GV A++L++CL +Q + D P + I+ +LL +HD + Sbjct: 145 MRLLQGLDPPGVGARNLQECLSLQ-AHRDTGIP--KGVIAILDQDFELLVSHDMTRICEK 201 Query: 239 TRLKEDVLKEAVNLIQSLDPRPGQSIQTGEP-EYVIPDV-LVRKHNGHWTVELNSDSIPR 296 L L A++ I+SL PG+ + +P Y+IPD L ++G + L P Sbjct: 202 NNLSTTELHNALDFIKSLSAAPGKVFEQPQPISYIIPDARLSVTNDGQLKLWLTKWGRPE 261 Query: 297 LQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFE 356 L + + + Q+++ ++ L L+ R +TLL IV Q AF Sbjct: 262 LVFAEKTYQDLKKSADSATQQYLKEKHEEYLSLQHGLQRREETLLATVNQIVVNQHAFLL 321 Query: 357 QGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEAS 416 + + P++L D+A+A++++EST+SR K+L + GIF K FFS Sbjct: 322 H-QAALAPLLLRDVAKALQVNESTVSRTIKGKHLQTDLGIFAFKDFFSKRTQAVSSSAYH 380 Query: 417 ST-AIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRK 474 S ++ + +LI +EN P SD+ L L E+G VARRTV KYR L +P ++ RK Sbjct: 381 SVDQLKFTMMQLIQSENKMCPASDNLLVKWLYEKGFKVARRTVTKYRNELGLPAASARK 439 >UniRef50_D2RMY8 RNA polymerase, sigma 54 subunit, RpoN n=2 Tax=Acidaminococcus RepID=D2RMY8_ACIFE Length = 445 Score = 161 bits (408), Expect = 5e-38, Method: Compositional matrix adjust. Identities = 139/467 (29%), Positives = 212/467 (45%), Gaps = 36/467 (7%) Query: 10 SQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSETLDT 69 QQL + L Q ++LLQL LEL+Q +++A+E+NPLLE E +ET E Sbjct: 13 KQQLNL--HLVQQMKLLQLGALELEQYVREAVEANPLLEFPGEAEGPAWQET-AQEVYRR 69 Query: 70 ADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVE 129 +Q++ P LP D + A G +TLQ + Q+ Sbjct: 70 KRTRDQEDEP--LP-----DPVANA-------------------GRQEKTLQQVVEEQLG 103 Query: 130 LTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVG 189 S DR++A + +D G+ T +E+ + G E D V VL++IQ+ +P G Sbjct: 104 CLRLSGVDRSLACYMAGTLDSRGWWTESVEETARAFGVTE---DRVLQVLQQIQQLEPAG 160 Query: 190 VAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEA 249 + A+DL CLL+QL K + R II + LDLLA + L R + + A Sbjct: 161 IGARDLSQCLLLQLENQGKEA---DLTRRIIREGLDLLARNQIPALARKFGCTQKEILAA 217 Query: 250 VNLIQSLDPRPGQSIQTGEP-EYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCN 308 I LDP+PG P Y D V V + + +NQ Y Sbjct: 218 KARICVLDPKPGARFAGAGPVVYQREDARVEDTGEGLKVTVYDTWGRKFVLNQEYLDWAG 277 Query: 309 NARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLA 368 N +++ L A+ L + L+ R TLL V + +V Q+ FF G + +P+ LA Sbjct: 278 EQGNGQVKAYLKEQLGKARQLQQLLKERQQTLLVVFQALVSHQEPFFRLGPGHRQPLKLA 337 Query: 369 DIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLI 428 D+A+ + ST+SR K + G F F ++ G + ++ L+++LI Sbjct: 338 DLAEETGLAVSTVSRALQHKVIGCRWGSFTAGSFLQGQASSHEQGAVTEERLQQLIRELI 397 Query: 429 AAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 E+ PLSD + L +QG+ VARRTV KYR + I + RK+ Sbjct: 398 EGEDKHHPLSDQAICRALEQQGVQVARRTVNKYRVKMGIGDKSARKE 444 >UniRef50_Q73JL4 RNA polymerase sigma-54 factor, putative n=1 Tax=Treponema denticola RepID=Q73JL4_TREDE Length = 463 Score = 161 bits (408), Expect = 5e-38, Method: Compositional matrix adjust. Identities = 136/513 (26%), Positives = 242/513 (47%), Gaps = 93/513 (18%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 +KQ Q LSQ++ M Q+ A+ +L LS+ ELQ+E+ + ++ NP L Sbjct: 3 LKQRQQQILSQKMVMNQQMLNAVAMLNLSSEELQEEVIKEVKRNPAL------------- 49 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 + T S GD L + ++ +TL Sbjct: 50 --------------------------VFKTSSRVSAASAEEGDKHQSFLESIEDDSRKTL 83 Query: 121 QDYLMWQVELTPFSDTDRAI---ATSIVDAVDETGYLTVPLEDILESI-GDEEIDIDEVE 176 Q +L +E S TD + A I+ +D+ G+ VPLE++ + +++I+ E++ Sbjct: 84 QAHL---IEQAGESITDEYVLDAAMLIIQNLDQNGFYWVPLEELFAGLLAEKKINHAEIK 140 Query: 177 AVLKRIQRFDPVGVAAKDLRDCLLIQ---LSQFDKTTPWLEEARLIISDHLDLLANHDFR 233 L ++RF+P+G A ++ L++Q L + KT L+ + I S + ++ H + Sbjct: 141 KALNIVRRFEPIGCACSGFKESLIVQAGILCESPKTHEILDIYKTIYSLCVKIIKEH-YE 199 Query: 234 TLMRVTRLKEDVLK--------------EAVNLIQSLDPRPGQSIQT-GEPE-YVIPDVL 277 L+ V+ LK + K E LI +L+P+PG + + G+ E ++ P Sbjct: 200 VLVFVSDLKLFIKKLAQKKIDIDLETAEELAGLIDALNPKPGLAYASKGDGEKFITPIAE 259 Query: 278 VRKHNGHWTVELNSDSIPRLQINQHYASMCNNARNDGD---SQFIRSNLQDAKWLIKSLE 334 +++ + +N + +P L+I+ Y + N+ + S+F L A + L Sbjct: 260 IKREGNEIKIIINDEEVPALEISPEYEKIKNSGSKEEKKEASEF----LNKAALFMNVLA 315 Query: 335 SRNDTLLRVSRCIVEQQQAFF--------EQGEE------YMKPMVLADIAQAVEMHEST 380 RN T+L+V +V Q+AFF +GE Y+KP+ DIA+ V + ST Sbjct: 316 YRNQTILKVLTALVNFQEAFFLGRPCKPSSEGESDKMQAGYLKPLKQIDIAEIVGLSPST 375 Query: 381 ISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDS 440 +SRV+ QKY+ G+FE+K FS V+ G S + ++++I ++ K +D+ Sbjct: 376 VSRVSNQKYIRCEWGLFEIKDLFSPEVS----GGLSKDFVEKAIQEIIESDTEKK--TDT 429 Query: 441 KLTSLLSEQGIMVARRTVAKYRESLSIPPSNQR 473 +++ +L E+GI +A RTV KYR+ + +P S R Sbjct: 430 RISQILKERGIDIAVRTVNKYRKEMGLPSSYHR 462 >UniRef50_A6DC70 RNA polymerase sigma-54 factor n=1 Tax=Caminibacter mediatlanticus TB-2 RepID=A6DC70_9PROT Length = 407 Score = 161 bits (407), Expect = 7e-38, Method: Compositional matrix adjust. Identities = 115/356 (32%), Positives = 192/356 (53%), Gaps = 36/356 (10%) Query: 124 LMWQVELTPFSDTD--RAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKR 181 L+ Q+E + F T+ R IA I + + G+ E+I S+G +D+++V+ + +R Sbjct: 78 LVSQIENSHFFPTEKSRFIALLIAEDITPDGFFDGNEEEIALSVG---VDVEKVKKIRER 134 Query: 182 IQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRL 241 + P GV AKD+++C L QL D EE L++ + ++ L N D Sbjct: 135 FKYLTPTGVGAKDIKECFLFQLDNLDID----EELYLLVKNMINDLENLD-------KFY 183 Query: 242 KEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQ 301 K +A+ +I+ P +++ E +IP+++V +NG+ + LN + P + IN+ Sbjct: 184 KHKRYNDAIKIIKDFKTTP--ALEYSISEEIIPEIIVINNNGNLEIRLNEEFYPEIFINE 241 Query: 302 HYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEY 361 + D ++ + L++A+ L+ +LE R TL +++ IVE Q FF+ G Sbjct: 242 YV-----------DDKYSKEKLKEARSLVDALEMRKSTLKKIALMIVELQYDFFKGG--V 288 Query: 362 MKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIR 421 +KPM + D+A +E STISR KYL RGI LK FFS+ +N E S+ I+ Sbjct: 289 IKPMKIQDLADELEFAPSTISRAIANKYLLCDRGIIPLKNFFSTAINE----EVSANQIK 344 Query: 422 ALVKKLIAAENPAKPLSDSKLTSLLSEQ-GIMVARRTVAKYRESLSIPPSNQRKQL 476 +K +I E+ KPLSD K+ ++E+ I + RRT+ KYRE+++IP S +RK+L Sbjct: 345 EEIKNIIKNEDKNKPLSDDKICEFINEKFNIKLVRRTITKYREAINIPSSRERKRL 400 >UniRef50_C3XKI9 RNA polymerase sigma-54 factor n=2 Tax=Campylobacterales RepID=C3XKI9_9HELI Length = 442 Score = 158 bits (399), Expect = 5e-37, Method: Compositional matrix adjust. Identities = 121/366 (33%), Positives = 187/366 (51%), Gaps = 31/366 (8%) Query: 118 QTLQDYLMWQVELTPF-SDTDRAIATSIVDAVDETGYL----TVPLEDILESIGDEEIDI 172 ++L+ L+ Q+E F + + IA I++ +D GY V ++ + +G EI Sbjct: 94 ESLEVLLLRQIEPPLFPTRNSQEIAKKIIENLDNEGYFDGDCVVIAQECSKDLG-VEIYA 152 Query: 173 DEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDF 232 EVE + R +P G+ A D+ + QL D + + L++L N Sbjct: 153 SEVEKIRLRFAYLEPPGIGALDVMESFRFQLDHLDVPSD-------VYGLCLEILEN--- 202 Query: 233 RTLMRVTRLKEDVL-KEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNS 291 L TR K + L +A+ IQS P E VIPD+LV + + V++N Sbjct: 203 --LQEHTRFKNNPLYPQAMRAIQSFKNPPALDFFQKEVA-VIPDILVLEDKDNIQVQIND 259 Query: 292 DSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQ 351 P + I + + +N FI++ +++A+ L+ +LE R TL ++ IVE Q Sbjct: 260 KYYPSILIQKQEKT----DKNSIQDAFIKAKIKEARDLVDALEMRKATLYKIGLMIVEYQ 315 Query: 352 QAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEG 411 FF+ GE +KPM L D+A+ STISR + KYL RGIF LK FF++ ++ Sbjct: 316 YEFFKGGE--IKPMTLKDLAEEFGHAPSTISRAISNKYLECSRGIFPLKNFFATAIDE-- 371 Query: 412 GGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQ-GIMVARRTVAKYRESLSIPPS 470 E S+T I+ V LI EN KPLSDSK+ L +E+ + + RRT+AKYR L+I S Sbjct: 372 --ETSNTTIKDFVADLIRNENKQKPLSDSKILKLATERFKVTMVRRTIAKYRAQLNIASS 429 Query: 471 NQRKQL 476 ++RK+L Sbjct: 430 SERKKL 435 >UniRef50_C0CQW9 Putative uncharacterized protein n=1 Tax=Blautia hydrogenotrophica DSM 10507 RepID=C0CQW9_9FIRM Length = 454 Score = 157 bits (397), Expect = 7e-37, Method: Compositional matrix adjust. Identities = 101/365 (27%), Positives = 187/365 (51%), Gaps = 20/365 (5%) Query: 120 LQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDI--LESIGDEEIDIDEVEA 177 ++ L++Q+ +S+ A ++D +D GY T+ L ++ ++ +E++ Sbjct: 97 FKNLLLYQLHQNDYSNRQWACMEYLIDCLDSDGYFTMELSELSHASAVSGLHFKTEELQT 156 Query: 178 VLKRIQRFDPVGVAAKDLRDCLLIQLSQFD-----KTTPWLEEARLIISDHLDLLANHDF 232 L ++ +P G+ ++ L +CL+ QL + + E ++ HL Sbjct: 157 ALSCLKTLEPAGIFSQSLSECLIAQLKKKEIKDDTLFLLIEEHLEELMKGHLS------- 209 Query: 233 RTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSD 292 T+ R +L +K + I L+PRP S + E Y++PD++V K N W + +N Sbjct: 210 -TISRKLKLPTVQIKSYLYEISLLNPRPVMSAEDDEINYILPDIIVTKSNQLWDISINDS 268 Query: 293 SIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQ 352 + + +N +Y M + Q+ + L+ A++++ S+E R TL+++ +++ Q Sbjct: 269 WMGKYSLNNYYIEMMQKTEDACLHQYFKEKLERARFILNSIEQRKATLIQIVSFLLDYQN 328 Query: 353 AFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNT-EG 411 A+ E G +KP+ +A A+ + ST+SR KYL + I +K FS+ V++ + Sbjct: 329 AYLEGGGS-LKPLKQEQLADALGISVSTVSRAVRGKYLQYKKTIL-IKSLFSAPVSSCKK 386 Query: 412 GGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSN 471 + SS+A++ + +LI E LSD KL LL++ GI ++RR VAKYR L IP S Sbjct: 387 ENQISSSAVKEKLFQLIQQEEQV--LSDQKLAELLADSGIQISRRAVAKYRTELGIPDSR 444 Query: 472 QRKQL 476 +R+QL Sbjct: 445 ERRQL 449 >UniRef50_UPI0000D54D13 DNA-directed RNA polymerase subunit N n=1 Tax=Psychroflexus torquis ATCC 700755 RepID=UPI0000D54D13 Length = 413 Score = 155 bits (392), Expect = 3e-36, Method: Compositional matrix adjust. Identities = 128/461 (27%), Positives = 222/461 (48%), Gaps = 60/461 (13%) Query: 6 QLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSE 65 + + Q+L +TP L+++I LLQLS EL ++QQ +E NP LE+I+ E Sbjct: 8 KFKQRQKLTLTPSLKKSIDLLQLSRYELINKIQQEIEENPFLEKIEDFEN---------- 57 Query: 66 TLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLM 125 +TA P++ D S++ E+ L+ L+ Sbjct: 58 --NTA--------PDK---DFSFEI------------------------ESKVDLKGSLL 80 Query: 126 WQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKR-IQR 184 Q+ I+ I++ +DE G L LED LE + E I E+E VL+ I + Sbjct: 81 DQINDLNLDIKSLQISKLIINNIDEAGKLVEQLED-LEELSSYEYSIREIETVLQDVIHK 139 Query: 185 FDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARL--IISDHLDLLANHDFRTLMRVTRLK 242 P G+ +D ++C+ IQ+ ++ K L+E L I++D LD L + + + Sbjct: 140 LHPHGIGYRDHKECIRIQI-EYGKLKNELKEICLSIILNDSLDDL--NKIKNNFISNGGE 196 Query: 243 EDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQH 302 E + A+N I+ D PG + Q E +Y+ PD+ + K N + P+++I++ Sbjct: 197 ESAFENALNEIKKCDLSPGLNFQ--ESQYIYPDLKITKENNQTKISFIEKDFPKIKIDEA 254 Query: 303 YASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYM 362 A + + + +AKWL+ S+ RNDT+L+V I+ +Q FFE + Sbjct: 255 LAKNVKKNLKIEKNNELSEKISEAKWLLSSINKRNDTVLKVGELILSKQIHFFENNPIKI 314 Query: 363 KPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRA 422 + + +I++ + +H+ST+SR+ KY+ SP+GI LK S V+ +S + Sbjct: 315 EALSNKEISEKLNIHQSTVSRILRNKYIESPKGIIPLKSLMVSSVSK--SRNVTSIQLMK 372 Query: 423 LVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRE 463 L++ + KP SD ++ L+++G +ARRT+ KYR+ Sbjct: 373 LIENITKK--EKKPKSDKQIAIELNKRGFNLARRTITKYRK 411 >UniRef50_B1CB68 Putative uncharacterized protein n=1 Tax=Anaerofustis stercorihominis DSM 17244 RepID=B1CB68_9FIRM Length = 243 Score = 154 bits (389), Expect = 6e-36, Method: Compositional matrix adjust. Identities = 74/240 (30%), Positives = 144/240 (60%), Gaps = 4/240 (1%) Query: 236 MRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIP 295 + ++RL+ +++ + I+ L+P+P +I+ EP Y+ PD+L+ N W +ELN + I Sbjct: 8 LNISRLE---VRKYIYSIKCLNPKPLINIKMSEPVYINPDILLTYENNKWNIELNDNWIN 64 Query: 296 RLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFF 355 I+ +Y M + + ++ + + L ++++ SLE R +T+L +++ I+ +Q+ +F Sbjct: 65 NYYISDYYLKMIDTSEDENLKMYFKEKLSKCRFILNSLEQRRNTILNITKVIIRRQEKYF 124 Query: 356 EQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEA 415 +G + M L+++A ++M+ ST+SR KY+ SP GI ++ FSS+V+ Sbjct: 125 -RGNGKIVSMTLSEVADEIDMNVSTVSRAIKNKYMSSPIGIINMRDLFSSYVSYGEDIRL 183 Query: 416 SSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 + ++ +K +I EN KP SD ++ + L+++ I ++RRTV+KYR+ L+IP S RK+ Sbjct: 184 TPEDVKQKIKVIIEEENKKKPYSDDEIVNKLNDENINISRRTVSKYRKELNIPTSYNRKE 243 >UniRef50_A8LQ77 RNA polymerase sigma-54 factor n=1 Tax=Dinoroseobacter shibae DFL 12 RepID=A8LQ77_DINSH Length = 438 Score = 152 bits (384), Expect = 2e-35, Method: Compositional matrix adjust. Identities = 129/486 (26%), Positives = 212/486 (43%), Gaps = 76/486 (15%) Query: 2 KQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRET 61 ++GL LR Q+L +TP+++ + +L++S L++ L + E NP+L Sbjct: 4 REGLTLRQQQRLTLTPEMRTTLSVLRMSAAALEELLVRQAEENPIL-------------- 49 Query: 62 QDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQ 121 ++ G P + L E + L Sbjct: 50 ----------------------------SLRRPGPPPAAQATAYEVALDTTVAEVS--LG 79 Query: 122 DYLMWQVELTPFSDTDRAIATSIVDAVDETGYL-TVPLEDILESIGDEEIDIDEVEAVL- 179 D+L Q+ L + A ++ ++ ETGYL + P E +E +DE +L Sbjct: 80 DHLRAQLGLMSLAPPVHQAALALSWSLTETGYLDSTPAEIA------QECALDEATVLLG 133 Query: 180 -KRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRV 238 +Q +PVGV A+ L +CL +QL DK AR ++ LDLL D R Sbjct: 134 LAALQGCEPVGVGARSLAECLRLQL--VDKGIAPAVAAR--ATEVLDLLVGSDVARAARR 189 Query: 239 TRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQ 298 T + + L + L+ L P PGQ P+ PDV V +G P ++ Sbjct: 190 TGIPAEDLGAVIRLLPELSPYPGQRFSP-TPQVSAPDVAVHFPDGAG---------PEIR 239 Query: 299 INQHYAS--------MCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQ 350 + + S M R D+ R +A+ L ++L R + L R+ +V+ Sbjct: 240 VLRGRQSDLALDPELMAAARREAADTALARYG-AEAEALHRALGYRANALERIVAFLVDY 298 Query: 351 QQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTE 410 Q FF +G M+P+ +A + +H +T+ R K L G+ L FFS+ + E Sbjct: 299 QSGFFREGGAAMRPLTREVLAARLGLHAATVGRAVADKTLAHAGGVIPLSAFFSARLGPE 358 Query: 411 GGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPS 470 G S+ +++ + L+AAE+ L+D ++ L ++G+ +ARRTVAKYR L+IP S Sbjct: 359 TGAATSAYGVQSRIAALVAAESEDAVLTDGEIAQRLKKEGVDIARRTVAKYRGCLNIPSS 418 Query: 471 NQRKQL 476 RK+L Sbjct: 419 YDRKRL 424 >UniRef50_D1B1S7 RNA polymerase sigma-54 factor, RpoN n=10 Tax=Campylobacterales RepID=D1B1S7_SULD5 Length = 423 Score = 148 bits (374), Expect = 4e-34, Method: Compositional matrix adjust. Identities = 110/349 (31%), Positives = 175/349 (50%), Gaps = 33/349 (9%) Query: 132 PFSDTDRA--IATSIVDAVDETGYLTV-PLEDILESIGDEEIDIDEVEAVLKRIQRFDPV 188 P T+++ IA I++ ++ GY L +I ++ +E EVE + +R +P+ Sbjct: 99 PLFPTEKSQRIAYEIIENINAEGYFEADALVEIAHTLNVKE---TEVEKIRQRFAYLEPL 155 Query: 189 GVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKE 248 GV A+D+++ L QL E A +I + D++ + KE + E Sbjct: 156 GVGAQDVKEAFLFQLQDLTLENTLYEMAEKLILN-FDVIESFG----------KEPLFHE 204 Query: 249 AVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCN 308 A+N+I+ P E E V+PD+ + G V LN P + I+ Sbjct: 205 ALNIIKRFHNPPAIDFLEEEKE-VVPDIFIYTIEGAIEVRLNDTYYPEVIIDTEGV---- 259 Query: 309 NARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLA 368 D + F+ L+DAK LI +LE R TL ++ I+E Q FF + +KPM L Sbjct: 260 ----DESNSFVSQKLKDAKDLIDALEMRKATLYKIGLMIIEYQYDFF--FGKAIKPMKLK 313 Query: 369 DIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLI 428 D+A + + STISR KYL RG+ LK FF++ V + S++AI+ + +L+ Sbjct: 314 DLADDLGRNPSTISRAIAGKYLSCARGVIPLKQFFATAVEE----DISNSAIKEYMIELV 369 Query: 429 AAENPAKPLSDSKLTSLLSEQ-GIMVARRTVAKYRESLSIPPSNQRKQL 476 EN KPLSD KL SL+ +Q + + RRT+ KYR+ +I S++RK+L Sbjct: 370 KHENKQKPLSDIKLLSLIEKQFNVKMVRRTITKYRQQFNIASSSERKKL 418 >UniRef50_Q9ZLC8 RNA polymerase sigma-54 factor n=34 Tax=Campylobacterales RepID=RP54_HELPJ Length = 414 Score = 148 bits (373), Expect = 5e-34, Method: Compositional matrix adjust. Identities = 104/346 (30%), Positives = 185/346 (53%), Gaps = 33/346 (9%) Query: 134 SDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAK 193 ++T + IA I+ ++ GY +E+ + +G ++ + E V KR +P G+ AK Sbjct: 94 TETSQKIAMDIISGLNNEGYFEENIEERAKVLG---VESEVYEKVRKRFSYLNPAGIGAK 150 Query: 194 DLRDCLLIQLS--QFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVN 251 D+++ L QL + D + EE R II L+L +H+F K+ ++A+ Sbjct: 151 DVKEGFLFQLDGRELDNNELY-EETRKII---LNLEKHHEFS--------KDFYYEKALK 198 Query: 252 LIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNAR 311 +++S P E E VIP++ + + + V LN +S P + + ++ Sbjct: 199 ILKSFKNPPAIEFLEKEIE-VIPELFILEVDNEMIVRLNDESYPTISLEENRFK------ 251 Query: 312 NDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIA 371 DS +++ L++AK LI +L R T+ ++ ++E Q FF +G+E ++P+ L D+A Sbjct: 252 ---DSDYLKEKLKEAKDLIDALNLRKATIYKIGLMLLEYQYDFF-KGKE-LRPLKLLDLA 306 Query: 372 QAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAE 431 STISR + KYL RG+F +K+FFS ++ E S+ I+ + +LI E Sbjct: 307 NEFNHSVSTISRAISNKYLACERGVFPIKHFFSIALD---NSETSNAVIKDYLLELIKNE 363 Query: 432 NPAKPLSDSKLTSLLSEQ-GIMVARRTVAKYRESLSIPPSNQRKQL 476 + +PLSD+K+ L+ E+ + + RRT+ KYR+ L+I S++RK+L Sbjct: 364 DKKEPLSDAKILELIEEKFHLKMVRRTITKYRQLLNIASSSERKRL 409 >UniRef50_Q256I9 DNA-directed RNA polymerase sigma 54 n=5 Tax=Chlamydophila RepID=Q256I9_CHLFF Length = 422 Score = 145 bits (367), Expect = 2e-33, Method: Compositional matrix adjust. Identities = 107/361 (29%), Positives = 176/361 (48%), Gaps = 20/361 (5%) Query: 118 QTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEA 177 ++L +L+ QV+ T D IA I+ + + G L P ED+ + E+ +D + Sbjct: 73 ESLFSHLLTQVQQTFDHAEDLLIAQHIIGNLSDQGLLLSPPEDLSLQL---EVPLDSIHV 129 Query: 178 VLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMR 237 V + IQ F P+G+A+ L+D L+ L + A II +H LL N +F + + Sbjct: 130 VWQTIQHFHPLGIASPSLQDYWLLHLEGSSH-----QLAYKIIKEHYALLINCNFLRIAK 184 Query: 238 VTRLKEDVLKEAV-NLIQSLDPRPGQ---SIQTGEPEYVIPDVLVRKHNGHWTVELNSDS 293 R LK+A+ N + ++ P + S+ + +P +PDV V K W ++++S Sbjct: 185 KCRCTPADLKQALKNALATIPWCPAEGYASLSSTQP--ALPDVYVTKKQQGWEIQISSRG 242 Query: 294 IPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQA 353 +P +++N + + + L AKWLIK+L R TL + I+ Q+ Sbjct: 243 LPPIKLNSEVFHIYEQLPREEKKNLTQQIL-SAKWLIKNLRKREQTLFSIIEKILPHQEG 301 Query: 354 FFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGG 413 F KP+ + +++ + HESTI R K L +P GI +K F + + Sbjct: 302 FLLGKTSSPKPLSVKQLSEDLSYHESTIFRAIENKKLAAPIGIIPMKLLFPRAASDDSH- 360 Query: 414 EASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQR 473 S I + + I +E PLSDS ++ +S+ GI ARRTVAKYR L I P+++R Sbjct: 361 --SKETILQWIHQWITSET--TPLSDSDISERISKHGIQCARRTVAKYRAQLKILPAHKR 416 Query: 474 K 474 K Sbjct: 417 K 417 >UniRef50_B9Y8Z2 Putative uncharacterized protein n=1 Tax=Holdemania filiformis DSM 12042 RepID=B9Y8Z2_9FIRM Length = 426 Score = 145 bits (365), Expect = 4e-33, Method: Compositional matrix adjust. Identities = 131/462 (28%), Positives = 211/462 (45%), Gaps = 69/462 (14%) Query: 15 MTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSETLDTADALE 74 + P + +++ +L +S+ L L + + SNPLLE D T+ + D E Sbjct: 17 LKPAMLESLNILHMSSDALAAYLNEQMLSNPLLE------------WSDQRTVRSDDLYE 64 Query: 75 QKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFS 134 Q +G ++ E+ + Q Q V L P Sbjct: 65 Q-------------------------AGQFVAAEVSLKQQLRQQA-------AVLLDP-- 90 Query: 135 DTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKD 194 D+ IA +++ +D+ GYL L+ + G I+ + +L ++ P G+ A D Sbjct: 91 -ADQVIAETLIGLLDDDGYLREELDAL---CGLMHINKARLNRILSLLKTLKPAGIFAHD 146 Query: 195 LRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQ 254 LR+CLL+QL + P E AR + ++HL+ LA +L R D L EA+ L++ Sbjct: 147 LRECLLLQLME---QHPENELARRL-TEHLEALARGGTTSLCRTLHCTADQLNEAIALLR 202 Query: 255 SLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARNDG 314 DP+PG+S Q ++ +V V +G + + L + S L N ND Sbjct: 203 RCDPKPGRS-QGAAAAPLVCEVQVEIEDGQFKITL-AHSFSELIFNPMPI-------NDP 253 Query: 315 DSQ-FIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQA 373 Q +++ +AK L+ +++ RN TL ++R I Q AFF +G+ + P+ IA Sbjct: 254 TVQDYLKQKTAEAKNLLLAIQKRNQTLASITRAICLNQSAFFLRGQPLI-PLTRHQIADQ 312 Query: 374 VEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENP 433 + +H STISR K L ++ FFS+ V + S + +K+LI E+ Sbjct: 313 LGLHPSTISRSLAGKGLEFNGQLYPFSVFFSAQVRND----LSQDQVLRQLKRLIHEEDA 368 Query: 434 AKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 PLSD +L+ L G ++RRTV KYRE L IP S R+Q Sbjct: 369 EAPLSDQQLSDRLKALGCPISRRTVVKYREKLRIPDSRVRRQ 410 >UniRef50_C0XEY8 RNA polymerase factor sigma-54 n=2 Tax=Lactobacillus gasseri RepID=C0XEY8_9LACO Length = 413 Score = 144 bits (362), Expect = 1e-32, Method: Compositional matrix adjust. Identities = 101/353 (28%), Positives = 175/353 (49%), Gaps = 19/353 (5%) Query: 124 LMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQ 183 L+ L S+ + ++D +D G+L+ ++E ++ I++ + +Q Sbjct: 74 LLHDFNLEVKSNKLKYFGAIVIDNLDGHGFLS-DYHHLIEQFPQQQKLINKAINI---VQ 129 Query: 184 RFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKE 243 P G+AA+ + +CLL+QL + + + II +L+ LANH+FR + + + Sbjct: 130 NIGPTGIAARSVSECLLLQLKH---KSNYPKNTDTIIKYYLEDLANHNFRKIYTNLSISK 186 Query: 244 DVLKEAVNLIQSLDPRPGQSIQTG-EPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQH 302 + L + + I+SL RPG I T + +IP++ + + L D+ Q N Sbjct: 187 NDLFKVICFIKSL--RPGVEINTDINNKIIIPELFICYDHKKIFTHLIEDN----QFNLE 240 Query: 303 YASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYM 362 + + + + +FI+ + A+ L K+ + R DTLL + + I EQQ+ FF G + Sbjct: 241 FKTPSYSTNDTETLKFIKKQKKQAQNLQKNYQRRQDTLLLIGQTIAEQQEIFFATGGKKF 300 Query: 363 KPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRA 422 P+ + IA ++ STISR KY GIF L FSS +N S I Sbjct: 301 TPLNESQIALETHLNVSTISRTVRSKYFQCDFGIFPLNILFSSKIN-----NFSQKNILN 355 Query: 423 LVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 ++KK+I EN PL+D ++ + L + I V+RRT++KYR+ L I QR++ Sbjct: 356 MLKKIILNENQKNPLTDDEIKNKLLKNNIAVSRRTISKYRKKLGIGNYYQRQK 408 >UniRef50_Q7P6F0 RNA polymerase sigma-54 factor rpoN n=9 Tax=Fusobacterium RepID=Q7P6F0_FUSNV Length = 443 Score = 144 bits (362), Expect = 1e-32, Method: Compositional matrix adjust. Identities = 94/342 (27%), Positives = 171/342 (50%), Gaps = 37/342 (10%) Query: 138 RAIATSIVDAVDETGYL---TVPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKD 194 + I I++ +D+ GYL + ++DILE + E+E I +P G+ A Sbjct: 134 KEICIFIINNLDKKGYLELSKIEIKDILE------VSNKELEEAFDIIHNLEPYGIGAYS 187 Query: 195 LRDCLLIQLSQFDKTTPWLEEA-RLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLI 253 L +CL IQL K +EE L I ++L LLA+ + + + +++L +++I Sbjct: 188 LEECLKIQL----KAKKIIEEKLSLFIDNYLYLLADKKYDLIKEKLNINDNILFSYIDII 243 Query: 254 QSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARND 313 +SL+P P + G+ +IPDVLV E+N SIP++ N ++ Sbjct: 244 KSLNPIPSRGYSVGKVRKIIPDVLVEIKKNEIFYEINRASIPQI-----------NVKDK 292 Query: 314 GDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQA 373 + ++ + +I +E R +T+ ++ + I+ +Q+ FF + + + ++DIA Sbjct: 293 IEDKYYKK----INEIISCIEKRFETIDKIMKIIIREQKIFFTSQGKKINTLKISDIADK 348 Query: 374 VEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENP 433 + + ST+SR +KY+ + GI L+ F+ +++ + + + I EN Sbjct: 349 LNLSPSTVSRAVKEKYIKTNFGIISLRKLFNL--------DSAVFLYQQKILEYIENENK 400 Query: 434 AKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 P+SD + +LL + GI +ARRTV KYRE L S++RK+ Sbjct: 401 ENPISDQDIVNLLEKDGIKIARRTVTKYREKLGYKSSHKRKK 442 >UniRef50_UPI000196AFF4 hypothetical protein CATMIT_00324 n=1 Tax=Catenibacterium mitsuokai DSM 15897 RepID=UPI000196AFF4 Length = 408 Score = 143 bits (361), Expect = 1e-32, Method: Compositional matrix adjust. Identities = 122/480 (25%), Positives = 230/480 (47%), Gaps = 76/480 (15%) Query: 1 MKQGLQL--RLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDT 58 MKQ +Q L Q L + +L +++ L + ++ + +QQ LE+NP LE + + + DT Sbjct: 1 MKQKMQYIQTLKQTLKLNQKLLKSLDFLTDNIDDINKVVQQVLETNPFLE-LKSPKNYDT 59 Query: 59 RETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQ 118 ++ +S + ++ + ++L L S + Y +D Sbjct: 60 QQFIESIS-------NKRSLKDDLYLQLS-----------ACTRPYNED----------- 90 Query: 119 TLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAV 178 L DYL ++++D++G+L+ P++ + + D +ID + ++A Sbjct: 91 -LMDYL--------------------IESLDDSGFLSYPID---QYLTDLDIDREMLDAH 126 Query: 179 LKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRV 238 L ++ F+P GV A D D ++IQL +K + + D+ D++ ++ + + Sbjct: 127 LDILRSFEPNGVGAADAIDSIMIQLKNNNKIKSYT-----LFRDYQDVILTQNYSLIKQK 181 Query: 239 TRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVE-LNSDSIPRL 297 T LK++ + I+S +P P + + +Y+ PDVL+ + + + +N P L Sbjct: 182 TGLKKEEIDHLFYEIRSCNPFPCNMYSSSQDDYISPDVLIEVEDSNIIITPINQ---PEL 238 Query: 298 QINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQ 357 +N N N ++S +A +LI++L RN T+L V+ +V+ Q +F Sbjct: 239 IVNDLLYEKVKNDEN------MKSYFNEAHFLIENLTKRNQTVLFVANALVDIQSGYFLY 292 Query: 358 GEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASS 417 +E + P L+ +A HESTISR KY ++ LK S G++S Sbjct: 293 DDE-LYPCTLSQLANETGFHESTISRTLNNKYYSFNGEVYPLKQLLVSQT---ASGDSSD 348 Query: 418 TAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQLV 477 + +A+V+ L+ +E+ PLSD+++ L E + +RR + KYR+ L+IP S +RK L+ Sbjct: 349 SIKKAIVE-LVDSEDKEHPLSDNQILKKLEELELHCSRRVIVKYRQQLNIPSSTKRKILL 407 >UniRef50_Q7M8V1 RNA POLYMERASE SIGMA-54 FACTOR n=1 Tax=Wolinella succinogenes RepID=Q7M8V1_WOLSU Length = 404 Score = 140 bits (353), Expect = 1e-31, Method: Compositional matrix adjust. Identities = 130/476 (27%), Positives = 210/476 (44%), Gaps = 92/476 (19%) Query: 7 LRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSET 66 LR+SQ+ A+ ++Q +L+ S EL+++L +A NP L+ Sbjct: 4 LRISQKQALRLSVRQWCAVLEASGSELEKKLSEAALENPFLK------------------ 45 Query: 67 LDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMW 126 +K +P + +SGD+I++ + LQ+ L+ Sbjct: 46 ------FRRKSLP------------------TFSSGDFIEN------SPKERFLQESLLD 75 Query: 127 QVELTPF-SDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQRF 185 Q++ + F ++ + IA I++ ++ GY I E G E EVE + KR ++ Sbjct: 76 QIDSSFFPTEFSQKIAAKIIEELNVEGYFEGDESAIAEEFGTSEA---EVEKIRKRFRKL 132 Query: 186 DPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDH---LDLLANHDFRTLMRVTRLK 242 DP GV AKD L F E RL+ SD+ L LA R+ ++ L+ Sbjct: 133 DPCGVGAKD-------SLEAF--------EFRLLESDYDEDLSSLAYEILRSPGQIHHLQ 177 Query: 243 EDV-LKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQ 301 L EA++L + P GE + PD+LV + G + +E+ D + Sbjct: 178 GQARLLEAIDLAKRFSAPPALEFMQGEA-FRRPDILVAEDEGVFRIEVWGDEF------E 230 Query: 302 HYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEY 361 C + S ++A+ L R+ TL +++ IV+ Q+ FF+ GE Sbjct: 231 LGVEACGVKEKN-------SLKKEARLLCDYFNMRHSTLRKIATLIVDLQRDFFQGGE-- 281 Query: 362 MKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIR 421 ++P ++ A + + + T SR QK L RG F L+ FF GE IR Sbjct: 282 LRPFSVSQAALEIGISQPTFSRAIAQKSLCCSRGTFPLRKFFPYEAKNGVSGEE----IR 337 Query: 422 ALVKKLIAAENPAKPLSDSKLTSLLSEQ-GIMVARRTVAKYRESLSIPPSNQRKQL 476 A +K LIA E + SD +L+ L+ + G+ + RRT+ KYRE L IP N RK+L Sbjct: 338 AFIKALIAQEQGGRIYSDEQLSELVKRKFGVHIVRRTIGKYREQLGIPSPNFRKKL 393 >UniRef50_A8RDS7 Putative uncharacterized protein n=1 Tax=Eubacterium dolichum DSM 3991 RepID=A8RDS7_9FIRM Length = 406 Score = 140 bits (352), Expect = 1e-31, Method: Compositional matrix adjust. Identities = 121/481 (25%), Positives = 223/481 (46%), Gaps = 85/481 (17%) Query: 1 MKQGLQLR--LSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDT 58 M+Q L L+ + Q+ +QA+++LQ++ +LQ +++ + NP L + Sbjct: 1 MEQKLLLKPDIKQKSNFHSAREQALQILQMNQQDLQMYIREQADHNPFL--------VMN 52 Query: 59 RETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQ 118 +DS+ D P + DT+Y D+L + + Sbjct: 53 TIGEDSDIFDVYS-----------PKQSLSDTLY--------------DQLCYIEKPYKE 87 Query: 119 TLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAV 178 + DYL+ ++ + GY + LE ++ + +I E AV Sbjct: 88 EIVDYLLSRL--------------------NSNGYFKISLEQLILGSCFSQKEIIETIAV 127 Query: 179 LKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRV 238 L QR +P+G +L++ L IQ ++ E I+ D+L+ LA H F + Sbjct: 128 L---QRLEPIGCFCFNLKESLQIQCEMHEEACS---ETGYILCDYLEDLAFHRFAQVEVK 181 Query: 239 TRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQ 298 T L + ++E IQ L+P+P + T + ++P++ V+ GH +E I RLQ Sbjct: 182 TGLSLEEIEEGFAFIQGLNPKPASNYAT-QSAVILPEIRVKLVQGHLVLE-TVQEIFRLQ 239 Query: 299 INQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQG 358 + + + ++++ ++A ++ S++ R T++++ +V++Q+AFF + Sbjct: 240 LEEDMGT---------HHEYLKRQRKEATLIMNSIQKRKMTIMQIMEFLVDKQKAFFLEK 290 Query: 359 EEYMKPMV---LADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEA 415 KP+ L D+++A +H STISR K + +KY GG +A Sbjct: 291 ----KPLCYCTLQDVSKACGLHVSTISRAIQNKSFEFQNNYYPIKYLL-----VHGGDKA 341 Query: 416 S-STAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRK 474 S I++ +K LI E+ +P SD +L LL ++GI ++RRTV+KYRE+ + ++QRK Sbjct: 342 HHSQEIKSRIKALIDNEDKQRPYSDERLRKLLEKEGIRISRRTVSKYREACLLFNASQRK 401 Query: 475 Q 475 Q Sbjct: 402 Q 402 >UniRef50_C8PAD9 DNA-directed RNA polymerase sigma subunit RpoN n=1 Tax=Lactobacillus iners DSM 13335 RepID=C8PAD9_9LACO Length = 426 Score = 139 bits (350), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 126/481 (26%), Positives = 218/481 (45%), Gaps = 72/481 (14%) Query: 2 KQGLQLRLSQ----QLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEID 57 K GL LRL + +L ++P+L+Q + +L +T +L + L E+NP + Sbjct: 4 KNGLSLRLKESLITRLFLSPKLKQDLDILSYNTEDLLKVLHDIAETNPFI---------- 53 Query: 58 TRETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETT 117 D YT + T+ D++ D + Sbjct: 54 -------------------------------DLKYTNA--NTTTLDWVQDP-------SQ 73 Query: 118 QTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEA 177 +L +YL+ Q++L+ +S+ D+ + T ++ +D GYL + + I E DI + Sbjct: 74 DSLVEYLIKQIQLSAWSNNDKKLVTFLIYKLDNNGYLRFTCKQLANEIEYSEADIQNAKN 133 Query: 178 VLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHL-DLLANHDFRTLM 236 +L P+GV A DL +CLLIQ + P A I+ HL + LA D + Sbjct: 134 LL---HELSPLGVGAYDLNECLLIQAKKLLHFNPI---ALAILEKHLLERLA--DTSSWN 185 Query: 237 RVTRLKEDVLKEAVNLIQSLDPRPGQSIQT-GEPEYVIPDVLVRKHNGHWTVELNSDSIP 295 + KE +L EA+ ++ L+P PG +Y+IPD++ NGH V+ + ++P Sbjct: 186 SLPWKKEKIL-EALKELRKLEPTPGAKFDNFTNIQYLIPDLIFEIDNGHVLVKDSKFNLP 244 Query: 296 RLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFF 355 + N+ + + + ++ + + L SLE R TL+R+ + + Q A+ Sbjct: 245 EVVFNEVEYTNLKGSCATNEVEYFNAQKKQFMDLQLSLERRQKTLIRLGEYLAKYQLAYL 304 Query: 356 E-QGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELK-YFFSSHVNTEGGG 413 + ++ +K + + ++AQ++ + STISR KY I LK F S N Sbjct: 305 KTMDKKQLKALNMNNVAQSLGLSVSTISRAVKDKYFECNNRIISLKIMFMKSFKNNITAM 364 Query: 414 EASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQR 473 + + T +++LI E+ + PLSD + L QGI ++RR V KYR ++I S R Sbjct: 365 KVTDT-----IERLINEEDKSHPLSDQDICDQLLLQGINISRRAVTKYRTKMNIQNSYWR 419 Query: 474 K 474 K Sbjct: 420 K 420 >UniRef50_C5EQJ4 RNA polymerase n=1 Tax=Clostridiales bacterium 1_7_47FAA RepID=C5EQJ4_9FIRM Length = 458 Score = 137 bits (345), Expect = 9e-31, Method: Compositional matrix adjust. Identities = 121/487 (24%), Positives = 215/487 (44%), Gaps = 43/487 (8%) Query: 1 MKQGLQL--RLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDT 58 M+ GL + L Q+ ++ Q++ +L L ++ + L++ NP +EQ E Sbjct: 1 MENGLVMSQELKQKQTLSAYQYQSLHILHLGNAQVGELLKKEYLENPFIEQ---REGFSG 57 Query: 59 RETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSG-DY-IDDELPVYQGET 116 E Q E A+ E + +P + D G GTSG D+ +D + +Y G T Sbjct: 58 EEYQWLEYY-KANVKESRPIPGNGSGPEAGDADGDNGKEYGTSGCDWRMDIKEQLYDGRT 116 Query: 117 TQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDE--EIDIDE 174 + R + ++ +D+ G+L E G +I + + Sbjct: 117 -----------------PENRRRLLEQMILLLDDHGFLAFS-----EREGSRLLKIPVRQ 154 Query: 175 VEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRT 234 + K++ +P G+ + + L QL + P + R + +HL+ + F Sbjct: 155 YRVLRKQLMELEPEGIGCVSMGEYFLFQLMKKGIHVP--DAFRDLCMNHLEDITEMTFVQ 212 Query: 235 LMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTG-EPEYVIPDVLVRKHNGHWTVELNSDS 293 + + +K V ++ +L P P + G E VIPD+L+ G V +N Sbjct: 213 IAHMIHASFQEVKRWVRVLGTLKPYPIRDSGEGCAVETVIPDILIVPRGGGLEVRVNDYY 272 Query: 294 IPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQA 353 + + ++ Y + N+ +++ L A+ + ++ RN T+ R+ ++ Q + Sbjct: 273 MRQYCVSDFYRRTMKDEDNEELQEYMDRKLLRARQIYLAVSRRNRTICRMGEYLLRVQGS 332 Query: 354 FFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGG- 412 FF G ++ M A +E+HEST+ R+ + KY+ P+GI LKYFFS V+ G Sbjct: 333 FFRGG--FLTGMTYKMFADELEVHESTVCRIVSNKYVSCPQGILPLKYFFSKGVDVVDGQ 390 Query: 413 ----GEASSTAIRALVKKLIAAENPAKPLSDSKLTSLL-SEQGIMVARRTVAKYRESLSI 467 G +++R L+ LI E +P SD KL +L E G+ ++RRTV+ YRE I Sbjct: 391 GRVTGTMGKSSVRELIAFLIEKEPGDRPYSDGKLADMLKKEYGLRISRRTVSNYREEAGI 450 Query: 468 PPSNQRK 474 +RK Sbjct: 451 RSVYERK 457 >UniRef50_C4PNB9 RNA polymerase sigma-54 factor n=8 Tax=Chlamydia RepID=C4PNB9_CHLTZ Length = 436 Score = 137 bits (344), Expect = 1e-30, Method: Compositional matrix adjust. Identities = 113/373 (30%), Positives = 179/373 (47%), Gaps = 25/373 (6%) Query: 113 QGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDI 172 Q T+TL YL+ Q++ S +R IA IV + G LE+ D + Sbjct: 66 QHPFTETLSAYLLRQIDTNFASSQERTIAQYIVGNLSPEGLF---LENPSLVAADLNVSE 122 Query: 173 DEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDF 232 V +RIQ+ P+GV A L+ + L +T+P +EA II +H LA DF Sbjct: 123 HLFHKVWQRIQQLHPLGVGAPSLQSYWVSLL----QTSPH-KEALAIIRNHFPRLARCDF 177 Query: 233 RTLMR-VTRLKEDVLKEAVNLIQSLD--PRPGQSIQTGEPEYVIPDV-LVRKHNGHWTVE 288 T+ R + ++L + S+ P G S P +PD L N W V Sbjct: 178 TTIARKMHATTTEILTFLRHAFASIPWCPAAGFSETLHPPAPALPDAYLSFSRNSSWDVS 237 Query: 289 LNSDSIPRLQINQH----YASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVS 344 +N D +P +++N Y S+ + D SQ IR+ AK L+++++ R +TLL + Sbjct: 238 INKDCLPSIRLNNTVLDIYPSLPREEK-DHLSQQIRA----AKQLLRNVKKREETLLAIL 292 Query: 345 RCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFS 404 R ++ Q+ F + K + IA+ + +HE+T+ R K L +P G+ ++ F Sbjct: 293 RVLIPYQEEFLLKKRTSPKAFSVKQIARELSLHEATVCRAIDNKTLATPVGLLPMRSLFP 352 Query: 405 SHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRES 464 V + + S I + + I+ E PLSD+ ++ + E+GI ARRTVAKYR Sbjct: 353 QAVGS--CPDQSKATILHWIHQWISTEK--HPLSDAAISQKIIEKGIPCARRTVAKYRSQ 408 Query: 465 LSIPPSNQRKQLV 477 L+I P++QRK L Sbjct: 409 LNILPAHQRKHLC 421 >UniRef50_Q30RF5 Sigma-54 (RpoN) n=2 Tax=Campylobacterales RepID=Q30RF5_SULDN Length = 422 Score = 136 bits (343), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 111/365 (30%), Positives = 179/365 (49%), Gaps = 39/365 (10%) Query: 118 QTLQDYLMWQVELTPF-SDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVE 176 ++L D L Q+E F + + IA+ +V +DE GY E+ + + I I+E E Sbjct: 87 KSLYDVLDEQIEAPLFPTPISQKIASFVVCNLDENGYYEGDSEEFCK---NNAITIEEFE 143 Query: 177 AVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDH---LDLLANHDFR 233 V R +PVGV AK+L + L QL D + A +I D D F Sbjct: 144 KVRLRFAHVEPVGVCAKNLLESFLFQLDSSDISDKVYPLAIKVIKDLENIYDYSNEAGFS 203 Query: 234 TLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKH-NGHWTVELNSD 292 +MRV L +P + ++ E VIPD+++ + N V+LN Sbjct: 204 EVMRV-------------LTTFKNPPAIEYLE--ESAQVIPDLMIFFNDNDSIEVKLNDA 248 Query: 293 SIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQ 352 P + I+ Y+ + ++ +++AK L+ +L+ R TL +V IVE Q Sbjct: 249 FYPIINIDTSYSI---------EHDYVSQKIKEAKSLVDALDMRKATLYKVGLMIVEYQY 299 Query: 353 AFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGG 412 FF G + P+ L +A + STISR KY+ RG++ +K FF++ ++ Sbjct: 300 EFFTGGA--IMPLTLKTLADEFGHNPSTISRAIANKYIACDRGVYAMKEFFTTAIDE--- 354 Query: 413 GEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQ-GIMVARRTVAKYRESLSIPPSN 471 + S+ AI+ V +I +EN KPLSD KL L+ ++ + + RRT+AKYR+ L+I S+ Sbjct: 355 -DVSNAAIKEFVIGVIKSENRKKPLSDMKLLELIQDKFKVQMVRRTIAKYRKQLNIAGSS 413 Query: 472 QRKQL 476 +RK+L Sbjct: 414 ERKKL 418 >UniRef50_D0D5Z1 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Citreicella sp. SE45 RepID=D0D5Z1_9RHOB Length = 419 Score = 131 bits (329), Expect = 7e-29, Method: Compositional matrix adjust. Identities = 123/464 (26%), Positives = 204/464 (43%), Gaps = 70/464 (15%) Query: 18 QLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSETLDTADALEQKE 77 ++ I +LQLS EL + L Q +SNPLL + R Q + Sbjct: 16 RMGHVISVLQLSGEELDEHLLQTAQSNPLL--------VVRRRRQTA------------- 54 Query: 78 MPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTD 137 +G++ D ID + +L D+++ EL + Sbjct: 55 ------------------IRAGSAHDLIDSTF----ADRPTSLYDHVLR--ELAGLAGRG 90 Query: 138 RAIATSIVDAVDE---TGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQR-FDPVGVAAK 193 A+ I+ V+E +G+L P+ I E++G + + VE L +QR P G+ A+ Sbjct: 91 AAMERLILALVEELEPSGWLGRPVPQIAETLG---LSVQLVETALDLVQRRVSPAGIFAR 147 Query: 194 DLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLI 253 DLRDCL +QL + W + A +++ HL++L L R T L + ++ + Sbjct: 148 DLRDCLRLQL---EDQGLWDDAAGRVLA-HLEVLGTGGAEALERATGLDAATIATRLHRL 203 Query: 254 QSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARND 313 + LDP+PG T DV + W +P + + + Sbjct: 204 RRLDPKPGSQFATDLTLMREADVRIEARGDGW--------VPIFRTSFETVVAVPPGASG 255 Query: 314 GDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQA 373 S +R L +A+ L ++L+ R L ++ + ++E Q AFF G E ++P+ A IA Sbjct: 256 DSSPEMRRALGEARALKQALDLRQGALKQIVQVMIEVQGAFFRDGPEALQPLTQAMIAAK 315 Query: 374 VEMHESTISRVTTQKYLHSPRGIFELKYFF---SSHVNTEGGGEASSTAIRALVKKLIAA 430 H ST+SRV + P GI + S+ +T+G S + A ++ L+ A Sbjct: 316 TGFHLSTVSRVLNGLLIEGPNGIIPARTLCARRSALCSTDG---PSKPKVLARLRALLLA 372 Query: 431 ENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRK 474 E + PLSD +L+ L +G+ V+RR VA+YR L P+ QR+ Sbjct: 373 ECASHPLSDVQLSDALRAEGLAVSRRVVARYRHELGFAPAAQRR 416 >UniRef50_O66858 RNA polymerase sigma factor RpoN n=1 Tax=Aquifex aeolicus RepID=O66858_AQUAE Length = 398 Score = 127 bits (320), Expect = 7e-28, Method: Compositional matrix adjust. Identities = 90/338 (26%), Positives = 174/338 (51%), Gaps = 29/338 (8%) Query: 137 DRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLR 196 ++ +A +++ ++E G+L+ +E+I + + ++E+E V +++ R +P+GV +KD+ Sbjct: 89 EQELALELLNYLNEKGFLSKSVEEISDVL---RCSVEELEKVRQKVLRLEPLGVCSKDVW 145 Query: 197 DCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSL 256 + L +Q+ + + + R L R +LK ++ + + L Sbjct: 146 EFLELQIEEIYPEE--------------EEILKKALRDLKRGKKLKPEIKGK----LSRL 187 Query: 257 DPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARNDGDS 316 P S + D ++ + NG + + L D I + +N+ Y + +RN Sbjct: 188 RLFPLSSSAEKVYTFAKVDAIIEEENGEFFIYLYEDFID-IDLNEEYWELYKKSRNLQKE 246 Query: 317 QFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEM 376 ++ + + + K L+ R L +V IVE+Q+ F G+ +KP+ L +++ + + Sbjct: 247 --LKEAFERYESIRKVLDIRRRNLRKVLEKIVERQKDFL-TGKGSLKPLTLREVSSEIGI 303 Query: 377 HESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKP 436 HEST+SR+ KY+ +P G + L+ FF + EG + + L+K+++ E+ KP Sbjct: 304 HESTLSRIVNSKYVKTPVGTYSLRTFFVRE-SAEG---LTQGELMKLIKEIVENEDKRKP 359 Query: 437 LSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRK 474 SD ++ ++L E+G VARRTVAKYRE L IP S +R+ Sbjct: 360 YSDQEIANILKEKGFKVARRTVAKYREMLGIPSSRERR 397 >UniRef50_Q5LLX0 RNA polymerase sigma-54 factor n=1 Tax=Ruegeria pomeroyi RepID=Q5LLX0_SILPO Length = 427 Score = 127 bits (318), Expect = 1e-27, Method: Compositional matrix adjust. Identities = 101/359 (28%), Positives = 173/359 (48%), Gaps = 18/359 (5%) Query: 124 LMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQ 183 L+ QV L + +A +V ++DE G+L E+ + ++ + +L+ Sbjct: 78 LLRQVALIRMTTRQNQLAQDLVHSLDERGFLPDSPEETASYLQCSPAELSALVPILQ--D 135 Query: 184 RFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKE 243 +P GV A L D +QL ++ P +E RL+ LDL+A D + + + Sbjct: 136 AVEPAGVFAWSLADSFRLQLQAKNRFDPLIE--RLLC--RLDLIARQDIDGICKACDVDR 191 Query: 244 DVLKEAVNLIQSLDPRP----GQSIQ-TGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQ 298 + E + I+SL+P P IQ +GEPE +I +G T LN ++PRL Sbjct: 192 EDAIEMLEDIRSLNPSPLFRQSHPIQASGEPELIIKTA----PDGTCTASLNEAALPRLL 247 Query: 299 INQHYASMCNNARNDGDSQ-FIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQ 357 + S A D +Q + R + A ++++++ R +TLL + I ++Q F Sbjct: 248 TDDALFSSTMAAETDAHAQSYYRDCYRGAANMVRAMQKRANTLLSAGQTIADRQHKFIRS 307 Query: 358 GEEYMK-PMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEAS 416 G K P+ + IAQ +++STISR + + GIF ++F + ++ + Sbjct: 308 GRLRDKQPLTMTLIAQEAGLNKSTISRALSNCRIRLDSGIFPAEHFLARPLSDDTPDRTR 367 Query: 417 STAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 ++ L + LI ENP P+SD L L + + ++RRTVAKYR+ L IP + +RK+ Sbjct: 368 DQVLQRL-RLLIETENPRSPMSDQVLARQLGKARLSISRRTVAKYRQFLQIPGAYERKR 425 >UniRef50_A7TBU8 Predicted protein n=1 Tax=Nematostella vectensis RepID=A7TBU8_NEMVE Length = 410 Score = 127 bits (318), Expect = 1e-27, Method: Compositional matrix adjust. Identities = 74/235 (31%), Positives = 124/235 (52%), Gaps = 11/235 (4%) Query: 222 DHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGE--PEYVIPDVLVR 279 + D ++ LM + E+ LKE + I L+P+PG S E ++PD ++ Sbjct: 176 NSFDHFVKKHYKKLMEKFAISEEELKEVIQEISKLNPKPGSSYAGNNKVAEQIVPDFNIK 235 Query: 280 KHNGHWTVELNSDSIPRLQINQHYASMCNN---ARNDGDSQ-----FIRSNLQDAKWLIK 331 +G+ + LN+ + P L I++ Y +M ++ SQ FI+ L AKW I Sbjct: 236 IIDGNLDLTLNARNAPELHISKEYNNMLKGYQESKEKSKSQKDAVLFIKQKLDAAKWFID 295 Query: 332 SLESRNDTLLRVSRCIVEQQQAFFEQGEE-YMKPMVLADIAQAVEMHESTISRVTTQKYL 390 ++ R TLL I+ Q +F G+E +KPM+L DIA + M ST+SRV KY+ Sbjct: 296 AIRQRQQTLLITMNAIMHYQYDYFLTGDERKLKPMILKDIADQIGMDISTVSRVANSKYV 355 Query: 391 HSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSL 445 +P G +K FFS + + G + S+ I+ +++ +I+ E+ KPL+D KL+++ Sbjct: 356 ATPYGTKLIKDFFSESMKNDQGEDVSTKEIKKILETVISEEDKRKPLTDDKLSAV 410 >UniRef50_UPI0001912E87 hypothetical protein Salmonellaentericaenterica_06648 n=2 Tax=Salmonella enterica subsp. enterica serovar Typhi RepID=UPI0001912E87 Length = 123 Score = 125 bits (315), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 66/76 (86%), Positives = 71/76 (93%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALE+NPLLEQ D H+EIDT++ Sbjct: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALENNPLLEQTDLHDEIDTQQ 60 Query: 61 TQDSETLDTADALEQK 76 QD + LDTADALEQK Sbjct: 61 PQDDDPLDTADALEQK 76 >UniRef50_B7J217 RNA polymerase sigma-54 factor n=19 Tax=Borrelia RepID=B7J217_BORBZ Length = 419 Score = 123 bits (309), Expect = 1e-26, Method: Compositional matrix adjust. Identities = 107/416 (25%), Positives = 198/416 (47%), Gaps = 57/416 (13%) Query: 69 TADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQG----ETTQT---LQ 121 T LE+ E E L +D++ T T Y +D++ Q E TQT L+ Sbjct: 31 TKLILEESENNECLEIDSNKIFFETLKTYRFKKVFYKEDDMIKNQHDIALEKTQTNTSLK 90 Query: 122 DYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKR 181 ++L+ Q+ + ++ + I +++ ++ G+ + D+ + ++V+ ++ Sbjct: 91 EHLLLQLRIQRINEDEIKIGEILINNLNSKGFHIINPYDLFKKEEK-----EKVKKTIEL 145 Query: 182 IQRFDPVGVAAKDLRDCLLIQLSQFDKTT---PWLEEARLIISDHLDL-----LANHDFR 233 IQ+FDP+G+ ++ + L++Q T LE+A L+ L + + +F Sbjct: 146 IQKFDPIGICVPNIIESLILQAKHHKLETNIIKILEKAELLEKTQKKLKEELKIRSKEFN 205 Query: 234 TLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPE----YVIPDVLVRKHNGHWTVEL 289 T + + R Q L+P P +++ +P YV PD+L+ HN + +++ Sbjct: 206 TALEIIR-------------QKLNPNP--TLEFKDPNDTNFYVDPDILIINHNNKFKIKI 250 Query: 290 NSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVE 349 +I + ++ R + Q + AKWLI+SL R++ L ++ I Sbjct: 251 KEVNIFKKEL----------KRTSENPQ----KQKKAKWLIESLRYRDEILAKIGIAIYT 296 Query: 350 QQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNT 409 Q+ F +G + ++PM L+ +++ + + +STISR KYL G +K FSS V Sbjct: 297 LQKEFLRRGFKSLRPMNLSILSEKISVSKSTISRAIKNKYLKCEWGTILIKELFSS-VGG 355 Query: 410 EGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESL 465 E S +I+ VKKL+ A K +SD +++ +L +GI ++RRTV KYR L Sbjct: 356 AKTNEFSKLSIKITVKKLLEAN---KKMSDKEISVILKSKGISISRRTVNKYRNEL 408 >UniRef50_C5CDZ9 Sigma-54 DNA-binding domain protein n=1 Tax=Kosmotoga olearia TBF 19.5.1 RepID=C5CDZ9_KOSOT Length = 387 Score = 121 bits (304), Expect = 5e-26, Method: Compositional matrix adjust. Identities = 122/468 (26%), Positives = 210/468 (44%), Gaps = 92/468 (19%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 ++ L +L Q+L ++ ++Q ++LLQL++LEL EL++ ++ NPLLE E Sbjct: 3 LEHKLSQKLEQKLHLSLKVQHVLKLLQLNSLELMTELREIVDGNPLLEL----------E 52 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAG--TPSGTSGDYIDDELPVYQGETTQ 118 +D + +D D E PEE ++ D+ Y P D+ E P Q + Sbjct: 53 GEDYKLIDENDI----ETPEEENYESKSDSPYFPKHYNPDFDGWDFERLEGP--QPSFEE 106 Query: 119 TLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAV 178 L+++ + +E D + I ++D ++E G L +E+I + E DI +V Sbjct: 107 MLRNFAFYILE-----DDEFKIFEILMDNMNEFGLLKRSIEEISREVAVNERDIRKV--- 158 Query: 179 LKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRV 238 K LRD S FD L A ++ Sbjct: 159 -------------IKKLRD------SGFD-----------------GLFAE-------KL 175 Query: 239 TRLKEDVLKEAVNLIQSLDPRPGQSIQTGEP-EYVIPDVLVRKHNGHWTVELNSDSIPRL 297 LKE L E + L P G P Y+ P++ + + + V + + Sbjct: 176 EELKE--LGEGIVL-------PSSGYNDGNPIMYIEPELYIDFVDNRFIVTAKDYGLA-I 225 Query: 298 QINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQ 357 ++++ Y + N +++ +F++ Q+A++ + +LE R TL+ + +V F Sbjct: 226 RVDEVYRELLKNEKDEA-GKFLKEKFQEAEFYVNALEKRRSTLITIGEELVRTNPDFLLG 284 Query: 358 GEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASS 417 + ++P+ + DIA+ +++ STISR K++ +P G F L+YFF G E + Sbjct: 285 YCKTLRPLKMTDIAEKLDVVVSTISRAVKGKFVQTPIGTFPLRYFF--------GSEQTR 336 Query: 418 TAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESL 465 ++ KL+ ENP LSDS + L+E GI +ARRTV KYR L Sbjct: 337 EQAMEIIAKLL-KENPK--LSDSAIAKKLNEIGIKIARRTVNKYRNVL 381 >UniRef50_O83149 RNA polymerase sigma-54 factor n=2 Tax=Treponema pallidum RepID=RP54_TREPA Length = 475 Score = 118 bits (295), Expect = 6e-25, Method: Compositional matrix adjust. Identities = 94/369 (25%), Positives = 169/369 (45%), Gaps = 40/369 (10%) Query: 140 IATSIVDAVDETGYLTVPLEDILESIGDEEIDIDE-VEAVLKRIQRFDPVGVAAKDLRDC 198 +A + + +D+ G+ ++ G + E + + IQR +P G A + ++ Sbjct: 110 LACAFIQMLDDHGFFSISPAIFQNMCGSMPTALQEKIPQAIALIQRLEPQGCAVFNFKES 169 Query: 199 LLIQLS-QFDKTT-PWLEEARLIISDHLDLLANHDFRTLMRVT----------------R 240 L +Q +F++ + P +++ H +LL D RV+ + Sbjct: 170 LAVQARLRFERFSDPLYRCVINLLTHHSELLFCSDNMCDGRVSVHALTTQINSMGLCVQK 229 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSI---QTGEPEYVI-PDVLVRKHNGHWTVELNSDSIPR 296 + + +K+ + LI+ L P PG+ + Q + ++ PDVL+ K + ++N IP Sbjct: 230 VSSNDVKDILLLIKELHPFPGKCVSNAQRADTNMLLEPDVLITKTAHGFVTQINCTGIPT 289 Query: 297 LQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFE 356 + Y C +++ + +++ + DA L+ L R TLL +++ IV Q FF+ Sbjct: 290 VVFRNDY---CMHSKAAEKNHALKACMHDALSLVSMLSYRERTLLDIAKTIVHYQCGFFD 346 Query: 357 QGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHV-NTEGGGEA 415 G + P+ + D+A + ST+SR+ K+L F L+YFFS V +TE + Sbjct: 347 HGPAKLTPLRMTDVAHRTGLSVSTVSRIVRDKWLQYGSQHFSLRYFFSPRVLSTEEYRDR 406 Query: 416 SS------------TAIRALVKKLIAAENPAK-PLSDSKLTSLLSEQGIMVARRTVAKYR 462 SS +++ + +LI + LSD ++ LL EQGI ARRTV KYR Sbjct: 407 SSLGQNYPSSPHSKVSVKYRISRLIQEVRTQRISLSDRRIAQLLGEQGIKCARRTVNKYR 466 Query: 463 ESLSIPPSN 471 L S+ Sbjct: 467 SELRTCSSS 475 >UniRef50_B7C885 Putative uncharacterized protein n=1 Tax=Eubacterium biforme DSM 3989 RepID=B7C885_9FIRM Length = 406 Score = 116 bits (290), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 98/361 (27%), Positives = 172/361 (47%), Gaps = 32/361 (8%) Query: 119 TLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAV 178 +L+D L Q+ T + IA I++++D G+ +DI + D + + E Sbjct: 70 SLKDELYLQLH-TSTKKYNEPIANYIIESLDSHGFFD---QDIHTVLSDLKCTKAQFEET 125 Query: 179 LKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRV 238 L IQ F+P+GVAAK+ D L+IQL T A I+ ++ L DF T+ Sbjct: 126 LSFIQTFEPIGVAAKNSIDSLMIQLK-----TKGYTVAYTILKNYSKELEEKDFYTISES 180 Query: 239 TRLKEDVLKEAVNLIQSLDPRPGQSIQT-GEPEYVIPDVLVRKHNGHWTVELNSDS---I 294 + + + + + +Q +P P T +P+ +T+E++ D I Sbjct: 181 LDIPYETVFDELAHMQECNPFPCSEYDTESTTNLALPE---------FTIEIDEDQLKII 231 Query: 295 PRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAF 354 P+ N + C + ++ + L +AK+ I S+ RN T+L ++ ++ Q+ + Sbjct: 232 PKEMGN--LSLHCEEVKLSKEA---KKYLNEAKFYIDSINRRNKTILLLANILITHQKNY 286 Query: 355 FEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGE 414 F ++ +K L +IA+ ST+SR + KY ++ +K F S T G Sbjct: 287 FLFQDD-LKECTLKEIAEESGYSISTVSRTLSDKYYEFNDHMYPVKDLFIS--KTHKG-- 341 Query: 415 ASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRK 474 +S +I+ ++ LI ENP PL D ++ L + +RRT++KYR+ L+IP S QRK Sbjct: 342 SSKDSIQKAIQLLIEVENPENPLQDEEIVEELKNMELYASRRTISKYRKELNIPNSKQRK 401 Query: 475 Q 475 + Sbjct: 402 K 402 >UniRef50_A8UUG6 RNA polymerase sigma factor RpoN n=1 Tax=Hydrogenivirga sp. 128-5-R1-1 RepID=A8UUG6_9AQUI Length = 398 Score = 110 bits (275), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 109/449 (24%), Positives = 196/449 (43%), Gaps = 89/449 (19%) Query: 32 ELQQELQQALESNPLLEQIDTHEEIDTRETQDSETLDTADALEQKEMPEELPLDASWDTI 91 EL+Q L++ ESNP +E++ + T E+K +PE Sbjct: 31 ELEQLLKEEKESNPFIEEVYVSGRVHT-------------FYEEKRLPE----------- 66 Query: 92 YTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDET 151 P + + LQ + ++E D IA ++ DE Sbjct: 67 ------------------PTLKIHPLEALQRNVKAELE-----GLDLDIAQELISQTDEK 103 Query: 152 GYLTVPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTP 211 G+ I G + + VE + + + R DP+GV +KDL++ + +Q+ + P Sbjct: 104 GFFRGDQTAIALKYG---VSKEYVEDIREFVMRLDPLGVCSKDLKEFVRLQIEELYPEEP 160 Query: 212 WLEEARLI------ISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQ 265 L E IS+ L +H +R++ L+E++ Sbjct: 161 ELVEEFEKALRGENISEDSRLKLSH-----VRLSPLEEEI-------------------- 195 Query: 266 TGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQD 325 P D ++ +G + + I ++ ++ Y M + + + +F++ L+ Sbjct: 196 -SVPRVAKVDAVIELDDGELVGYVYEELI-EVRPSRSYMEMMSKVKGEA-REFLKEYLER 252 Query: 326 AKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVT 385 + K L R D L ++ I+E Q F +GE +K +++ D+A + + EST+SR+ Sbjct: 253 YENFKKILAIRRDNLKKILNEIIEVQADFL-KGEGNLKSLLVKDVAYKLGVSESTVSRLI 311 Query: 386 TQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSL 445 + KY+ +P+G + ++FF E G S + +K+++A E+ KPLSD ++ + Sbjct: 312 SSKYVKTPQGTYPFRFFFVR----ETAGGISQEELMKEIKEVVAREDKGKPLSDDEIAKI 367 Query: 446 LSEQGIMVARRTVAKYRESLSIPPSNQRK 474 L +G VARRTVAKYRE L IP S +R+ Sbjct: 368 LQSKGYNVARRTVAKYRELLGIPSSRRRR 396 >UniRef50_UPI0001BC42F5 RNA polymerase factor sigma-54 n=2 Tax=Fusobacterium RepID=UPI0001BC42F5 Length = 384 Score = 105 bits (262), Expect = 3e-21, Method: Compositional matrix adjust. Identities = 80/333 (24%), Positives = 154/333 (46%), Gaps = 40/333 (12%) Query: 145 VDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLS 204 + ++ +G+L ++ + +G I + E++ + + P+GV A + R+C+ +QL Sbjct: 87 IYNLNSSGFLEFSDIELCKHLG---ISMKELKETYEYLYTLHPIGVGAHNFRECIRLQL- 142 Query: 205 QFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSI 264 K W ++ I+ HL +A+ + L + + ++ + +N I++ +P P + Sbjct: 143 --QKKKEWNQKMEGILL-HLQYIADGNSEKLRKKLGITKEEFQSFLNKIKNCNPIPARGY 199 Query: 265 QTGEPEYVIPDVLVRKHNGHWTVELNS---DSIPRLQINQHYASMCNNARNDGDSQFIRS 321 + ++PD ++ N W + N+ DS+ QI + Sbjct: 200 FIRKNLTIVPDFVLVLENEVWIAKENTELRDSLYSTQIIE-------------------- 239 Query: 322 NLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTI 381 K L +E R DTL ++ +VE Q+ +F +GE ++ + +A + +H ST+ Sbjct: 240 -TPSIKLLRLCIEKRMDTLKKIVDYVVEYQKEYF-KGENFLHTLHEKQVAHDLNLHLSTV 297 Query: 382 SRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSK 441 SR KYL + +GI+ +K F E I+ +++LI EN KP +D++ Sbjct: 298 SRAIQNKYLKTEKGIYSIKSLFCY--------EEKREKIKMEIERLIKYENYQKPYTDTQ 349 Query: 442 LTSLLSEQGIMVARRTVAKYRESLSIPPSNQRK 474 + L + + RRT+AKYR+ L S RK Sbjct: 350 IQEELKSKFGKIPRRTIAKYRQELGYVSSFYRK 382 >UniRef50_C6S982 RNA polymerase sigma-54 factor n=22 Tax=Neisseria RepID=C6S982_NEIML Length = 283 Score = 102 bits (253), Expect = 4e-20, Method: Compositional matrix adjust. Identities = 86/272 (31%), Positives = 134/272 (49%), Gaps = 42/272 (15%) Query: 4 GLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQD 63 G++L+ +QQL +LQQ++R+LQ+S +EL++E++ L NPLLE+ DT E D + Sbjct: 5 GIKLKQTQQL--NQRLQQSLRVLQMSGIELEREVENWLSDNPLLERKDTDEFSDAEFSH- 61 Query: 64 SETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDY 123 YTA GD +D L GE Q + Y Sbjct: 62 ----------------------------YTAPARQ-IGGDEGEDMLSNIAGE--QDFKQY 90 Query: 124 LMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDE--VEAVLKR 181 L QV P SD + A ++D +DE GYLT +EDIL+ E + +DE ++ L Sbjct: 91 LHAQVCEHPLSDQESACVHILIDFLDEQGYLTDSIEDILDHTPLEWM-LDEAMLKQALTA 149 Query: 182 IQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR- 240 +Q+FDP GVAA DL + L++Q+ + + A I+ + LD + + +TL R+ + Sbjct: 150 LQKFDPAGVAAADLNESLILQIERLGECAAK-PAALHIVRNALDSIDGNRSQTLARIKKH 208 Query: 241 ---LKEDVLKEAVNLIQSLDPRPGQSIQTGEP 269 L+ A++LI SL+P P + P Sbjct: 209 LPQTDSGTLEAALDLIASLNPFPAAGFASSTP 240 Score = 51.2 bits (121), Expect = 8e-05, Method: Compositional matrix adjust. Identities = 39/121 (32%), Positives = 57/121 (47%), Gaps = 19/121 (15%) Query: 358 GEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPR---GIFELKYFFSSHVNT-EGGG 413 GE KP L + A++ + S+ + H P+ G E + +N G Sbjct: 175 GECAAKPAALHIVRNALDSIDGNRSQTLARIKKHLPQTDSGTLEAALDLIASLNPFPAAG 234 Query: 414 EASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQR 473 ASST P SD L +LL+ +G+ V+RRT+AKYRESL IP +++R Sbjct: 235 FASSTPT---------------PYSDEALANLLAFRGMEVSRRTIAKYRESLEIPAAHKR 279 Query: 474 K 474 K Sbjct: 280 K 280 >UniRef50_A1BC03 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Paracoccus denitrificans PD1222 RepID=A1BC03_PARDP Length = 396 Score = 101 bits (251), Expect = 8e-20, Method: Compositional matrix adjust. Identities = 84/350 (24%), Positives = 157/350 (44%), Gaps = 34/350 (9%) Query: 124 LMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQ 183 L+ Q+ L P IA +V +D+ G L PL +I +G +E +L + Sbjct: 78 LIAQIGLLPLPADQMRIAQELVHCLDDRGLLADPLAEIAGWLGTTPA---VLEGLLPHLH 134 Query: 184 RFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKE 243 R +P GV A+D+ +C +QL + PW++ RL+ D LDL+A + + Sbjct: 135 RLEPHGVFARDMSECFRLQLRAKNLLDPWMD--RLL--DRLDLVAEGNLSAIAAFLGTDH 190 Query: 244 DVLKEAVNLIQSLDPRP-GQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQH 302 + + + I++L P P G G P +EL + + L+ Sbjct: 191 EDAGDMIADIRALTPAPLGIPAAGGPPP---------------ELELTAQGV--LKPGPS 233 Query: 303 YASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYM 362 A + DG+++ + A+ L+ ++E+R TLLR+ ++E Q ++ G Sbjct: 234 LALALGD-EGDGEARAM------AQGLVAAVENRMQTLLRIGTALIEIQSSWL-LGHGAR 285 Query: 363 KPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRA 422 +P+ + + ++ + +STISR + +P G L+ +++ + + Sbjct: 286 RPLTMTALGTSLGLSKSTISRAVAGVVIRTPAGPVHLRDLLKPPISSHNP-DLDREGVLQ 344 Query: 423 LVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQ 472 + ++I +D++L L+ +GI ++RRTVAKYR L +P Q Sbjct: 345 TLSQIIGDWPEGYRCTDARLAEKLAARGIRLSRRTVAKYRLGLGVPRHRQ 394 >UniRef50_B4U9T0 Sigma-54 DNA-binding domain protein n=1 Tax=Hydrogenobaculum sp. Y04AAS1 RepID=B4U9T0_HYDS0 Length = 395 Score = 95.5 bits (236), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 86/341 (25%), Positives = 163/341 (47%), Gaps = 45/341 (13%) Query: 137 DRAIATSIVDAVDETGYLTV-PLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDL 195 ++ IA IV ++D +G++++ LEDI G +D D V+ + +P+G A + Sbjct: 96 EKEIAKEIVYSLDSSGFISLETLEDIKNHFG---VDWDIVDDARAFVMEIEPIGHGALNP 152 Query: 196 RDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQS 255 + + +Q+ + K +++ L + + R + + KEA+ S Sbjct: 153 FEYMELQIRTYYKDK----------KEYIKYLKDLEER---------KKIPKEAMEFFSS 193 Query: 256 LDPRPGQSIQTGEPEYVIP---DVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARN 312 L P Q +T ++P D+++ G ++ + + +I+Q N + Sbjct: 194 LKKTPIQIDKTN----LLPSKVDIVIEIDQGEILYDIFDNYV---EISQE-----NIEES 241 Query: 313 DGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQ 372 D + R Q A+ ++++ R + +++ +VE+QQ FF + + +K ++L D+A Sbjct: 242 LEDKELERYLKQRARRFVEAINLRRKFMKELTKIVVERQQDFFLKDKP-LKSLMLKDVAG 300 Query: 373 AVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAEN 432 + ST+SR+ KY+ +P+G+F+L+ FF E S I ++KKLI +N Sbjct: 301 EFGISISTVSRLVNSKYVKTPKGVFKLRSFFVR----ESVSSKSQEEILNMIKKLI--QN 354 Query: 433 PAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQR 473 +D + +L GI ++RRTVAKYR L I S +R Sbjct: 355 EETVYTDKDIEEILRNYGINISRRTVAKYRAKLGIGSSRKR 395 >UniRef50_C4L5I1 Sigma-54 DNA-binding domain protein n=1 Tax=Exiguobacterium sp. AT1b RepID=C4L5I1_EXISA Length = 381 Score = 90.9 bits (224), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 93/379 (24%), Positives = 164/379 (43%), Gaps = 53/379 (13%) Query: 99 GTSG-DYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVP 157 G+ G D+I D + ++ L Q+ S++++A+ +V +D G L Sbjct: 49 GSGGVDWIAD--------AASSFEEKLFTQIHEGSGSESEKALRRQLVLLLDHRGLLPEA 100 Query: 158 LEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEAR 217 E + E +G +D+ +VE + + +P G+ ++ R+C Q+ E+ R Sbjct: 101 NEVLAERLG---VDVTQVEQARQTLLFLEPTGIGSRTEREC------QYRHAIE-HEDPR 150 Query: 218 LIISDHLDLL-ANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDV 276 ++ D + + + + + + + L ++ +L RP +TG +V P++ Sbjct: 151 VV--DVFEAIESGVSPQQMTTALAISNEELARLERIVATLPKRPLLYEETG---HVFPEL 205 Query: 277 LVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESR 336 VR G S + ++ N ++AKW + SL R Sbjct: 206 EVRYEEGTLVTTWLSPELDETRVG---------------------NDREAKWWMTSLSMR 244 Query: 337 NDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGI 396 N+TL + ++E +Q + QGE + P+ +AQ + HEST+ R K+ + GI Sbjct: 245 NETLREIW-SVIESRQTEWLQGELVLHPLTRRTVAQLIGKHESTVGRAIQGKFAKTESGI 303 Query: 397 FELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARR 456 E ++FF V + G + RAL +LI E P SD L + L G V RR Sbjct: 304 MEWRHFF---VRSTSRGHSPFMIKRALA-ELIQREKA--PQSDQALANELIRYGYQVTRR 357 Query: 457 TVAKYRESLSIPPSNQRKQ 475 TV YRE L S +R++ Sbjct: 358 TVTNYREELGFGNSRERER 376 >UniRef50_B1YLE5 Sigma-54 DNA-binding domain protein n=1 Tax=Exiguobacterium sibiricum 255-15 RepID=B1YLE5_EXIS2 Length = 380 Score = 87.0 bits (214), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 97/356 (27%), Positives = 162/356 (45%), Gaps = 55/356 (15%) Query: 124 LMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQ 183 L+ Q+ L R +A ++ +D G L E + + EE I + +L Q Sbjct: 71 LLQQIRLESVRQEIRYMAEQLIMYLDADGLLRTTDERLAVLLDSEEPMIRQARQLL---Q 127 Query: 184 RFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLL-ANHDFRTLMRVTRLK 242 + +P G+AA+ +C L+ + LE+ RL +DLL A D + L V Sbjct: 128 QCEPTGIAARSEAECRLLHAIE-------LEDDRL-----MDLLTALSDGQPLKAVL--- 172 Query: 243 EDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWT---VELNSDSIPRLQI 299 D E + Q ++ P + IP+ + W+ V++ S+P I Sbjct: 173 -DDETERRQMKQKMERLPKTPVLPVSTTMTIPEADI-----SWSDDQVQIQWSSLP---I 223 Query: 300 NQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE 359 + + ++L +AK + + E R +TL + IVE+Q +F +GE Sbjct: 224 DTSW-----------------TDLAEAKPFLSAYERRRNTLRAILDVIVERQIRWF-KGE 265 Query: 360 EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTA 419 +++P+ ++A+ H ST+ R K + + G EL+ FF S T+ G SS Sbjct: 266 LHLEPLTKKEVAKQTGYHPSTVGRAIVHKTIRTIHGTLELENFFVS--KTQSG--TSSFL 321 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 I+A + +LI + PLSD ++ + L +GI VARRTVAKYR L + S+ K+ Sbjct: 322 IKARIAQLI--QEATSPLSDQQIVNRLDLEGIRVARRTVAKYRAGLYLTRSDMTKR 375 >UniRef50_C4FUT1 Putative uncharacterized protein n=1 Tax=Catonella morbi ATCC 51271 RepID=C4FUT1_9FIRM Length = 434 Score = 86.3 bits (212), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 85/364 (23%), Positives = 169/364 (46%), Gaps = 18/364 (4%) Query: 105 IDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILES 164 +D ++P E + L +L Q+ + + A+ ++D ++ GYL +++ + Sbjct: 86 VDPQMP----EAPRNLPMFLFEQIMMYRHTIIRDAM-VRLIDLLNPQGYLPYSYQEVAKQ 140 Query: 165 IGDEEI-DIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDH 223 +G E I +D + Q+ +P G+ A D+R+CL++Q Q D P + A ++ ++ Sbjct: 141 LGIEPIIALDAI----TLFQQLEPAGIGAYDMRECLMLQTEQ-DAHAPNV--AYYLLEEY 193 Query: 224 LDLLANHDFRTLMRVTRLK-EDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHN 282 D L D++ ++ T L DVL V+ Q+L P Q E ++++ DV V + Sbjct: 194 FDQLKAEDYQAIVAATGLALADVLA-CVSYYQTLRTSPADLFQVEEEDHLLDDVTVLQDQ 252 Query: 283 GHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLR 342 V N+ P+L N+ Y + F + L ++L R +L+ Sbjct: 253 EGMKVRYNAHYYPKLIFNEPYYQEMLATQEPEVVAFSKPQKLMYDRLARNLRVREQLILK 312 Query: 343 VSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYF 402 V++ I Q +F Q + P++L +A+ + E ++ + + K + + + + F Sbjct: 313 VAQAIAAVQHDYFSQISDAKVPLLLKQVAEITGLPEPVVNLLVSNKNIGFGQYVLPMTDF 372 Query: 403 FSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYR 462 + EG S+ I+ ++ +++ + PA LSD +L L E+ IM++ V YR Sbjct: 373 ITV-ATREGRDGFSAEKIKQVIHEIL-HDAPAD-LSDEELVERLEERKIMISPFMVRNYR 429 Query: 463 ESLS 466 ++L Sbjct: 430 QALG 433 >UniRef50_UPI00006DCE7B hypothetical protein CdifQ_04003678 n=1 Tax=Clostridium difficile QCD-32g58 RepID=UPI00006DCE7B Length = 218 Score = 85.5 bits (210), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 65/235 (27%), Positives = 127/235 (54%), Gaps = 33/235 (14%) Query: 4 GLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQD 63 L+L SQ+L MT QL+Q++ +L +S LEL++E+++ E+NPL+E ++ EI+ E Sbjct: 6 SLELTQSQKLIMTTQLKQSLSILNMSKLELEEEIKREAENNPLVE-VEKSGEINWEEY-- 62 Query: 64 SETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQ-GETTQTLQD 122 + +D + L++ E+ + P D+E+ + + + L + Sbjct: 63 IKDMDRSRRLDRTEI---------------SYNP--------DNEVNLENLVKYSSNLYE 99 Query: 123 YLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRI 182 L +Q+ L +D + + I+D++DE GYL + I++++ +ID + E L + Sbjct: 100 DLKFQISLYKLTDKELEVCEYIIDSLDEDGYLRTEEKVIVDTL---KIDEELFEKCLISV 156 Query: 183 QRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMR 237 Q+ +P GV A+ L +CL+IQ++ LEE I++ L+L+AN+ ++ + + Sbjct: 157 QQLEPSGVGARSLSECLMIQMASLGIYNEILEE---IVTKDLNLIANNKYKEISK 208 >UniRef50_B9Y4S8 Putative uncharacterized protein n=1 Tax=Holdemania filiformis DSM 12042 RepID=B9Y4S8_9FIRM Length = 417 Score = 80.5 bits (197), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 83/335 (24%), Positives = 157/335 (46%), Gaps = 31/335 (9%) Query: 140 IATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCL 199 +A I++A+D+ G+ P + +E+ A L +Q+ +P G+ ++ D + Sbjct: 108 VAEYIIEALDDHGFYD-PAQPA------PGFQPEEIAAALSGVQQLEPFGIGCRNSLDYI 160 Query: 200 LIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPR 259 QL +F L I+ + + L+ TL R RL L++ +N+I+S Sbjct: 161 RRQL-RFRNERMALR----ILDEGAEELSRGQISTLCRKLRLTATELQDQLNVIRSCQLY 215 Query: 260 PGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFI 319 P Q + E YV DV + +G +++ S P++ ++ + S + Sbjct: 216 PCQ-LGPVENTYVQADVRLTLEDGEFSIIPLS---PQVLLDIPAGPL---------SPQL 262 Query: 320 RSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHES 379 + L++A+ + ++ RN T+ V +C+V +Q+ Q + + L ++A+ +H S Sbjct: 263 KQYLKEAQLTLDLIDQRNLTMQLVFQCLVRRQRDHLLQ-DAPLAVCRLKEVAEETGLHLS 321 Query: 380 TISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSD 439 T+SR KY F + S + + + S I +K+ IA E+PA PL D Sbjct: 322 TVSRACAHKYYE-----FNGRIRPFSDLLCKALHQISRDRIETQLKRWIAEEDPAIPLDD 376 Query: 440 SKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRK 474 +L +G++++RR +A R+ L+IP S QR+ Sbjct: 377 EQLALRFQNEGVVLSRRRIADVRKRLNIPNSYQRR 411 >UniRef50_B5SFM8 Putative rna polymerase sigma n (Sigma 54) factor protein (Fragment) n=1 Tax=Ralstonia solanacearum IPO1609 RepID=B5SFM8_RALSO Length = 161 Score = 76.6 bits (187), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 39/49 (79%), Positives = 45/49 (91%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQ 49 MKQ LQLRLSQ LA+TPQLQQ+IRLLQLST+ELQQE++QAL NPLLE+ Sbjct: 1 MKQSLQLRLSQHLALTPQLQQSIRLLQLSTIELQQEVEQALTENPLLER 49 >UniRef50_A7HM99 Sigma-54 DNA-binding domain protein n=1 Tax=Fervidobacterium nodosum Rt17-B1 RepID=A7HM99_FERNB Length = 264 Score = 67.4 bits (163), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 39/137 (28%), Positives = 73/137 (53%), Gaps = 11/137 (8%) Query: 329 LIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQK 388 ++K++E R +TL ++ + + + F +Y + + +A V +H ST+SR +K Sbjct: 135 VMKAIEMREETLRKICEIVRKINEPFLRGYRKYPHVVTMKYVANLVGLHVSTVSRAVNRK 194 Query: 389 YLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSE 448 Y+++P G+ L+ FF +N + + +K+L+ ++ L+D +L LL Sbjct: 195 YVNTPIGVLPLRIFFGRLLNPK--------LVMNEIKELLKIDS---KLTDKQLVILLKS 243 Query: 449 QGIMVARRTVAKYRESL 465 GI ++RRTV KYR L Sbjct: 244 LGINISRRTVNKYRNLL 260 >UniRef50_C1TNP1 DNA-directed RNA polymerase specialized sigma subunit, sigma24 n=1 Tax=Dethiosulfovibrio peptidovorans DSM 11002 RepID=C1TNP1_9BACT Length = 391 Score = 67.0 bits (162), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 78/348 (22%), Positives = 160/348 (45%), Gaps = 36/348 (10%) Query: 119 TLQDYLMWQV-ELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDE-EIDIDEVE 176 +L++ L+ Q+ + P + ++ +V +D GYLT D E+I D+ E+ + ++ Sbjct: 74 SLEENLIRQMAQCRPLREERDSLPYELVRYLDHRGYLT----DTQEAIADQLELTAERLD 129 Query: 177 AVLKRIQRF-DPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTL 235 +L+R++ +P G+ A+DL CL +QL + K + I+ +DLL D + Sbjct: 130 LLLERVRDIVEPPGLFARDLIHCLSLQLIRSGKEE---SDGAKILEMAVDLLGKGDPKDA 186 Query: 236 MRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIP 295 M A+ + LDP PG+ + VIP++ + V L ++++P Sbjct: 187 MERLGWSRSRFDRAMEELSHLDPAPGRRTTA---QVVIPELELYPDPDRPAVVL-AENLP 242 Query: 296 RLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFF 355 R+ + +D + L +I+S+ RN + L ++ + ++Q+ + Sbjct: 243 RIYMTPL------TWEDDRVTSMKGRGLH----IIQSIARRNASKLSLAIEVAKKQKDYL 292 Query: 356 EQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEA 415 E PM + ++A+ + ST+ R+ + + +P G + FS + + + Sbjct: 293 MSREGAPYPMTMTEMAEKLNRSVSTVQRIASTTWAVTPVGTVPMDRLFSRPLKSR--PDM 350 Query: 416 SSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRE 463 S +R+ ++ E K +SDS+L+ + + V RRT+ +R+ Sbjct: 351 SVAQLRSRIE-----EASRKGMSDSELS-----RNLGVPRRTITWHRQ 388 >UniRef50_A8F4Z2 Sigma-54 DNA-binding domain protein n=1 Tax=Thermotoga lettingae TMO RepID=A8F4Z2_THELT Length = 318 Score = 65.5 bits (158), Expect = 4e-09, Method: Compositional matrix adjust. Identities = 40/114 (35%), Positives = 63/114 (55%), Gaps = 11/114 (9%) Query: 350 QQQAFFEQGEE-YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVN 408 ++ A F G+ Y K + DIA + + ST+S+ + KY+ +P IFELK FF HV Sbjct: 202 KENALFILGKSTYPKKTKMTDIANTMNISISTVSKAISGKYVKTPFRIFELKTFFGRHV- 260 Query: 409 TEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYR 462 + + A + K+I + K ++D ++T +L+ QGI V+RRTV YR Sbjct: 261 -------AGDYLTAEIAKIILEK--GKSITDREITIILNSQGIEVSRRTVNNYR 305 >UniRef50_D0R1X8 Putative uncharacterized protein n=1 Tax=Lactobacillus johnsonii FI9785 RepID=D0R1X8_LACJF Length = 203 Score = 58.5 bits (140), Expect = 6e-07, Method: Compositional matrix adjust. Identities = 28/90 (31%), Positives = 51/90 (56%), Gaps = 3/90 (3%) Query: 113 QGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDI 172 Q T+ L D+L+ QV ++ +S+ + + ++ +D GYL LE++ + + Sbjct: 63 QDNETENLIDHLLSQVRISDWSNKSKRVVIFLIYQLDNDGYLRKSLENLKSKVI---FSL 119 Query: 173 DEVEAVLKRIQRFDPVGVAAKDLRDCLLIQ 202 E+ A ++Q+ DP G+ AKDL +CLL+Q Sbjct: 120 QELNAGKDKLQKLDPAGIGAKDLNECLLLQ 149 >UniRef50_D0R1X9 Putative uncharacterized protein n=2 Tax=Lactobacillus johnsonii RepID=D0R1X9_LACJF Length = 156 Score = 52.0 bits (123), Expect = 5e-05, Method: Compositional matrix adjust. Identities = 36/149 (24%), Positives = 71/149 (47%), Gaps = 4/149 (2%) Query: 249 AVNLIQSLDPRPGQSIQTGEP-EYVIPDVLVRKHNGHWTVELNSDSIPRLQIN-QHYASM 306 A+ IQ+L+P P + GEP +Y+IP + +G + ++P + + + + + Sbjct: 9 ALKAIQTLNPAPASEYELGEPTQYLIPGLKFYFEDGKLLISSARSNLPEMIFDDEKFVEL 68 Query: 307 CNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQ-GEEYMKPM 365 ++ FI+ +D L ++ R +TLL + + + +Q+ + E+ + + Sbjct: 69 QKDSEIKDKDYFIKQK-KDFTDLHYAIRQREETLLNLGKFLGRRQEKYLSSLNEQDLVSI 127 Query: 366 VLADIAQAVEMHESTISRVTTQKYLHSPR 394 L D A + + STISR KY+ PR Sbjct: 128 KLEDAATELNLAISTISRAIKDKYVEVPR 156 >UniRef50_B1CB69 Putative uncharacterized protein n=1 Tax=Anaerofustis stercorihominis DSM 17244 RepID=B1CB69_9FIRM Length = 171 Score = 49.3 bits (116), Expect = 3e-04, Method: Compositional matrix adjust. Identities = 48/175 (27%), Positives = 79/175 (45%), Gaps = 35/175 (20%) Query: 22 AIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSETLDTADALEQKEMPEE 81 ++ +L + +LEL + L + NPLLE + E TLD ++ ++P + Sbjct: 31 SLNILSMDSLELNEFLYKEYLENPLLE--------NKCENNRDITLD----IKNMDIPSK 78 Query: 82 LPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIA 141 S D I TP+ DE+ + + Y+++Q+ +S D I Sbjct: 79 RQ--HSKDDIKYLETPNT-------DEINI---------KHYILYQLNYDDYSKNDLVIM 120 Query: 142 TSIVDAVDETGYLTVPLEDILESIGDEEI-DIDEVEAVLKRIQRFDPVGVAAKDL 195 ++D +D GY L +I E I D I DI++ VLK +Q P G+ +KDL Sbjct: 121 EFLIDCLDNNGYFNYELTEISE-ISDYNIGDIEKCINVLKNLQ---PYGIFSKDL 171 >UniRef50_D0R1Y0 Putative uncharacterized protein n=2 Tax=Lactobacillus johnsonii RepID=D0R1Y0_LACJF Length = 71 Score = 48.5 bits (114), Expect = 6e-04, Method: Composition-based stats. Identities = 24/60 (40%), Positives = 36/60 (60%) Query: 416 SSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 + + ++K I E+P KPLSD KL + E+ I ++RR ++KYR+ L I S QR Q Sbjct: 11 TQNQLERMLKDFIKLEDPQKPLSDEKLVNKFKEKEISISRRIISKYRKKLGIKNSYQRNQ 70 Searching..................................................done Results from round 2 Score E Sequences producing significant alignments: (bits) Value Sequences used in model and found again: UniRef50_P06223 RNA polymerase sigma-54 factor n=235 Tax=Gammapr... 652 0.0 UniRef50_C9XTZ3 RNA polymerase sigma-54 factor n=6 Tax=Enterobac... 650 0.0 UniRef50_P0A171 RNA polymerase sigma-54 factor n=83 Tax=Gammapro... 592 e-167 UniRef50_P08623 RNA polymerase sigma-54 factor n=31 Tax=Gammapro... 571 e-161 UniRef50_A0Z7G1 DNA-directed RNA polymerase subunit N n=1 Tax=ma... 559 e-157 UniRef50_Q1YU16 DNA-directed RNA polymerase subunit N n=1 Tax=ga... 554 e-156 UniRef50_P24695 RNA polymerase sigma-54 factor n=3 Tax=Acidithio... 548 e-154 UniRef50_P28615 RNA polymerase sigma-54 factor n=83 Tax=Betaprot... 539 e-152 UniRef50_Q2LSN3 RNA polymerase sigma-54 factor n=4 Tax=Deltaprot... 532 e-150 UniRef50_Q5WZ64 RNA polymerase sigma-54 factor (Sigma-L) n=6 Tax... 527 e-148 UniRef50_D2UEM7 Probable rna polymerase sigma-54 factor protein ... 525 e-147 UniRef50_P77998 RNA polymerase sigma-54 factor n=20 Tax=Xanthomo... 524 e-147 UniRef50_D0LNA6 RNA polymerase, sigma 54 subunit, RpoN n=2 Tax=D... 523 e-147 UniRef50_D1RJS1 RNA polymerase sigma-54 factor RpoN n=1 Tax=Legi... 521 e-146 UniRef50_C6WT04 RNA polymerase, sigma 54 subunit, RpoN n=3 Tax=B... 520 e-146 UniRef50_Q6MPK9 RNA polymerase sigma-54 factor n=1 Tax=Bdellovib... 520 e-146 UniRef50_C8R228 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=D... 520 e-146 UniRef50_B3E461 RNA polymerase, sigma 54 subunit, RpoN n=4 Tax=D... 520 e-146 UniRef50_C8VY02 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=D... 517 e-145 UniRef50_Q1DDF1 RNA polymerase sigma-54 factor n=4 Tax=Cystobact... 517 e-145 UniRef50_A5CYP0 DNA-directed RNA polymerase specialized sigma su... 515 e-144 UniRef50_A0LCX7 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=M... 515 e-144 UniRef50_B5EEZ6 RNA polymerase, sigma 54 subunit, RpoN n=3 Tax=G... 514 e-144 UniRef50_A9HW09 RNA polymerase sigma-54 factor n=8 Tax=Betaprote... 513 e-144 UniRef50_B0K876 RNA polymerase, sigma 54 subunit, RpoN n=9 Tax=T... 510 e-143 UniRef50_Q0ATI6 RNA polymerase, sigma 54 subunit, RpoN n=2 Tax=A... 509 e-143 UniRef50_D0STY4 RNA polymerase sigma-54 factor n=1 Tax=Acinetoba... 507 e-142 UniRef50_Q6FED3 RNA polymerase sigma-54 factor n=4 Tax=Acinetoba... 507 e-142 UniRef50_P30333 RNA polymerase sigma-54 factor 2 n=48 Tax=Alphap... 507 e-142 UniRef50_A6TU36 RNA polymerase, sigma 54 subunit, RpoN n=2 Tax=A... 506 e-142 UniRef50_B8DJR2 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=D... 504 e-141 UniRef50_Q0ADR2 RNA polymerase, sigma 54 subunit, RpoN n=3 Tax=B... 503 e-141 UniRef50_C0G3T2 RNA polymerase sigma-54 factor n=7 Tax=Alphaprot... 502 e-141 UniRef50_Q03408 RNA polymerase sigma-54 factor n=8 Tax=Alphaprot... 500 e-140 UniRef50_B3Q2R5 RNA polymerase sigma factor protein (Sigma-54) n... 498 e-139 UniRef50_C0GFB1 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=D... 498 e-139 UniRef50_A3VRA5 DNA-directed RNA polymerase subunit N n=1 Tax=Pa... 498 e-139 UniRef50_B2UH35 RNA polymerase, sigma 54 subunit, RpoN n=39 Tax=... 494 e-138 UniRef50_Q0BUA8 RNA polymerase sigma-54 factor rpoN n=1 Tax=Gran... 494 e-138 UniRef50_C5V3W1 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=G... 494 e-138 UniRef50_P22881 RNA polymerase sigma-54 factor n=38 Tax=Rhizobia... 492 e-137 UniRef50_Q2W084 DNA-directed RNA polymerase specialized sigma su... 491 e-137 UniRef50_Q31GC3 Sigma-54 (RpoN) n=2 Tax=Bacteria RepID=Q31GC3_THICR 491 e-137 UniRef50_C9R8T3 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=A... 491 e-137 UniRef50_A0LK00 RNA polymerase, sigma 54 subunit, RpoN n=7 Tax=D... 490 e-137 UniRef50_B9XGP4 RNA polymerase, sigma 54 subunit, RpoN n=2 Tax=V... 490 e-137 UniRef50_UPI0001C42E0E RNA polymerase sigma factor (sigma54) n=1... 490 e-137 UniRef50_A9IMC8 RNA polymerase sigma-54 factor n=3 Tax=Bordetell... 489 e-136 UniRef50_A3EWH7 RNA polymerase, sigma 54 subunit, RpoN n=2 Tax=L... 487 e-136 UniRef50_UPI00016A2E41 RNA polymerase factor sigma-54 n=1 Tax=Bu... 486 e-135 UniRef50_C1A8U9 RNA polymerase sigma factor n=1 Tax=Gemmatimonas... 484 e-135 UniRef50_P33984 RNA polymerase sigma-54 factor n=12 Tax=Alphapro... 482 e-134 UniRef50_C0Z6M1 RNA polymerase sigma-54 factor n=1 Tax=Brevibaci... 481 e-134 UniRef50_Q1Q3A8 Strongly similar to RNA polymerase subunit sigma... 481 e-134 UniRef50_B2A6Z6 RNA polymerase, sigma 54 subunit, RpoN n=4 Tax=F... 480 e-134 UniRef50_A1K6F2 RNA polymerase sigma-54 factor n=9 Tax=Betaprote... 480 e-134 UniRef50_D2L2L2 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=D... 479 e-133 UniRef50_D0MG37 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=R... 479 e-133 UniRef50_D2LIV1 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=R... 478 e-133 UniRef50_B6FY84 Putative uncharacterized protein n=1 Tax=Clostri... 473 e-132 UniRef50_A6CFS8 RNA polymerase subunit sigma-54 n=3 Tax=Planctom... 472 e-131 UniRef50_A6G445 Sigma-54 (RpoN) n=1 Tax=Plesiocystis pacifica SI... 472 e-131 UniRef50_A9BRF9 RNA polymerase, sigma 54 subunit, RpoN n=16 Tax=... 472 e-131 UniRef50_A8W0U1 SUF system FeS assembly protein, NifU family n=1... 471 e-131 UniRef50_C1P7Z1 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=B... 471 e-131 UniRef50_C4XU56 RNA polymerase sigma factor n=13 Tax=Desulfovibr... 471 e-131 UniRef50_B0TGK6 RNA polymerase sigma-54 factor n=1 Tax=Heliobact... 470 e-131 UniRef50_Q3SF03 RNA polymease sigma-54 factor protein n=1 Tax=Th... 467 e-130 UniRef50_A9GI22 RNA polymerase sigma-54 factor n=4 Tax=Myxococca... 466 e-130 UniRef50_C1SGY5 RNA polymerase, sigma 54 subunit, RpoN/SigL n=1 ... 465 e-129 UniRef50_A5G033 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=A... 463 e-129 UniRef50_C6HU23 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=L... 463 e-129 UniRef50_A9BWZ4 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=D... 462 e-128 UniRef50_Q7UQ69 RNA polymerase subunit sigma-54 n=2 Tax=Planctom... 460 e-128 UniRef50_B1ZUW1 RNA polymerase, sigma 54 subunit, RpoN n=3 Tax=V... 459 e-128 UniRef50_Q4JMT6 Predicted DNA-directed RNA polymerase specialize... 457 e-127 UniRef50_C7ILW5 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=C... 457 e-127 UniRef50_C5D7M8 RNA polymerase, sigma 54 subunit, RpoN n=5 Tax=G... 456 e-126 UniRef50_B3E042 DNA-directed RNA polymerase specialized sigma su... 455 e-126 UniRef50_A6NQ00 Putative uncharacterized protein n=1 Tax=Bactero... 455 e-126 UniRef50_D1N390 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=V... 454 e-126 UniRef50_C7IQW3 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=T... 452 e-125 UniRef50_A0RKT0 RNA polymerase sigma-54 factor n=75 Tax=Bacillus... 452 e-125 UniRef50_A6CNF4 DNA-directed RNA polymerase subunit N n=1 Tax=Ba... 452 e-125 UniRef50_A4ISQ1 RNA polymerase sigma-54 factor RpoN n=3 Tax=Baci... 452 e-125 UniRef50_C9XR96 RNA polymerase sigma-54 factor n=5 Tax=Clostridi... 451 e-125 UniRef50_D2R5L0 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=P... 451 e-125 UniRef50_D1R8J1 Putative uncharacterized protein n=1 Tax=Parachl... 449 e-125 UniRef50_A4GID2 DNA-directed RNA polymerase specialized sigma su... 449 e-124 UniRef50_A5EVL1 RNA polymerase sigma-54 factor n=1 Tax=Dicheloba... 447 e-124 UniRef50_B5ZLK5 RNA polymerase, sigma 54 subunit, RpoN n=2 Tax=G... 447 e-124 UniRef50_C5ELZ1 RNA polymerase n=3 Tax=Clostridiales RepID=C5ELZ... 447 e-124 UniRef50_Q0G1W5 DNA-directed RNA polymerase subunit N n=1 Tax=Fu... 445 e-123 UniRef50_C1F1M0 RNA polymerase sigma-54 factor n=1 Tax=Acidobact... 445 e-123 UniRef50_C6W3I8 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=D... 445 e-123 UniRef50_UPI0001C34EB5 RNA polymerase factor sigma-54 n=1 Tax=Cl... 444 e-123 UniRef50_B3QT08 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=C... 443 e-123 UniRef50_B6YQD2 RNA polymerase sigma-54 factor n=1 Tax=Candidatu... 443 e-123 UniRef50_P38944 Putative RNA polymerase sigma-54 factor n=34 Tax... 441 e-122 UniRef50_C7PK09 RNA polymerase, sigma 54 subunit, RpoN n=35 Tax=... 441 e-122 UniRef50_C7R9H7 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=K... 441 e-122 UniRef50_C8N804 RNA polymerase sigma-54 factor n=1 Tax=Cardiobac... 441 e-122 UniRef50_D2UDB4 Probable rna polymerase sigma-54 factor protein ... 441 e-122 UniRef50_C8PV20 RNA polymerase sigma-54 factor n=1 Tax=Enhydroba... 441 e-122 UniRef50_B0RT01 RNA polymerase sigma-54 factor n=10 Tax=Bacteria... 440 e-122 UniRef50_Q2B706 DNA-directed RNA polymerase subunit N n=1 Tax=Ba... 440 e-122 UniRef50_A9H5R6 RNA polymerase sigma-54 factor 1 n=3 Tax=Glucona... 439 e-121 UniRef50_B0PGS4 Putative uncharacterized protein n=1 Tax=Anaerot... 438 e-121 UniRef50_B4SIK0 RNA polymerase, sigma 54 subunit, RpoN n=3 Tax=S... 438 e-121 UniRef50_B8DD95 RNA polymerase sigma-54 factor n=20 Tax=Listeria... 436 e-121 UniRef50_B5YI16 RNA polymerase sigma-54 factor n=1 Tax=Thermodes... 436 e-120 UniRef50_UPI000169A703 RNA polymerase sigma-54 factor n=5 Tax=En... 435 e-120 UniRef50_UPI00016C46F0 RNA polymerase subunit sigma-54 n=1 Tax=G... 435 e-120 UniRef50_C9KMQ5 RNA polymerase sigma-54 factor n=1 Tax=Mitsuokel... 434 e-120 UniRef50_Q0EWW0 DNA-directed RNA polymerase subunit N n=1 Tax=Ma... 433 e-120 UniRef50_Q2S3F8 RNA polymerase sigma-54 factor n=2 Tax=Sphingoba... 433 e-120 UniRef50_B8CYG5 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=H... 432 e-119 UniRef50_Q9K710 RNA polymerase sigma factor (Sigma54) n=1 Tax=Ba... 432 e-119 UniRef50_P24219 RNA polymerase sigma-54 factor n=7 Tax=Bacillus ... 431 e-119 UniRef50_B0S8M7 DNA-directed RNA polymerase sigma-54 subunit n=6... 431 e-119 UniRef50_A1TNE5 RNA polymerase, sigma 54 subunit, RpoN n=2 Tax=A... 430 e-119 UniRef50_C9BP10 RNA polymerase sigma-54 subunit n=11 Tax=Enteroc... 428 e-118 UniRef50_C5TQ27 RNA polymerase sigma-54 factor n=8 Tax=Neisseria... 427 e-118 UniRef50_Q6M9X4 Putative RNA polymerase sigma-54 factor (Sigma-N... 425 e-117 UniRef50_B2RK26 RNA polymerase sigma-54 factor n=2 Tax=Porphyrom... 425 e-117 UniRef50_A5WCB6 RNA polymerase, sigma 54 subunit, RpoN n=3 Tax=P... 425 e-117 UniRef50_D2LXG7 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=B... 423 e-117 UniRef50_Q01PW4 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=C... 423 e-117 UniRef50_B9JZG8 RNA polymerase sigma-54 factor n=1 Tax=Agrobacte... 423 e-117 UniRef50_C3J8N1 RNA polymerase sigma-54 factor n=2 Tax=Bacteria ... 421 e-116 UniRef50_C6VM89 RNA polymerase factor sigma-54 n=5 Tax=Lactobaci... 415 e-114 UniRef50_Q5WDK1 DNA-directed RNA polymerase sigma-54 factor sigm... 413 e-114 UniRef50_Q11E47 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=C... 413 e-114 UniRef50_A6DS74 Putative uncharacterized protein n=1 Tax=Lentisp... 412 e-113 UniRef50_A8UBI0 RNA polymerase sigma-54 factor n=28 Tax=Lactobac... 412 e-113 UniRef50_A6L093 RNA polymerase sigma-54 n=31 Tax=Bacteroidales R... 411 e-113 UniRef50_A7B1W8 Putative uncharacterized protein n=1 Tax=Ruminoc... 409 e-112 UniRef50_A3V230 Sigma-54 factor (RpoN2) n=1 Tax=Loktanella vestf... 409 e-112 UniRef50_Q3J1U1 Sigma-54 factor (RpoN2) n=4 Tax=Rhodobacter spha... 408 e-112 UniRef50_B0P364 Putative uncharacterized protein n=3 Tax=Clostri... 408 e-112 UniRef50_C9LBN7 RNA polymerase sigma-54 factor n=1 Tax=Blautia h... 407 e-112 UniRef50_B1HSZ7 RNA polymerase sigma-54 factor n=2 Tax=Bacillace... 407 e-112 UniRef50_D1PTK8 DNA-directed RNA polymerase sigma subunit RpoN n... 407 e-112 UniRef50_B3ESG5 Putative uncharacterized protein n=1 Tax=Candida... 406 e-112 UniRef50_D1W3B9 RNA polymerase sigma-54 factor n=1 Tax=Prevotell... 406 e-111 UniRef50_B0VJD8 RNA polymerase sigma-54 factor n=1 Tax=Candidatu... 404 e-111 UniRef50_B2UL79 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=A... 403 e-110 UniRef50_C4GJ01 Putative uncharacterized protein n=1 Tax=Kingell... 402 e-110 UniRef50_C8WN98 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=E... 402 e-110 UniRef50_C0QWG2 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=B... 400 e-110 UniRef50_C2ME31 RNA polymerase sigma-54 factor n=1 Tax=Porphyrom... 399 e-109 UniRef50_A4SER6 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=C... 395 e-108 UniRef50_C9LEP5 RNA polymerase sigma-54 factor n=1 Tax=Prevotell... 395 e-108 UniRef50_D1CE57 RNA polymerase, sigma 54 subunit, RpoN n=2 Tax=B... 393 e-108 UniRef50_C2ECN0 RNA polymerase factor sigma-54 n=1 Tax=Lactobaci... 393 e-108 UniRef50_B0NX39 Putative uncharacterized protein n=1 Tax=Clostri... 390 e-107 UniRef50_B2V793 RNA polymerase, sigma 54 subunit, RpoN n=5 Tax=A... 389 e-107 UniRef50_Q01194 RNA polymerase sigma-54 factor n=7 Tax=Rhodobact... 388 e-106 UniRef50_B5J6Z7 RNA polymerase sigma-54 factor n=3 Tax=Bacteria ... 384 e-105 UniRef50_C9RQK6 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=F... 381 e-104 UniRef50_C6JNV9 RNA polymerase sigma-54 factor n=2 Tax=Fusobacte... 381 e-104 UniRef50_C1QAL1 RNA polymerase, sigma 54 subunit, RpoN/SigL n=1 ... 380 e-104 UniRef50_Q5FPW5 RNA polymerase sigma-54 factor RpoN n=1 Tax=Gluc... 380 e-104 UniRef50_C3WCT3 RNA polymerase sigma-54 factor rpoN n=1 Tax=Fuso... 378 e-103 UniRef50_B4S818 RNA polymerase, sigma 54 subunit, RpoN n=10 Tax=... 377 e-103 UniRef50_C8PMB8 RNA polymerase sigma-54 factor n=1 Tax=Treponema... 377 e-103 UniRef50_Q3MKN6 RpoN (Fragment) n=2 Tax=Gammaproteobacteria RepI... 376 e-102 UniRef50_D2RMY8 RNA polymerase, sigma 54 subunit, RpoN n=2 Tax=A... 374 e-102 UniRef50_A9B5F2 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=H... 369 e-100 UniRef50_B3W836 Sigma 54 transcription factor n=2 Tax=Lactobacil... 368 e-100 UniRef50_Q8ENP0 RNA polymerase sigma-54 factor n=1 Tax=Oceanobac... 365 2e-99 UniRef50_C8WRI0 RNA polymerase, sigma 54 subunit, RpoN n=2 Tax=A... 364 4e-99 UniRef50_Q1IR37 Sigma-54, RpoN n=1 Tax=Candidatus Koribacter ver... 360 6e-98 UniRef50_B6BVF1 RNA polymerase sigma-54 factor n=1 Tax=beta prot... 354 6e-96 UniRef50_C0CQW9 Putative uncharacterized protein n=1 Tax=Blautia... 352 1e-95 UniRef50_C5EQJ4 RNA polymerase n=1 Tax=Clostridiales bacterium 1... 351 3e-95 UniRef50_A8LQ77 RNA polymerase sigma-54 factor n=1 Tax=Dinoroseo... 344 5e-93 UniRef50_UPI000196CE77 hypothetical protein CATMIT_02522 n=1 Tax... 342 1e-92 UniRef50_C8S196 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=R... 337 4e-91 UniRef50_Q3IW74 Sigma54-2 (RNA polymerase sigma-54 factor) n=5 T... 332 1e-89 UniRef50_B9KSN5 RNA polymerase, sigma 54 subunit, RpoN n=3 Tax=R... 332 2e-89 UniRef50_B9Y8Z2 Putative uncharacterized protein n=1 Tax=Holdema... 331 5e-89 UniRef50_Q256I9 DNA-directed RNA polymerase sigma 54 n=5 Tax=Chl... 330 6e-89 UniRef50_Q73JL4 RNA polymerase sigma-54 factor, putative n=1 Tax... 327 5e-88 UniRef50_C3XKI9 RNA polymerase sigma-54 factor n=2 Tax=Campyloba... 321 3e-86 UniRef50_D1B1S7 RNA polymerase sigma-54 factor, RpoN n=10 Tax=Ca... 321 5e-86 UniRef50_B9L984 RNA polymerase sigma-54 factor n=1 Tax=Nautilia ... 319 1e-85 UniRef50_Q7WTR8 RpoN (Fragment) n=2 Tax=Pseudomonas RepID=Q7WTR8... 319 1e-85 UniRef50_D0GPK2 RNA polymerase sigma-54 factor n=1 Tax=Leptotric... 318 3e-85 UniRef50_C8PAD9 DNA-directed RNA polymerase sigma subunit RpoN n... 317 4e-85 UniRef50_Q7P6F0 RNA polymerase sigma-54 factor rpoN n=9 Tax=Fuso... 317 4e-85 UniRef50_C4PNB9 RNA polymerase sigma-54 factor n=8 Tax=Chlamydia... 317 7e-85 UniRef50_Q30RF5 Sigma-54 (RpoN) n=2 Tax=Campylobacterales RepID=... 315 2e-84 UniRef50_UPI000196AFF4 hypothetical protein CATMIT_00324 n=1 Tax... 312 2e-83 UniRef50_A6DC70 RNA polymerase sigma-54 factor n=1 Tax=Caminibac... 308 3e-82 UniRef50_UPI0001906882 RNA polymerase factor sigma-54 n=2 Tax=Rh... 305 2e-81 UniRef50_A8RDS7 Putative uncharacterized protein n=1 Tax=Eubacte... 304 6e-81 UniRef50_UPI0000D54D13 DNA-directed RNA polymerase subunit N n=1... 299 2e-79 UniRef50_Q5LLX0 RNA polymerase sigma-54 factor n=1 Tax=Ruegeria ... 290 5e-77 UniRef50_C0XEY8 RNA polymerase factor sigma-54 n=2 Tax=Lactobaci... 290 7e-77 UniRef50_Q9ZLC8 RNA polymerase sigma-54 factor n=34 Tax=Campylob... 290 9e-77 UniRef50_O83149 RNA polymerase sigma-54 factor n=2 Tax=Treponema... 289 2e-76 UniRef50_D0D5Z1 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=C... 284 7e-75 UniRef50_B7C885 Putative uncharacterized protein n=1 Tax=Eubacte... 274 6e-72 UniRef50_B1CB68 Putative uncharacterized protein n=1 Tax=Anaerof... 273 1e-71 UniRef50_O66858 RNA polymerase sigma factor RpoN n=1 Tax=Aquifex... 271 5e-71 UniRef50_Q7M8V1 RNA POLYMERASE SIGMA-54 FACTOR n=1 Tax=Wolinella... 268 3e-70 UniRef50_A8UUG6 RNA polymerase sigma factor RpoN n=1 Tax=Hydroge... 268 3e-70 UniRef50_C5CDZ9 Sigma-54 DNA-binding domain protein n=1 Tax=Kosm... 266 1e-69 UniRef50_B7J217 RNA polymerase sigma-54 factor n=19 Tax=Borrelia... 259 2e-67 UniRef50_Q2EU28 RpoN (Fragment) n=40 Tax=Gammaproteobacteria Rep... 258 4e-67 UniRef50_UPI0001BC42F5 RNA polymerase factor sigma-54 n=2 Tax=Fu... 256 1e-66 UniRef50_A1BC03 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=P... 246 1e-63 UniRef50_C4FUT1 Putative uncharacterized protein n=1 Tax=Catonel... 246 1e-63 UniRef50_A7TBU8 Predicted protein n=1 Tax=Nematostella vectensis... 238 2e-61 UniRef50_B9Y4S8 Putative uncharacterized protein n=1 Tax=Holdema... 233 1e-59 UniRef50_C4L5I1 Sigma-54 DNA-binding domain protein n=1 Tax=Exig... 230 9e-59 UniRef50_B4U9T0 Sigma-54 DNA-binding domain protein n=1 Tax=Hydr... 226 2e-57 UniRef50_B1YLE5 Sigma-54 DNA-binding domain protein n=1 Tax=Exig... 213 9e-54 UniRef50_C1TNP1 DNA-directed RNA polymerase specialized sigma su... 207 8e-52 UniRef50_C6S982 RNA polymerase sigma-54 factor n=22 Tax=Neisseri... 175 5e-42 UniRef50_UPI00006DCE7B hypothetical protein CdifQ_04003678 n=1 T... 163 1e-38 UniRef50_A7HM99 Sigma-54 DNA-binding domain protein n=1 Tax=Ferv... 141 5e-32 UniRef50_A8F4Z2 Sigma-54 DNA-binding domain protein n=1 Tax=Ther... 129 2e-28 UniRef50_D0R1X8 Putative uncharacterized protein n=1 Tax=Lactoba... 119 2e-25 UniRef50_D0R1X9 Putative uncharacterized protein n=2 Tax=Lactoba... 108 4e-22 UniRef50_UPI0001912E87 hypothetical protein Salmonellaentericaen... 106 2e-21 UniRef50_B1CB69 Putative uncharacterized protein n=1 Tax=Anaerof... 98 9e-19 UniRef50_B5SFM8 Putative rna polymerase sigma n (Sigma 54) facto... 89 4e-16 UniRef50_D0R1Y0 Putative uncharacterized protein n=2 Tax=Lactoba... 75 6e-12 Sequences not found previously or not previously below threshold: UniRef50_B5Y8H8 DNA-directed RNA polymerase sigma-54 factor, put... 109 2e-22 UniRef50_C5V070 Putative uncharacterized protein n=1 Tax=Gallion... 76 2e-12 UniRef50_C6I101 Putative uncharacterized protein n=2 Tax=Leptosp... 66 4e-09 UniRef50_Q92ZL5 Putative uncharacterized protein n=1 Tax=Sinorhi... 58 7e-07 UniRef50_D0GPK3 Transcriptional regulatory protein LevR n=1 Tax=... 58 9e-07 UniRef50_Q18CC4 Putative transcription antiterminator n=5 Tax=Cl... 58 9e-07 UniRef50_UPI0001854675 RNA polymerase factor sigma-54 n=1 Tax=He... 58 1e-06 UniRef50_B0K7D9 PTS system transcriptional activator n=12 Tax=Cl... 54 1e-05 UniRef50_A6LPX9 Sigma-54 factor, interaction domain-containing p... 54 1e-05 UniRef50_A6LQU8 Sigma-54 factor, interaction domain-containing p... 53 2e-05 UniRef50_A6LWC3 Sigma-54 factor, interaction domain-containing p... 51 1e-04 UniRef50_A8ESG9 Putative uncharacterized protein n=1 Tax=Arcobac... 50 2e-04 UniRef50_Q185K2 Putative sigma-54 interacting transcription anti... 50 2e-04 UniRef50_B8D051 Transcriptional regulator, LacI family n=1 Tax=H... 48 0.001 UniRef50_B6FWC4 Putative uncharacterized protein n=2 Tax=Clostri... 47 0.002 UniRef50_B4RR56 Putative RNA polymerase sigma-54 factor RpoN n=2... 46 0.004 UniRef50_B8IH39 Transcriptional regulator, Crp/Fnr family n=2 Ta... 45 0.005 UniRef50_Q1WRA6 Transposase ISLasa15, IS3 family n=27 Tax=Firmic... 44 0.010 UniRef50_B6H298 Pc13g04460 protein n=1 Tax=Penicillium chrysogen... 44 0.010 UniRef50_B1L9I7 Transcriptional regulator, LacI family n=4 Tax=T... 44 0.017 >UniRef50_P06223 RNA polymerase sigma-54 factor n=235 Tax=Gammaproteobacteria RepID=RP54_KLEOX Length = 477 Score = 652 bits (1683), Expect = 0.0, Method: Composition-based stats. Identities = 424/477 (88%), Positives = 454/477 (95%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQAL+SNPLLEQ D H+E++T+E Sbjct: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALDSNPLLEQTDLHDEVETKE 60 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 +D E+LDT DALEQKEMPEELPLDASWD IYTAGTPSG DY DDELPVYQGETTQ+L Sbjct: 61 AEDRESLDTVDALEQKEMPEELPLDASWDEIYTAGTPSGNGVDYQDDELPVYQGETTQSL 120 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 QDYLMWQVELTPF+DTDRAIATSIVDAVD+TGYLT+ +EDI+ESIGD+EI ++EVEAVLK Sbjct: 121 QDYLMWQVELTPFTDTDRAIATSIVDAVDDTGYLTISVEDIVESIGDDEIGLEEVEAVLK 180 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 RIQRFDPVGVAAKDLRDCLL+QLSQF K TPW+EEARLIISDHLDLLANHDFR+LMRVTR Sbjct: 181 RIQRFDPVGVAAKDLRDCLLVQLSQFAKETPWIEEARLIISDHLDLLANHDFRSLMRVTR 240 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQIN 300 LKE+VLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRK N W VELNSDS+PRL+IN Sbjct: 241 LKEEVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKVNDRWVVELNSDSLPRLKIN 300 Query: 301 QHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 Q YA+M N+ RND D QFIRSNLQ+A+WLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE Sbjct: 301 QQYAAMGNSTRNDADGQFIRSNLQEARWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 Query: 361 YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAI 420 +MKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAI Sbjct: 361 FMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAI 420 Query: 421 RALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQLV 477 RALVKKLIAAENPAKPLSDSKLT++LS+QGIMVARRTVAKYRESLSIPPSNQRKQLV Sbjct: 421 RALVKKLIAAENPAKPLSDSKLTTMLSDQGIMVARRTVAKYRESLSIPPSNQRKQLV 477 >UniRef50_C9XTZ3 RNA polymerase sigma-54 factor n=6 Tax=Enterobacteriaceae RepID=C9XTZ3_CROTZ Length = 479 Score = 650 bits (1678), Expect = 0.0, Method: Composition-based stats. Identities = 426/479 (88%), Positives = 456/479 (95%), Gaps = 2/479 (0%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQ D H+EI T+E Sbjct: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQTDIHDEIATQE 60 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 TQDSE LDTA+ALEQKEMP+ELPLDASWD IYTAGTPSGT DYIDDELPVYQGETTQ+L Sbjct: 61 TQDSEGLDTAEALEQKEMPDELPLDASWDEIYTAGTPSGTGTDYIDDELPVYQGETTQSL 120 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDI--DEVEAV 178 QDYLMWQV+LTPF+DTDRAIAT+IVDAVD+TGYLTV ++DIL+ +GD + DI +E+EAV Sbjct: 121 QDYLMWQVQLTPFTDTDRAIATAIVDAVDDTGYLTVTVQDILDGMGDNDDDIGPEEIEAV 180 Query: 179 LKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRV 238 LKR+QRFDPVGVAA+DLRDCLLIQLSQF TP+L +AR I+SDHLDLLANHDFR+LMRV Sbjct: 181 LKRVQRFDPVGVAARDLRDCLLIQLSQFSAETPFLAQARQIVSDHLDLLANHDFRSLMRV 240 Query: 239 TRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQ 298 TRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNG WTVELN+DSIPRL+ Sbjct: 241 TRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGRWTVELNADSIPRLK 300 Query: 299 INQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQG 358 INQ YA+M +ARN+ DSQFIRSNLQ+AKWLIKSLESRNDTLLRVSRCIVEQQQAFF+QG Sbjct: 301 INQQYAAMSGSARNESDSQFIRSNLQEAKWLIKSLESRNDTLLRVSRCIVEQQQAFFDQG 360 Query: 359 EEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASST 418 EEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASST Sbjct: 361 EEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASST 420 Query: 419 AIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQLV 477 AIRALVKKLIAAENPAKPLSDSKLTS+LSEQGIMVARRTVAKYRESLSIPPSNQRKQLV Sbjct: 421 AIRALVKKLIAAENPAKPLSDSKLTSMLSEQGIMVARRTVAKYRESLSIPPSNQRKQLV 479 >UniRef50_P0A171 RNA polymerase sigma-54 factor n=83 Tax=Gammaproteobacteria RepID=RP54_PSEPK Length = 497 Score = 592 bits (1526), Expect = e-167, Method: Composition-based stats. Identities = 264/498 (53%), Positives = 356/498 (71%), Gaps = 22/498 (4%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDT-- 58 MK L L++ QQL MTPQLQQAIRLLQLSTL+LQQE+Q+ALESNP+LE+ + E+ D Sbjct: 1 MKPSLVLKMGQQLTMTPQLQQAIRLLQLSTLDLQQEIQEALESNPMLERQEDGEDFDNSD 60 Query: 59 --------------RETQDSETLDTADALEQKE----MPEELPLDASWDTIYTAGTPSGT 100 ++ E+ +AD LE E +P ELP+D +W+ IY S Sbjct: 61 PMADNAENKPAAEVQDNSFQESTVSADNLEDGEWSERIPNELPVDTAWEDIYQTSASSLP 120 Query: 101 SGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLED 160 S D + + + ++LQ +L+WQ+ L P SDTDR IA +++D+++ GYL LE+ Sbjct: 121 SNDDDEWDF-TTRTSAGESLQSHLLWQLNLAPMSDTDRLIAVTLIDSINGQGYLEDTLEE 179 Query: 161 ILESIGDE-EIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLI 219 I E +I++DEVEAVL RIQ+F+P GV A++L +CLL+QL Q TTPW+ EA+ + Sbjct: 180 ICAGFDPELDIELDEVEAVLHRIQQFEPAGVGARNLGECLLLQLRQLPATTPWMTEAKRL 239 Query: 220 ISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVR 279 ++D +DLL + D+ LMR ++KED L++ + L+QSL+PRPG I++ EPEYV+PDV+VR Sbjct: 240 VTDFIDLLGSRDYSQLMRRMKIKEDELRQVIELVQSLNPRPGSQIESSEPEYVVPDVIVR 299 Query: 280 KHNGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDT 339 K + W VELN ++IPRL++N YA A D+ F+R+ LQ+A+W IKSL+SRN+T Sbjct: 300 KDSDRWLVELNQEAIPRLRVNPQYAGFVRRADTSADNTFMRNQLQEARWFIKSLQSRNET 359 Query: 340 LLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFEL 399 L++V+ IVE Q+ F + G+E MKP+VL DIA+AV MHESTISRVTTQKY+H+PRGI+EL Sbjct: 360 LMKVATQIVEHQRGFLDHGDEAMKPLVLHDIAEAVGMHESTISRVTTQKYMHTPRGIYEL 419 Query: 400 KYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVA 459 KYFFSSHV+T GGE SSTAIRA++KKL+AAEN KPLSDSK+ LL QGI VARRTVA Sbjct: 420 KYFFSSHVSTSEGGECSSTAIRAIIKKLVAAENQKKPLSDSKIAGLLEAQGIQVARRTVA 479 Query: 460 KYRESLSIPPSNQRKQLV 477 KYRESL I PS++RK+L+ Sbjct: 480 KYRESLGIAPSSERKRLM 497 >UniRef50_P08623 RNA polymerase sigma-54 factor n=31 Tax=Gammaproteobacteria RepID=RP54_AZOVI Length = 502 Score = 571 bits (1471), Expect = e-161, Method: Composition-based stats. Identities = 279/503 (55%), Positives = 362/503 (71%), Gaps = 27/503 (5%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTR- 59 MK L L++ QQL MTPQLQQAIRLLQLSTL+LQQE+Q+AL+SNP+LE+ + E+ D+ Sbjct: 1 MKPSLVLKMGQQLTMTPQLQQAIRLLQLSTLDLQQEIQEALDSNPMLERQEDAEDYDSPD 60 Query: 60 ---ETQDSETLDTADALEQKE---------------------MPEELPLDASWDTIYTAG 95 E D TLDT Q+ +P ELP+D +W+ IY Sbjct: 61 MLGEHGDQSTLDTTPGSYQEGYESGAASEDGGTLEEGDWHERIPSELPVDTAWEDIYQTS 120 Query: 96 TPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLT 155 + S D + + + T ++LQ +L+WQ+ LTP SDTDR IA +++D+++ GYL Sbjct: 121 ASNLPSTDEDEWDF-TTRTSTGESLQSHLLWQLNLTPMSDTDRLIAVTLIDSINSDGYLE 179 Query: 156 VPLEDILESIGDE-EIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLE 214 LE+IL S+ E +++DEVE VL+RIQ+F+P G+AA+DL + LL+QL Q TPWLE Sbjct: 180 AALEEILASLDPELGVELDEVEMVLRRIQQFEPAGIAARDLSESLLLQLRQLPPDTPWLE 239 Query: 215 EARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIP 274 EA+ + D+LDLL N DF LMR +LKE+ L+ + LIQSL+PRPG I++ EPEYV+P Sbjct: 240 EAKRLAKDYLDLLGNRDFTQLMRRMKLKEEELRPVIELIQSLNPRPGAQIESSEPEYVVP 299 Query: 275 DVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLE 334 DV+VRKHN W VELN +++PRL+IN HYA A D+ F+R+ LQ+A+W IKSL+ Sbjct: 300 DVIVRKHNDRWLVELNQEAVPRLRINPHYAGFIRRADASADNTFMRNQLQEARWFIKSLQ 359 Query: 335 SRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPR 394 SRN+TL++VS IVE Q+ F + GEE MKP+VL DIA+AV MHESTISRVTTQKY+H+PR Sbjct: 360 SRNETLMKVSTQIVEHQRGFLDYGEEAMKPLVLHDIAEAVGMHESTISRVTTQKYMHTPR 419 Query: 395 GIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVA 454 GI+ELKYFFSSHV+T GGE SSTAIRA++KKLIAAENP KPLSDSK+ LL EQGI VA Sbjct: 420 GIYELKYFFSSHVSTAEGGECSSTAIRAIIKKLIAAENPKKPLSDSKIAGLLEEQGIQVA 479 Query: 455 RRTVAKYRESLSIPPSNQRKQLV 477 RRTVAKYRESLSI PS++RK+L+ Sbjct: 480 RRTVAKYRESLSIAPSSERKRLM 502 >UniRef50_A0Z7G1 DNA-directed RNA polymerase subunit N n=1 Tax=marine gamma proteobacterium HTCC2080 RepID=A0Z7G1_9GAMM Length = 475 Score = 559 bits (1440), Expect = e-157, Method: Composition-based stats. Identities = 245/477 (51%), Positives = 330/477 (69%), Gaps = 2/477 (0%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 MKQ LQL++ Q LA+TPQLQQAI+LLQLSTL+LQQ +++ LESNPLLE+ + + + + Sbjct: 1 MKQSLQLKMGQSLALTPQLQQAIKLLQLSTLDLQQAIEETLESNPLLEREEDGDSHEETQ 60 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 + S+ +D + + +ELP+D W+ + + P +S D + E +TL Sbjct: 61 SSQSD-VDFTTPVAEPNSADELPVDTRWEDLMPSSAPPPSSPDGEMGQFADRDAE-PETL 118 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 D L WQ+ LT FS TD IAT+ +DAVD G LT E+IL+++ D EI++DEV AVL Sbjct: 119 HDQLHWQLNLTRFSVTDHMIATAFIDAVDANGRLTQTPEEILDALRDPEIELDEVLAVLH 178 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 R+Q F+P G+ A DLR+CLL+QL Q D+ P A I + HL+ +A D R L R R Sbjct: 179 RLQHFEPTGIFASDLRECLLLQLRQMDEEVPHRNTAGAIANRHLESIATADPRQLSRRLR 238 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQIN 300 + + A+NLI+SLDP PG S+ EY+IPDV V + NGHW VELN D P+L+IN Sbjct: 239 TTPEDVIGALNLIRSLDPTPGTSVGESTTEYIIPDVFVLRKNGHWRVELNPDIAPKLRIN 298 Query: 301 QHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 Y+ + + D ++R NLQ+AK+ + SL +RN+TLL+V+ IVE Q+ F E GEE Sbjct: 299 ALYSELVGQTGSASDKSYVRENLQEAKFFMTSLHNRNETLLKVASKIVEHQREFLELGEE 358 Query: 361 YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAI 420 MKP++LADIAQ + MHEST+SR TT+KY+H+PRGI+ELK+FFSSHV T GGE SSTAI Sbjct: 359 AMKPLILADIAQQIGMHESTVSRATTRKYMHTPRGIYELKFFFSSHVATIEGGERSSTAI 418 Query: 421 RALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQLV 477 +AL+KKL+ EN KPLSD+KL LL EQGI+VARRTVAKYRE L+IPPSN+R++L+ Sbjct: 419 KALIKKLVQGENTKKPLSDNKLGVLLEEQGIIVARRTVAKYREQLNIPPSNERRRLL 475 >UniRef50_Q1YU16 DNA-directed RNA polymerase subunit N n=1 Tax=gamma proteobacterium HTCC2207 RepID=Q1YU16_9GAMM Length = 490 Score = 554 bits (1428), Expect = e-156, Method: Composition-based stats. Identities = 235/492 (47%), Positives = 338/492 (68%), Gaps = 18/492 (3%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M+QGLQL++SQQL MTPQLQQAIRLLQLSTL+L+QE+ + L SNPLLE + E ++ Sbjct: 1 MRQGLQLKISQQLTMTPQLQQAIRLLQLSTLDLRQEMIEQLYSNPLLEMDEDIPESPGQD 60 Query: 61 TQ------------DSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDE 108 + + + E+P+++P+DA+WD +Y+ T + +S + Sbjct: 61 ADPTTSESNQVAEAERNSEQNPEYEWNDEIPKDVPVDANWDDVYSPPTTAASSSGGEVNL 120 Query: 109 LPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDE 168 V+Q T++ Q +L WQ+ LTPFSD DR IA++ +D++D +G++ L DI I + Sbjct: 121 EQVFQV--TESFQGHLEWQLNLTPFSDRDREIASAFIDSIDSSGFIAAELSDITAHIHYD 178 Query: 169 EID----IDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHL 224 +I+ DE+ AVL R+Q+FDP GV A+ + +CL IQL+Q T +L+ A+ ++ L Sbjct: 179 DIEDQLHEDELVAVLHRLQQFDPPGVFARSISECLTIQLNQLSPETQYLQSAKHLVDGFL 238 Query: 225 DLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGH 284 +A+ D L + T L+ + L+ A+ L++ L+PRPG+S+ + + EY++PD V K G Sbjct: 239 QDIASVDSARLAKKTGLEINELQGALQLVRGLNPRPGESLSSNDVEYIVPDAYVEKIKGR 298 Query: 285 WTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVS 344 W V+LN ++PRL+IN Y+S+ + + +QF++ NL +A+W ++S+ESRN+TL+RV+ Sbjct: 299 WRVKLNDSNMPRLRINDSYSSLIKRSDSSDQNQFLKDNLAEARWFLRSIESRNETLMRVA 358 Query: 345 RCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFS 404 IVE Q+ F + G MKPMVL+DIA +E+HESTISRVTT KYL +P+GIFELKYFFS Sbjct: 359 MTIVELQRGFLDHGPVAMKPMVLSDIASKLELHESTISRVTTSKYLATPQGIFELKYFFS 418 Query: 405 SHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRES 464 SHV+T GGGE SSTA+ A++K+LI AE P KPLSDSKLTS+L +QGI VARRTVAKYRES Sbjct: 419 SHVSTAGGGECSSTAVCAILKELIGAEQPEKPLSDSKLTSMLEQQGIQVARRTVAKYRES 478 Query: 465 LSIPPSNQRKQL 476 L IP S+QRK+ Sbjct: 479 LGIPSSSQRKRF 490 >UniRef50_P24695 RNA polymerase sigma-54 factor n=3 Tax=Acidithiobacillus ferrooxidans RepID=RP54_THIFE Length = 475 Score = 548 bits (1412), Expect = e-154, Method: Composition-based stats. Identities = 232/480 (48%), Positives = 323/480 (67%), Gaps = 9/480 (1%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 MKQGL+L+L Q LAMTPQLQQAIRLLQLST++LQQE+Q LESNPLL++ E Sbjct: 1 MKQGLELKLGQHLAMTPQLQQAIRLLQLSTVDLQQEVQGMLESNPLLDEETGDEGGGGPI 60 Query: 61 TQDSETLDTA---DALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETT 117 + E D + +P+ELP+D+ WD I+ GT +G D + T Sbjct: 61 PETVELPSEERQLDLAAENILPDELPVDSQWDDIFDMGTSGSGNGSDEDLPDFESRNSRT 120 Query: 118 QTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEA 177 Q+LQDYL WQ ++T F+ +R +A I+DA+DE GYL LED+ ++ +E D + A Sbjct: 121 QSLQDYLRWQADMTHFTADERNMAELIIDAIDERGYLADSLEDLAATMNVQE---DALLA 177 Query: 178 VLKRIQRFDPVGVAAKDLRDCLLIQLSQF-DKTTPWLEEARLIISDHLDLLANHDFRTLM 236 VL R+Q FDP GV A++L +CLL+QL Q +K + A+ I+ DHL L HD+ L Sbjct: 178 VLLRVQDFDPPGVGARNLSECLLLQLKQMVEKDDAHVLLAQRIVKDHLQALGRHDYPRLC 237 Query: 237 RVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPR 296 V + E L+ A+ LI +L+P+PG+ + T EYVIPDV+VR +LN +++P+ Sbjct: 238 TVLGVDEAALRAAMALISALNPKPGEDVGTESTEYVIPDVIVRWAGSRLRTDLNPEAMPK 297 Query: 297 LQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFE 356 L+IN+HYA M D ++I+ L +A+W IKSL+SR DT+L+V+R IVE+Q+ FF Sbjct: 298 LRINRHYADMAGGK--DAAHKYIQDQLNEARWFIKSLQSRQDTILKVARAIVERQKDFFA 355 Query: 357 QGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEAS 416 G E M+PMVL IA AVEMHEST+SRVT QKY+ +PRG++E KYFFSSHV T+ GG AS Sbjct: 356 NGPESMRPMVLRHIADAVEMHESTVSRVTNQKYMITPRGLYEFKYFFSSHVGTDSGGSAS 415 Query: 417 STAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 +TAIRAL+ K+ AE+ PLSD+++ +L++QGI +ARRTVAKYRE+ ++PP++QR++L Sbjct: 416 ATAIRALLIKMTQAEDAQHPLSDAEIARVLADQGIQIARRTVAKYREAANVPPASQRRRL 475 >UniRef50_P28615 RNA polymerase sigma-54 factor n=83 Tax=Betaproteobacteria RepID=RP54_RALEH Length = 493 Score = 539 bits (1390), Expect = e-152, Method: Composition-based stats. Identities = 230/495 (46%), Positives = 310/495 (62%), Gaps = 21/495 (4%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 MK LQLRLSQ LA+TPQLQQ+IRLLQLSTLELQQE++QAL NPLLE+ + E R Sbjct: 1 MKPSLQLRLSQHLALTPQLQQSIRLLQLSTLELQQEVEQALTENPLLERENDWIESPLRV 60 Query: 61 TQDSE-TLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDY--------------- 104 D L +A A E A + SG DY Sbjct: 61 AADGSVNLQSAPAPAPAEPQGNGEARADGAADDDSYGDSGNGDDYGSSDWSLDDFARRPQ 120 Query: 105 --IDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDIL 162 D++ P+ E TL++YLM Q+ S D+ +A +++++D+ GYL+ LE+I Sbjct: 121 GDEDEKTPMQLREAEPTLREYLMEQLTPLKISARDKGLAIFLIESLDDDGYLSASLEEIC 180 Query: 163 -ESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIIS 221 E + E +I+EV A+L +Q FDP GV A++ +CL +QL + T P E A I++ Sbjct: 181 TELPEELEFEIEEVHAILTLLQSFDPPGVGARNAAECLALQLRRL--THPQRELALNIVT 238 Query: 222 DHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKH 281 +HL+LLA D+ L + ++ E LK A LI+SL P PG + E ++V+PDV VRK Sbjct: 239 NHLELLAVRDYTRLKKALQVDEAALKSAHELIRSLAPYPGHAYSRPEADFVVPDVFVRKG 298 Query: 282 NGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLL 341 G W +LN D +PRL+IN YA + A+ + + ++ LQ+A+WLIK+++ R D +L Sbjct: 299 GGGWIAQLNPDVMPRLRINDMYAQILRGAKGESGTAGLQQKLQEARWLIKNIQQRFDKIL 358 Query: 342 RVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKY 401 RVS+ IVE+Q+ FF GE M+P+VL +IA + +HESTISRVTT KY+ +P G FELKY Sbjct: 359 RVSQAIVERQKNFFSHGEIAMRPLVLREIADTLGLHESTISRVTTNKYMATPMGTFELKY 418 Query: 402 FFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKY 461 FF SHV+TE GG ASSTAIRAL+K+LI AE+P PLSDS++ LL EQG +VARRTVAKY Sbjct: 419 FFGSHVSTETGGAASSTAIRALIKQLIGAEDPRNPLSDSRIAELLGEQGFVVARRTVAKY 478 Query: 462 RESLSIPPSNQRKQL 476 RE+L IP N RK L Sbjct: 479 REALKIPAVNLRKSL 493 >UniRef50_Q2LSN3 RNA polymerase sigma-54 factor n=4 Tax=Deltaproteobacteria RepID=Q2LSN3_SYNAS Length = 487 Score = 532 bits (1372), Expect = e-150, Method: Composition-based stats. Identities = 190/490 (38%), Positives = 290/490 (59%), Gaps = 20/490 (4%) Query: 2 KQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRET 61 + L+LSQQL MTPQLQQAI+LLQLS +E+ + Q +E NPLLE E +T Sbjct: 4 ELKQNLKLSQQLIMTPQLQQAIKLLQLSRMEMIDVINQEMEENPLLEDAPADEYDETERN 63 Query: 62 QDSETLDTADALEQKEMPE--------ELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQ 113 SE T + E + + + + W++ GT+ D D E P + Sbjct: 64 HGSEEGKTPEREELRGIERTEEITGEGDGKEEFDWNSYLEDYGTFGTTYDRSDGEAPNWD 123 Query: 114 GETTQ--TLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEID 171 T+ TL D+LMWQ++L+ ++ + + I+ +D GYL +E+I G E + Sbjct: 124 NVLTEKSTLTDHLMWQLKLSRLTEQEMRVGEQIIGNLDANGYLAASIEEIA---GLENVS 180 Query: 172 IDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHD 231 +VE VLK+IQ FDP G+AA++L++CLLIQ+ +E II DH+ L + Sbjct: 181 EKDVETVLKKIQEFDPPGIAARNLQECLLIQVKMLGIQNQLVE---AIIQDHMKDLEIKN 237 Query: 232 FRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNS 291 + + R ++ D + +AV +I ++DPRPG + + +IPDV V K + + LN Sbjct: 238 YNHISRKNKVPVDDVFQAVMIISNMDPRPGSVYNEEKIQAIIPDVYVFKSGDDYKIVLND 297 Query: 292 DSIPRLQINQHYASMCNNARNDGD----SQFIRSNLQDAKWLIKSLESRNDTLLRVSRCI 347 D +PRL+I+ Y + N + D + ++IR +Q A WLIKS++ R T+ +V+ I Sbjct: 298 DGLPRLRISNFYKEIMGNVKGDSNSESGRKYIRERVQSATWLIKSIQQRQRTIYKVAESI 357 Query: 348 VEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHV 407 V Q+ FF++G Y+KP+VL DIA VEMHESTISRV T KY+++PRGIFELKYFFSS + Sbjct: 358 VRHQREFFDRGINYLKPLVLRDIAYDVEMHESTISRVVTNKYMYTPRGIFELKYFFSSSI 417 Query: 408 NTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSI 467 + G +S +++ ++++I AE+P P SD ++ S+L +GI +ARRTVAKYRE ++I Sbjct: 418 QRKSGEAIASKSVKEEIRRVIGAEDPLHPYSDQEIVSILESKGIKIARRTVAKYREMMNI 477 Query: 468 PPSNQRKQLV 477 PS++R++ Sbjct: 478 LPSSRRRRYF 487 >UniRef50_Q5WZ64 RNA polymerase sigma-54 factor (Sigma-L) n=6 Tax=Legionella RepID=Q5WZ64_LEGPL Length = 464 Score = 527 bits (1359), Expect = e-148, Method: Composition-based stats. Identities = 234/478 (48%), Positives = 323/478 (67%), Gaps = 22/478 (4%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 MK LQ+ + Q L +TPQLQQAIRLLQLST +LQQE+Q +ESNPLLE E+ D + Sbjct: 1 MKPTLQIGIGQHLTLTPQLQQAIRLLQLSTFDLQQEIQLVVESNPLLEATPVEEKEDAQI 60 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTA--GTPSGTSGDYIDDELPVYQGETTQ 118 + + +D W +Y + DY D L TT Sbjct: 61 NTNQNHDEYSDF--------------QWSQLYNNLNKRNNFEENDYNFDNLHC----TTT 102 Query: 119 TLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDE--EIDIDEVE 176 LQD+L WQ++LTP SD DR IAT+I+DA+++ G+LT+P+ +I S+ + +DI+E+E Sbjct: 103 NLQDHLNWQLDLTPMSDIDRVIATTIIDAINDDGFLTIPVAEIHASLNSDDFPLDIEEIE 162 Query: 177 AVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLM 236 AV R+Q FDPVG A+ +L + L++QL Q L A+ +I + ++LL H++R LM Sbjct: 163 AVRHRLQLFDPVGCASVNLAETLVLQLEQLPLEPKLLATAKKVILEDIELLGQHNYRQLM 222 Query: 237 RVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPR 296 + ++ E + E + +I L+P+PG I EYVIPD+ V+K + W V LN D +PR Sbjct: 223 KNHQISEKTIHEILQVIHKLNPKPGSLIHQDNIEYVIPDLTVKKIDNQWKVFLNQDILPR 282 Query: 297 LQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFE 356 L IN YA++ A N D+QF++ NLQ+A+W +KS++SR +TLL+V+ CI+E Q F E Sbjct: 283 LSINSQYAALIQRANNSLDNQFLKHNLQEARWFLKSIQSRQETLLKVATCIMEYQHGFLE 342 Query: 357 QGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEAS 416 GEE MKP++L D+A A++MHEST+SRVTTQK++++PRG+FELKYFFSSHVNT+ GGE S Sbjct: 343 FGEEAMKPLILNDVASALDMHESTVSRVTTQKFINTPRGVFELKYFFSSHVNTDNGGECS 402 Query: 417 STAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRK 474 STAIRA++KKLI+AEN KPLSDSK+ L+ EQGI VARRTVAKYRE++ IPPSN+RK Sbjct: 403 STAIRAVIKKLISAENRKKPLSDSKIAQLIGEQGIKVARRTVAKYREAMGIPPSNERK 460 >UniRef50_D2UEM7 Probable rna polymerase sigma-54 factor protein n=1 Tax=Xanthomonas albilineans RepID=D2UEM7_XANAL Length = 485 Score = 525 bits (1352), Expect = e-147, Method: Composition-based stats. Identities = 201/485 (41%), Positives = 297/485 (61%), Gaps = 10/485 (2%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTH----EEI 56 MK LQ L Q L MTPQL+QAI+LLQ+S+ EL+ EL A+ESNPLLE + E Sbjct: 1 MKARLQTSLGQHLVMTPQLRQAIKLLQMSSAELEVELAAAVESNPLLEWSEDAALTFEHT 60 Query: 57 DTRETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGET 116 D++E + + E P D+ D T SG SG DD+ E Sbjct: 61 DSQEASGAAADGDTLTPVADDHAEASPADSGEDWTTTDPAWSGGSGGAFDDDDTSSLAER 120 Query: 117 ---TQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESI-GDEEIDI 172 +TL +L+WQ+ L+P S DR+I +++DA+D GYL PL I E++ + Sbjct: 121 VAEPETLIGHLLWQLHLSPLSARDRSIGVALIDALDGDGYLREPLTAIAETLRPNIAAGE 180 Query: 173 DEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDF 232 DE+ VL +IQRFDP G+AA+ L +CL +QL ++TP LE A I++ L+ L Sbjct: 181 DEILTVLHQIQRFDPTGIAARSLEECLTLQLGMLPESTPGLELAHTIVNGSLEKLPRSGI 240 Query: 233 RTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQT-GEPEYVIPDVLVRKHNGHWTVELNS 291 L + + AV L++SLDPRPG+ I G YV+PD +V + G W L++ Sbjct: 241 AGLAHALKRPVADVDTAVALLRSLDPRPGKQIGELGSDTYVVPDCVVWRQRGVWHAALSA 300 Query: 292 DSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQ 351 + P++ I++ Y + + D+ ++R LQ+A+WL+KS+E+R +TLL+V+RC++ QQ Sbjct: 301 HAQPKVTIHRGYERLIRQC-GESDAGYLRGQLQEARWLLKSVEARGETLLKVTRCLLRQQ 359 Query: 352 QAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEG 411 F E GE+ ++P+ L +IA + +HESTISR +KY+ +PRG L+ FF+S ++T+ Sbjct: 360 AGFLEFGEQALRPLTLREIAGELGLHESTISRAIARKYVRTPRGTIPLRAFFASGIDTDS 419 Query: 412 GGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSN 471 GGEASSTAI+A++++LI ENP KPLSD+KL LL G+ VARRTVAKYRE+++IP S+ Sbjct: 420 GGEASSTAIQAMIRRLIETENPRKPLSDAKLADLLKNTGVPVARRTVAKYREAMNIPASH 479 Query: 472 QRKQL 476 +R ++ Sbjct: 480 ERVRI 484 >UniRef50_P77998 RNA polymerase sigma-54 factor n=20 Tax=Xanthomonadaceae RepID=RP54_XANEU Length = 479 Score = 524 bits (1351), Expect = e-147, Method: Composition-based stats. Identities = 203/480 (42%), Positives = 301/480 (62%), Gaps = 4/480 (0%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 MK LQ L QQL MTPQL+QAI+LLQ+ST EL+ E+ +A+E+NPLLE D + Sbjct: 1 MKARLQTSLGQQLVMTPQLRQAIKLLQMSTTELEVEIAEAVETNPLLEWADEAAHAASDI 60 Query: 61 TQDSETLDTADALEQKE-MPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQT 119 DS + + +++E P E D S D + G+ SG S D + + ++T Sbjct: 61 AVDSSPSASTEQPQREEVAPAERDEDWSQDELQWTGSGSGGSFDDDESGDAAERVAESET 120 Query: 120 LQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIG-DEEIDIDEVEAV 178 L D+L+WQ+ L+P S DR I ++DA+DE GYL PL ILE++ +D +V V Sbjct: 121 LADHLLWQLHLSPLSPRDRQIGAMLIDALDEDGYLREPLSAILETLALGAAVDEADVLTV 180 Query: 179 LKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRV 238 L +IQRFDPVGV A+ L +CL +QL D TP E A I++ L+ L L Sbjct: 181 LHQIQRFDPVGVGARTLGECLALQLGVLDADTPGRELALQIVAGPLERLPRSGVAGLAHE 240 Query: 239 TRLKEDVLKEAVNLIQSLDPRPGQSIQT-GEPEYVIPDVLVRKHNGHWTVELNSDSIPRL 297 + +++AV L++SLDPRPG+ I + YV+PD ++ + G W L + P++ Sbjct: 241 LKRSTADVEQAVQLVRSLDPRPGKQIGDLSQDTYVVPDCVIWRQRGVWRAALAGRAQPKV 300 Query: 298 QINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQ 357 I++ Y ++ + + D+ ++R LQ+A+WL+KSLE+R +TLLRV RC++E Q F E Sbjct: 301 TIHRGYENLIRSC-GESDAGYLRGQLQEARWLLKSLEARGETLLRVVRCLLEHQAGFLEF 359 Query: 358 GEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASS 417 G + ++P+ L +IA + +HESTISR +KY+ +PRG L+ FF+S ++T+ GGEASS Sbjct: 360 GAQALRPLTLREIAGELGLHESTISRAIARKYVRTPRGTIALRAFFASGIDTDSGGEASS 419 Query: 418 TAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQLV 477 TAI+A++++LI AENP KPLSD+KL LL G+ VARRTVAKYRE+++I S++R ++ Sbjct: 420 TAIQAMIRRLIDAENPRKPLSDAKLADLLKTSGVPVARRTVAKYREAMNISASHERVRIA 479 >UniRef50_D0LNA6 RNA polymerase, sigma 54 subunit, RpoN n=2 Tax=Deltaproteobacteria RepID=D0LNA6_HALO1 Length = 494 Score = 523 bits (1348), Expect = e-147, Method: Composition-based stats. Identities = 182/500 (36%), Positives = 295/500 (59%), Gaps = 31/500 (6%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDT-------- 52 M+ +L+LSQQL MTPQLQQAI+LLQLS +EL +++ + NP+LE+ Sbjct: 3 MEMRQELKLSQQLVMTPQLQQAIKLLQLSRMELVDLVREEMLENPVLEEDSEMSPDAQSR 62 Query: 53 ----HEEIDTRETQDSETLDTADALEQKEMPEELPLDA------SWDTIYTAGT--PSGT 100 E TR+ +++ + A K+ E+ D W++ + PS + Sbjct: 63 ELVGDAEQVTRQVEEAGHTELPVAESNKDTASEVKADDSAVGEIDWESYLDDYSSGPSVS 122 Query: 101 SGDYIDDELPVYQGETT--QTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVP- 157 + +D+LP ++ T ++L ++L+WQ++++ +T A+ I+ +D +GY P Sbjct: 123 NFRPDNDDLPSHEATLTRSESLSEHLLWQLKMSAMDETHMAVGEVIIGNIDASGYFKEPP 182 Query: 158 LEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEAR 217 LED+ E+ +DE E VL +IQ FDPVGV A+ L +CLLIQ + E Sbjct: 183 LEDLASEC---EVSVDEAEEVLMKIQTFDPVGVGARSLAECLLIQAMHDGQDD---ELVV 236 Query: 218 LIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVL 277 II HL L +++ + R + + + EA +I DPRPG+ + +P Y+ PDV Sbjct: 237 KIIKSHLPNLERKNYQAIARDLKQPLEEVYEAAKVIMEFDPRPGRQYSSEDPHYITPDVY 296 Query: 278 VRKHNGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRN 337 + K + V N D +P+L+I+ Y S ++N +I+ L+ A+WLI+S++ R Sbjct: 297 IHKVGDRYFVVPNDDGLPKLKISSFYRSAL--SKNGNAKDYIQDKLRSAQWLIRSIQQRQ 354 Query: 338 DTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIF 397 T+++VS I++ Q+ FF++G +++P++L D+A+ + MHESTISRVTT KY+H+P+GIF Sbjct: 355 RTIIKVSESILKFQREFFDRGIAHLRPLILRDVAEDIGMHESTISRVTTSKYVHTPQGIF 414 Query: 398 ELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRT 457 ELK+FF+S ++ G + +S A+++ +KK+I E+P KPLSD K+ + L GI +ARRT Sbjct: 415 ELKFFFNSGISRTDGDDLASQAVKSKIKKIIGDEDPKKPLSDQKIAAQLKSGGIAIARRT 474 Query: 458 VAKYRESLSIPPSNQRKQLV 477 VAKYRE + I S++RKQ+ Sbjct: 475 VAKYREQMGILSSSKRKQVF 494 >UniRef50_D1RJS1 RNA polymerase sigma-54 factor RpoN n=1 Tax=Legionella longbeachae D-4968 RepID=D1RJS1_LEGLO Length = 465 Score = 521 bits (1342), Expect = e-146, Method: Composition-based stats. Identities = 242/478 (50%), Positives = 325/478 (67%), Gaps = 21/478 (4%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQI--DTHEEIDT 58 MK LQL +SQ L +TPQLQQAIR+LQLST++LQQE+Q LESNPLLE + EEI Sbjct: 1 MKPSLQLSISQHLTLTPQLQQAIRILQLSTIDLQQEIQLVLESNPLLEATPNEDKEEIAI 60 Query: 59 RETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQ 118 ET+ E + D W +Y + TS D +D TT Sbjct: 61 DETRQQENDQS---------------DFQWSELYQSSDKR-TSFDDVDYNFDNLHCTTT- 103 Query: 119 TLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEE--IDIDEVE 176 L+D+L WQ+ L+P SD DRAIAT+I+DA++ G+L++ + ++ S+ EE +D+DE+E Sbjct: 104 NLKDHLKWQLNLSPMSDIDRAIATAIIDAMNSDGFLSMGITELHASLTSEEHPLDLDEIE 163 Query: 177 AVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLM 236 AV R+Q FDPVG A +L + LLIQL Q + T L A+ II+ ++LL H++R LM Sbjct: 164 AVRHRLQLFDPVGCACINLAETLLIQLEQLPQDTEHLALAKKIITKDIELLGQHNYRQLM 223 Query: 237 RVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPR 296 + ++ E + + +IQ L+P+PG I EY+IPD+ V+K N W V LN +P Sbjct: 224 KNHQITEKTIDSVLKIIQKLNPKPGNLIHEDITEYIIPDLTVKKINNQWQVHLNQSVLPH 283 Query: 297 LQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFE 356 L IN YAS+ A N D+ F+++NLQ+A+W +KS++SR +TLL+V+ CI++ QQ F E Sbjct: 284 LSINNQYASLIQRADNSADNLFLKNNLQEARWFLKSIQSRQETLLKVATCIMQYQQGFLE 343 Query: 357 QGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEAS 416 GEE MKP++L DIA A+EMHESTISRVTTQK++H+PRG+FELKYFFSSH++T G E S Sbjct: 344 YGEEAMKPLILNDIAIALEMHESTISRVTTQKFIHTPRGVFELKYFFSSHISTNVGEECS 403 Query: 417 STAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRK 474 STAIRA++KKLIAAEN KPLSDSK+T LL +QGI VARRTVAKYRE++ I PSN+RK Sbjct: 404 STAIRAVIKKLIAAENRKKPLSDSKITQLLEKQGIQVARRTVAKYREAMGIAPSNERK 461 >UniRef50_C6WT04 RNA polymerase, sigma 54 subunit, RpoN n=3 Tax=Betaproteobacteria RepID=C6WT04_METML Length = 525 Score = 520 bits (1341), Expect = e-146, Method: Composition-based stats. Identities = 216/526 (41%), Positives = 315/526 (59%), Gaps = 51/526 (9%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHE------ 54 MKQGLQL+ SQ L++TPQLQQAIRLLQLSTLEL QE+ +++NPLLE+ D E Sbjct: 1 MKQGLQLKFSQNLSLTPQLQQAIRLLQLSTLELNQEIDVLMQTNPLLERGDDTEDEYGNA 60 Query: 55 ------------------------------------EIDTRETQDSETLDTADALEQKEM 78 E + E+ ++ D +D + Sbjct: 61 VEPVADGADLSATSPESAEAKPEFENFDAEYAESASEFNGAESANASVADVSDTADFDVP 120 Query: 79 PEE------LPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTP 132 + + +D + DD Q +L+++L+ Q++L P Sbjct: 121 STDYADTFSAEFNDEFDEFSNGSRWDENTMPADDDSDFKPQETLQTSLREHLLSQLKLMP 180 Query: 133 FSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDE-EIDIDEVEAVLKRIQRFDPVGVA 191 S+ D+++A +VD++++ GYL LE+I E + +E EID E++ L+ +Q DP GV Sbjct: 181 LSERDQSLALMLVDSINDDGYLEQSLEEIAELMPEELEIDAIELQTALRHVQHLDPPGVG 240 Query: 192 AKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVN 251 A+ L +CLL+QL+ K+TP L A L+ HL +LA+ DF L + E LK+ Sbjct: 241 ARSLSECLLLQLAVLPKSTPHLAMADLVAKHHLQVLASRDFVKLRKELGCDEATLKQVQQ 300 Query: 252 LIQSLDPRPGQSIQT-GEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNA 310 LI SL+PRPG + G Y+ +V+V+K G W LN IP+L+INQ YA + Sbjct: 301 LITSLNPRPGSAFSHIGSEHYIQHEVIVKKVKGIWIASLNDSVIPKLKINQLYAGILKRN 360 Query: 311 RNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADI 370 R+ SQ+++S +Q+AKW+IK+++ R T+LRVS+ IV++Q+ F E GE M+P+VL +I Sbjct: 361 RDSS-SQYLQSQMQEAKWMIKNIQQRFSTILRVSQAIVDRQRNFLEYGEVAMRPLVLREI 419 Query: 371 AQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAA 430 A +++HESTISRVTT KY+ +PRGIFELKYFF S V T+ GG S+TAIRAL+K+L+ Sbjct: 420 ADELDLHESTISRVTTNKYMLTPRGIFELKYFFGSSVATDAGGTCSATAIRALIKQLVDQ 479 Query: 431 ENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 ENP KP SD+++T LL++QGI+VARRT+AKYRES++I P++ RK L Sbjct: 480 ENPRKPYSDNQITDLLAKQGIVVARRTIAKYRESMNIAPASLRKSL 525 >UniRef50_Q6MPK9 RNA polymerase sigma-54 factor n=1 Tax=Bdellovibrio bacteriovorus RepID=Q6MPK9_BDEBA Length = 478 Score = 520 bits (1341), Expect = e-146, Method: Composition-based stats. Identities = 186/484 (38%), Positives = 293/484 (60%), Gaps = 13/484 (2%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTH--EEIDT 58 M + LSQ L +TPQLQQAI+LLQ+S +EL+ ++ LE NP+LE+ ++ EE Sbjct: 1 MALRQTMNLSQSLVITPQLQQAIKLLQMSRMELESAVRSELEENPILEEAESALKEEDLQ 60 Query: 59 RETQDSETLDTADALEQKEMPEELPLDA-SWDTIYTAGTPSGTSGDYIDDELPVYQG--E 115 R + + ++ ++ +Q+ + + D W++ A SG +E+ Y+ Sbjct: 61 RTKEAANEVEHSETPDQQNIQDPQKQDEFEWESYIEANQKPPQSGMAGSEEIMNYENVIT 120 Query: 116 TTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEV 175 +QTL D+L WQV++ FS+ + A +++ A+D+ GY+ VPLE I E E++D+ + Sbjct: 121 ASQTLHDHLYWQVKMNGFSEEEERAADALIGAIDDDGYIKVPLEQIAEE---EKVDLALL 177 Query: 176 EAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTL 235 E L I FDP GV A+DL++CLLIQ ++ T + +I +H+ L ++ + Sbjct: 178 EDTLTLIHEFDPPGVGARDLQECLLIQAKHMEEDT---HDLVTLIKNHVKDLEKKNYEAI 234 Query: 236 MRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIP 295 + + + E +I ++DP+PG++ + + YV PDV V K + V LN D +P Sbjct: 235 AKALNRDVEDIVEICKIIYAMDPKPGRAFVSSDTHYVTPDVYVYKVGDDYVVSLNEDGLP 294 Query: 296 RLQINQHYASMCNNARNDGDS--QFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQA 353 RL+I+ Y +M + GD +I+ L+ A WLIKS+ R T+ +V+ IV+ Q+ Sbjct: 295 RLKISNFYKNMLKGGKTTGDKTQDYIQEKLRSAVWLIKSIHQRQRTIYKVTESIVKHQRE 354 Query: 354 FFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGG 413 FFE+G E++KPMVL DIA + MHEST+SRVTT KY+H+P+GI+ELKYFF+S +++ G Sbjct: 355 FFEKGSEHLKPMVLRDIANDIGMHESTVSRVTTAKYVHTPQGIYELKYFFNSGISSSDGD 414 Query: 414 EASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQR 473 +S +++ +K L+A E+P PLSD K+ LL +GI +ARRTVAKYR+ L I PS+QR Sbjct: 415 SLASESVKIKIKDLVAKEDPKNPLSDQKIVDLLKVEGIQIARRTVAKYRDVLKILPSSQR 474 Query: 474 KQLV 477 K+ Sbjct: 475 KKYF 478 >UniRef50_C8R228 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Desulfurivibrio alkaliphilus AHT2 RepID=C8R228_9DELT Length = 498 Score = 520 bits (1340), Expect = e-146, Method: Composition-based stats. Identities = 186/501 (37%), Positives = 276/501 (55%), Gaps = 32/501 (6%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 ++ L+LSQQL MTPQLQQAI+LLQLS LEL + +QQ LE NP+LE+ E Sbjct: 3 LELRQSLKLSQQLVMTPQLQQAIKLLQLSRLELMETVQQELEVNPVLEEGLDLYEDGGNP 62 Query: 61 TQD---------SETLDTADALEQKEMPEELPLDA-------SWDTIYTAGTPSGTSGDY 104 D + + + E E+ +D+ W + G Y Sbjct: 63 ADDPLPDSALAGNNGPEEELGRSEPEQTAEISMDSSSALGEIDWGNYLNEYAGDQSDGGY 122 Query: 105 I-----DDELPVYQGE---TTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTV 156 DD+ P + E +LQ +L WQ+ L+ SD ++ I I+ +DE G+L V Sbjct: 123 SGAAGRDDDAPPSRLEIMSVRPSLQSHLQWQLNLSHISDREKEIGEFIIGNLDENGFLLV 182 Query: 157 PLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEA 216 E+I + E + +L R+Q DP GV A+DLR CLL+QL++ + A Sbjct: 183 SPEEI---CSQTDCTPAEADHLLSRVQEMDPAGVGAQDLRHCLLLQLARLEAADSL---A 236 Query: 217 RLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDV 276 I+ DHL LL ++ L + T + AV +I L+PRPG+ +P Y++PDV Sbjct: 237 ARIVRDHLSLLETRNYPGLAKATGASTAEVSAAVEVITGLNPRPGRLYSDADPVYIVPDV 296 Query: 277 LVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARND--GDSQFIRSNLQDAKWLIKSLE 334 V K + + LN + +PRL+I+ +Y + + +++ L+ A WLIKS++ Sbjct: 297 YVYKLGEEYVIMLNDEGLPRLRISNYYRDILDKDSTAPGATKDYVQDKLRSAMWLIKSIQ 356 Query: 335 SRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPR 394 R T+ RV +++ Q+ FFE G +KPMVL D+A+ + MHESTISRVTT KY+H+P+ Sbjct: 357 QRQRTIYRVVESLLKFQRDFFEHGVNKLKPMVLRDVAEDIGMHESTISRVTTNKYVHTPQ 416 Query: 395 GIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVA 454 G FELKYFF+S ++TE G +S +I+ +K ++ E+ KPLSDS + ++ S GI +A Sbjct: 417 GTFELKYFFNSTISTEAGDGMASESIKQRLKSIVQHEDRKKPLSDSAIAAVFSRDGIRLA 476 Query: 455 RRTVAKYRESLSIPPSNQRKQ 475 RRTVAKYRE L I PS R++ Sbjct: 477 RRTVAKYREQLGILPSKLRRR 497 >UniRef50_B3E461 RNA polymerase, sigma 54 subunit, RpoN n=4 Tax=Deltaproteobacteria RepID=B3E461_GEOLS Length = 482 Score = 520 bits (1339), Expect = e-146, Method: Composition-based stats. Identities = 168/487 (34%), Positives = 285/487 (58%), Gaps = 21/487 (4%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPL---------LEQID 51 M+ QL+++QQL MTPQLQQAI+LLQ++ +ELQ ++Q LE NP+ + + + Sbjct: 3 MEMRQQLKMTQQLVMTPQLQQAIKLLQMTRIELQDVVRQELEENPILEESSELEEVREGE 62 Query: 52 THEEIDTRETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPV 111 T E+ E D E L D+ ++ E EE D WD+ + DD+ Sbjct: 63 TLLEVVEAELPD-EALANTDSFQEVEAGEETLRD--WDSYLDGYNYTSGEQSGDDDDKLS 119 Query: 112 YQGETTQ--TLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEE 169 ++ T+ TL D+L WQ+++ +SD ++ + ++ +D+ GY + D+ + Sbjct: 120 FENLLTRKGTLFDHLHWQLQMGKYSDEEQRVGEEVIGNIDDDGYFCSTIADVAVVC---D 176 Query: 170 IDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLAN 229 + VE +L+RIQ FDP GV A+ L++CLLIQ +E I+ +L + + Sbjct: 177 VPEPVVETMLERIQEFDPSGVGARSLQECLLIQARSLGMEGSVVE---AILLRYLPEVES 233 Query: 230 HDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVEL 289 +++ + R +++ + + A+ +I DPRPG+ + E Y+ PD+ V K + V L Sbjct: 234 RNYKQIARSLKVELEHVLAAIRVIAGFDPRPGRLYSSDEVHYISPDIFVHKVGDDYVVLL 293 Query: 290 NSDSIPRLQINQHYASM-CNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIV 348 N + +P L+++ Y + + +++ ++ A+WLIKS++ R T+ RV++ IV Sbjct: 294 NEEGLPNLRLSPFYLEAKAGGSMDAKAEEYVGDKMRAAQWLIKSIQQRQRTIFRVAKSIV 353 Query: 349 EQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVN 408 + Q+ F E+G E ++P+VL D+A+ + MHESTISRVTT KY+ +P+G+FELKYFF+S ++ Sbjct: 354 KFQREFLERGVEGLRPLVLRDVAEDIGMHESTISRVTTNKYMQTPQGLFELKYFFNSGLS 413 Query: 409 TEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIP 468 T G SS +++ +K +I E+P+KPLSD K+ +LS+ + +ARRTV KYRE + I Sbjct: 414 TSDGESVSSESVKNRIKDIIDKEDPSKPLSDQKIAEMLSDATVNIARRTVTKYREMMRIG 473 Query: 469 PSNQRKQ 475 S++R++ Sbjct: 474 SSSERRR 480 >UniRef50_C8VY02 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Desulfotomaculum acetoxidans DSM 771 RepID=C8VY02_DESAS Length = 472 Score = 517 bits (1332), Expect = e-145, Method: Composition-based stats. Identities = 174/482 (36%), Positives = 285/482 (59%), Gaps = 18/482 (3%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLE-QIDTHEEIDTR 59 M GL + +Q+L MTP+L+QAI +LQLS+LEL + Q L+ NP+LE + D + I+ Sbjct: 3 MGYGLHVEQTQKLIMTPELRQAITVLQLSSLELSMYIDQQLQENPMLEVREDDLDRIEEN 62 Query: 60 ETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPS-GTSGDYIDDELPVYQGETTQ 118 E + + + L ++E D W+ + G + Y+ TQ Sbjct: 63 EGAEGDASGGEEELSRQE------CDVDWEEYFHDSDLDLGRREKLAEQSGSGYENFLTQ 116 Query: 119 --TLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVE 176 L +YLM Q+ L+ D +AI I+ VD GYL V +++I E + E+ +VE Sbjct: 117 APNLTEYLMMQLNLSRCGDYLKAIGEYIIGNVDHNGYLHVSVKEIAEQL---EVSQSKVE 173 Query: 177 AVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLM 236 L IQ FDP+GV A L++CLLIQ+ + + E +I +L +A + Sbjct: 174 QALSVIQSFDPLGVGASSLQECLLIQVRYLNIKNKLVAE---LIEKYLPDIAKGRLNQIA 230 Query: 237 RVTRLKEDVLKEAVNLIQSLDPRPGQSIQ-TGEPEYVIPDVLVRKHNGHWTVELNSDSIP 295 + + ++EA ++I++LDP+PG++ T + Y++PDV+V + G + + +N S+P Sbjct: 231 QQLGVAVTEVQEAADIIKTLDPKPGRNFSATNDVRYIVPDVIVERVEGEYIILVNDSSVP 290 Query: 296 RLQINQHYASMCNNARND-GDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAF 354 RL IN Y S+ + D +F+ S L A WL+KS+E R TL +V+ C+V+ Q+ F Sbjct: 291 RLTINTAYRSVLTQDKFDLQTRRFVESKLNSAAWLLKSIEQRRLTLYKVASCLVDLQKDF 350 Query: 355 FEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGE 414 E G +++KP+ L +A+ V +HEST+SR T+ KY+ +P+G+FE+K+FFS+ + + GGG Sbjct: 351 MEYGVKHLKPLNLKTVAEIVGLHESTVSRATSNKYIQTPQGVFEMKFFFSTGLTSAGGGM 410 Query: 415 ASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRK 474 S+ +I+ +++LIA+E+ KPL+D K++ + +E+GI ++RRTVAKYR+ L+IPP QRK Sbjct: 411 TSAESIKKTLRELIASEDARKPLNDQKISDIFAERGIKISRRTVAKYRDELNIPPLKQRK 470 Query: 475 QL 476 + Sbjct: 471 RY 472 >UniRef50_Q1DDF1 RNA polymerase sigma-54 factor n=4 Tax=Cystobacterineae RepID=Q1DDF1_MYXXD Length = 505 Score = 517 bits (1331), Expect = e-145, Method: Composition-based stats. Identities = 178/504 (35%), Positives = 281/504 (55%), Gaps = 30/504 (5%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M+ L+L+QQL MTPQLQQAI+LLQLS +EL +++++ +E NPLLEQ D D + Sbjct: 3 MELKQSLKLAQQLVMTPQLQQAIKLLQLSRMELLEQVREEMEQNPLLEQPDEQAPGDVGD 62 Query: 61 TQDSETLDTADALE----------------QKEMPEELPLDASWDTI-----YTAGTPSG 99 + E AD +E + + E P + W+ + T + Sbjct: 63 KEPGEASLEADNMEVPRDVDLPAATSDTATEFKADGEGPPEIDWEQYLNSYQFNEPTTAS 122 Query: 100 TSGDYIDDELPVYQGETTQ--TLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVP 157 G+ D++P ++ + L D++ Q+ +D +R IA I+ +D+ GYL +P Sbjct: 123 NKGNVATDDMPSFEANLVKKADLVDHIQEQLGTLRLNDAERRIAMLILGNLDDDGYLKLP 182 Query: 158 LED---ILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLE 214 D ++ + ++ + E L+RIQ DP G A+DL++CLLIQL P Sbjct: 183 EVDGDPLIRLANEADVPMHVAERTLRRIQMLDPRGCGARDLQECLLIQLQ--GIREPHAP 240 Query: 215 EARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIP 274 LII H+ L + + + + ++ + + AV L+ LDP+PG++ + +Y+ P Sbjct: 241 LLGLIIKRHMKYLESKNLPAIAKDLKVTLEEVVGAVRLLPKLDPKPGRNFSGDDAQYISP 300 Query: 275 DVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNAR--NDGDSQFIRSNLQDAKWLIKS 332 DV V K +TV LN D + +L+I+ Y + FI+ L+ A WLI+S Sbjct: 301 DVFVYKMGDDYTVVLNDDGLSKLRISGTYRNALKTGAVGPGQTKDFIQDKLRSAMWLIRS 360 Query: 333 LESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHS 392 + R T+ +V+ IV+ Q+ F ++G Y+KP++L D+A+ + MHEST+SRVTT KY+H+ Sbjct: 361 IHQRQRTIYKVTESIVKFQRDFLDKGIAYLKPLILRDVAEDIGMHESTVSRVTTSKYVHT 420 Query: 393 PRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIM 452 P+GIFELKYFF+S + G + +S A++ +K+L+A E+ P SD K+ LL QG Sbjct: 421 PQGIFELKYFFNSSIARVSGEDTASEAVKHHIKQLVAQEDARNPYSDQKIVELLRSQGTE 480 Query: 453 VARRTVAKYRESLSIPPSNQRKQL 476 +ARRTVAKYRE L I PS++RK+ Sbjct: 481 IARRTVAKYREVLGILPSSKRKRY 504 >UniRef50_A5CYP0 DNA-directed RNA polymerase specialized sigma subunit, sigma54 homolog n=9 Tax=Clostridia RepID=A5CYP0_PELTS Length = 471 Score = 515 bits (1327), Expect = e-144, Method: Composition-based stats. Identities = 163/484 (33%), Positives = 273/484 (56%), Gaps = 23/484 (4%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M GL + +Q+L MTP+L+QAI +LQLS+LEL ++Q L+ NP+LE D Sbjct: 3 MGYGLNMEQTQKLIMTPELRQAITVLQLSSLELSMYIEQQLQENPMLELTDDD------Y 56 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGT---SGDYIDDELPVYQGETT 117 ++ E T + PE D W+ + + D + Y+ Sbjct: 57 GREEEFEPTVEPEPDGGGPE---YDLDWEEYLQESSDDPGIFRQERWQDQQEYSYENFLY 113 Query: 118 Q--TLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEV 175 Q TL ++L Q+ L+P D+ I ++ +DE GYL VPL+++ + + V Sbjct: 114 QMPTLTEHLTTQLNLSPCRGKDKLIGEYLIGNIDENGYLRVPLKEVAACLN---VSTSRV 170 Query: 176 EAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTL 235 VLK IQ FDP GV A+ L +CLLIQ+ Q L +I +HL LA + Sbjct: 171 FKVLKVIQGFDPPGVGARSLEECLLIQVGQLGIKNEILN---KLIKEHLSDLAKGKLNRI 227 Query: 236 MRVTRLKEDVLKEAVNLIQSLDPRPGQSIQT-GEPEYVIPDVLVRKHNGHWTVELNSDSI 294 + + +++A +++++LDP+PG++ + Y++PD+++ K G + + +N +I Sbjct: 228 AQSLGVTVQEVQKAADVLRTLDPKPGRNFSNLNDTRYIVPDIVLEKVEGEYVILINDVAI 287 Query: 295 PRLQINQHYASMCNNAR--NDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQ 352 PRL IN Y S+ ++ + G +F+ S L A WLI+S+E R TL +V++C+V+ Q+ Sbjct: 288 PRLTINSTYRSVLSSNTNCDSGTRRFVESKLNAAAWLIRSIEQRRLTLYKVAKCLVDLQR 347 Query: 353 AFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGG 412 F + G +Y+KP+ L +A+ V +HEST+SR T+ KY+ +P+G+FE+KYFF + +N G Sbjct: 348 DFLDYGVKYLKPLNLKKVAEMVGLHESTVSRATSNKYIQTPQGVFEMKYFFCTGLNNTAG 407 Query: 413 GEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQ 472 S+ I+ ++++++A E+ PL+D K++ L ++GI ++RRTVAKYR+ L I + Sbjct: 408 NMVSAECIKKMLQEIVAGEDARSPLNDQKISELFRQRGIKISRRTVAKYRDELGIAAIRK 467 Query: 473 RKQL 476 RK+ Sbjct: 468 RKRY 471 >UniRef50_A0LCX7 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Magnetococcus sp. MC-1 RepID=A0LCX7_MAGSM Length = 510 Score = 515 bits (1327), Expect = e-144, Method: Composition-based stats. Identities = 209/512 (40%), Positives = 302/512 (58%), Gaps = 49/512 (9%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 ++ G+QL ++ PQLQ AIRLLQ+S+++LQ+ LQ+ LE NPLLE+ D + + Sbjct: 9 LRMGMQLVMT------PQLQMAIRLLQMSSMDLQEYLQEELEKNPLLEREDENGNAVDGD 62 Query: 61 TQ--------------------------------DSETLDTADALEQKEMPEELPLDASW 88 T D +D E + E+LPLDA W Sbjct: 63 TAPLGEDGAAVDGAGLDGENYMEFMGNNSSTGEMDGFQIDEPQTPEVTHLSEDLPLDAEW 122 Query: 89 DTIYTAGTPSGTSGDYIDDELPVYQGETT----QTLQDYLMWQVELTPFSDTDRAIATSI 144 +Y+ + S + + E T TL D+L+WQ+ L+ + +RA+ ++ Sbjct: 123 SDVYSDAGSNFESHNNSLNTSEAPPLENTLVRNDTLSDHLIWQLGLSARDEHERALGMAL 182 Query: 145 VDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLS 204 VDA+DE GYLT PLE E+ G +D++E L IQ F+P GV A++L +CLL+QL Sbjct: 183 VDAIDENGYLTAPLESFQETTG---ASLDDLEDALLLIQSFEPSGVGARNLAECLLLQLK 239 Query: 205 QFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSI 264 + HLD LA DFR L RV +L E+ L AV +I LDP+PG + Sbjct: 240 A----DRMAVAPYTSLLAHLDDLARRDFRKLSRVLKLSEEDLASAVAVIHGLDPKPGLAY 295 Query: 265 QTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQ 324 + + YV+PDV VRK NG W VE+N ++ PRL+IN+HY + + D +F+ + + Sbjct: 296 GSDQTSYVVPDVYVRKQNGKWVVEINPETQPRLRINRHYQDQISRYASADDKRFMTESAR 355 Query: 325 DAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRV 384 +A+WLIKSLE R+ T+ RV+ IV Q+ F ++G EY+KP++L D+A + +HEST SRV Sbjct: 356 NAQWLIKSLEQRSSTIYRVAESIVRFQEDFLDKGPEYLKPLILKDVADDIGVHESTTSRV 415 Query: 385 TTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTS 444 T+ KY+H+PRGIFELKYFFSS + ++ G SS A++ ++KL+ +E +P SD KL Sbjct: 416 TSNKYMHTPRGIFELKYFFSSSLTSQSGESHSSEAVKFKIRKLVESEPLRRPFSDEKLAK 475 Query: 445 LLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 +L EQGI VARRTVAKYRE+L+IP S++RKQL Sbjct: 476 MLKEQGINVARRTVAKYREALNIPSSSRRKQL 507 >UniRef50_B5EEZ6 RNA polymerase, sigma 54 subunit, RpoN n=3 Tax=Geobacter RepID=B5EEZ6_GEOBB Length = 515 Score = 514 bits (1323), Expect = e-144, Method: Composition-based stats. Identities = 186/514 (36%), Positives = 295/514 (57%), Gaps = 44/514 (8%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M+Q Q+++SQQL MTPQLQQAI+LLQLS LELQ ++Q LE NP+L+++ EEI E Sbjct: 5 MRQ--QMKMSQQLVMTPQLQQAIKLLQLSRLELQDVVRQELEENPILDEVIEQEEIREPE 62 Query: 61 TQDSETLDTADALEQKEMPE----ELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGET 116 + + + E E +A WD+ S Y D++ P ++ Sbjct: 63 QIELREKEAEPEAAASDFQEVRAGEETREADWDSYIDGYNYSSGEQYYDDEDRPSFENLL 122 Query: 117 TQ--TLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILES---------- 164 T+ TL D+LMWQ+ LT ++ + + I+ +DE GYL LED+ + Sbjct: 123 TKKSTLFDHLMWQLSLTRLTEREIVVGAEIIGNIDEEGYLRASLEDVASACVQVAPFQEE 182 Query: 165 ------IGDEEIDID---------------EVEAVLKRIQRFDPVGVAAKDLRDCLLIQL 203 +G + + + V++VLKRI FDPVGV A+DLR+CLLIQ+ Sbjct: 183 MLEWSGLGSDACEEEIADAAGGFSTAVLVPLVDSVLKRIHEFDPVGVGARDLRECLLIQV 242 Query: 204 SQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQS 263 +E ++ DHL L +H ++ +V ++ + + A +I LDP+PG+ Sbjct: 243 GSLGMGGSLVES---LLRDHLKDLESHKYKQAAKVLGVEVNDILAATRIIAELDPKPGRV 299 Query: 264 IQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNAR--NDGDSQFIRS 321 + + +Y+ D+ V K + V LN + +P L+IN YA ++R + +I Sbjct: 300 FGSDDVQYISADIFVHKVGEEYVVMLNDEGMPNLRINPIYAPDAKSSRPVDKVAEDYIGE 359 Query: 322 NLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTI 381 ++ A WLIKS++ R T+ +V++ IV+ Q+ F ++G E+++P+VL DIA+ + MHESTI Sbjct: 360 KMRSALWLIKSIQQRQRTIFKVAKSIVKFQREFLDRGIEHLRPLVLRDIAEDIGMHESTI 419 Query: 382 SRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSK 441 SRVTT KY+ +P+G+FELKYFF+S ++T G +S ++++ +K+L+ E+ +P SD + Sbjct: 420 SRVTTNKYMQTPQGLFELKYFFNSGISTGEGDFIASESVKSKIKELVDNEDSKRPYSDQR 479 Query: 442 LTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 L LLS+ I++ARRTV KYRE L I S++RK+ Sbjct: 480 LAELLSDHNIVIARRTVTKYREMLRIGSSSERKK 513 >UniRef50_A9HW09 RNA polymerase sigma-54 factor n=8 Tax=Betaproteobacteria RepID=A9HW09_BORPD Length = 479 Score = 513 bits (1321), Expect = e-144, Method: Composition-based stats. Identities = 202/482 (41%), Positives = 295/482 (61%), Gaps = 25/482 (5%) Query: 2 KQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRET 61 + L+LR Q L +TPQLQQ+IRLLQLSTL+LQ E+ QAL NP+LE+ D E + Sbjct: 9 RPALELRTGQHLTLTPQLQQSIRLLQLSTLDLQAEISQALADNPMLERNDERSEAEVDAP 68 Query: 62 QDSE-TLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 + E +D A E + +E+P G G Y DD + TL Sbjct: 69 TEREADIDAEPAREAETRIDEMP---------------GAGGVYPDDRPDGPDTARSDTL 113 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDE-EIDIDEVEAVL 179 +++L+ Q+ LT D A+ + ++D +DE GYL PLE+ILE + E E D+DE+ A L Sbjct: 114 REHLLAQLGLTRAGRRDAALVSLLIDELDENGYLASPLEEILEWLPPEAEADLDELRAAL 173 Query: 180 KRIQRFDPVGVAAKDLRDCLLIQLSQFDK-------TTPWLEEARLIISDHLDLLANHDF 232 +Q FDP G+ A+D+ +CL++QL D L AR + +DHL LLA + Sbjct: 174 CLLQSFDPPGIGARDMAECLVLQLRNPDPSRLPEAADPTVLACARRLCADHLPLLAGGNA 233 Query: 233 RTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSD 292 L + + + A LI+ LDPRPG++ +Y +PDV+VRK W LNS Sbjct: 234 ARLRDALQCDDATARAAHALIRRLDPRPGRAWTVPAADYAVPDVIVRKTRQGWQAVLNSA 293 Query: 293 SIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQ 352 ++PRLQ+N YA + N R + + + LQ A+W+I+++E R DT+LRV++ IV Q Sbjct: 294 AVPRLQVNTLYAQLLGNQR-EASHAGLHAQLQQARWMIRNVEQRFDTILRVAQAIVAHQS 352 Query: 353 AFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGG 412 AFF +G M+P++L DIA + +HESTISR TTQKY+ +P G ELK+FF S V T+ G Sbjct: 353 AFFSEGPAAMRPLILKDIAGELGLHESTISRATTQKYMLTPFGTLELKHFFGSGVATDAG 412 Query: 413 GEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQ 472 AS+TA++A++++++A E+ AKPLSD+++T L++QGI++ARRTVAKYRE+L I P++ Sbjct: 413 DVASATAVQAVIRQMVAGEDRAKPLSDNQITQRLADQGIVIARRTVAKYREALRIAPASL 472 Query: 473 RK 474 RK Sbjct: 473 RK 474 >UniRef50_B0K876 RNA polymerase, sigma 54 subunit, RpoN n=9 Tax=Thermoanaerobacterales RepID=B0K876_THEP3 Length = 454 Score = 510 bits (1313), Expect = e-143, Method: Composition-based stats. Identities = 172/477 (36%), Positives = 278/477 (58%), Gaps = 26/477 (5%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M+ L+L+ +Q+L MTP+L+QAI +LQL++LEL ++Q LE+NPLLE+ + EE Sbjct: 3 MEFDLKLQQTQKLIMTPELKQAIEILQLNSLELNALIEQELETNPLLEKEEVIEEDIYES 62 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 +E E++ ++ + + Y T +L Sbjct: 63 NDFTELAKYIRETEERMYYDDSDDEEIEEVNYENF------------------VSTKPSL 104 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 D+L++Q+ +TP S + I I+ ++ +GYL ++DI E + E +EV L Sbjct: 105 TDHLLFQLHITPVSPKIQKICEYIIFSLSPSGYLREDIKDIAEIL---ECTEEEVLEGLS 161 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 +Q FDP G+AA++L++CL +QL D ++E ++ HL+ +A + L ++ Sbjct: 162 IVQSFDPPGIAARNLQECLKLQLLAQDSYKGIVKE---LVDYHLEEIAEGKYSYLAKLYN 218 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTG-EPEYVIPDVLVRKHNGHWTVELNSDSIPRLQI 299 + +++AV+ I+ L+P+PG S + + Y++PDV V K G + V +N P+L+I Sbjct: 219 ISLKEVQQAVDFIKKLNPKPGSSFSSTADVRYIVPDVEVIKREGEYFVIVNDSVTPKLKI 278 Query: 300 NQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE 359 N +Y S+ N+ ++ ++I S LQ A WLIKSLESR +TL +V + IVE Q+ F ++G Sbjct: 279 NNYYHSILNSH-DEEAKKYINSKLQSAMWLIKSLESRKETLYKVVKAIVELQRDFLDKGI 337 Query: 360 EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTA 419 Y+KPM IA V +HEST+SR KY+ +PRG+FELK+FF S ++ + G E S+ Sbjct: 338 NYLKPMTQKQIADIVGIHESTVSRAINGKYVATPRGLFELKFFFQSGISNKNGNEFSAET 397 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 I+ L+KKLI E+P PLSD K+ +L E+ I ++RRTVAKYRE +IP + +R++ Sbjct: 398 IKNLIKKLIEEEDPTNPLSDQKIADILKEKNINISRRTVAKYREECNIPSTIKRRRY 454 >UniRef50_Q0ATI6 RNA polymerase, sigma 54 subunit, RpoN n=2 Tax=Alphaproteobacteria RepID=Q0ATI6_MARMM Length = 504 Score = 509 bits (1311), Expect = e-143, Method: Composition-based stats. Identities = 187/504 (37%), Positives = 281/504 (55%), Gaps = 34/504 (6%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDT-R 59 + Q L +R Q L MTPQLQQAI+LLQLS +EL + ++ LE NPLLE+ D+ E ++ R Sbjct: 4 LMQKLDMRQGQSLVMTPQLQQAIKLLQLSNIELAEFVEGELERNPLLERDDSGESAESQR 63 Query: 60 ETQDSETLDTADALEQKEMPEELPLDAS---WDTIYTA--------------------GT 96 E E + A + + + D D + T Sbjct: 64 EEGQGEPRELELAAPSADANDSIDADVDMMHGDDSKSDLSGVDGVESGAAMGAGSVSGHT 123 Query: 97 PSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTV 156 G+ G +D + +L D+L Q+ + DR I ++D D+ GY+ Sbjct: 124 SGGSRGPASEDYDAIANSSRDISLADHLHEQLSMATGDPVDRLIGAHLIDLADDDGYMRS 183 Query: 157 PLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEA 216 L++I +G E VEAVL Q FDP GV A+DL +CL +QL D+ P A Sbjct: 184 DLDEISAQLGVERA---RVEAVLDLTQTFDPAGVMARDLPECLALQLKDKDRLDP----A 236 Query: 217 RLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDV 276 + D+L+ LA HD+ L + + + L E ++ I++L P+PG + + V PDV Sbjct: 237 MATLLDNLERLAKHDYVALKSLCGVDSEDLDEMISEIRALTPKPGHAFGSDSTRAVEPDV 296 Query: 277 LVRKH-NGHWTVELNSDSIPRLQINQHYASMCNN-ARNDGDSQFIRSNLQDAKWLIKSLE 334 +R+ +G W VELNS+++PR+ +N Y + + A+++ D FI Q+A WL+KSL+ Sbjct: 297 FIRQSPDGSWQVELNSETLPRVLVNNSYFNEISAVAKSETDKTFITECSQNASWLVKSLD 356 Query: 335 SRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPR 394 R T+L+V+ IV QQ F G Y++P+ L +A A+ MHEST+SRVT+ KY+ + R Sbjct: 357 QRARTILKVASEIVRQQDMFLAHGVAYLRPLNLKTVADAIGMHESTVSRVTSNKYVATAR 416 Query: 395 GIFELKYFFSSHVNTEGGGEA-SSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMV 453 G+FELKYFF+S + + GGGEA S+ A+R +K +I E+ LSD L L ++GI + Sbjct: 417 GMFELKYFFTSAIPSAGGGEAHSAEAVRHRIKLMIGQESADGVLSDDSLVEQLRDEGIEI 476 Query: 454 ARRTVAKYRESLSIPPSNQRKQLV 477 ARRTVAKYRE+L+IP S QR++++ Sbjct: 477 ARRTVAKYREALNIPSSVQRRRML 500 >UniRef50_D0STY4 RNA polymerase sigma-54 factor n=1 Tax=Acinetobacter lwoffii SH145 RepID=D0STY4_ACILW Length = 483 Score = 507 bits (1307), Expect = e-142, Method: Composition-based stats. Identities = 225/487 (46%), Positives = 327/487 (67%), Gaps = 14/487 (2%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M+ + ++++ L++TPQLQQAIRLLQLS+LEL+QE+Q L+SNPLLE+++ +++ Sbjct: 1 MRLSVGIKIANSLSLTPQLQQAIRLLQLSSLELEQEVQLQLDSNPLLEKVEEQITLESLS 60 Query: 61 T--QDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQ 118 T ++E D + L +P++LP+D WD +YT S + ++ + E + Q Sbjct: 61 TIESNNENHDLTNELNADHLPDDLPVDTDWDDVYTHQPTSLGAAEFEERED---NRQGHQ 117 Query: 119 TLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESI--------GDEEI 170 +LQ+Y++ Q+ L FS D+ IA IVD++D+ G+L L +I S+ +EEI Sbjct: 118 SLQEYMLEQINLLNFSQVDKLIAYCIVDSLDDKGFLDAELSEITASVQHLLSSMGSEEEI 177 Query: 171 DIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANH 230 + DEV VLK IQR DPVGV ++ L +CLL+QL +T +A ++ H +LL + Sbjct: 178 EDDEVAVVLKHIQRLDPVGVGSRSLAECLLVQLDNLPTSTSCRNDAIKLLQ-HYELLITN 236 Query: 231 DFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELN 290 + L++ T L + L+ AV+L+++L P PG + E +Y +PDV+V K N W V LN Sbjct: 237 ELPKLIKQTGLNPEQLRCAVDLLKTLKPHPGLEFENKESDYQVPDVVVMKKNNCWQVNLN 296 Query: 291 SDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQ 350 SD +P+L++N YA M A D+Q++R+ + +AK IKS++ R+ TLL+V+ CIVE Sbjct: 297 SDVLPKLRVNSFYAKMIRRADQSDDNQYLRNQMLEAKNFIKSIDERHKTLLKVATCIVEH 356 Query: 351 QQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTE 410 Q+ F E G E MKP+VL DIA+ VE+HEST+SRVTT KY+ +PRG+FELKYFFSSHV T Sbjct: 357 QKMFLEIGAEGMKPLVLRDIAEEVELHESTVSRVTTNKYMLTPRGLFELKYFFSSHVGTT 416 Query: 411 GGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPS 470 GGEASSTAIRA +KKLI+ EN KPLSD+ + ++L ++GI VARRTVAKYRESL IP S Sbjct: 417 SGGEASSTAIRAKIKKLISEENARKPLSDNAIANMLKDEGIDVARRTVAKYRESLHIPSS 476 Query: 471 NQRKQLV 477 ++RK L+ Sbjct: 477 SERKVLI 483 >UniRef50_Q6FED3 RNA polymerase sigma-54 factor n=4 Tax=Acinetobacter RepID=Q6FED3_ACIAD Length = 482 Score = 507 bits (1307), Expect = e-142, Method: Composition-based stats. Identities = 225/486 (46%), Positives = 326/486 (67%), Gaps = 13/486 (2%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDT-R 59 MK + L+++ L++TPQLQQAIRLLQLS+LEL+QE+Q L+SNPLLE+I+ ++ Sbjct: 1 MKLSVGLKVANSLSLTPQLQQAIRLLQLSSLELEQEIQIQLDSNPLLEKIEDEGTAESLT 60 Query: 60 ETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQT 119 ++ E+ D L +P +LP+D WD +YT + + S +Y + E + T Sbjct: 61 HLENKESRDLTQDLNADHLPNDLPVDTDWDDVYTHQSTALASPEYEERED---NRQAEHT 117 Query: 120 LQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLED--------ILESIGDEEID 171 L+++++ QV L FS DR IA +VD +DE G+L +E+ + E+ +EEI+ Sbjct: 118 LKEHILAQVNLLHFSTVDRLIAYCVVDCLDEKGFLDAEIEEIIEAAQYLLSEAGLEEEIE 177 Query: 172 IDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHD 231 DEV VLK IQR DPVGV +K+L +CL +QL D TP EA ++ + +LL ++D Sbjct: 178 ADEVMVVLKHIQRLDPVGVGSKNLAECLKVQLDVLDVFTPLRNEALSLLK-YYELLVSND 236 Query: 232 FRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNS 291 L++ T L +KEA+ L+++L P PG + + +Y +PDV+V K + W V+LN Sbjct: 237 LNKLLKSTNLTMLQVKEAIELLKTLKPYPGLDFEAQDSDYQVPDVVVTKKDQSWQVQLNP 296 Query: 292 DSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQ 351 D +P+L+IN Y++M A + ++R+ + +AK IKS++ R+ TLL+V+ CIVE Q Sbjct: 297 DIMPKLRINSFYSNMIRRADQSDGNMYLRNQMLEAKNFIKSIDERHKTLLKVATCIVEHQ 356 Query: 352 QAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEG 411 + FFE G E MKP+VL D+A+ VE+HEST+SRVTT KY+ +PRG+FELKYFFSSHV T Sbjct: 357 RNFFEIGPEGMKPLVLRDVAEEVELHESTVSRVTTNKYMLTPRGLFELKYFFSSHVGTTS 416 Query: 412 GGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSN 471 GGE SSTAIRA +KK+I+AENP KPLSD+ + ++L ++GI VARRTVAKYRESL IP S+ Sbjct: 417 GGECSSTAIRARIKKMISAENPRKPLSDNIIANMLKDEGIDVARRTVAKYRESLHIPSSS 476 Query: 472 QRKQLV 477 +RK L+ Sbjct: 477 ERKVLI 482 >UniRef50_P30333 RNA polymerase sigma-54 factor 2 n=48 Tax=Alphaproteobacteria RepID=RP55_BRAJA Length = 537 Score = 507 bits (1306), Expect = e-142, Method: Composition-based stats. Identities = 184/518 (35%), Positives = 273/518 (52%), Gaps = 50/518 (9%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 + Q L+ R SQ L MTPQL QAI+LLQLS L+L +++ LE NPLLE+ + Sbjct: 3 LTQRLEFRQSQSLVMTPQLMQAIKLLQLSNLDLTTFVEEELERNPLLERANDEASGGEAP 62 Query: 61 TQDSETLDTADALEQK----------------------------------------EMPE 80 + + D+ + E P Sbjct: 63 AEAGQFSDSDGGHNDEPGGGPGEAFEPGQEEWMSKDLGTRAEIEQTLDTGLDNVFSEEPA 122 Query: 81 ELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAI 140 E + D T T G +D TL D+L Q+ + + R I Sbjct: 123 EAAARNAQDAAPTTYTEWGGGASGDEDYNLEAFVAAEVTLGDHLAEQLSVAFTAPAQRMI 182 Query: 141 ATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLL 200 ++D VDE GYL L E +G + EVE VL +Q+FDP GV A++L +CL Sbjct: 183 GQYLIDLVDEAGYLPPDLGQAAERLGASQ---QEVEDVLAVLQKFDPPGVCARNLSECLA 239 Query: 201 IQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRP 260 IQL + D+ P ++ + +HLDLLA D L +V + ++ + + + I+ L+P+P Sbjct: 240 IQLRELDRYDPAMQA----LVEHLDLLAKRDIAGLRKVCGVDDEDIADMIGEIRRLNPKP 295 Query: 261 GQSIQTGEPEYVIPDVLVRKH-NGHWTVELNSDSIPRLQINQ-HYASMCNNARNDGDSQF 318 G + ++PDV VR +G W VELNSD++PR+ +NQ +Y+ + DGD + Sbjct: 296 GMKFGAARLQTMVPDVYVRPGPDGGWHVELNSDTLPRVLVNQTYYSELSKKIGKDGDKSY 355 Query: 319 IRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHE 378 LQ+A WL+++L+ R T+L+V+ IV QQ FF G +++P+ L +A A++MHE Sbjct: 356 FTDALQNATWLVRALDQRARTILKVATEIVRQQDGFFTHGVAHLRPLNLKAVADAIQMHE 415 Query: 379 STISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEA-SSTAIRALVKKLIAAENPAKPL 437 ST+SRVT KY+ + RG FELKYFF++ + + GGEA S+ A+R +K+LI +E PA L Sbjct: 416 STVSRVTANKYMATNRGTFELKYFFTASIASADGGEAHSAEAVRHHIKQLIDSEAPAAIL 475 Query: 438 SDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 SD + L GI +ARRTVAKYRE++ IP S QR++ Sbjct: 476 SDDTIVERLRASGIDIARRTVAKYREAMRIPSSVQRRR 513 >UniRef50_A6TU36 RNA polymerase, sigma 54 subunit, RpoN n=2 Tax=Alkaliphilus RepID=A6TU36_ALKMQ Length = 462 Score = 506 bits (1303), Expect = e-142, Method: Composition-based stats. Identities = 171/482 (35%), Positives = 271/482 (56%), Gaps = 28/482 (5%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M LQL SQ+L MTPQL+QAI++LQ T+EL Q +Q +E NP+LE + E Sbjct: 3 MGYNLQLEQSQKLIMTPQLKQAIQILQFPTIELDQYIQDQIEKNPVLELSNEKEP----- 57 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQT- 119 E + E+ + W G S Y + + E + Sbjct: 58 -----------GRELDKGIEDKKKEVDWKEYIKDMQNHGYSKGYAHSDENEFNYENIISS 106 Query: 120 ---LQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVE 176 LQ++L++Q +T I I+ +DE GYLT+ +E+I + + + I+ VE Sbjct: 107 DVNLQEHLLFQFHVTLLDREYNEIGEYIICNLDENGYLTLSIEEIAKDL---RVGINLVE 163 Query: 177 AVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLM 236 VL IQ F+P GVAA++L +CL +QL+ + I+ +L+L+A++ + + Sbjct: 164 DVLHIIQTFEPPGVAARNLTECLTLQLNSLAIED---QRVYDIVEKYLELMASNKYPVIA 220 Query: 237 RVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPR 296 + ++ + ++E + I++L+P+PG+ T E YVIPDV+V+K + + + +N S PR Sbjct: 221 KKMKISVNKVQEICDFIRTLEPKPGREFATNESSYVIPDVVVKKIDDEYVIIVNDYSAPR 280 Query: 297 LQINQHYASMC-NNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFF 355 L I Q Y + N N +F+ A WLIKS+E R +T+ RV I+ +Q++FF Sbjct: 281 LTIRQDYQKLMTNECENSETVKFLNDKFNAAAWLIKSIEQRRNTIYRVVESIMSKQRSFF 340 Query: 356 EQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSS-HVNTEGGGE 414 E G+++++PM L +IA+ +++HEST+SR T KY+ +P GIFELKYFF+S G Sbjct: 341 EHGKKHLRPMTLKEIAEEIDVHESTVSRATNGKYVETPIGIFELKYFFTSGVGGDVGVEG 400 Query: 415 ASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRK 474 SS I+A + ++I ENP KPLSD K+ L+ + + ++RRTVAKYR+ L IP S++RK Sbjct: 401 TSSKTIKAFISEIIQKENPKKPLSDDKIVKELATRAMHLSRRTVAKYRDDLRIPSSSKRK 460 Query: 475 QL 476 + Sbjct: 461 RY 462 >UniRef50_B8DJR2 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Desulfovibrio vulgaris str. 'Miyazaki F' RepID=B8DJR2_DESVM Length = 477 Score = 504 bits (1299), Expect = e-141, Method: Composition-based stats. Identities = 185/484 (38%), Positives = 282/484 (58%), Gaps = 16/484 (3%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 ++ QL+L+QQL MTPQLQQAIRLLQLS LEL + +QQ + NP LE+ Sbjct: 3 LELRQQLKLTQQLVMTPQLQQAIRLLQLSRLELVETVQQEMLENPFLEEAQDEGPQVETP 62 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETT--- 117 AD +E+ DA W+ + + E+P Sbjct: 63 DPREAATAAADVAYDREIA----RDADWEDYLGDFASTSRQSTVRETEMPEEMTSFEARY 118 Query: 118 ---QTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDE 174 +L+ +LMWQ+ L+ ++ + I I+ + +GYL ++DI E G + E Sbjct: 119 AAKPSLEGHLMWQLRLSSLTERQKDIGEVIIGNIASSGYLHATVDDIAEMAG---VTPGE 175 Query: 175 VEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRT 234 VE+VL +QRFDPVGV+A+ ++CLL+Q+ T + ++ DHL+ L ++ Sbjct: 176 VESVLHAVQRFDPVGVSARTAQECLLVQIEMLGYTRD--KVLVELVRDHLEDLEKRRYKP 233 Query: 235 LMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSI 294 L+R RL + LKE ++LIQ+LDP PG S G+P++V PDV V K++ + + LN D + Sbjct: 234 LLRKFRLTMEDLKEYLDLIQTLDPMPGASYGGGDPQFVSPDVYVYKYDDDFIIMLNEDGL 293 Query: 295 PRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAF 354 P LQ++ Y A + G+ ++ + ++ A WLIKSL R TL +V IV+ Q+ F Sbjct: 294 PHLQLSTMYERSAAAAASAGEREYFQEKMRSASWLIKSLYQRQRTLYKVVESIVKYQRGF 353 Query: 355 FEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGE 414 FE G +KP++L DIA + MHEST+SR+TT KY+ +P GI ELK+FF+S + + G + Sbjct: 354 FEDGVSRLKPLILKDIADDIGMHESTVSRITTSKYVATPHGIMELKFFFNSALELDDGSQ 413 Query: 415 ASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQ-GIMVARRTVAKYRESLSIPPSNQR 473 S +++AL+KKLIA E+P +PLSD ++ +L +Q + +ARRTVAKYR ++ IP S++R Sbjct: 414 VGSESVKALIKKLIADEDPREPLSDERIGEILKDQLKVNIARRTVAKYRTAMDIPSSSKR 473 Query: 474 KQLV 477 K+L Sbjct: 474 KELF 477 >UniRef50_Q0ADR2 RNA polymerase, sigma 54 subunit, RpoN n=3 Tax=Betaproteobacteria RepID=Q0ADR2_NITEC Length = 487 Score = 503 bits (1296), Expect = e-141, Method: Composition-based stats. Identities = 197/486 (40%), Positives = 299/486 (61%), Gaps = 13/486 (2%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHE------ 54 MK LQL+LS L +TPQL+Q+I+LLQLS LEL QE+ + ++ NPLLE + + Sbjct: 1 MKPTLQLKLSTGLTLTPQLKQSIQLLQLSALELNQEISRIVQENPLLELDEDIDQEKLET 60 Query: 55 EIDTRETQDSETLDTADALEQKEMPEELPLDASW--DTIYTAGTPSGTSGDYIDDELP-- 110 E S+ TA+A E ++ E + W D++Y+ + D+E Sbjct: 61 EGQDSSLVSSDLSTTAEANESHDIRENTEISNDWLDDSLYSDQGAFLDTRRQDDEEYDQD 120 Query: 111 -VYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDE- 168 +L+++L+ Q+ L + + I +VD++D+ GY T LE++ + + E Sbjct: 121 YSRLVSKPASLREHLLMQISLRQRCERKKKITALLVDSLDDNGYFTQDLEELAKLLPVEL 180 Query: 169 EIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLA 228 EIDI ++++ L IQ+ DP GV A++LR+CL IQLS TP EA ++++HL+ +A Sbjct: 181 EIDITDLKSALAYIQQLDPPGVGARNLRECLSIQLSALPDATPLRTEALKLVNEHLESVA 240 Query: 229 NHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVE 288 +F L +V E L+ LI L+P+PG YVIPDV+V K W + Sbjct: 241 AKNFPLLRKVLGCDETCLQSVYQLITQLNPKPGDDFNATTARYVIPDVIVTKSAKGWVAQ 300 Query: 289 LNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIV 348 LNSDS+PR+++N YA + RN+ + L++A+WLI++++ R T+LR S+ I+ Sbjct: 301 LNSDSVPRVRVNHLYADILKQNRNEAIRPLM-EQLKEARWLIRNIDQRMVTILRASQAII 359 Query: 349 EQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVN 408 + QQAF E GE ++P+V+ +IA+ + +HESTISR+TTQKY+ +P GIFELKYFF SH+ Sbjct: 360 DCQQAFLEHGETAVRPLVMREIAEVLGLHESTISRITTQKYMRTPHGIFELKYFFGSHIP 419 Query: 409 TEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIP 468 E G S+ AIR L+K+LI E+ KPL+DS+++ +L++QGI+VARRTVAKYRE + IP Sbjct: 420 AETGEAHSAIAIRGLIKQLIQNEDRKKPLNDSQVSQILAQQGIVVARRTVAKYREFMHIP 479 Query: 469 PSNQRK 474 P+N RK Sbjct: 480 PTNLRK 485 >UniRef50_C0G3T2 RNA polymerase sigma-54 factor n=7 Tax=Alphaproteobacteria RepID=C0G3T2_9RHIZ Length = 521 Score = 502 bits (1294), Expect = e-141, Method: Composition-based stats. Identities = 176/496 (35%), Positives = 280/496 (56%), Gaps = 28/496 (5%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTH------E 54 + L +R SQ L MTPQL Q+I+LLQ++ +EL Q L +E NPLL++I+ Sbjct: 24 LSPKLDIRQSQSLVMTPQLMQSIKLLQMTHIELDQFLDMEIEKNPLLDRIEADSDDLAGG 83 Query: 55 EIDTRETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQG 114 E + +E+ D D + + L A++D P +L +G Sbjct: 84 EPASGADDPTESADNDDWFQTEGAGAAENLSATFDNSLENIFPDDLGSSQEQWKLSAGEG 143 Query: 115 ETTQ-------------TLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDI 161 + +L DY+ Q+ L DR IAT++ DA+DE+GYL + + + Sbjct: 144 AFSGNGYDIDQVTAGRLSLSDYVAEQIVLGFSKAADRFIATALADALDESGYLRIDIVGL 203 Query: 162 LESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIIS 221 ++G I+ E+ +L +Q FDP G+ A+DLR+CL IQL D+ P +E Sbjct: 204 AHNLG---IETAEIGRILGVLQGFDPPGLFARDLRECLAIQLRLKDRFDPAMEALIA--- 257 Query: 222 DHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRK- 280 +LDLLA DF TL ++ + + L + + I++LDP+PG + + ++PDVLV Sbjct: 258 -NLDLLARRDFATLQKICGVDQADLIDMLAEIRALDPKPGARFEVSVADTIVPDVLVFSA 316 Query: 281 HNGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTL 340 +G W +ELN ++PRL +N Y + + + + F+ +Q A WL++SL+ R T+ Sbjct: 317 RDGGWAIELNPATMPRLIVNNEYYAEVSGSVKTEEKAFLTDCMQTAGWLVRSLDQRARTI 376 Query: 341 LRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELK 400 L+V++ IV QQ F G ++KP+ L +A AV MHESTISRVT K++ +PRG+FEL+ Sbjct: 377 LKVAQEIVRQQDGFLRHGVAHLKPLNLRMVADAVGMHESTISRVTANKFMATPRGVFELR 436 Query: 401 YFFSSHV-NTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVA 459 YFF++ + ++EGG SS ++R ++++I AE P + LSD + L + G+ +ARRTVA Sbjct: 437 YFFTASLASSEGGEAHSSESVRHRIRQMIEAEKPDEVLSDDAIVDALKKDGVDIARRTVA 496 Query: 460 KYRESLSIPPSNQRKQ 475 KYRE+++I S QR++ Sbjct: 497 KYREAMNIASSVQRRR 512 >UniRef50_Q03408 RNA polymerase sigma-54 factor n=8 Tax=Alphaproteobacteria RepID=RP54_CAUCR Length = 497 Score = 500 bits (1289), Expect = e-140, Method: Composition-based stats. Identities = 186/498 (37%), Positives = 286/498 (57%), Gaps = 28/498 (5%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQID-THEEIDTR 59 + L+LR Q L +TPQLQQAI+LLQLS +EL ++ LE NPLL++ + HE Sbjct: 3 LSHRLELRQGQGLVITPQLQQAIKLLQLSNIELDAFVEAELERNPLLQRDEGDHEPAVEV 62 Query: 60 ETQDSETLDTADALEQKEMPEELPL----------------DASWDTIYTAGTPSGTSGD 103 E + +L DA+ EL DA + +G G Sbjct: 63 EAERDASLTQVDAVADTTAGRELDTPVDDVSPGERATGEGTDAEHAGGQIDWSRAGGGGS 122 Query: 104 YIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILE 163 + DE + TL +L Q+ S AIA ++DAVDE GYL + + ++ + Sbjct: 123 FESDEGYERALTDSPTLAAHLRTQLVQAALSPAHNAIAEILIDAVDEGGYLRLDIVELAD 182 Query: 164 SIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDH 223 +G + VE L +Q F+PVGV A+D+R+CL +QL ++ P A + DH Sbjct: 183 RLG---CALALVEETLSVLQGFEPVGVFARDVRECLALQLKDLNRYDP----AMAAMLDH 235 Query: 224 LDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKH-N 282 L+LLA D L R+ + ++ L+E + I+SL+PRPG + + E ++PDV+VR+ Sbjct: 236 LELLAKRDMAGLRRICGVDDEDLREMIGEIRSLNPRPGAAYHSEPAETLVPDVMVREGLG 295 Query: 283 GHWTVELNSDSIPRLQINQHY-ASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLL 341 G W VELN+D++PR+ ++Q Y A + AR+D + F+ + A WL+KSL+ R T+L Sbjct: 296 GMWHVELNTDTLPRVLVDQRYHARVSKGARSDQEKTFVADCMASANWLVKSLDQRAKTIL 355 Query: 342 RVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKY 401 +V+ IV QQ F G E+++P+ L +A A+ MHEST+SRVT+ KY+ +PRG+FELK+ Sbjct: 356 KVASEIVRQQDGFLAFGVEHLRPLNLKTVADAIGMHESTVSRVTSNKYIATPRGVFELKF 415 Query: 402 FFSSHV-NTEGGGEASSTAIRALVKKLIAAEN-PAKPLSDSKLTSLLSEQGIMVARRTVA 459 FF+S + ++EGG S+ ++R +K L+ AE A SD ++ +L G+ +ARRTVA Sbjct: 416 FFTSAIQSSEGGEAHSAASVRHKIKGLVDAEKCEADVHSDDRIVEILKAAGVDIARRTVA 475 Query: 460 KYRESLSIPPSNQRKQLV 477 KYRE++ IP S +R++L+ Sbjct: 476 KYREAMRIPSSVERRRLM 493 >UniRef50_B3Q2R5 RNA polymerase sigma factor protein (Sigma-54) n=7 Tax=Rhizobiales RepID=B3Q2R5_RHIE6 Length = 483 Score = 498 bits (1284), Expect = e-139, Method: Composition-based stats. Identities = 185/484 (38%), Positives = 276/484 (57%), Gaps = 21/484 (4%) Query: 1 MK--QGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEE--- 55 MK L R Q L +TPQL +IRLLQL+ EL Q ++Q +E NP L+ Sbjct: 1 MKSFTSLHQRQQQSLVITPQLIASIRLLQLAHTELNQFVEQEIEKNPFLDLASNDGGASG 60 Query: 56 IDTRETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGE 115 + D D ++ + L + W +I G S +D+ Sbjct: 61 VSPTAADDPNISAREDHVDGPARTDMPELSSPWKSIRDTGNLSPGERPSLDEF-----AA 115 Query: 116 TTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEV 175 +T+TL +++ Q+ LT F+ +R IA ++ D +D+TGYL V L ++ E + E V Sbjct: 116 STETLHEHVAHQIALTAFTPQERLIAGALADHLDDTGYLQVNLLELAERLNSPEAG---V 172 Query: 176 EAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTL 235 + VL+ +Q FDP G+ A+ L +CL IQL Q D+ P A + +L+LLA DFR L Sbjct: 173 KRVLEALQLFDPPGIFARSLGECLEIQLRQRDRFDP----AMAALVANLELLARRDFRAL 228 Query: 236 MRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKH-NGHWTVELNSDSI 294 R R+ ED L + +N I++LDP+PG Q+ E +IPDV V G W VELN + + Sbjct: 229 KRRCRVDEDDLLDMLNEIRALDPKPGNQFQSARSESIIPDVFVLPSPGGGWHVELNREIL 288 Query: 295 PRLQINQHYASMCNN--ARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQ 352 P++ INQ Y + A++ D F+ Q A WL++SL+ R T+L+V+ IV Q Sbjct: 289 PKVLINQTYFAQVTRLTAQSSKDQSFLNECFQSASWLVRSLDQRATTILKVATEIVRHQD 348 Query: 353 AFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHV-NTEG 411 F E G +++P+ L IA A++MHEST+SRVT+ KY+ +PRG+FELKYFF+ + +++G Sbjct: 349 VFLEDGIAHLRPLNLKTIADAIDMHESTVSRVTSNKYILTPRGVFELKYFFTVAIPSSQG 408 Query: 412 GGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSN 471 G S+ A+R ++ LIAAE LSD + + L E G+ +ARRTVAKYRE+++IP S Sbjct: 409 GDAHSAEAVRHQIRALIAAETLHDVLSDDGIVAKLKETGVDIARRTVAKYREAMNIPSSA 468 Query: 472 QRKQ 475 QR++ Sbjct: 469 QRRR 472 >UniRef50_C0GFB1 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Dethiobacter alkaliphilus AHT 1 RepID=C0GFB1_9FIRM Length = 464 Score = 498 bits (1284), Expect = e-139, Method: Composition-based stats. Identities = 184/477 (38%), Positives = 286/477 (59%), Gaps = 16/477 (3%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M L+L +Q+L MTP+LQQAI LLQ S LELQ +Q L NP+LE ++ + + Sbjct: 3 MSYHLKLEQTQKLVMTPELQQAITLLQYSALELQTYVQNQLLENPVLEIDESEDTEKKTD 62 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 E + D+++ +E ++ ++ S T D Y TL Sbjct: 63 ESVEEPVQEKDSIDWEEYLKDEGME---------PMTSFTIRQNEDAPGFDYYLSNEPTL 113 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 Q++L++Q+ L + T++ I I+ +D+ GYL +++ IG E E+ VL+ Sbjct: 114 QEHLLFQLGLCSLTPTEKHIGEFIIGNLDQHGYLKGDFKELAMLIGAEP---REILGVLE 170 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 IQ+FDPVGV A+DL++CLL+Q+ + + P A+ I+ HL +A++ + + R Sbjct: 171 VIQKFDPVGVGARDLQECLLLQIQEHNSPHPL---AKPIVRTHLADVADNKIKKIASELR 227 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQT-GEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQI 299 ++ AV+ I++LDP+PG+ G+ YV+PDV+V K +G + V +N +IPRL + Sbjct: 228 AGATDVQAAVDFIRTLDPKPGRLAGDVGDVRYVVPDVVVEKVDGEYVVIVNEQNIPRLAV 287 Query: 300 NQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE 359 N +Y S+ S FI++ L A WL+KS+E R T+ RV+ CI Q+ FF+QG Sbjct: 288 NPYYRSLLGKDSESVTSTFIKTRLDSALWLLKSIEQRRITVYRVTECITRIQRDFFDQGI 347 Query: 360 EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTA 419 ++++PM L IA + +HEST+SR T+ K++ +PRG+F LK+FF+S V+ G SS + Sbjct: 348 KHLRPMTLRQIADEIGVHESTVSRATSNKFVQTPRGLFPLKFFFASGVDDYHGTAVSSES 407 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 I+ +K+LI AEN +PLSD KL LLS++GI+V+RRTVAKYRE +SIP SN+RK+L Sbjct: 408 IKCHLKELIEAENVQRPLSDQKLMELLSKRGIVVSRRTVAKYREEMSIPSSNKRKRL 464 >UniRef50_A3VRA5 DNA-directed RNA polymerase subunit N n=1 Tax=Parvularcula bermudensis HTCC2503 RepID=A3VRA5_9PROT Length = 481 Score = 498 bits (1283), Expect = e-139, Method: Composition-based stats. Identities = 184/486 (37%), Positives = 280/486 (57%), Gaps = 19/486 (3%) Query: 1 MKQG--LQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHE---- 54 MKQ L++R QQL MTPQLQQAI+LLQL+ LEL + +++ LE NP LE+ + + Sbjct: 1 MKQSPKLEIRQGQQLIMTPQLQQAIKLLQLTNLELAEFVEEQLEENPFLERDERADIGDA 60 Query: 55 EIDTRETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQG 114 + + ++D E D E ++ P +A SG + D V Sbjct: 61 DREPSASRDEEMARATDHFEAPTQADDTPGEAGAGDWSGVSGRSGIADGEFD---AVQNA 117 Query: 115 ETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDE 174 E L D+L Q+ L+ + + ++D +D+ GYL E I +G ID Sbjct: 118 EVQIGLHDHLTHQLHLSTTDEVTLLVGAHLIDLIDDGGYLREETEVIALRLG---IDRPF 174 Query: 175 VEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRT 234 VE L IQ FDP GV A+ L++CL +QL + L+E + D+LDLLA H Sbjct: 175 VEKTLSLIQTFDPSGVGARSLQECLRLQLRDLGE----LDERISLFIDNLDLLAAHKLPA 230 Query: 235 LMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRK-HNGHWTVELNSDS 293 L R R+ E+ LK + I+ LDP+PG + + VIPDV V + +G W VELN+++ Sbjct: 231 LRRAVRINEEELKALIATIRKLDPKPGLAFGGEAVQLVIPDVHVTEASDGGWKVELNAET 290 Query: 294 IPRLQINQHYASMCNNARN-DGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQ 352 +P++ N+ Y S ++A N F+ ++ A WL+KSL+ R T+LRV+ IV+ Q Sbjct: 291 LPKVIANERYFSRLSSADNGAETRSFLNEHMATANWLVKSLDQRARTILRVATEIVKYQD 350 Query: 353 AFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGG 412 F +G Y++P+ L IA+ +EMHEST+SRVT+ KY+ +PRG FE+KYFF+ ++++ G Sbjct: 351 EFLVRGIRYLRPLNLKTIAEKIEMHESTVSRVTSNKYISTPRGTFEMKYFFTPSISSKDG 410 Query: 413 G-EASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSN 471 S+ ++R +++LI AE+P PLSD +L +LL+ + +ARRTVAKYRE+L +P S Sbjct: 411 DVAYSAESVRHRIRELIEAEDPTNPLSDDRLVTLLAGEDFDIARRTVAKYREALGLPSSV 470 Query: 472 QRKQLV 477 +R++L Sbjct: 471 KRRRLA 476 >UniRef50_B2UH35 RNA polymerase, sigma 54 subunit, RpoN n=39 Tax=Burkholderiaceae RepID=B2UH35_RALPJ Length = 500 Score = 494 bits (1273), Expect = e-138, Method: Composition-based stats. Identities = 177/499 (35%), Positives = 264/499 (52%), Gaps = 25/499 (5%) Query: 2 KQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRET 61 K L++R Q LA+TP+LQQ+++LLQLS E QE+Q+AL SNP LE+++ T Sbjct: 3 KAALEMRAKQHLALTPRLQQSVKLLQLSATEFAQEMQEALASNPFLEEVEQEAGAQPDAT 62 Query: 62 QDSETLDTAD-------------------ALEQKEMPEELPLDASWDTIYTAGTPSGTSG 102 + ++ AD + P D T + G Sbjct: 63 RANDLPGPADLDGSGTDHTPSEALPLETTTSAIETDPALATADEFPADFGTYYSHGGAHH 122 Query: 103 DYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDIL 162 +D T +L+++L ++ S D + ++++A+D+ GYL L +++ Sbjct: 123 GDGEDSDIGEWVHATPSLREHLHQELRSYRLSQRDCLLGQTVIEALDDDGYLRQLLSELI 182 Query: 163 ESIGDEEIDID-EVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTP----WLEEAR 217 E + E++ L +Q DP GVAA+DL +CL +Q+ T E A Sbjct: 183 PLAPVEPPPTEKEMQIALALVQSLDPPGVAARDLSECLRLQIEARPADTEAEERIQEVAH 242 Query: 218 LIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVL 277 I+ HL LA +F + R ED L++A LI+ LDPRPG Y++PDV+ Sbjct: 243 DIVRSHLPRLAKREFTQMRRALGCTEDELRDACALIRMLDPRPGLRFSQAHAGYIVPDVI 302 Query: 278 VRKHNGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRN 337 V K G W N P +IN+ YA + R + LQ+A+WLI++ + R Sbjct: 303 VAKIRGKWIAVTNPAVAPCARINKVYAELFAQTRGYH-RTPLAHQLQEARWLIRNAQQRF 361 Query: 338 DTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIF 397 T+ RV+ IV Q+ F E GE MKP+VL D+A+ + +HESTISR T KY+ +PRGIF Sbjct: 362 ATIQRVAEAIVAHQKHFLEYGEVAMKPLVLRDVAEELGLHESTISRATGNKYMATPRGIF 421 Query: 398 ELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRT 457 E KYFFS + T+ GG S+ ++RAL+K++I AE+ PLSD L +L+EQG++VARRT Sbjct: 422 EFKYFFSRQLATDTGGACSAASVRALLKEMIEAEDADAPLSDVSLAKMLAEQGVIVARRT 481 Query: 458 VAKYRESLSIPPSNQRKQL 476 VAKYR + I P+ R+Q+ Sbjct: 482 VAKYRGLMRIAPAEMRRQV 500 >UniRef50_Q0BUA8 RNA polymerase sigma-54 factor rpoN n=1 Tax=Granulibacter bethesdensis CGDNIH1 RepID=Q0BUA8_GRABC Length = 537 Score = 494 bits (1273), Expect = e-138, Method: Composition-based stats. Identities = 187/516 (36%), Positives = 282/516 (54%), Gaps = 48/516 (9%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 + L LR SQ L MTPQL+QAI+LLQ + +E+ +++ LE NPLLE+ ++ E I R Sbjct: 23 IGPRLDLRQSQSLVMTPQLRQAIKLLQFNNMEVAAFIEEELERNPLLERDESTELIQERP 82 Query: 61 TQDS-----ETLDTADALEQKEM-PEELPLDASWDTIYT---------AGTPSGTSGDYI 105 D + LD+ADA M E PLD ++Y + P+G + Sbjct: 83 APDQTGPEPDFLDSADAASSDHMISEAGPLDVDPGSLYDEPGETASFLSSQPTGNHANSF 142 Query: 106 DD---ELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDIL 162 D+ ++ + E +L++ L Q+ L S DR I ++ +D G LT+P I Sbjct: 143 DNSPFDVISQRLEYRPSLREQLAEQLRLCFASPQDRLIGAHLIAQLDAAGRLTMPPAAIA 202 Query: 163 ESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISD 222 +++ + +E + ++ FDP G+ DL++CL QL F++ P A I+ + Sbjct: 203 KALN---CPLPHLENIRTAMRYFDPPGLFCLDLKECLTTQLQAFNRYDP----AMAILLE 255 Query: 223 HLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHN 282 HLDLLA + R LM + + + L ++ I+ +P+PG + P+ +IPDVL+ + Sbjct: 256 HLDLLAQRNHRRLMSLCGVDAEDLAGMIDDIKRCNPKPGAGFDSDLPQTIIPDVLMSRRP 315 Query: 283 ----------------------GHWTVELNSDSIPRLQINQH-YASMCNNARNDGDSQFI 319 G W +ELN +++PR+ +N + + D FI Sbjct: 316 ATAHNEDDDPLSSPLLLDVAIAGEWLIELNPETMPRVLVNMGGLTRFARRSMSRDDRSFI 375 Query: 320 RSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHES 379 + L A WL+KSL+ R+ T+LRVS IV QQQAFF G ++KP++L DIA+AV+MHES Sbjct: 376 KEKLNTAHWLVKSLQQRSQTILRVSAEIVRQQQAFFRHGVSHLKPLILRDIAEAVDMHES 435 Query: 380 TISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSD 439 TISRVT KY+ +PRG ELKYFF++ ++ G S+ AIR ++ LI E + LSD Sbjct: 436 TISRVTANKYIATPRGTLELKYFFTTAISGADGENFSAEAIRHRIRTLIDQEPASDVLSD 495 Query: 440 SKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 L + L ++GI +ARRTVAKYRE+L IP S QRK+ Sbjct: 496 DALVTHLKQEGIDIARRTVAKYREALRIPSSVQRKR 531 >UniRef50_C5V3W1 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Gallionella ferruginea ES-2 RepID=C5V3W1_9PROT Length = 465 Score = 494 bits (1273), Expect = e-138, Method: Composition-based stats. Identities = 199/477 (41%), Positives = 296/477 (62%), Gaps = 13/477 (2%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 MK LQLR+SQQL +TPQLQQ+IRLLQLSTL++QQE+ + L+ NP+LE D Sbjct: 1 MKASLQLRMSQQLTLTPQLQQSIRLLQLSTLDMQQEIDRMLDENPMLELGDESVYHALSG 60 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 E D E + E W+ + T G + + Q ++ Sbjct: 61 EPVREDHAQVDNAESERGEAE---PFEWN--------AETRGADDESDAYPEQAALQASM 109 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDE-EIDIDEVEAVL 179 ++YL Q+ ++ DR + ++DA+DE GY+ L ++ + E E+ +D++E L Sbjct: 110 REYLHSQLSVSQLDSRDRLVIGMLIDALDENGYMLQDLAELAGLLPAELELTLDDLETAL 169 Query: 180 KRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVT 239 ++Q D G+ A+ L +CL +QL + TP + A +++ +LDLLA HDF + ++ Sbjct: 170 VQLQYLDRPGLGARTLSECLALQLKALPEQTPGRDLAMSLVNGNLDLLAAHDFSKIKKLL 229 Query: 240 RLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQI 299 R + L+ A LI SL+P+PG +YV+PDV+V +H G W LN+D++PRL++ Sbjct: 230 RCSDASLRVAQELIVSLNPKPGCEFDRSVADYVVPDVIVEQHKGKWRARLNADAMPRLRV 289 Query: 300 NQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE 359 NQ YA++ R+D + S LQ+A WLIKSL R DT+LRV++ IV++Q AF E G+ Sbjct: 290 NQMYANILQQ-RDDKSGAPLVSQLQEASWLIKSLRQRFDTILRVAQAIVDRQGAFLEHGD 348 Query: 360 EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTA 419 M+P+VL +IA +EMHEST+SR TTQK++ +PRGI+E KYFF S + TE GG SS A Sbjct: 349 IAMRPLVLREIADVLEMHESTVSRGTTQKFMRTPRGIYEFKYFFGSGLVTESGGVCSSAA 408 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 IR L+K+L+ E+ +KPL+D +++ +L++QGI+VARRT+AKYRE+L I P N RK L Sbjct: 409 IRELIKQLVGGEDTSKPLTDGRMSEILAQQGIVVARRTIAKYREALHILPVNLRKSL 465 >UniRef50_P22881 RNA polymerase sigma-54 factor n=38 Tax=Rhizobiales RepID=RP54_RHISN Length = 519 Score = 492 bits (1267), Expect = e-137, Method: Composition-based stats. Identities = 183/514 (35%), Positives = 282/514 (54%), Gaps = 47/514 (9%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHE-EIDTR 59 + L LR SQ L MTPQL Q+I+LLQ++ LEL Q + Q +E NPLLE E + Sbjct: 3 LSASLHLRQSQSLVMTPQLMQSIQLLQMTHLELGQFIAQEVEKNPLLEFQSADEAGFGSD 62 Query: 60 ETQDSETLDTADALEQKEMPEE----------------LPLDASWDTIYTAGTP------ 97 + ET TA+A +E + LDA + ++ T Sbjct: 63 RPERDETGLTAEAGGAEESVDHGDLYDSATTSPGERLSTELDADFANVFQDDTAPQRADA 122 Query: 98 ------------SGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIV 145 +G S D +L + +TL++ L+ QV + DR IA ++ Sbjct: 123 PELLGQWKSMPGAGGSNDGEGYDLDDFVAGR-KTLRETLIEQVAFAFAAPADRLIAQHLI 181 Query: 146 DAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQ 205 D +DE GYL + + +G D V VL +Q+FDP GV A+ L +CL IQL Sbjct: 182 DQLDEAGYLHAEIAETAARLGASAAD---VTRVLLVLQQFDPPGVFARTLSECLAIQLRL 238 Query: 206 FDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQ 265 ++ P +E +L+LLA DF +L ++ + E+ L E + I+ LDP+PG S + Sbjct: 239 RNRLDPAMEALVA----NLELLARRDFASLKKICGVDEEDLIEMLAEIRKLDPKPGTSFE 294 Query: 266 TGEPEYVIPDVLVRK-HNGHWTVELNSDSIPRLQINQHYASMCNNA--RNDGDSQFIRSN 322 T E +IPDV+VR +G W VELN D++PR+ +N Y + + +N + F+ Sbjct: 295 TSVTEAIIPDVVVRSAPDGGWLVELNPDALPRVLVNHDYFAEISRHSQKNSAEQAFLSEC 354 Query: 323 LQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTIS 382 +Q+A WL +SL+ R T+L+V+ IV QQ AF G ++++P+ L +A A++MHEST+S Sbjct: 355 MQNANWLTRSLDQRARTILKVASEIVRQQDAFLVHGVDHLRPLNLRIVADAIKMHESTVS 414 Query: 383 RVTTQKYLHSPRGIFELKYFFSSHVNT-EGGGEASSTAIRALVKKLIAAENPAKPLSDSK 441 RVT+ KY+ +PRG+FELKYFF+ + + E G S+ ++R ++ +I+ E+ LSD Sbjct: 415 RVTSNKYILTPRGLFELKYFFTVSIGSAENGDAHSAESVRHRIRTMISQESADAVLSDDD 474 Query: 442 LTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 + +L G+ +ARRTVAKYRE+++IP S QR++ Sbjct: 475 IVDILKRAGVDIARRTVAKYREAMNIPSSVQRRR 508 >UniRef50_Q2W084 DNA-directed RNA polymerase specialized sigma subunit n=14 Tax=Alphaproteobacteria RepID=Q2W084_MAGSA Length = 503 Score = 491 bits (1265), Expect = e-137, Method: Composition-based stats. Identities = 190/507 (37%), Positives = 288/507 (56%), Gaps = 44/507 (8%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 + L +R +Q L MTPQLQQAI+LLQLS EL + Q LE NPLLE+ + + E Sbjct: 3 IGPRLDIRQTQSLVMTPQLQQAIKLLQLSNFELTAFIDQELERNPLLEREEGERGPEPTE 62 Query: 61 TQDSETLDTADALEQKEMPEELPL---------DASWDTIYTAGTPSGTSGDYIDDELPV 111 + +D+ D P E PL + D Y + ++ D + DE Sbjct: 63 PK----VDSTDLAVLDSAPAEAPLLDGMNGGSAEDGMDVDYDNTFNNDSASDAVQDESLG 118 Query: 112 YQGET--------------------TQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDET 151 G +L+D+L QV + DR IA +++ +DE Sbjct: 119 QWGNVGGGGGGFDDGESNLEQMVAGEISLRDHLAAQVSMDIPDAGDRLIALHLIEMLDEA 178 Query: 152 GYLTVPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTP 211 GYL L+++ E +G + V VLKR+Q FDPVGV A+ L++CL +QL++ ++ P Sbjct: 179 GYLIGDLDELAERLG---CPTERVLVVLKRVQGFDPVGVFARSLKECLGLQLAEKNRLDP 235 Query: 212 WLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEY 271 ++ + D+L+LLA D LM+ + + + E + I++LDP+P + + Sbjct: 236 AMQA----LLDNLELLARRDLPGLMKACGVDAEDMAEMIGEIKALDPKPALAFDHIVAQP 291 Query: 272 VIPDVLVRK-HNGHWTVELNSDSIPRLQIN-QHYASMCNNARNDGDSQFIRSNLQDAKWL 329 V PDVL+R+ +G W VELNSD++PR+ +N ++Y+ + AR+ D +I Q A WL Sbjct: 292 VTPDVLMRRTQDGAWVVELNSDTLPRVLVNTRYYSKIAGAARSKDDKTYISERFQSANWL 351 Query: 330 IKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKY 389 +KSL R T+L+V+ IV QQ AFF G ++++P+VL DIA A+ MHEST+SRVT+ KY Sbjct: 352 VKSLHQRATTILKVATEIVRQQDAFFRLGVQHLRPLVLRDIATAISMHESTVSRVTSNKY 411 Query: 390 LHSPRGIFELKYFFSSHVNTEGGGEA-SSTAIRALVKKLIAAENPAKPLSDSKLTSLLSE 448 + +PRGI+ELKYFF+ + + GG+A S+ ++R +K LI AE + LSD + L Sbjct: 412 MATPRGIYELKYFFTQAIGSADGGDAHSAESVRHRIKALIDAEGKS-VLSDDSIVDALKA 470 Query: 449 QGIMVARRTVAKYRESLSIPPSNQRKQ 475 +GI +ARRTVAKYRE+++I S QR++ Sbjct: 471 EGIDIARRTVAKYREAMNIGSSVQRRR 497 >UniRef50_Q31GC3 Sigma-54 (RpoN) n=2 Tax=Bacteria RepID=Q31GC3_THICR Length = 500 Score = 491 bits (1265), Expect = e-137, Method: Composition-based stats. Identities = 203/495 (41%), Positives = 307/495 (62%), Gaps = 20/495 (4%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDT-------- 52 + GLQ+ + QQL +TPQLQQ+I++LQ S LE+QQ + LE+N +LE + Sbjct: 3 LMPGLQINIGQQLKLTPQLQQSIKILQYSALEVQQTISTTLETNFMLELDEDGSDDTEEF 62 Query: 53 ----HEEIDTRETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGT--SGDYID 106 E + + SET D + ++L D W+ +Y S + S + D Sbjct: 63 DAADSEYEEEPLNESSETETELDIEASDTLSDDLQADYEWEEVYIDSPISNSIKSNNNDD 122 Query: 107 DELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIG 166 P TL + L WQ ++ + D+ IA+ I+D +D+ GYL PLEDI+ S+ Sbjct: 123 YTAPENYTSAEVTLSEKLYWQADIYSWPDSQDVIASYIIDDIDDEGYLKTPLEDIMASLQ 182 Query: 167 DEE----IDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISD 222 E + + ++E VL IQ+F+P GV A+DL + L++QL + P++ A II + Sbjct: 183 KNEPDLIVSLADIEQVLSVIQQFEPTGVGARDLSEGLILQLKALPQ-NPYVVTAIKIIEE 241 Query: 223 HLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHN 282 + DLL+ D++ + ++ L ++ L E +++IQ+L PRPG+ + + E VIPD+ + + Sbjct: 242 NFDLLSVRDYKRIKKIYLLNDEELMEVIHVIQALSPRPGREYSSTQGEIVIPDLKLYRSK 301 Query: 283 GHWTVELNSDSIPRLQINQHYASMCNN-ARNDGDSQFIRSNLQDAKWLIKSLESRNDTLL 341 + VELN D+ PRL IN Y M + + DS+ I+ L +AK LIKS++SR +TLL Sbjct: 302 DGFIVELNQDAFPRLTINSAYIDMAGSLGTDSSDSKQIKEQLIEAKGLIKSIQSRGETLL 361 Query: 342 RVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKY 401 RV + I+E+Q FFE+GE+ M+PMVL D+A+A+E+HESTISR T QKY+ +PRG FELKY Sbjct: 362 RVGKYIIEKQARFFEEGEQAMQPMVLRDVAEALELHESTISRATNQKYMQTPRGTFELKY 421 Query: 402 FFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKY 461 FFS+ V+ G + S+ AI++ +K+LI E+P KPLSD+KL +LL E+ I VARRT+AKY Sbjct: 422 FFSTGVSQYGSDDQSAIAIKSHIKQLIEGEDPNKPLSDNKLMALLEEKEINVARRTIAKY 481 Query: 462 RESLSIPPSNQRKQL 476 RE+L IP S++RK+L Sbjct: 482 REALHIPSSSERKKL 496 >UniRef50_C9R8T3 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Ammonifex degensii KC4 RepID=C9R8T3_AMMDK Length = 453 Score = 491 bits (1264), Expect = e-137, Method: Composition-based stats. Identities = 171/474 (36%), Positives = 263/474 (55%), Gaps = 27/474 (5%) Query: 2 KQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRET 61 K ++L +Q+LA P+LQQA+ +LQ ST EL Q +QQ L N Sbjct: 4 KADIRLETAQKLAFRPELQQAVAVLQFSTQELWQYVQQQLTEN----------------- 46 Query: 62 QDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQ 121 L+ + E E PEE + SW + G S +L Sbjct: 47 ---PLLELKEEGEGGEPPEEEASEDSWVDYLCDASDLGLSQQEPASSPEPVPVAPGPSLY 103 Query: 122 DYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKR 181 ++L+ Q+ P + T+RA+A + +D+ GYL +PL + +G I + V LK Sbjct: 104 EHLLQQLAFLPLNSTERAVAEFLAGNLDQDGYLRLPLAEAASLLG---ISEEAVARGLKV 160 Query: 182 IQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRL 241 +Q +P GV A+DLR+CLL+QL + + P AR ++ +HL+ LA ++ L+R + Sbjct: 161 LQSLEPPGVGARDLRECLLLQLER---SHPEDHLARKLVGEHLEELAEGEWAKLVRKLGV 217 Query: 242 KEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQ 301 ++ L AV I+ L+PRPG + + EYV+PD++V++ G + V LN PRL IN Sbjct: 218 SQEELDRAVERIRQLNPRPGSNFGSNWVEYVVPDIVVQEVEGDYEVLLNESVYPRLVINS 277 Query: 302 HYASMCNNAR-NDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 Y + + + F++ L+ A WLIK+LE R TL RV+ +VE+Q++FF+QG Sbjct: 278 TYRDLLRHPQLGPEAKTFLQQRLKQALWLIKNLEQRRLTLYRVAVALVEKQRSFFDQGLS 337 Query: 361 YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAI 420 +KP+ L +IA+ + +HEST+SR KYL RGIF L++FF+S V++ G E ++ A+ Sbjct: 338 GLKPLTLREIAEEIGVHESTVSRAIANKYLQCSRGIFPLRFFFASGVSSSRGQEVAAQAV 397 Query: 421 RALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRK 474 + L+K+LI E+PA PLSD + L QGI ++RRTVAKYR + IP + +RK Sbjct: 398 KWLIKQLIDKEDPAAPLSDQAIARELKRQGIELSRRTVAKYRMEMGIPNAAKRK 451 >UniRef50_A0LK00 RNA polymerase, sigma 54 subunit, RpoN n=7 Tax=Deltaproteobacteria RepID=A0LK00_SYNFM Length = 488 Score = 490 bits (1263), Expect = e-137, Method: Composition-based stats. Identities = 186/486 (38%), Positives = 279/486 (57%), Gaps = 17/486 (3%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 ++ QL+LSQQL MTPQLQQAI+LLQLS LEL + + Q LE+NP+LE+ Sbjct: 4 LELKQQLKLSQQLIMTPQLQQAIKLLQLSRLELLETIHQELETNPVLEESQEESGEAEEP 63 Query: 61 TQDSETLDTADA-----LEQKEMPEELPLDASWDTI---YTAGTPSGTSGD-YIDDELPV 111 + A ++ E+ E++ D W+ Y GTP D + + Sbjct: 64 GAAEAAAEVAAEVAAEPYQEVEILEKVREDFDWEGYLDEYNTGTPVLVETDPNKEWQSYD 123 Query: 112 YQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEID 171 + +LQD+L+WQ+ L+ SD +R +A I+ ++ GYL L++I ++ Sbjct: 124 QRLTVPTSLQDHLVWQIRLSDMSDEEREVAGLIIGNLNRDGYLDASLDEIAAM---GKVS 180 Query: 172 IDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHD 231 D VE VL +Q DPVGVAA+D R+CLLIQ + + I+ +L L N + Sbjct: 181 TDMVERVLAVVQLLDPVGVAARDPRECLLIQARSLELED---DLVVRIVEHYLHFLENRN 237 Query: 232 FRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNS 291 + L+R + +K AV++I SLDPRPG EY+ PD+ V K +G + V LN Sbjct: 238 YPALIRALKRPAPEVKAAVDVILSLDPRPGSRFAEESTEYISPDIYVMKVDGEFVVLLNE 297 Query: 292 DSIPRLQINQHYASMCNNARN--DGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVE 349 D +P+L+++ +Y ++I+ L+ A WLIKS+ R TL +V+ IV+ Sbjct: 298 DGMPKLKVSSYYRHALTEDAELPSEAKEYIQGKLRSAAWLIKSIHQRQRTLFKVAHSIVK 357 Query: 350 QQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNT 409 Q FFE+G +++PMVL D+A+ V MHESTISRVT KY+H+P GIFELKYFF+S +N+ Sbjct: 358 LQADFFEKGVSHLRPMVLRDVAEDVGMHESTISRVTASKYMHTPHGIFELKYFFNSSINS 417 Query: 410 EGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPP 469 G +S +++ ++++I E+ A+P SD ++ L + I +ARRTVAKYRE L + P Sbjct: 418 VLGEAVASESVKERIRQIIREEDLARPFSDQEIVEKLEGENISIARRTVAKYREMLGVLP 477 Query: 470 SNQRKQ 475 SN+RK+ Sbjct: 478 SNKRKR 483 >UniRef50_B9XGP4 RNA polymerase, sigma 54 subunit, RpoN n=2 Tax=Verrucomicrobia RepID=B9XGP4_9BACT Length = 498 Score = 490 bits (1262), Expect = e-137, Method: Composition-based stats. Identities = 171/502 (34%), Positives = 276/502 (54%), Gaps = 34/502 (6%) Query: 1 MKQGLQL--RLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQI-------- 50 M QGLQL RL+Q L ++PQ+QQ++ LLQ TLEL+ ++ L+ NP+LE++ Sbjct: 1 MAQGLQLAQRLTQSLVLSPQMQQSLALLQAPTLELKALVETELQQNPVLEEVAAPETDQS 60 Query: 51 --------DTHEEIDTRETQDSETLDTADALEQKEMPEEL-------PLDASWDTIY-TA 94 + E +D E T D A + E L LD W Y + Sbjct: 61 ERAKTDDGEQVEAVDPTEPPADVTFDPATEKADPQTEEFLAEFEKLSQLDQEWRDHYAST 120 Query: 95 GTPSGTSGDYIDDELPVYQG-ETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGY 153 P+ S D + ++ +LQ+ L+ QV + + R I ++ +D+ GY Sbjct: 121 NAPTRQSADEEEKRQFMFDSLVAGTSLQEVLLEQVRESGLPEDLRPIGEMLIGNIDDYGY 180 Query: 154 LTVPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWL 213 L ++++ S + ++E VLK IQ FDP GV A+DLR+CLL+QL + Sbjct: 181 LKANIDELSFSTNIPAV---KIEEVLKVIQTFDPPGVGARDLRECLLLQLERAGDQESIE 237 Query: 214 EEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVI 273 II D++D L + R L+ D ++EA+ I L+PRPG++ +Y++ Sbjct: 238 ---YKIIRDYMDALGKRRIPEIARGLGLEVDEVQEAIASIGRLEPRPGRAFLADNHQYIL 294 Query: 274 PDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARNDGDS-QFIRSNLQDAKWLIKS 332 P+V V K + V N++ IP L+I+ Y + + N + +IR ++ K+LIKS Sbjct: 295 PEVFVNKVGDDFVVTTNNEQIPHLRISNTYKDLMAQSGNSSEVINYIREKIRAGKFLIKS 354 Query: 333 LESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHS 392 L R T+L ++ IV++Q+ F E+G +KPM + +A+AV +HE+T+SR + KY+ + Sbjct: 355 LHQRQQTILNIAIEIVKRQREFMEKGVSLLKPMTMVQVAEAVGVHETTVSRAVSSKYMQT 414 Query: 393 PRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIM 452 P+GIFE+KYFF++ + T G S+T+++ ++ ++ E+ KPLSD ++ +L E+GI+ Sbjct: 415 PQGIFEMKYFFTAGIQTASGEGLSNTSVKDMIAEMFKKEDTTKPLSDQEIVKMLQEKGIV 474 Query: 453 VARRTVAKYRESLSIPPSNQRK 474 +ARRTVAKYR L+I PSN RK Sbjct: 475 IARRTVAKYRSELNILPSNLRK 496 >UniRef50_UPI0001C42E0E RNA polymerase sigma factor (sigma54) n=1 Tax=Bacillus pseudofirmus OF4 RepID=UPI0001C42E0E Length = 446 Score = 490 bits (1261), Expect = e-137, Method: Composition-based stats. Identities = 159/478 (33%), Positives = 254/478 (53%), Gaps = 35/478 (7%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M+ GL + + L MT QL+QAI LLQ ST +L + + NPL++ D Sbjct: 1 MQFGLFQQQTTTLIMTQQLRQAINLLQYSTTDLSAFIHEQALENPLIDLQDQA------- 53 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPV-YQGETTQT 119 + + I SG++ D+ P+ Y ++ Sbjct: 54 --------------------SMQAGSESSYIGAPAPRSGSTRKSEDEASPIDYALVDHKS 93 Query: 120 LQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVL 179 L ++L+ Q S+ + ++ E GY P E++ + I +E E VL Sbjct: 94 LSEHLVSQAGEIALSEELERQLHYFIFSLREDGYFCRPFEEVCSDLA---ISTEEGEDVL 150 Query: 180 KRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVT 239 + +Q F+P GV A+ L +CLL+QL P A +I+S H++ LA+ ++TL Sbjct: 151 RILQSFEPAGVGARSLSECLLLQLKHLSNKAPL---AEIIVSRHMEDLASKKWKTLATEL 207 Query: 240 RLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQI 299 + +++ +LIQ+LDPRPG Y+IPD+ + NG V+L DS+P +++ Sbjct: 208 DVTMSDIQDVYDLIQTLDPRPGTQYSGEPTNYLIPDLSITWKNGELVVQLIDDSLPPIRL 267 Query: 300 NQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE 359 N+ Y + + + + +++ + Q +WL+KS+E R T+ +V+ IV Q+ FFE Sbjct: 268 NRDYEQLLHRSNHAEATEYAKQKYQQIQWLLKSIEQRQQTIKKVAEAIVRHQRDFFESKS 327 Query: 360 EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTA 419 +KP+ L DIA+ ++MHEST+SR TT KY +PRG++ELK FF+S V G SS + Sbjct: 328 GVLKPLTLKDIAEEIDMHESTVSRATTHKYAQTPRGLYELKAFFTSSVKNGFGESTSSQS 387 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLS-EQGIMVARRTVAKYRESLSIPPSNQRKQL 476 I+ L+K+LIA E+ KPLSD K+ + L E+GI V+RR +AKYR+ L IP S++RK+ Sbjct: 388 IKELIKELIAGESKQKPLSDQKIVTWLESEKGITVSRRAIAKYRDELGIPSSSKRKRY 445 >UniRef50_A9IMC8 RNA polymerase sigma-54 factor n=3 Tax=Bordetella RepID=A9IMC8_BORPD Length = 489 Score = 489 bits (1259), Expect = e-136, Method: Composition-based stats. Identities = 176/472 (37%), Positives = 265/472 (56%), Gaps = 3/472 (0%) Query: 6 QLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSE 65 +LRL QQ A+TP+LQQ+++LLQ+S LE QE++QAL NP L + D + D Sbjct: 20 ELRLHQQTALTPRLQQSVKLLQMSALEFNQEVRQALVENPFL-EEDEEAAASAPQAPDGA 78 Query: 66 TLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLM 125 D A D Y+ PS + + +LQ+ L Sbjct: 79 GADAPVAQAAAATSSGALGDEHGPAAYSGDYPSARRANDGAPMDMGLWVGASVSLQERLD 138 Query: 126 WQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILE-SIGDEEIDIDEVEAVLKRIQR 184 ++ S DR +A IV A+DE GYL PL ++ E + D E A L+ +Q+ Sbjct: 139 QELRTYRLSPRDRLLAQYIVQALDEDGYLRQPLLELAEPGVFGTPPDESEWRAALRLVQQ 198 Query: 185 FDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKED 244 D G+AA+DL++CL +QL D P + AR I+ HLD+LA HD+ L E Sbjct: 199 LDAPGLAARDLQECLALQLQALDGQRPEVALARRIVDQHLDILARHDYEALQNALGCDES 258 Query: 245 VLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYA 304 L++A + ++SLDPRPG+ P Y++PDV+VRK +G W V N ++P+ ++++ YA Sbjct: 259 SLRQACDTVRSLDPRPGRRYDEAPPAYIVPDVIVRKESGQWRVYCNRGAVPQPRLHRVYA 318 Query: 305 SMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKP 364 + R + LQ+A+WL++++E R T+ RV+ IV Q FFE G ++P Sbjct: 319 DLFRTTRYRDRGPMAQE-LQEARWLVRNVEQRYSTIQRVAEAIVRLQHMFFEYGPVALRP 377 Query: 365 MVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALV 424 ++L +++ +++HEST+SR T KY+ +P GI E KYFFS + T+ GG S+ A+RAL+ Sbjct: 378 LMLREVSAELDIHESTVSRATANKYMATPMGILEFKYFFSRELATDTGGSCSAGAVRALI 437 Query: 425 KKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 +LI E+P PLSD L S L+ GI+VARRTV+KYR + PP++ R+Q Sbjct: 438 AELIDNEDPRMPLSDVALASKLAADGIVVARRTVSKYRAQIKRPPADLRRQY 489 >UniRef50_A3EWH7 RNA polymerase, sigma 54 subunit, RpoN n=2 Tax=Leptospirillum sp. Group II RepID=A3EWH7_9BACT Length = 486 Score = 487 bits (1254), Expect = e-136, Method: Composition-based stats. Identities = 166/487 (34%), Positives = 264/487 (54%), Gaps = 18/487 (3%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 ++Q L+++L Q++ MTPQLQQAI LL L+ L+L++E+ Q ++NPLLE + + D+ Sbjct: 2 IRQRLEIKLGQKMVMTPQLQQAIHLLMLAKLDLREEILQETQTNPLLELEEEGDWEDSVP 61 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGET---- 116 + L + EE D Y+ SG Y ++ E+ Sbjct: 62 ESSIDHLPADSENRETVPEEETNPDPLMSWDYSLHEDMDDSGLYQEERSIREDPESDFSY 121 Query: 117 ------TQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEI 170 TL+D+L+WQ+ S ++ +A ++ ++E GYL V E+I ES+ Sbjct: 122 EKVLAAPTTLEDHLIWQISFREMSPVEKELAHFLIGNINEDGYLAVSEEEIPESL---RT 178 Query: 171 DIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANH 230 D + VL IQ DP GV A++LR+CL+IQ + ++ LD Sbjct: 179 DPEMFPRVLSWIQECDPPGVGARNLRECLMIQARMLHLEKTVV---WSVLESQLDEFMEM 235 Query: 231 DFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHN-GHWTVEL 289 ++ + R + + ++EA +I+ L+P+PG+ + PDV G V L Sbjct: 236 KYKGIARALSVSVEDIQEAGKIIRKLEPKPGRPYFRDMAMPISPDVRFYDAGHGEIRVGL 295 Query: 290 NSDSIPRLQINQHYASMCNN-ARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIV 348 N + +PRL+I Y S+ + D ++I L+ A W +KS+E R T+LRV+ I+ Sbjct: 296 NEEGVPRLRIQSAYKSLLKTMEKKDKTREYIEEKLRSAMWFMKSIEQRKKTILRVAEAIL 355 Query: 349 EQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVN 408 Q+ FF +G +KP+VL IAQ + +HESTISRVT QKY +P GI ELK+FFS + Sbjct: 356 RHQEDFFRRGPLGLKPLVLKTIAQDLGLHESTISRVTNQKYAETPFGIVELKFFFSGGLP 415 Query: 409 TEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIP 468 ++ G E SS ++R ++ ++ E+ + PL+D ++ + L ++GI++ARRTVAKYR L IP Sbjct: 416 SQSGSEHSSVSVREKIRDMVHGESKSAPLTDQEIMNRLGKEGIVIARRTVAKYRMELDIP 475 Query: 469 PSNQRKQ 475 P N+RKQ Sbjct: 476 PVNKRKQ 482 >UniRef50_UPI00016A2E41 RNA polymerase factor sigma-54 n=1 Tax=Burkholderia ubonensis Bu RepID=UPI00016A2E41 Length = 479 Score = 486 bits (1251), Expect = e-135, Method: Composition-based stats. Identities = 182/479 (37%), Positives = 273/479 (56%), Gaps = 7/479 (1%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M L L++ Q LA+TP+LQQ++RLLQ+S+LE QQEL+ AL+ NP LE + T ++ E Sbjct: 1 MSVTLALQMRQHLALTPRLQQSLRLLQMSSLEFQQELRLALDRNPFLEDVRTDDDDGAAE 60 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGE---TT 117 + A E + P + YTA + G DD GE Sbjct: 61 PSSAAEAADASTPETGALDGAHPPAN--EIAYTAEPAARGPGRADDDASDAAAGEWSAAE 118 Query: 118 QTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESI-GDEEIDIDEVE 176 +L YL + L P + DRA A I+DA+D+ GYL L +++ + ++ ++ Sbjct: 119 PSLHAYLHDALRLYPLNRRDRAAARLIIDALDDDGYLRQALPELVLAADPALLLNERDLA 178 Query: 177 AVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLM 236 L+ +Q D G+AA+ L +CLL+QL TP L +A+ I DHL+ LA+ + L Sbjct: 179 VALRLVQALDRPGIAARTLAECLLLQLDALPAGTPALAQAKAIARDHLERLAHRETAELQ 238 Query: 237 RVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPR 296 R L A L++ LDPRPG + +YV+PDV+VR+ G W V +N +PR Sbjct: 239 RRLGCDAPTLHAACALVRGLDPRPGDHYGSTRGDYVVPDVIVREVRGEWIVTINPAVLPR 298 Query: 297 LQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFE 356 +++Q YA + A + DS + LQ+A+WLI++ + R DT+ RV CIV +Q+ FF Sbjct: 299 ARLHQRYAELFARASGERDSP-LGQQLQEARWLIRNAQKRFDTIQRVGACIVARQRDFFR 357 Query: 357 QGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEAS 416 GE +KP+VL DIA +++HEST+SR T KY+ +P G FE K+FF + G G S Sbjct: 358 YGEIALKPLVLRDIADELDLHESTVSRATGNKYMATPYGTFEFKHFFPRRLEAAGNGACS 417 Query: 417 STAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 + A + L++ +IAAE A+PLSD L L+ +GI++ARRTV KYR+++ IPP+ R++ Sbjct: 418 AAAAKVLIRDMIAAEQHAEPLSDVALAQRLAGRGILLARRTVTKYRQAMKIPPAGLRRR 476 >UniRef50_C1A8U9 RNA polymerase sigma factor n=1 Tax=Gemmatimonas aurantiaca T-27 RepID=C1A8U9_GEMAT Length = 497 Score = 484 bits (1246), Expect = e-135, Method: Composition-based stats. Identities = 156/500 (31%), Positives = 273/500 (54%), Gaps = 27/500 (5%) Query: 1 MKQGLQLR--LSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDT 58 M+ GLQ L Q+L + P+L QA+ LL + L+LQQ L+Q L +NP LE ++ +E + Sbjct: 1 MRTGLQQTTGLRQELKVNPRLYQAMDLLYMPLLDLQQHLKQELLTNPFLELVEPEDEEED 60 Query: 59 RET----QDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVY-Q 113 + + + +A + E + + W+ + G +G + + + Sbjct: 61 SSDADDVPEPQDMAEPEAPAEPEPEKSGDDEVDWEAVLLDGFETGGQREEHEQQEWHEPV 120 Query: 114 GETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGD------ 167 + L D+L Q+ L S +A V +++ GYL LE+I + Sbjct: 121 TVAGRDLADHLTEQLSLLALSPRQAFMAEEFVGNINDDGYLACTLEEIRDGANQVLRREA 180 Query: 168 ---------EEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARL 218 E +E+EA+L IQ DP GV A++LR+CLL+QL + A Sbjct: 181 EERDIDGEVPEFSEEEIEALLLIIQELDPPGVGARNLRECLLLQLRADGQADSL---AGR 237 Query: 219 IISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLV 278 ++++ + L + + + + ++ A + I LDP+PG G Y+IPD++V Sbjct: 238 LVAEAFEELIARRWGEVAKRFGISPQAVQAAADEIAKLDPKPGLRFSAGSDNYIIPDLVV 297 Query: 279 RKHNGHWTVELNSDSIPRLQINQHYASMCNNAR--NDGDSQFIRSNLQDAKWLIKSLESR 336 K +G++ + LN ++PRL+I++ Y + + + + FI + L A W+I+++E R Sbjct: 298 EKIDGYYHIFLNDGNLPRLKISRIYTDIARDKKRFDTESKDFIATKLNSANWMIQAIEQR 357 Query: 337 NDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGI 396 T+L+V IV++Q+ FFE+G + ++P+ L ++A+AV MHEST+SRVT +K++ +PRG+ Sbjct: 358 RQTMLKVMHYIVDRQREFFERGVQGLRPLTLREVAEAVGMHESTVSRVTNEKFVQTPRGV 417 Query: 397 FELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARR 456 LK+FFSS ++T G + S+ I+ ++KL++ E+P PL+D + +L E G+ +ARR Sbjct: 418 LPLKFFFSSGLSTSDGDDVSARGIKDQIEKLVSGEDPRNPLTDQAIVEILQETGVQIARR 477 Query: 457 TVAKYRESLSIPPSNQRKQL 476 TVAKYR+ L + P+ RK++ Sbjct: 478 TVAKYRDQLGVLPARMRKRV 497 >UniRef50_P33984 RNA polymerase sigma-54 factor n=12 Tax=Alphaproteobacteria RepID=RP54_AZOC5 Length = 514 Score = 482 bits (1240), Expect = e-134, Method: Composition-based stats. Identities = 190/506 (37%), Positives = 279/506 (55%), Gaps = 38/506 (7%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M ++ R SQ L MTPQL QAI+LLQLS LEL ++ LE NPLLE+ E + Sbjct: 3 MSPKMEFRQSQSLVMTPQLMQAIKLLQLSNLELVAYVEAELERNPLLERASEPESPEHDP 62 Query: 61 TQDSETLDTA---------DALEQKEMPE----ELPLDASWDTIYTAGTPS--------- 98 E T D +E E LD ++ P+ Sbjct: 63 PNPQEEAPTPPDSGAPVSGDWMESDMGSSREAIETRLDTDLGNVFPDDAPAERIGAGSGS 122 Query: 99 ------GTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETG 152 G+ GD +D P TL D+L Q+ + R I +++ +DETG Sbjct: 123 GSSIEWGSGGDRGEDYNPEAFLAAETTLADHLEAQLSVAEPDPARRLIGLNLIGLIDETG 182 Query: 153 YLTVPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPW 212 Y + L+ + E +G D+V VL+ IQ F+P GV A+ L +CL +QL D+ P Sbjct: 183 YFSGDLDAVAEQLG---ATHDQVADVLRVIQSFEPSGVGARSLSECLALQLRDKDRCDPA 239 Query: 213 LEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYV 272 ++ + D+L+LLA HD L R+ + + L + + I+ LDP+PG + G + Sbjct: 240 MQA----LLDNLELLARHDRNALKRICGVDAEDLADMIGEIRRLDPKPGLAYGGGVVHPL 295 Query: 273 IPDVLVRKH-NGHWTVELNSDSIPRLQINQHY-ASMCNNARNDGDSQFIRSNLQDAKWLI 330 +PDV VR+ +G W VELNS+++PR+ +NQ Y A++ AR+ + F+ LQ A WL Sbjct: 296 VPDVFVREGSDGSWIVELNSETLPRVLVNQTYHATVAKAARSAEEKTFLADCLQSASWLT 355 Query: 331 KSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYL 390 +SL+ R T+L+V+ IV QQ AF G +++P+ L +A A+ MHEST+SRVT+ KY+ Sbjct: 356 RSLDQRARTILKVASEIVRQQDAFLVHGVRHLRPLNLRTVADAIGMHESTVSRVTSNKYI 415 Query: 391 HSPRGIFELKYFFSSHVNTEGGGEA-SSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQ 449 +PRG+ E+K+FFSS + + GGGEA ++ A+R +K LI AE+ LSD L L + Sbjct: 416 STPRGVLEMKFFFSSSIASSGGGEAHAAEAVRHRIKSLIEAESADDVLSDDTLVQKLKDD 475 Query: 450 GIMVARRTVAKYRESLSIPPSNQRKQ 475 GI +ARRTVAKYRES++IP S QR++ Sbjct: 476 GIDIARRTVAKYRESMNIPSSVQRRR 501 >UniRef50_C0Z6M1 RNA polymerase sigma-54 factor n=1 Tax=Brevibacillus brevis NBRC 100599 RepID=C0Z6M1_BREBN Length = 455 Score = 481 bits (1239), Expect = e-134, Method: Composition-based stats. Identities = 170/478 (35%), Positives = 260/478 (54%), Gaps = 25/478 (5%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M GL + +L MTP+L+QAI +LQ S ++L LQ NP+ + E + Sbjct: 1 MGLGLFQEQTLKLVMTPELRQAITILQYSAIDLISYLQDQANENPVFDLEVAGEVASAKA 60 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 + + +D + + + E G+S + Y + +TL Sbjct: 61 EKPAPEIDWKEIVGNRATGE-----------------YGSSKNESTYNPLDYVQQGAETL 103 Query: 121 QDYLMWQVELTP-FSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVL 179 ++L Q+ FS + IA ++ +DE GYL + LE+ E +G E + E+E VL Sbjct: 104 YEHLERQLGYVKGFSSLQKQIALFLIGNLDEKGYLEITLEEASERLGAEML---EIEDVL 160 Query: 180 KRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVT 239 +Q FDPVGVA++ L L Q + E+ ++ +HL LA++ ++ + Sbjct: 161 SVLQHFDPVGVASRSLE---ECLLLQLEHLALDDEKIVQVVRNHLQDLADNRYQRIADKI 217 Query: 240 RLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQI 299 ++ +LI++L+PRPG + + E YVIPDV V K + V +N + PRL+I Sbjct: 218 GCTPQEVQTIADLIRTLNPRPGAAFSSVETRYVIPDVTVEKVGNDYVVLVNDVAAPRLKI 277 Query: 300 NQHYASMCNNARN-DGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQG 358 N Y M + ++ D QFI L A WL KSLE R TL+RV++ I++ Q+ FF++G Sbjct: 278 NSFYEKMLSQQKSQDEAKQFIHDKLNAAMWLAKSLEQRRLTLMRVTQAILDMQREFFDRG 337 Query: 359 EEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASST 418 Y+KPM +IA+ V +HESTISR T+ KY+ +PRGIFELKYFF+S ++T G SS Sbjct: 338 IHYLKPMTQKEIAERVGLHESTISRATSNKYVQTPRGIFELKYFFTSALSTSSGEATSSE 397 Query: 419 AIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 +++ +K LI E+ PLSD KL +L +GI ++RRTVAKYRE + IP S +RK+ Sbjct: 398 SVKRRIKALIEQEDRKAPLSDQKLGEMLLTEGIEISRRTVAKYREEMLIPSSAKRKRF 455 >UniRef50_Q1Q3A8 Strongly similar to RNA polymerase subunit sigma-54 n=1 Tax=Candidatus Kuenenia stuttgartiensis RepID=Q1Q3A8_9BACT Length = 485 Score = 481 bits (1239), Expect = e-134, Method: Composition-based stats. Identities = 143/485 (29%), Positives = 261/485 (53%), Gaps = 15/485 (3%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M+ L +L Q++ ++PQ+ Q+I +LQL L L + +QQ L NP+LE++ + D+ Sbjct: 3 MQSSLLPQLQQKMKLSPQIIQSIEILQLPLLALAERIQQELLDNPVLEEVVEQPKEDSPV 62 Query: 61 TQDSETLDTA------DALEQKEMPEELPLDASWDTIYTAGTPSGTS-GDYIDDELPVYQ 113 ++DS D ++ E+ + W+ Y+ T ++ D D + + Sbjct: 63 SEDSSIAGENAAQTEWDDAKKAEVDRHNEMAEDWNEYYSKTTIRKSALSDERDQKQEALE 122 Query: 114 GETTQ--TLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEID 171 T+ +L DYL+ Q+ L + +I+ +VD +GYL+ LE+I+ S ++ + Sbjct: 123 NTATKPMSLHDYLLGQLSLMEVPEHLYEACENIIYSVDTSGYLSGSLEEIVSSF-EKPVS 181 Query: 172 IDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHD 231 + + E L+ +Q +P G+ A++L++CLL+QL D P + ++ ++L + + Sbjct: 182 LADAEKALEIVQTLEPPGIGARNLQECLLLQL---DNRDPNYHITKDLLQNYLLEIESRK 238 Query: 232 FRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNS 291 + + + T + +K+ V I++L+P+PG YV+P+V V + +G + V L Sbjct: 239 YPAIAKKTGYSLETIKKQVEFIRTLNPKPGSVFNDETIPYVVPEVKVEQIDGEYEVFLID 298 Query: 292 -DSIPRLQINQHYASMCNNAR-NDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVE 349 +IP L I+ Y + + + Q+I+ ++ AKWL+ ++E R TL +V+ IV Sbjct: 299 NANIPHLHISSFYRKSLSESNIDSSTRQYIQKKIESAKWLVDAIEQRRSTLYKVACKIVS 358 Query: 350 QQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNT 409 Q+ F ++G ++ + + D+A V +H ST+SR KY+ +P+G+FE+K+FF+ Sbjct: 359 MQKGFLDEGVHRLRTLKMQDVADIVGVHVSTVSRAIAHKYIQTPQGVFEMKFFFTGGFQN 418 Query: 410 EGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPP 469 G S +IR + +++A E+ + PLSD ++ L G+ +ARRTV KYR L IP Sbjct: 419 ADGNMESWESIRQKLIEIVAKEDKSNPLSDEEVADKLGASGVDIARRTVTKYRRILKIPS 478 Query: 470 SNQRK 474 S QRK Sbjct: 479 SRQRK 483 >UniRef50_B2A6Z6 RNA polymerase, sigma 54 subunit, RpoN n=4 Tax=Firmicutes RepID=B2A6Z6_NATTJ Length = 479 Score = 480 bits (1237), Expect = e-134, Method: Composition-based stats. Identities = 152/486 (31%), Positives = 272/486 (55%), Gaps = 17/486 (3%) Query: 1 MKQG--LQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDT 58 MK G L L QQL +TP+L++AI+LLQLS++EL +++ L NP+LE T E Sbjct: 1 MKLGFDLNLEQKQQLVITPELRKAIKLLQLSSIELDNYIEKELVENPMLEISSTEESESG 60 Query: 59 RETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSG----DYIDDELPVYQG 114 + ++++ + ++ E+ D W + + G + D+ ++ Sbjct: 61 DDNGKEDSVEKLENSQESAQSED-RFDIDWQKYFEDSSDVGKYNNLPKENYDEGKDGFET 119 Query: 115 --ETTQTLQDYLMWQVEL-TPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEID 171 +T +L ++L +Q+ L + + + +A ++ +D GYL L++I E + +++ Sbjct: 120 FTPSTISLTEHLYFQLSLYSDQEEHIKPLAEFLIGNLDANGYLNGTLQEIAEFL---DVE 176 Query: 172 IDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHD 231 E+E L+ +Q DP GV A+ L++CLL+Q+ + + A +I + L +A + Sbjct: 177 EKELEKALELVQSLDPPGVGARSLKECLLLQVETDSHSP---DSAYELIENFLSEIAENR 233 Query: 232 FRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGE-PEYVIPDVLVRKHNGHWTVELN 290 + + +L ++E V+ I+SL P+P P Y+ PD+++++ + + LN Sbjct: 234 LDKIAKELKLPIKEVQEIVDYIRSLTPKPASPFSEEGLPSYITPDIVIKRVEDEYEIILN 293 Query: 291 SDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQ 350 PRL+IN Y + + G ++F+ S L A WLIKS+E R TL + + +VE Sbjct: 294 DSMSPRLKINSKYRQLLKTEKGSGVAKFLNSRLDSAMWLIKSIEQRRITLYNIMQKLVEM 353 Query: 351 QQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTE 410 Q+ F + G Y+KP+ L ++A +++HEST+SR T KY+ +P+G++ L++FFSS ++ Sbjct: 354 QRPFLDNGVRYLKPLTLKEVADEIDVHESTVSRATANKYVQTPQGVYPLRFFFSSKLDNN 413 Query: 411 GGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPS 470 SST+I+ +K+L+ E+ KPLSD K+ +L E I ++RRTVAKYR+ L++P S Sbjct: 414 QDDYNSSTSIKQKIKELVEEEDKKKPLSDQKIAEILQESSINISRRTVAKYRKELNLPSS 473 Query: 471 NQRKQL 476 ++RK+ Sbjct: 474 SKRKRY 479 >UniRef50_A1K6F2 RNA polymerase sigma-54 factor n=9 Tax=Betaproteobacteria RepID=A1K6F2_AZOSB Length = 488 Score = 480 bits (1235), Expect = e-134, Method: Composition-based stats. Identities = 193/477 (40%), Positives = 285/477 (59%), Gaps = 5/477 (1%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M G++LRL Q LA+TPQ+QQA+RLLQLS+ E QE++QA+ SNP LE+ Sbjct: 1 MSLGMELRLRQHLAITPQIQQALRLLQLSSQEFTQEVEQAVTSNPFLEEDPDAPPPGPAA 60 Query: 61 TQDSET--LDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQ 118 + E + + DA SG G ++ E Sbjct: 61 AMPLAPAASSSEPRAETVDGGDGEGSDAPVSPALHEIGRSGGGGGGDEEHDWTEWTEAPI 120 Query: 119 TLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIG-DEEIDIDEVEA 177 +L+D L Q+ L+P SD DR +A ++D + + GYL PLE++ + I +EE+D+ E+ A Sbjct: 121 SLRDNLRNQLLLSPMSDRDRTLAHMVIDELTDAGYLETPLEELADLISPEEEVDVHELSA 180 Query: 178 VLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMR 237 LK +Q+ DP G+AA+ L++CLL+QL +TP L A ++ H +LLA +F L + Sbjct: 181 ALKLVQQLDPPGIAARSLQECLLLQLQALPASTPNLSLALELVGQHFELLARREFTRLQQ 240 Query: 238 VTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRL 297 + E+ L A LI++LDPRPG+ YV+PD++V G W LN P++ Sbjct: 241 LLSCNENALHGARALIRTLDPRPGRCFAPDNTRYVVPDIIVTNQRGRWVATLNPAVQPQV 300 Query: 298 QINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQ 357 +IN+ YA + +R+ + F R LQ+A+WL++++E R +T+ RV+ IV +Q+ FF Sbjct: 301 RINRAYAEIAA-SRSGCGASFSR-LLQEARWLLRNVEQRFNTIQRVADAIVARQRVFFSY 358 Query: 358 GEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASS 417 GE MKPM L DIA + +HEST+ RVT KY+ +PRG+FE KYFFS + T+ GG S+ Sbjct: 359 GEAAMKPMALKDIATELGLHESTVCRVTNGKYMATPRGLFEFKYFFSRQLATDDGGSCSA 418 Query: 418 TAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRK 474 TAIRAL+K+LIAAE+P PLSD++L +L+EQG+ +ARRTV KYR + +P R+ Sbjct: 419 TAIRALLKELIAAEDPQTPLSDAQLARMLAEQGLRLARRTVTKYRTLMRVPSVELRR 475 >UniRef50_D2L2L2 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Desulfovibrio sp. FW1012B RepID=D2L2L2_9DELT Length = 478 Score = 479 bits (1233), Expect = e-133, Method: Composition-based stats. Identities = 181/484 (37%), Positives = 285/484 (58%), Gaps = 15/484 (3%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 ++ QL+LSQQL MTPQLQQAI+LLQLS LEL + +QQ L N L + E+ Sbjct: 3 LELRQQLKLSQQLVMTPQLQQAIKLLQLSRLELLESVQQELLEN-PLLEESIEEDRQPER 61 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELP------VYQG 114 T + L M +EL +A WD +G + E+P + Sbjct: 62 TMAEDNLGPTGNSSDAAMEKELLKNAEWDDYLGDFASTGRQSQSRESEMPEEGMAFDARL 121 Query: 115 ETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDE 174 + +L+ +L WQ+ L+ F+ + I SIV +++ +GYL LE++ + G + E Sbjct: 122 ASKPSLEGHLGWQMRLSNFTAKELEIGESIVGSLNSSGYLRASLEELAQMAG---ASVPE 178 Query: 175 VEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRT 234 VE VL R+QRFDPVGVAA+ +CLL Q+ + L ++ DHL+ L ++ Sbjct: 179 VETVLHRLQRFDPVGVAARTPSECLLTQIEVYGYEDTIL---IELVRDHLEDLEKKRYKP 235 Query: 235 LMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSI 294 L + + + LKE + LIQ+L+P PG S +G+P +V PD V K+ G + + LN + + Sbjct: 236 LAKKFHITMEKLKEYLELIQTLNPMPGASYGSGDPIFVSPDAFVYKYGGEFVIILNEEGM 295 Query: 295 PRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAF 354 PRL +N Y + N +ND D +++ ++ A WL+KSL R TL +V IV+ Q+ F Sbjct: 296 PRLNVNTTYMAEI-NPKNDKDKDYLQDKMRSAMWLMKSLYQRQRTLYKVLESIVKFQREF 354 Query: 355 FEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGE 414 FE+G ++P++L D+A + MHEST+SR+T+ KY+ +P GIFELK+FF+S ++ + GG Sbjct: 355 FEEGVTRLRPLILKDVADDISMHESTVSRITSNKYVATPHGIFELKFFFNSSLDLDDGGT 414 Query: 415 ASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQ-GIMVARRTVAKYRESLSIPPSNQR 473 S +++A++K++I+ EN KP+SD + +L ++ I +ARRTVAKYR ++ I S++R Sbjct: 415 VGSESVKAMIKRIISGENAKKPISDEAIADMLKDELQINIARRTVAKYRTAMGIESSSKR 474 Query: 474 KQLV 477 K++ Sbjct: 475 KEIF 478 >UniRef50_D0MG37 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Rhodothermus marinus DSM 4252 RepID=D0MG37_RHOM4 Length = 522 Score = 479 bits (1233), Expect = e-133, Method: Composition-based stats. Identities = 170/507 (33%), Positives = 273/507 (53%), Gaps = 33/507 (6%) Query: 4 GLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNP----------------LL 47 L+ Q ++PQ Q I+LLQL TL L+Q ++ LESNP L Sbjct: 3 KLKQEQKLQQKLSPQQIQYIKLLQLPTLALEQRIKAELESNPLLEEGPEEEEETPLEEAL 62 Query: 48 EQIDTHEEIDTRETQDSETLDTADALEQKEMPEELPLDASWDTIYT-AGTPSGTSGDYID 106 ++ E + +T + E+ EE+ + ++ + G + D Sbjct: 63 DETPETAEAEATSETTETEAETVEEEASTEIEEEIDWEELFNNVDDLYGYKARVDRTDED 122 Query: 107 DELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIG 166 +E ++ ++L Q+ L ++T+R IA I+ ++DE GYL PLE I++ + Sbjct: 123 EERRELPLPARPSMIEHLREQLVLLDLNETERLIAEQIIGSIDEDGYLRRPLESIVDDLM 182 Query: 167 DEE---IDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDH 223 + ++VE VLK+IQR DPVG+AA+DLR+CL++QL + TP E A ++ + Sbjct: 183 FTHGVSVTEEDVERVLKQIQRLDPVGIAARDLRECLIVQLEAMPEDTPGREVALRMLREA 242 Query: 224 LDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPE-YVIPDVLVRKHN 282 A F L R + E LKEA +LIQ L+P+PG+ + Y++PD V + Sbjct: 243 FKDFAMKHFEALQRKLGVSEAELKEAYDLIQHLNPKPGEGGDVAPQQNYIVPDFTVTYQD 302 Query: 283 GHWTVELNSDSIPRLQINQHYASMCNNAR------------NDGDSQFIRSNLQDAKWLI 330 G + + LNS + P+L+I++ Y M ++ F+++ L+ A+W I Sbjct: 303 GEFIITLNSRNAPQLRISRRYRQMLEQMAAEKKKGKRTNGLDEQTRAFLKNKLESARWFI 362 Query: 331 KSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYL 390 S+ R T+L+V + IVE Q+ FF+ GE ++KPM+L D+A + M ST+SRV KY+ Sbjct: 363 NSINQRRQTMLKVMKAIVELQEDFFKYGEGHLKPMILKDVADRIGMDISTVSRVVNGKYV 422 Query: 391 HSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQG 450 + G++ LKYFFS + TE G E S+ ++AL++++I E+ PLSD K+ LL++QG Sbjct: 423 QTDFGVYPLKYFFSEGLATESGEEVSNREVKALIQRMIEQEDKRNPLSDQKIAELLAKQG 482 Query: 451 IMVARRTVAKYRESLSIPPSNQRKQLV 477 +ARRTV KYRE L IP + R+++V Sbjct: 483 FKIARRTVTKYREQLGIPVARLRREIV 509 >UniRef50_D2LIV1 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Rhodomicrobium vannielii ATCC 17100 RepID=D2LIV1_RHOVA Length = 503 Score = 478 bits (1231), Expect = e-133, Method: Composition-based stats. Identities = 181/503 (35%), Positives = 280/503 (55%), Gaps = 34/503 (6%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDT-- 58 ++ L+ R +Q++ +TPQL+QAI+LLQ S +ELQ ++ + NPLLE + + Sbjct: 2 LQLRLEQRQTQKIVITPQLRQAIKLLQFSAIELQSYIENEIRDNPLLEAEERADGDAPLP 61 Query: 59 ----------RETQDSETLDTADALEQKEMPEELPLDASWDTIYTAG-----------TP 97 D D DA E + D Y + Sbjct: 62 EVIRADGASVGADADVPAFDARDASPAVETVTDWEPATPGDRAYEGAPAAASPEAEWLST 121 Query: 98 SGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVP 157 +G +G DD P ++L D+L Q +L DR IA ++D VD GY+ P Sbjct: 122 NGKAGSPSDDYDPFATLSMAESLTDHLNEQAQLAFPDAQDRFIARYLIDLVDADGYIRSP 181 Query: 158 LEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEAR 217 LED + ++++E VL +Q FDPVGV A+DL +CL IQL + D+ P++E Sbjct: 182 LEDAAALLSSP---LEDIERVLGVMQTFDPVGVCARDLAECLAIQLREKDRCDPYMER-- 236 Query: 218 LIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVL 277 + +LDL+A D + L RV + D L+E + +++L+P+PG + + GE E ++PDV+ Sbjct: 237 --LLANLDLIAACDMQKLRRVCGVDADDLREMMQELRALNPKPGAAFEHGEVETLVPDVI 294 Query: 278 VRKH-NGHWTVELNSDSIPRLQINQ-HYASMCNNARNDGDSQFIRSNLQDAKWLIKSLES 335 VR+ +G W ELN + P L +++ +YAS+ N R+D + ++ A WL+KSLE Sbjct: 295 VRRGPDGEWRAELNPSAAPSLAVDRAYYASLKNRCRSDSERTYLADRQSSANWLVKSLEQ 354 Query: 336 RNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRG 395 R T+L+V+ +VE+Q AFF+ G ++KP+ L IA + MHEST+SRVT+ K + +PRG Sbjct: 355 RLSTILKVATAMVEEQSAFFDHGVRHLKPLNLRQIAAKIGMHESTVSRVTSNKAIQTPRG 414 Query: 396 IFELKYFFS--SHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMV 453 IFE+KYFF+ + SS A+R +K+ I E+P + LSD ++ ++L GI + Sbjct: 415 IFEMKYFFTSSIPSASASSEAHSSEAVRDRIKEFILNESPEEVLSDDRIVTMLKADGIDI 474 Query: 454 ARRTVAKYRESLSIPPSNQRKQL 476 ARRTVAKYR++L IP S R++L Sbjct: 475 ARRTVAKYRDALRIPSSAARRRL 497 >UniRef50_B6FY84 Putative uncharacterized protein n=1 Tax=Clostridium hiranonis DSM 13275 RepID=B6FY84_9CLOT Length = 451 Score = 473 bits (1219), Expect = e-132, Method: Composition-based stats. Identities = 158/477 (33%), Positives = 279/477 (58%), Gaps = 31/477 (6%) Query: 2 KQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRET 61 K L+L SQ+L +T QL+Q++ +L +S LE+++E+++ ESNPLLE E ID Sbjct: 4 KNTLELNQSQKLILTTQLKQSLAILNMSRLEVEEEIRKESESNPLLEAEKNEEGIDW--- 60 Query: 62 QDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQ 121 + + +++ ++ + P +S + +D E +T L Sbjct: 61 --EKYIKHMESINIRQDKNDAPY---------------SSENAVDFE---NMIRSTSNLY 100 Query: 122 DYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKR 181 DYL+ +++ + ++ I I+D++DE GYL + ++I +++ +D L Sbjct: 101 DYLIDELKYFKLTFEEKRICKYIIDSLDEDGYLRINDKEIYDAL---RVDASLFRRCLDI 157 Query: 182 IQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRL 241 +Q+ DP G+ A+++ +CL++QL + + +E II + L+L+ + + + + ++ Sbjct: 158 VQQLDPPGIGARNISECLILQLERMGISNNIVE---NIIMNDLELIGRNKLKDIAKKYKI 214 Query: 242 KEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQ 301 + KEA+ +I+ LDP+PG++ + YV PDV+V K +G + V N + ++IN Sbjct: 215 SIEKCKEAIEIIRHLDPKPGRACSNDKCVYVQPDVIVDKIDGKYIVHTNEKDVYNIKIND 274 Query: 302 HYASMCNNARNDGD-SQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 Y +M + +D + +FI+ L A LIK++ESR T+LR++ I+++QQ F ++GE+ Sbjct: 275 FYRNMMTDKDSDKEAKEFIKDRLNSAATLIKNIESRKSTILRIAEAIIDEQQEFIQKGEK 334 Query: 361 YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGE-ASSTA 419 Y+KPM + DIA +E+HEST+SR KY+ +P G++E K+FF++ + T+ + ASS Sbjct: 335 YIKPMKMKDIADKLEIHESTVSRGVNGKYMLTPFGLYEFKFFFNAALETDNSSDGASSAG 394 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 I+ +K +I EN KPLSD ++ +L E+G+ VARRTVAKYRE L IP S++RK+ Sbjct: 395 IKRDIKDIIDGENKKKPLSDDAISKMLKEKGVSVARRTVAKYREELGIPSSSRRKEF 451 >UniRef50_A6CFS8 RNA polymerase subunit sigma-54 n=3 Tax=Planctomyces RepID=A6CFS8_9PLAN Length = 496 Score = 472 bits (1216), Expect = e-131, Method: Composition-based stats. Identities = 150/498 (30%), Positives = 257/498 (51%), Gaps = 26/498 (5%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 + Q++L QQ+ + P++ Q++ +LQL L++ + Q L N LE+I +E E Sbjct: 3 LNISQQMKLGQQMKLAPRMIQSMEILQLPLQALEERIDQELAENVCLERISDNENTPETE 62 Query: 61 TQ----------------DSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDY 104 ++ + E + ++ + + L + W +S Sbjct: 63 SEQMREQANSDSNSHEIDEKEMVAGSEQNNESDFERLLEMAEQWPEDNVTSATKPSSNRV 122 Query: 105 IDDELPVYQG-----ETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLE 159 +D E QT+ +YL+ Q S + ++ +D G L L Sbjct: 123 SEDIERNNDAVANITERQQTINEYLIEQFHYFSCSPEVKEFGEYLIQNLDHNGRLQSSLP 182 Query: 160 DILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLI 219 +I++ G ++I +E E L IQ+ DP GV A+DL++CLL+QL P+ + + Sbjct: 183 EIVQVYG-QKITQEEAETALSLIQKCDPPGVGARDLQECLLLQLK---PDAPYRDVLVTL 238 Query: 220 ISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVR 279 I+ HLD L + + R T D++K A++ ++ LDP PG+ ++ V PDV V+ Sbjct: 239 ITAHLDDLGQNRLPVIQRKTGYSIDMIKNAMSYLRYLDPFPGRGFESEPVLKVTPDVFVK 298 Query: 280 KH-NGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRND 338 +G + VEL ++ P L+I++ YA M N +D ++I+ + AKWLI+++E R+ Sbjct: 299 LDKDGKYVVELENEYTPPLRISRGYAQMLRNKADDQTKEYIKKKIDAAKWLIEAIEQRHS 358 Query: 339 TLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFE 398 TL RV++ IV+ Q F + G E++ P+ + IA V +H +T+SR K++ +PRG++ Sbjct: 359 TLKRVAQAIVDFQTEFLDNGPEFIVPLKMQQIADVVGVHVTTVSRAVDDKWIQTPRGLYP 418 Query: 399 LKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTV 458 LK FF T G + + IR +K++I E+ KPLSD L LS++G +ARRTV Sbjct: 419 LKRFFGGGTKTSDGEDVAWGIIRLKLKEIIDGEDKNKPLSDDALVDALSKEGYNLARRTV 478 Query: 459 AKYRESLSIPPSNQRKQL 476 KYR++++IP S QR++ Sbjct: 479 TKYRKAMNIPSSRQRREY 496 >UniRef50_A6G445 Sigma-54 (RpoN) n=1 Tax=Plesiocystis pacifica SIR-1 RepID=A6G445_9DELT Length = 518 Score = 472 bits (1215), Expect = e-131, Method: Composition-based stats. Identities = 182/523 (34%), Positives = 291/523 (55%), Gaps = 55/523 (10%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALE---------------SNP 45 M+Q +LR+SQQL MTPQLQQAI+LLQLS +ELQ ++ L P Sbjct: 5 MRQ--ELRMSQQLVMTPQLQQAIKLLQLSRVELQDLVRNELLENPLLEESREMGTTNEEP 62 Query: 46 LLEQIDTHEEIDTRETQDSETLDTADALEQKEMPEELPLDA-SWDTIYTAGTPSG---TS 101 + ++ + +D + D ADA +Q+ + D W++ T SG S Sbjct: 63 V-SAVEMQDGVDLQ--GDIGEARAADAPQQEVKADAPNTDNFDWESYLQHHTLSGPMPGS 119 Query: 102 GDYIDDELPVYQG--ETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLE 159 G DD+LP + +TL ++LMWQ+ L+ +S + IA IV ++ +G+L + + Sbjct: 120 GVRGDDDLPGLEQTMADEETLVEHLMWQIRLSNWSPLEEDIAEYIVRSITASGHLGLSVP 179 Query: 160 DILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLI 219 I + + E+ VE +L+++Q+ DP+ +A+++L + L IQ + I Sbjct: 180 QIAQRL---EVSTLRVEQMLRKVQQLDPLALASRNLAEVLWIQARH-PEHPIGDPLVLTI 235 Query: 220 ISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVR 279 I+ HL L ++ + R T + + EA +I L+PRP + + +YV PDV V Sbjct: 236 IAKHLPNLEKRAYQAVARDTGEPLEEVYEATKVIMGLEPRPARQFVSESAQYVTPDVYVH 295 Query: 280 KHNGHWTVELNSDSIPRLQINQHYASMC-------------------------NNARNDG 314 K + V LN D +P+L+I+ +Y S G Sbjct: 296 KIGEEYVVTLNDDGLPKLKISNYYRSAMLADSSKQGGKGKGAKQAKQGKGAKPAKGDQAG 355 Query: 315 DSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAV 374 +I L+ A+WLI+S++ R T+L+V++ I+ Q+ FFE+G ++++P++L D+A+ + Sbjct: 356 AKDYITERLRSAQWLIRSIQQRQRTILKVTKSILGFQREFFEKGPQHLRPLILKDVAEDI 415 Query: 375 EMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPA 434 EMHEST+SRVTT KY+H+P+GI+ELKYFF++ ++ GGGE +S A++ +KKLI E+ Sbjct: 416 EMHESTVSRVTTNKYVHTPQGIYELKYFFNAGISRRGGGELASEAVKEKIKKLIEGEDSR 475 Query: 435 KPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQLV 477 KP SD KL LL E+GI +ARRTVAKYRE L++ S++R++L Sbjct: 476 KPYSDQKLVELLREEGIDIARRTVAKYREQLNLLSSSKRRKLF 518 >UniRef50_A9BRF9 RNA polymerase, sigma 54 subunit, RpoN n=16 Tax=Proteobacteria RepID=A9BRF9_DELAS Length = 538 Score = 472 bits (1214), Expect = e-131, Method: Composition-based stats. Identities = 201/538 (37%), Positives = 298/538 (55%), Gaps = 62/538 (11%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 MK GL LR+SQ L++TPQLQQ+I+LLQLSTLEL QE++Q L NP LE + + D Sbjct: 1 MKPGLSLRVSQHLSLTPQLQQSIQLLQLSTLELAQEVEQMLGDNPFLELANEEGDHDAAA 60 Query: 61 TQDSETLDTADALE--QKEMPEELPLDASWD----------------------------- 89 A+A E Q+ ++ W+ Sbjct: 61 GTREPAAPGAEATESFQESRADQPSAAVEWEPSSDASSGDAVETSGTAESLSWEGDGQTN 120 Query: 90 ------TIYTAGTPSGTSGDYIDDELPVYQ-GETTQTLQDYLMWQVELTPFSDTDRAIAT 142 + S T G +DE + + ++L D+L Q + DRA Sbjct: 121 SGNDDRDWGSDAPSSRTRGQGEEDEADATELARSAESLTDHLHRQALSLRLGEVDRAALR 180 Query: 143 SIVDAVDETGYLTVPLEDILESIGDEEID-----IDEVEAVLKRIQRFDPVGVAAKDLRD 197 +++ +++ GYL PL+++ + + ++++ + L+ +Q +PVGV A+DL + Sbjct: 181 FLIENLNDDGYLEDPLDELAQGLAGDDLEECEELVHRFTVALRLLQSLEPVGVGARDLAE 240 Query: 198 CLLIQLS--------------QFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKE 243 CL +QL + + L A I + +DLLA D R L + +E Sbjct: 241 CLTLQLRDQLADAEREGSGSAEDEDRQAVLRTALDICAQPMDLLARRDLRKLASLCGARE 300 Query: 244 DVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGH-----WTVELNSDSIPRLQ 298 + L+EA+ LI L+PRPG+ + + V+PDV+VR ++V+LN D +P+L+ Sbjct: 301 ERLREALVLITRLEPRPGRRFADVQRQIVVPDVIVRPVRSGAGRMDFSVQLNPDVMPKLR 360 Query: 299 INQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQG 358 ++ YAS + R ++ LQ+A+W IK+++ R DT+LRVS+ IVE+Q+ FF G Sbjct: 361 VHDIYASALRSHRGSEGHAALQQRLQEARWFIKNIQQRFDTILRVSQAIVERQKNFFVHG 420 Query: 359 EEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASST 418 E M+P+VL DIA A+ +HESTISRVTT KY+ +P+G +ELKYFF S + TE GG ASST Sbjct: 421 ELAMRPLVLRDIADALGLHESTISRVTTAKYMATPQGTYELKYFFGSGLGTEAGGNASST 480 Query: 419 AIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 A+RAL+K+ +AAE+P KPLSD++L +L EQGI ARRTVAKYRE L IPP+ RK L Sbjct: 481 AVRALIKQFVAAEDPKKPLSDNQLADMLKEQGIECARRTVAKYRELLKIPPTTLRKAL 538 >UniRef50_A8W0U1 SUF system FeS assembly protein, NifU family n=1 Tax=Bacillus selenitireducens MLS10 RepID=A8W0U1_9BACI Length = 444 Score = 471 bits (1213), Expect = e-131, Method: Composition-based stats. Identities = 160/477 (33%), Positives = 256/477 (53%), Gaps = 33/477 (6%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M G+ + S +L MT +L+QAI +LQ S +L L + NPL+E D + R Sbjct: 1 MDYGMYQQQSMKLVMTTELRQAITILQFSAQDLTDYLHEQQLENPLIEISDPPMTEEARR 60 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 + +MPE + PSG SGD L + E + L Sbjct: 61 -----------RTAEVDMPEPGRM------------PSGKSGDSDVTALDFLR-EPEEGL 96 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 +D+L+ Q+ ++ + R I + ++DE GYL ++ +G+E D V L Sbjct: 97 RDHLLHQIRMSEAPEAIRHIMNYLALSLDENGYLEHEIDVYAGELGEEPGD---VAKALG 153 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 +Q+ DP GV A++L +CLLIQL+ + P A I+ DHLD LAN F+ + + Sbjct: 154 ELQQLDPPGVGARNLTECLLIQLNGHEARDPL---AEAIVRDHLDQLANKQFQKIAKALD 210 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQIN 300 + + ++ + +++L+P+PG + EY+ PDV V K V+L +PR+ +N Sbjct: 211 VGVEDVEVVSDFLKTLNPKPGAVFHSTPAEYITPDVHVIKTGNELVVKLADGHLPRMTMN 270 Query: 301 QHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 + Y + + + +++ + W+ +S++ R +T+L V++ IV Q+ FF +G + Sbjct: 271 REYEQLL-QSGGSEVASYMKQKQEQFHWIKRSIQQRQETILNVTKAIVRHQEDFFLRGAD 329 Query: 361 YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAI 420 Y+KP+ L IA+ +E+HEST+SR T +KY +P+G+FELKYFF S EG S+ + Sbjct: 330 YLKPLNLKTIAEEIEVHESTVSRATVKKYAQTPKGLFELKYFFRSGFTGEGDD--SADKV 387 Query: 421 RALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQLV 477 + +K+LI E KP SD K+ LL +GI V+RRTVAKYRE LSIP S++RK+ Sbjct: 388 KLYLKRLIDEEEKKKPYSDQKIADLLEVKGIQVSRRTVAKYREELSIPSSSKRKRYT 444 >UniRef50_C1P7Z1 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Bacillus coagulans 36D1 RepID=C1P7Z1_BACCO Length = 444 Score = 471 bits (1213), Expect = e-131, Method: Composition-based stats. Identities = 146/479 (30%), Positives = 254/479 (53%), Gaps = 41/479 (8%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 ++ GL + S +LAMT +L+QAI +LQ S+ EL L++ NPL+E + ++ Sbjct: 3 LQVGLWQKQSMKLAMTQELKQAIEVLQFSSQELASFLEEKAAENPLIELSSANIKLV--- 59 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 D+ ++ + D T+TL Sbjct: 60 ----------------------------DSRFSGLSRVKGQKKSQDKNWIEQIPAQTETL 91 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 D+L+ Q+++ S+ +D GYL + +++ + I ++ E L Sbjct: 92 PDFLISQLDMKALSNKILKAVQLYARHLDANGYLAISVQEAAKMAA---ISEEDAEKALG 148 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 +Q DP G+ A+ L++CLLIQ+ + D P A +IS H A +R + + Sbjct: 149 ILQSLDPAGIGARSLQECLLIQIKR-DPDAPG--HAEELISRHFLDFAEKKWRGIAKKLD 205 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQIN 300 + ++ + +Q+L+PRPG P+Y++PD+LV+ H G + L + +P+L++N Sbjct: 206 ISLQEIQRVSDYVQTLNPRPGSGFMADRPQYIVPDLLVKNHAGKLELYLVENQVPKLRLN 265 Query: 301 QHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 + YASM N A + G +++++ Q+ W+ KS+ESR TLL+V ++E+Q+ FF G+ Sbjct: 266 ESYASM-NPAGDAGVTRYLKEKTQEYYWIRKSIESRKKTLLKVGAALLEKQRDFFLYGKG 324 Query: 361 YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHV---NTEGGGEASS 417 ++KP+ + +I+ + MHEST+SR +KY+ +P G F LK FF++ + + G ASS Sbjct: 325 HLKPLTMKEISDDIGMHESTVSRAVREKYMETPFGTFPLKTFFTTALPVRSAGGEEAASS 384 Query: 418 TAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 ++ + LI+ E+ KPLSD + ++L+E+G ++RRTVAKYRE L IP S++RK+ Sbjct: 385 AEVKNEISALISGEDKRKPLSDQAIVTVLNEKGFEISRRTVAKYREQLGIPSSSKRKRY 443 >UniRef50_C4XU56 RNA polymerase sigma factor n=13 Tax=Desulfovibrionales RepID=C4XU56_DESMR Length = 476 Score = 471 bits (1213), Expect = e-131, Method: Composition-based stats. Identities = 187/482 (38%), Positives = 285/482 (59%), Gaps = 19/482 (3%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQ-IDTHEEIDTR 59 ++ QL+LSQQL MTPQLQQAI+LLQLS LEL + +QQ L NPLLE+ ++ + + Sbjct: 3 LELRQQLKLSQQLVMTPQLQQAIKLLQLSRLELLESVQQELLENPLLEESVEEDRQPERV 62 Query: 60 ETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELP------VYQ 113 +D+ ADA +K EL +A WD + D E+P + Sbjct: 63 MVEDNNGPTGADAAMEK----ELLKNAEWDDYLGDFASTSKQSLSRDLEVPEEGMAFDAR 118 Query: 114 GETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDID 173 + +L +L WQ+ L+ F+ + I +IV +++ +GYL +E+I G D Sbjct: 119 LASKPSLDGHLGWQMHLSNFTAKEVEIGETIVGSLNSSGYLRATVEEIA---GMANADPA 175 Query: 174 EVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFR 233 VE VL R+QRFDPVGVAA+ +CLLIQ+ + P L ++ +HL+ L ++ Sbjct: 176 HVEKVLHRLQRFDPVGVAARTPSECLLIQIEVYGYDDPIL---IELVREHLEDLEKKRYK 232 Query: 234 TLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDS 293 L + L + LKE + LIQ+LDP PG S +G+P YV PD V K+ + + LN + Sbjct: 233 PLAKKFHLTMEKLKEYLELIQTLDPMPGASYGSGDPIYVSPDAFVYKYGEDFVILLNEEG 292 Query: 294 IPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQA 353 +PRL +N Y + RND D +++ ++ A WL+KSL R TL +V IV+ Q+ Sbjct: 293 MPRLGLNMSYTD-GSLPRNDKDKDYLQDKMRSAMWLMKSLYQRQRTLYKVLESIVKFQRG 351 Query: 354 FFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGG 413 FFE G ++P++L D+A + MHEST+SR+T+ KY+ +P GIFELK+FF+S + + GG Sbjct: 352 FFEDGVTKLRPLILKDVADDISMHESTVSRITSNKYVATPHGIFELKFFFNSALELDDGG 411 Query: 414 EASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQ-GIMVARRTVAKYRESLSIPPSNQ 472 S +++A++K++I+ EN KP+SD + +L ++ I +ARRTVAKYR ++ I S++ Sbjct: 412 TVGSESVKAMIKRIISGENDKKPISDEAIADMLKDELQINIARRTVAKYRTAMGIESSSK 471 Query: 473 RK 474 RK Sbjct: 472 RK 473 >UniRef50_B0TGK6 RNA polymerase sigma-54 factor n=1 Tax=Heliobacterium modesticaldum Ice1 RepID=B0TGK6_HELMI Length = 433 Score = 470 bits (1210), Expect = e-131, Method: Composition-based stats. Identities = 172/481 (35%), Positives = 255/481 (53%), Gaps = 54/481 (11%) Query: 1 MKQGL--QLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDT 58 M+ GL Q+ SQ+L MTP+L+QA+ +LQ++TLEL + + L NPLLE D E + Sbjct: 1 MQVGLGQQIEQSQRLVMTPELRQALAILQMNTLELSLFIGRELVQNPLLESPDPPREREM 60 Query: 59 RETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQ 118 E ++S +E+ E P Sbjct: 61 AERRESPF--------GREIQAEGP----------------------------------- 77 Query: 119 TLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAV 178 TLQ++L Q+ L R++ I+ +D+ GYL +I + G E + V V Sbjct: 78 TLQEHLELQLGLALSDGLRRSVGRYIIGNIDDKGYLRSDPAEIAAATGVGE---EIVGEV 134 Query: 179 LKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRV 238 L IQ FDP GV A+DL +CL IQL + K TP LE I+ DHL +A + + Sbjct: 135 LATIQSFDPPGVGARDLAECLRIQLCRQGKLTPHLE---RILEDHLPDVAAGRLHRIAQR 191 Query: 239 TRLKEDVLKEAVNLIQSLDPRPGQSIQ-TGEPEYVIPDVLVRKHNGHWTVELNSDSIPRL 297 ++ ++ V+ ++ L P+PG G+ ++PDV++ + +G + V +N +PRL Sbjct: 192 LKVTVGEVQAMVDRLKELAPKPGTPFGREGDNRPILPDVIIEQIDGEYLVLVNDGLLPRL 251 Query: 298 QINQHYASMCNNARNDGD-SQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFE 356 IN+ Y + N G+ ++ L A LI+++E R TL +V IVE+Q+ F E Sbjct: 252 TINRTYRHILNEEGAPGEAKAYVEERLHSALSLIRAIEQRRLTLHKVVSAIVERQRPFLE 311 Query: 357 QGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGE-A 415 QG +KPM L D+A +HEST+SR KY +PRGIFELK+FF S V T G E A Sbjct: 312 QGLAGLKPMTLRDVALKTGVHESTVSRSVAGKYAQTPRGIFELKFFFGSGVRTATGEEKA 371 Query: 416 SSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 ++ AI+ L+++LI E+ PLSD ++ L EQGI ++RRTVAKYRE L IPP+ QR++ Sbjct: 372 TAGAIKPLIRQLIDGEDKHHPLSDQQIAESLHEQGIPLSRRTVAKYREELGIPPTAQRRR 431 Query: 476 L 476 Sbjct: 432 Y 432 >UniRef50_Q3SF03 RNA polymease sigma-54 factor protein n=1 Tax=Thiobacillus denitrificans ATCC 25259 RepID=Q3SF03_THIDA Length = 476 Score = 467 bits (1203), Expect = e-130, Method: Composition-based stats. Identities = 162/474 (34%), Positives = 259/474 (54%), Gaps = 4/474 (0%) Query: 2 KQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRET 61 + L L Q +TP+LQQA+RLLQLST + ELQ+ + SNP LE D + Sbjct: 3 RPALALEPRQTQTLTPRLQQAVRLLQLSTFDFALELQELVSSNPFLELEDGEFADEDAAA 62 Query: 62 QDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQ 121 D+ T E + +++ G + + + + TL+ Sbjct: 63 PDTATTAADTPPAADGAQAEDYAETAYEERLGDGGEAPGRYSEANADAIDFAC-APVTLR 121 Query: 122 DYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEE-IDIDEVEAVLK 180 ++ Q+ + + +A I +A+D+ GYL V L+ + G E +D E+ A L Sbjct: 122 QHVHSQLNMLDLPPREHFLAWIIAEALDDDGYLRVELDALRAMAGLEPRVDAREMLAALT 181 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 R+Q DP G+AA+D+ +CL +QL + +P E A I+ D L LL D + + + Sbjct: 182 RVQSLDPAGLAARDVPECLTLQLRRRPP-SPQRELALRIVRDELKLLQQRDLQRIAQRVG 240 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQIN 300 ++ I+ L+PRPG + PDV+VRK G WT LNS ++PR+ +N Sbjct: 241 STPAEVEAVCAYIRRLEPRPGACFGHHVAAAIRPDVIVRKIRGQWTALLNSSAVPRVSLN 300 Query: 301 QHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 + YA + R + +L++A+W ++++E R T+LRV++ +V++QQ FFE G Sbjct: 301 RTYAELFQRHREPHHGD-LAGHLREARWAVQNMEQRFSTILRVAQALVDRQQHFFEHGTL 359 Query: 361 YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAI 420 M+P+ L DIA + +HEST+SR T K++ +P G+FELKYFFS +NTE G + S+TAI Sbjct: 360 AMQPLGLKDIADELGLHESTVSRATCNKFMVTPLGVFELKYFFSRALNTEQGSQCSTTAI 419 Query: 421 RALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRK 474 R ++K+I +E+ P SD+ + +L +QG+ VARRTV KYR+ ++IP + R+ Sbjct: 420 REAIRKMILSEDARSPHSDADIARILMQQGLRVARRTVTKYRQMMAIPNVDMRR 473 >UniRef50_A9GI22 RNA polymerase sigma-54 factor n=4 Tax=Myxococcales RepID=A9GI22_SORC5 Length = 506 Score = 466 bits (1200), Expect = e-130, Method: Composition-based stats. Identities = 178/510 (34%), Positives = 278/510 (54%), Gaps = 39/510 (7%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M+ LQ +LSQQL MTPQL QAIRLLQLS LEL E+++ L+ NP+L T + + Sbjct: 3 MEMKLQFKLSQQLVMTPQLVQAIRLLQLSRLELVDEIRKELDGNPVLADDMTDPKARDGD 62 Query: 61 TQDSETLDTADALEQK-EMPEELPLDAS--------------WDTIYTAGT---PSGTSG 102 D + EQ+ E E D W+ Sbjct: 63 KGDQRGRNADLPTEQRLENGERFDRDTDIAARETEKRVKEVDWEQFLENRQLQQAMPAHR 122 Query: 103 DYIDDELPVYQGETTQT-LQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYL------- 154 ++ P+ Q T + L+D+L+WQ++++ F + +R A ++ +DE GYL Sbjct: 123 GGFEELPPIDQNLTKPSNLRDHLLWQLQMSDFVENERQFALLVIGNLDEKGYLDLKGGER 182 Query: 155 ----TVPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTT 210 P +++ + E+ ++ E VL IQRFDPVGVAA+DL +CL +Q Sbjct: 183 PDGTKGPDLSLVDLAREAELHPEDAEEVLSMIQRFDPVGVAARDLSECLRVQAEVLGFDD 242 Query: 211 PWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQT--GE 268 + II DHL + +F + + ++ + + +AV IQ L+ P ++ + Sbjct: 243 IEM----AIIKDHLHNVERRNFPAIAKALKIPLEDVYDAVQEIQKLESVPARNFAEVDEK 298 Query: 269 PEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKW 328 + PDV V K + V N + RL IN++ A R+ +FI L+ A+W Sbjct: 299 TIAITPDVYVIKDGTQFVVTDNDKGLQRLYINENLAQRM--LRDPKAKEFISEKLRSAQW 356 Query: 329 LIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQK 388 LI+++E R T+++V+ CIVE+Q+ F E+G Y+KPM+L D+A++V MHESTISRVT+ K Sbjct: 357 LIRAIEQRRRTIIKVTECIVEKQREFLERGVGYLKPMILRDVAESVGMHESTISRVTSNK 416 Query: 389 YLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSE 448 Y+H+P+G+FELKYFF+S ++ + +S +++ +KK+I AE+ + P SD + +L E Sbjct: 417 YVHTPQGLFELKYFFNSSIHRVADEDIASESVKQAIKKIIVAEDKSNPYSDQAIVKILEE 476 Query: 449 -QGIMVARRTVAKYRESLSIPPSNQRKQLV 477 GI +ARRTVAKYRE L I S++RK++ Sbjct: 477 TDGIKIARRTVAKYREMLGILSSSKRKKMF 506 >UniRef50_C1SGY5 RNA polymerase, sigma 54 subunit, RpoN/SigL n=1 Tax=Denitrovibrio acetiphilus DSM 12809 RepID=C1SGY5_9BACT Length = 476 Score = 465 bits (1198), Expect = e-129, Method: Composition-based stats. Identities = 150/469 (31%), Positives = 260/469 (55%), Gaps = 9/469 (1%) Query: 8 RLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSETL 67 +LSQ+L +TPQ++Q++ +LQ+ EL QEL L NP+LE+I+ + + E ++ + Sbjct: 13 KLSQKLHITPQMKQSLAILQMPLTELLQELNTCLAENPVLEEIEQEPDEEKTEKKEEKEE 72 Query: 68 DTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQ 127 A Q E E++ W+ +Y + + + L +LM+Q Sbjct: 73 KDAKDDVQNEDLEKI----DWEELYRDSGEVSYTPSDDEGYDLEKFVSGQENLYGHLMYQ 128 Query: 128 VELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQRFDP 187 +++T S I+ ++ + GY + ++ E G +D D V L+ IQ FDP Sbjct: 129 LKVTGSSQDILTAGQYIIGSLTDEGYFDLEFSEVAEETG---VDEDTVAKALELIQTFDP 185 Query: 188 VGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLK 247 G+ A++LR+C+ IQL QF+ +++ ++ +H L + + + +++D Sbjct: 186 AGIGARNLRECIAIQLCQFEVEQVYIDFIAELLENHEKDLIAYRYDEIKNSLSIEDDTFD 245 Query: 248 EAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMC 307 + LI+ DP+PG + V PDV + K + + + LN D +P L++N +Y S+ Sbjct: 246 HMLFLIRKTDPKPGMNYAKDSNHSVTPDVYIVKKDDGYDIILNEDGMPALRMNSYYLSLL 305 Query: 308 NNARNDGD-SQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMV 366 N DGD ++I +++A WLIKSL R + +V + + E Q F E G +++KP+ Sbjct: 306 RNKELDGDTKEYIEEKIKNAIWLIKSLNKRQKAIYKVVKVLTEVQADFLEMGVDFLKPLK 365 Query: 367 LADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKK 426 L DIA +HEST+SRVT+ KY + +G+FELK FF ++T+ G + S+ ++++++ Sbjct: 366 LKDIADETGLHESTVSRVTSGKYAMTEQGLFELKSFFVKGLDTDDG-DMSTQKVKSMIRS 424 Query: 427 LIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 ++ +E+ KP SD K+ LL+ GI +ARRTVAKYR+ L+IP +QRK+ Sbjct: 425 IVDSEDADKPYSDQKIVELLNGDGIKIARRTVAKYRDELNIPTKSQRKR 473 >UniRef50_A5G033 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Acidiphilium cryptum JF-5 RepID=A5G033_ACICJ Length = 490 Score = 463 bits (1193), Expect = e-129, Method: Composition-based stats. Identities = 165/487 (33%), Positives = 263/487 (54%), Gaps = 19/487 (3%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 + L LR +Q L MTPQL+QAI+LLQ + E+ Q ++ L NPLLE+++ + Sbjct: 3 IGPRLDLRHTQSLVMTPQLRQAIQLLQFTNAEVSQFIEDELLKNPLLERVEPEADAALPV 62 Query: 61 TQDSE--------TLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDY---IDDEL 109 ++ + ++ PLD + +Y AG +G D+ Sbjct: 63 PRNDAASTEKPTGDIGAEHVVDPDPSGASTPLDVDFSNVYDAGGVGDGTGSGLSPERDDW 122 Query: 110 PVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEE 169 + L++ L Q L R IA +++ A+D G L P E I E + Sbjct: 123 IGQIADRPPGLRESLDQQARLAFADPVRRRIAFALIMALDPAGRLADPPEQIAERLA--- 179 Query: 170 IDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLAN 229 + D +EAV + + RFDP G+ A+DL +CL +QL + ++ P + + A Sbjct: 180 VAPDMLEAVRQTMMRFDPTGMFARDLAECLAVQLDERNRLDPAMRALLANLELL----AR 235 Query: 230 HDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKH-NGHWTVE 288 D R+LM + + + L++ + I+ L+P+PG +IPDVL+R +G + +E Sbjct: 236 RDLRSLMEICGVDAEDLRDMIAEIRRLNPKPGAIFDVTPMTPLIPDVLMRPGPDGDYFLE 295 Query: 289 LNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIV 348 LN +++PR+ I + + + + QF+ +Q A WL+++LESR +T+LRV+ IV Sbjct: 296 LNPETMPRVLIRRGFHAQIVARASRETRQFLSERVQSANWLVRALESRAETILRVAGEIV 355 Query: 349 EQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVN 408 Q AFF G +++P+ L +IA A+E+HEST+SRVT+ K + +PRGIFE+K+FF++ + Sbjct: 356 RHQDAFFRHGIGFLRPLTLREIAAALEIHESTVSRVTSNKVIATPRGIFEMKFFFTTALA 415 Query: 409 TEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIP 468 G S+ A+R + LI E + LSD L LL ++GI +ARRTVAKYRE+L IP Sbjct: 416 GANGESHSAEAVRHRISTLIEGEAANRILSDDALARLLQKEGIDIARRTVAKYREALRIP 475 Query: 469 PSNQRKQ 475 S QRK+ Sbjct: 476 GSAQRKR 482 >UniRef50_C6HU23 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Leptospirillum ferrodiazotrophum RepID=C6HU23_9BACT Length = 496 Score = 463 bits (1192), Expect = e-129, Method: Composition-based stats. Identities = 171/492 (34%), Positives = 265/492 (53%), Gaps = 24/492 (4%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 MK L LRL+Q++ MTPQLQQAI LL L+ L+L QE+Q+A+ NP+LE ++ +E D Sbjct: 1 MKPQLDLRLTQKMVMTPQLQQAINLLMLNRLDLAQEMQEAVLENPVLEIVEGEDEGDWTP 60 Query: 61 TQDSETL-DTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGD---YIDDELPVYQGET 116 + E T D +E PE D D + S D + +E + + + Sbjct: 61 GDEGEAPAQTMDDRMGREDPEAGEDDRMVDPLSNWDYSVDESLDNEAFQREERTLRESDA 120 Query: 117 TQ-----------TLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESI 165 + TL D+L WQ+ T S +R A+ +V +DE GYL + E + + Sbjct: 121 GEFSYEKVLSQPTTLADHLEWQLSFTDLSPEEREAASYLVGNIDEDGYLALEGEGLPSDL 180 Query: 166 GDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLD 225 D+D + L+ IQ DP GV A+ L++CL IQ + I+ D Sbjct: 181 -FPGCDMDRI---LRTIQTLDPPGVGARTLKECLQIQARLLGQEEALP---GRILDRAFD 233 Query: 226 LLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHN-GH 284 D + + R TR + + A+ +++L+P+PG+ P V+PD+ + + G Sbjct: 234 EFLAMDVKAMARKTRATPEEVGTALGFLRALEPKPGRPYYRESPSIVVPDLRFYEDDNGE 293 Query: 285 WTVELNSDSIPRLQINQHYASMCNNA-RNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRV 343 V ++ +PRL+I Y +M A + D ++ ++ A+W +KS+E R T+LRV Sbjct: 294 MRVAISEQGLPRLRIQPSYRAMLREAPKKDELRDYLEEKMRAAQWFLKSIEQRKKTILRV 353 Query: 344 SRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFF 403 ++ Q FF +G ++P+VL IAQ + +HESTISRVT QKY +P GI ELK FF Sbjct: 354 GESLLVHQADFFREGPRGLRPLVLRTIAQELGLHESTISRVTNQKYAETPFGIVELKSFF 413 Query: 404 SSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRE 463 S V + GGG S+T++R ++ ++ +E+P PL+D ++ L E GI++ARRT+AKYR Sbjct: 414 SGGVPSVGGGSHSATSVRERIRLMVRSESPESPLTDQEIMKKLEEAGIVIARRTIAKYRA 473 Query: 464 SLSIPPSNQRKQ 475 L IPP +QRK+ Sbjct: 474 ELDIPPVSQRKR 485 >UniRef50_A9BWZ4 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Delftia acidovorans SPH-1 RepID=A9BWZ4_DELAS Length = 520 Score = 462 bits (1190), Expect = e-128, Method: Composition-based stats. Identities = 161/515 (31%), Positives = 268/515 (52%), Gaps = 46/515 (8%) Query: 5 LQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEID------- 57 L+ + Q ++P+LQ A+R+LQ+S+L+ ++ LE NP LE + + Sbjct: 6 LRADIRQSQTLSPRLQLAVRMLQMSSLDFAAVVRSKLEDNPFLEDPQDAQYGEYEQGLLD 65 Query: 58 ----------------TRETQDSETLDTADAL--------------------EQKEMPEE 81 E + D + +P Sbjct: 66 GKELGEEGREGGMGRLAPEAGLAPDTGMDDGIGMGIGMDMDRDLPGMQHPPDPADHLPGP 125 Query: 82 LPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIA 141 A ++ A +G + + TL +L Q+ + + D +A Sbjct: 126 ATEPADDRDLWLADMHTGARQGVDGEGTAMDLAACETTLAMHLHGQLNVMAMTPRDLCMA 185 Query: 142 TSIVDAVDETGYLTVPLEDILESIGDEEI-DIDEVEAVLKRIQRFDPVGVAAKDLRDCLL 200 +IV+++D+ GYL L+++ + D E+ L+ +Q DP GVAA+ + +CLL Sbjct: 186 RAIVESLDDDGYLRTDLQELAGLLALSPAPDAQEMLIALRLVQSLDPAGVAARSVGECLL 245 Query: 201 IQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRP 260 +Q Q + A+ ++ DH+D LA D L R ++ + +A++ I+ L+PRP Sbjct: 246 LQCPQIG-DARLRQLAQAMVQDHMDALAARDVPRLARALQVPPAQITQALDCIRRLNPRP 304 Query: 261 GQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIR 320 G + + +Y++PDV+VR+ W V LN +PR+++N+ Y + R G +Q + Sbjct: 305 GWNFGSSHVDYIVPDVIVRRGQNGWNVHLNPAVVPRVRLNRVYEQLFQRHRRSGQNQ-LA 363 Query: 321 SNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHEST 380 +LQDA+W ++++E R T+L V++ IV +QQ F E G MKP+VL +IA+ V +HEST Sbjct: 364 DHLQDARWTVRNVEQRFSTILDVAQAIVRKQQLFLEFGAMAMKPLVLREIAEEVGVHEST 423 Query: 381 ISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDS 440 +SRVT KY+ +P G+FELK+FFS + + G S+TAIR L+ +IAAE+ A+PLSD Sbjct: 424 VSRVTNNKYMATPTGVFELKHFFSRPMLSASGNACSATAIRELIGDIIAAESDARPLSDV 483 Query: 441 KLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 ++ LS QG++VARRTV KYR+ L I P+++R++ Sbjct: 484 EIARQLSAQGLVVARRTVTKYRQLLRIEPADRRRR 518 >UniRef50_Q7UQ69 RNA polymerase subunit sigma-54 n=2 Tax=Planctomycetaceae RepID=Q7UQ69_RHOBA Length = 526 Score = 460 bits (1184), Expect = e-128, Method: Composition-based stats. Identities = 154/493 (31%), Positives = 255/493 (51%), Gaps = 23/493 (4%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQ----------- 49 M GLQ R SQ + P++ Q++ +LQ+ TL LQ+ ++Q + NPLLEQ Sbjct: 31 MSVGLQARQSQVQKLAPRMIQSMEILQMPTLALQERIEQEMNENPLLEQQTGDPLNPDDG 90 Query: 50 IDTHEEIDTRETQDSETLDTADALEQKEMPEELPLDAS----WDTIYTAGTPSGTSGDYI 105 D + DTR + E + D + + L +D+ +D + + Sbjct: 91 DDEIPDKDTRSESEKELVVDNDHDNKDDFERLLNMDSDLPSTFDDSFRQSANRMSEDADR 150 Query: 106 DDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVD--ETGYLTVPLEDILE 163 ++ ++L DYL+ Q+ D IA I+ ++ + GYL +PL D+L Sbjct: 151 RHDMMANAQSRPESLNDYLLHQLAEMDIDDEVEQIAERIISTLNASDGGYLRMPLADLLP 210 Query: 164 SIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDH 223 S G + D ++ E L +Q +P G+AA+DL +CL+ QL D + +E +I H Sbjct: 211 S-GHSKEDFEKAEEALAVVQSLEPSGIAARDLSECLISQL---DPSVAHFDELSTLIRSH 266 Query: 224 LDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHN- 282 L+ LA + + + T ++++E + L+P+PG + V PD+++ + Sbjct: 267 LNDLAENRLPQISKKTGFSIELIQELREELHLLNPKPGAAFLETYVPNVTPDIILEQDES 326 Query: 283 GHWTVELNSDSIPRLQINQHYASMCNNAR-NDGDSQFIRSNLQDAKWLIKSLESRNDTLL 341 G + V L+ D +P L I+++Y + +D + +FI+ + A+WLI S+E R TL Sbjct: 327 GEYRVRLDDDRVPTLFISEYYRRRLQASDCSDAEREFIKQKINGAQWLIDSIEQRRSTLT 386 Query: 342 RVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKY 401 RVS IVE Q+ F ++G E ++P+ + IA V +H +T+SR K++ +PRGI L+ Sbjct: 387 RVSEAIVEHQKRFLDEGPEAIEPLKMQQIADKVGVHVTTVSRAVDDKWIQTPRGILPLRR 446 Query: 402 FFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKY 461 FF TE G + + IR +++LI E+ +KP SD L L + G+ VARRTV KY Sbjct: 447 FFVGGTQTEDGDDVAWDTIRLKLQELIDKEDKSKPYSDENLVDELKKAGMTVARRTVTKY 506 Query: 462 RESLSIPPSNQRK 474 R+ + IP S QR+ Sbjct: 507 RKKMGIPSSRQRR 519 >UniRef50_B1ZUW1 RNA polymerase, sigma 54 subunit, RpoN n=3 Tax=Verrucomicrobia RepID=B1ZUW1_OPITP Length = 498 Score = 459 bits (1182), Expect = e-128, Method: Composition-based stats. Identities = 155/492 (31%), Positives = 253/492 (51%), Gaps = 28/492 (5%) Query: 5 LQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDS 64 L+ R +Q L + PQL+Q++++LQ++ L+L+ +Q+ L++NP LE++ E + + Sbjct: 10 LRQRQTQSLVLAPQLRQSLKILQVAALDLRSVIQEELQANPTLEELPMEGESVEKPAETD 69 Query: 65 ETLDTADALEQKEMP---------EELP----------LDASWDTIYT--AGTPSGTSGD 103 DT+ E +++ +EL +D W + G T+ D Sbjct: 70 APNDTSTPGEHEDVAPPGDDSPTRDELDFTKQFEILGKIDEDWRDHFANVGGAQPFTAED 129 Query: 104 YIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILE 163 + + +LQ++LM QV L + ++ +D+ GYL DI Sbjct: 130 AEKRQHFFDSLVSETSLQEHLMQQVVLNDLAPPVHEALHQLIGNLDDRGYLAQSPSDIAL 189 Query: 164 SIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDH 223 + E LK +Q FDP G+ ++ L DCLL QL + A ++ DH Sbjct: 190 QANLPYATVTE---ALKLLQSFDPPGIGSQTLADCLLAQLHAKGRGDTL---AARMLRDH 243 Query: 224 LDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNG 283 +LL+ L R + D ++ A+ I LDP PG+ V+PDV+V K Sbjct: 244 FELLSRRRIPELSRKLGVAADDVQAAIEEIGKLDPAPGRRFAEDSNRVVVPDVVVEKEGD 303 Query: 284 HWTVELNSDSIPRLQINQHYASMC-NNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLR 342 W + LNSD IPRL+++ Y + + + ++R ++ K+LI S+E R T+ R Sbjct: 304 EWKIHLNSDYIPRLRLSSTYRELIAKGTLSKEERDYLRERMRSGKFLIDSIEQRQRTIER 363 Query: 343 VSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYF 402 ++R I+ Q FFE G ++P+ + IA V +HE+T+SR KY+ +P G+FE KYF Sbjct: 364 ITREIINAQLPFFEHGVSQLRPLTMTQIADVVGVHETTVSRAIANKYMKTPHGVFEFKYF 423 Query: 403 FSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYR 462 F++ E G S+T+++ ++ LIA E+ + PLSD ++ + L E+GI +ARRTVAKYR Sbjct: 424 FTTGYQAESGDSVSNTSVKEMLADLIALEDKSAPLSDQEIVAKLQEKGITLARRTVAKYR 483 Query: 463 ESLSIPPSNQRK 474 E L I PSN R+ Sbjct: 484 EELGILPSNLRR 495 >UniRef50_Q4JMT6 Predicted DNA-directed RNA polymerase specialized sigma subunit, sigma54 homolog n=1 Tax=uncultured bacterium BAC17H8 RepID=Q4JMT6_9BACT Length = 499 Score = 457 bits (1177), Expect = e-127, Method: Composition-based stats. Identities = 162/486 (33%), Positives = 253/486 (52%), Gaps = 28/486 (5%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLE------------ 48 M LQ++ Q L MTPQLQQAI+LLQ++ L++ LQ NP LE Sbjct: 3 MMPSLQVKQKQALVMTPQLQQAIKLLQMTNLDICNYLQDQALENPFLEVENGPSHETASD 62 Query: 49 -----QIDTHEEIDTRETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGD 103 Q + ++ T D + A + +L + + G D Sbjct: 63 LGNGRQDEAPSDMPETRTLDKDMAGGAALADDPTANADLENRFGSQGLDFGHSQRGRPSD 122 Query: 104 YIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILE 163 D L + ++L + ++ Q++LT F R IA ++ +A++ TG+L L DI E Sbjct: 123 LDWDALANLAEQGPESLVECVLRQIDLTIFDPHQRVIAYALSEALEPTGWLGRELSDIAE 182 Query: 164 SIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDH 223 + G D +VE VL +QR +P GV A++L +CL IQ + L+ ++ D+ Sbjct: 183 ACG---ADERDVEEVLALVQRLEPEGVFARNLAECLRIQAREKG----VLDAVMTVVLDN 235 Query: 224 LDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNG 283 L +LAN D L R + + + LI+ +P+PG++ ++ PDV+V + Sbjct: 236 LQMLANGDIAQLARRADASTEDVSRCLKLIREFNPKPGEAYESAPLRVHAPDVIVTRGPD 295 Query: 284 HWTVELNSDSIPRLQINQHYASMCNNARN----DGDSQFIRSNLQDAKWLIKSLESRNDT 339 W V+LN ++P L IN+ YA+ A + +QF L A+WL ++LE RN T Sbjct: 296 GWVVDLNRSTLPALVINEAYAAEIGKAARGKAAEAGAQFASEALGSARWLRRALEQRNST 355 Query: 340 LLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFEL 399 L+++ IV QQ AF G +KP+ L D+A+AV MHEST+SRVT+ + +P+G F L Sbjct: 356 TLKIAGEIVRQQAAFLTDGLSALKPLALKDVAEAVGMHESTVSRVTSGLLMATPKGCFPL 415 Query: 400 KYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVA 459 K FS + T+ G ++ A+R +++ ++ +E KPLSD + L+S QG+ +ARRTVA Sbjct: 416 KSLFSVSLATDEGDARAAAAVRNMIEAIVKSEPAGKPLSDDAIAKLVSGQGVKLARRTVA 475 Query: 460 KYRESL 465 KYRE L Sbjct: 476 KYREML 481 >UniRef50_C7ILW5 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Clostridium papyrosolvens DSM 2782 RepID=C7ILW5_9CLOT Length = 452 Score = 457 bits (1175), Expect = e-127, Method: Composition-based stats. Identities = 138/476 (28%), Positives = 251/476 (52%), Gaps = 28/476 (5%) Query: 4 GLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE--T 61 +++ L+Q++A++PQ+QQ++ +LQ+ST EL ++Q NP++E D + D E Sbjct: 2 NIEINLNQKMAISPQMQQSMEILQMSTQELMDYVKQLAVDNPVVEFDDQPYDNDRSEILR 61 Query: 62 QDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQ 121 + E LD+ + + D + ++ Y + L Sbjct: 62 KKLEWLDSVNKEYRV-------------------YNHDLEEDEENKDVAHYMRGDEEDLY 102 Query: 122 DYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKR 181 +L Q+ L ++ +D+ GYL +D+ +++ ID + E L + Sbjct: 103 QHLQSQLNLMKAPKELCKTIQYMIGCIDKNGYLQEKTDDMAKAL---RIDEKKAEMALHQ 159 Query: 182 IQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRL 241 +Q +P GV A++L++CLL+QL + ++ P + +++ +L+LL + + + + Sbjct: 160 LQLMEPAGVGARNLKECLLLQLERLNQNNPLV---ITLVNCYLELLGKNQLNLIAKTLGV 216 Query: 242 KEDVLKEAVNLIQSLDPRPGQSIQTG-EPEYVIPDVLVRKHNGHWTVELNSDSIPRLQIN 300 D + +A +I+ L+PRPG + Y PD+++ K ++ V LN+ S P + I+ Sbjct: 217 SIDKVNDAFKIIKKLNPRPGMGFGAKRDIHYQTPDLVIVKFCDYYEVLLNNFSDPHISIS 276 Query: 301 QHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 +Y ++ + +D +I L++A W IK + RN+TLL V++ +V QQ FF++G Sbjct: 277 SYYRNVLSQNPSDNVKNYISDKLKEADWAIKCITQRNNTLLNVTKMLVNQQIGFFDKGPS 336 Query: 361 YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAI 420 Y+ PM IA +++HEST+SR KYL GIF L YFF++ ++ + AI Sbjct: 337 YLIPMNQKCIADKLQIHESTVSRAIRGKYLQCSWGIFGLDYFFTNGLSIGYDSQIVPDAI 396 Query: 421 RALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 ++ +KK+I E+ KP SD K+ +L+++GI +ARRT+ KYRE + IP + RK+ Sbjct: 397 KSDIKKIITEEDRKKPYSDQKIAEILNKKGISIARRTITKYREDMEIPKAGMRKEY 452 >UniRef50_C5D7M8 RNA polymerase, sigma 54 subunit, RpoN n=5 Tax=Geobacillus RepID=C5D7M8_GEOSW Length = 437 Score = 456 bits (1173), Expect = e-126, Method: Composition-based stats. Identities = 156/481 (32%), Positives = 237/481 (49%), Gaps = 50/481 (10%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M+ L +L++T +L QAI LLQ S +ELQ L + NP LE D + + R Sbjct: 1 MRAELLQEQRLKLSLTKELTQAIELLQYSAVELQSFLYEQSLENPFLEIRDYRLKRNFRN 60 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 D E + + ++TL Sbjct: 61 LSDKEKQQWIENM----------------------------------------STYSETL 80 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 YL Q+ S+ + I ++ +DE GYL V +E+I E I E E L+ Sbjct: 81 SSYLTAQLPALSLSEHEERIVHYMIACLDEDGYLRVNIEEIAERFA---ISKQEAEKALQ 137 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 IQ +P GV A++L++CL +QL + E A II H L ++TL + Sbjct: 138 IIQSLEPAGVGARNLQECLYLQLKRLPYRD---EFAEQIIQHHFSLFVEKAWKTLAKQLG 194 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLV-RKHNGHWTVELNSDSIPRLQI 299 + L+ +LI++L+PRPG P +++PD++V R G W + N D P L Sbjct: 195 VDIASLQRVWDLIRTLEPRPGIHYTKERPHFIVPDIIVQRSEEGDWRIFYNEDVHPELIW 254 Query: 300 NQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE 359 N+ Y ++ ++ F++ + WL KSLE R TLL + IV++Q+ FE G Sbjct: 255 NRGYEQKISSCQDGQVHAFVKDKYRQFLWLAKSLEQRKQTLLNIMHVIVDKQKQCFETGF 314 Query: 360 EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTE--GGGEASS 417 +KP+ + ++A+ + +HEST+SR KY+ +P G EL+ FFSS V++ ASS Sbjct: 315 AALKPLTMREVAEELGIHESTVSRAVKNKYVQAPFGTVELRRFFSSAVSSVYMDEDAASS 374 Query: 418 TAIRALVKKLIAAENPAKPLSDSKLTSLLSEQ-GIMVARRTVAKYRESLSIPPSNQRKQL 476 ++ +++LI EN +PLSD KL LL EQ G++++RRTVAKYRE L IP S +RKQ Sbjct: 375 VKVKMFIRQLIEQENKQEPLSDQKLADLLHEQYGVVISRRTVAKYREQLHIPSSAKRKQY 434 Query: 477 V 477 V Sbjct: 435 V 435 >UniRef50_B3E042 DNA-directed RNA polymerase specialized sigma subunit n=1 Tax=Methylacidiphilum infernorum V4 RepID=B3E042_METI4 Length = 458 Score = 455 bits (1172), Expect = e-126, Method: Composition-based stats. Identities = 153/477 (32%), Positives = 244/477 (51%), Gaps = 28/477 (5%) Query: 2 KQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRET 61 GL + A++PQ+Q ++ +LQ +EL +QQ L SNPLLE + Sbjct: 4 SLGLYQSIKLHQALSPQMQHSLAILQAPAVELSTIIQQELLSNPLLEISEDKP------- 56 Query: 62 QDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGET--TQT 119 LE + + W + + + + Sbjct: 57 -----------LEGQSLEGLFHEKEKWYDYLGPNFEGAQRSIEDERKRQFFFDSQVVPPS 105 Query: 120 LQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVL 179 + L Q+ L +T A I+ +DE GYL LE+I +G + D VE L Sbjct: 106 MASELSRQLSLVCSDNTLLQAAQYIIGNLDERGYLNTELENIAHELG---LAYDLVEKAL 162 Query: 180 KRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVT 239 + +Q DP G+AA++L +CLL+QL K IIS++L LL + + Sbjct: 163 ELVQSLDPPGIAARNLSECLLLQLKALGKENSLE---FRIISEYLTLLERKKLTEIAKQL 219 Query: 240 RLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVI-PDVLVRKHNGHWTVELNSDSIPRLQ 298 ++ ++EAV I+SL+P PG ++ E E +I D++V K W V N + +PRL+ Sbjct: 220 KVSLKQVQEAVESIRSLNPFPGSKYRSEEKEKIIQVDLMVVKEAQDWKVYFNDEFMPRLR 279 Query: 299 INQHYASMC-NNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQ 357 IN HY S+ N ++ +++ + +LIK L R +TLL+V+ IV Q+ FF+ Sbjct: 280 INHHYESLLSKNDKDPSLKNYLKEKKRSGLFLIKCLRMRENTLLKVAEAIVHCQKDFFDS 339 Query: 358 GEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASS 417 G +KP+ +++IAQ +++HE+T+SR KY+ +P GIFELKYFF+S + G ++ Sbjct: 340 GPHALKPLTMSEIAQKIDVHETTVSRAIANKYVKTPHGIFELKYFFNSGFQKQTGEFVAN 399 Query: 418 TAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRK 474 I+ +++LI E+P PLSD ++ LL+++GI +ARRTVAKYR L I PS+ R+ Sbjct: 400 QTIKEAIERLIRNEDPRSPLSDQQIVELLAKEGIKMARRTVAKYRAHLKILPSHLRR 456 >UniRef50_A6NQ00 Putative uncharacterized protein n=1 Tax=Bacteroides capillosus ATCC 29799 RepID=A6NQ00_9BACE Length = 459 Score = 455 bits (1172), Expect = e-126, Method: Composition-based stats. Identities = 145/480 (30%), Positives = 249/480 (51%), Gaps = 35/480 (7%) Query: 5 LQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDT-----R 59 L + L Q ++PQ+ Q++ +LQ+ + EL + +++ ++NP+LE + ++ D R Sbjct: 3 LSMNLRQTQTLSPQMVQSMEILQMGSQELLEFIEETTQANPVLEVDEKYDRQDEFDLMRR 62 Query: 60 ETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQT 119 + + E+ D ++ ++ EE P G + E + Sbjct: 63 KLEWLESTDVQNSWYHRQDAEE------------DADPMANYGGVENGE---------ED 101 Query: 120 LQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVL 179 L Y++ Q+ + A A +V+++++ G+L + + + G + +E L Sbjct: 102 LYRYVLSQLGMLSLERDVMAAAVFVVESLNQNGWLDDDVPALAAAFGCGQ---SVMERAL 158 Query: 180 KRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVT 239 + +Q +P GVAA++L +CL +QL + + A I+ HLD LA F + + Sbjct: 159 EAVQSLEPAGVAARNLSECLRLQLLRRGEGNAL---ALEIVEHHLDALARSRFGLIAKEL 215 Query: 240 RLKEDVLKEAVNLIQSLDPRPGQSIQTGEP-EYVIPDVLVRKHNGHWTVELNSDSIPRLQ 298 + ++EA LI++L+P+PG E Y+ PD++V H+ V N P L Sbjct: 216 GASAEEVREACALIKTLNPKPGTGFAAREHLTYINPDIIVVSFPDHFEVLANDYFFPSLH 275 Query: 299 INQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQG 358 ++ +Y + + + ++ ++ AKW+++S+E R TLL ++CI+ Q+ FF QG Sbjct: 276 MSGYYQQLMKDTDDQEVKDYLTDKVRQAKWVVRSIEQRRSTLLSCAQCILALQEPFFRQG 335 Query: 359 EEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGE--AS 416 ++ PM LAD+AQ +E+HEST+SR KYL G++ L YFFS + G GE AS Sbjct: 336 PGHLSPMSLADVAQRLEVHESTVSRAIRDKYLQCSMGVYPLSYFFSRGLGGSGDGEEGAS 395 Query: 417 STAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 A + L++KLI E+ A P SD KL L+ EQG ++RRTVAKYR+ L IP + R+Q Sbjct: 396 PEAAKILLRKLIEEEDKAHPHSDQKLRELMGEQGCTISRRTVAKYRDELGIPSTTGRRQY 455 >UniRef50_D1N390 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Victivallis vadensis ATCC BAA-548 RepID=D1N390_9BACT Length = 472 Score = 454 bits (1168), Expect = e-126, Method: Composition-based stats. Identities = 145/476 (30%), Positives = 251/476 (52%), Gaps = 12/476 (2%) Query: 2 KQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRET 61 +Q L L Q+ ++ + Q++ LL L LEL++ L Q L +NPLLE E ++ Sbjct: 5 QQTLSTTLRQEQQLSARQLQSLELLNLPALELEERLTQELAANPLLEAEVQSEPVELPAQ 64 Query: 62 QDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQ 121 ++ + L+++ + E D + +++ + TLQ Sbjct: 65 PEAPEKEDESTLDERAVENEEWAD----ELPMPPGTGEAGFTNEENDFMLNSLSDAPTLQ 120 Query: 122 DYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKR 181 + L ++ + R +A I+ ++D+TGY D+ S E ++ + EA LK Sbjct: 121 EQLFSELATCDATPEVRRLAEEIIGSIDDTGYFRSTPADLAMS---ENAELADAEAALKL 177 Query: 182 IQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRL 241 +Q FDP GV +DL +CL +QL + + TP E I+ HL+ +A + L R R+ Sbjct: 178 VQSFDPPGVGCRDLAECLKLQLERTGELTPLYRE---ILDHHLEEIARNHLPQLARTLRI 234 Query: 242 KEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDV-LVRKHNGHWTVELNSDSIPRLQIN 300 + L + ++ L+P PG ++ ++V+P+V +VR +G + V + +PRL + Sbjct: 235 SLEELNRCLARLRRLNPYPGSALAPEHADFVMPEVSIVRGADGEYEVAPRRNGMPRLFLA 294 Query: 301 QHYASMCNNAR-NDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE 359 + Y + D ++R LQ A+ L+++L+ R T++R++ IV Q+ F + G Sbjct: 295 ERYLKLLETPDLPTADKAYLRDKLQQARELMRALDLRQSTIVRIAGVIVATQRDFLDNGV 354 Query: 360 EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTA 419 +KP+ + + +E+HE+T+SR KY+ +P+GIF K+FF++ E G S+ A Sbjct: 355 AALKPLTMKQAGEMLELHETTVSRAVANKYVETPQGIFPFKFFFTAGFTGEDGTSVSNRA 414 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 + +K+LI ENPAKPLSD +L +L G+ VARRTVAKYRE ++IP S+ R++ Sbjct: 415 VMEKIKELIDKENPAKPLSDEQLAQMLKAGGLAVARRTVAKYREGMNIPSSSLRRK 470 >UniRef50_C7IQW3 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Thermoanaerobacter ethanolicus CCSD1 RepID=C7IQW3_THEET Length = 470 Score = 452 bits (1164), Expect = e-125, Method: Composition-based stats. Identities = 158/450 (35%), Positives = 259/450 (57%), Gaps = 26/450 (5%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M+ L+L+ +Q+L MTP+L+QAI +LQL++LEL ++Q LE+NP+LE+ +T EE + E Sbjct: 3 MEFELKLQQAQKLIMTPELKQAIEILQLNSLELNALIEQELETNPVLEKEETSEEENAYE 62 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 E E++ ++ + + Y + +L Sbjct: 63 YDLYELSKYIRETEERMYYDDSDDEEIEEVNYENFVSPKS------------------SL 104 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 D+L++Q+ +TP + I I+ ++ +GYL ++DI E + E +EV L Sbjct: 105 SDHLLFQLHITPVPPKIQKICEYIIFSLSPSGYLREDIKDIAEIL---ECSEEEVLDGLS 161 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 +Q FDP G+AA++L++CL +QL D + + ++ HL+ +A + L ++ Sbjct: 162 VVQSFDPPGIAARNLQECLKLQLLAQDSYKGIV---KKLVDYHLEEIAEGKYSYLAKLYN 218 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTG-EPEYVIPDVLVRKHNGHWTVELNSDSIPRLQI 299 + +++AV+ I+ L+P+PG S + + Y+IPDV V K G + V +N P+L+I Sbjct: 219 ISLKEVQQAVDFIKKLNPKPGSSFSSTTDVGYIIPDVEVIKREGEYFVIVNDSVTPKLKI 278 Query: 300 NQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE 359 N +Y S+ N+ ++ ++I S LQ A WLIKSLESR +TL +V + IVE Q+ F ++G Sbjct: 279 NNYYHSILNSH-DEEAKKYINSKLQSAMWLIKSLESRKETLYKVVKAIVELQRDFLDKGI 337 Query: 360 EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTA 419 Y+KPM IA V +HEST+SR KY+ +PRG+FE+K+FF S ++ G E S+ + Sbjct: 338 NYLKPMTQKQIADIVGIHESTVSRAINGKYVATPRGLFEIKFFFQSGISNRNGNEISAES 397 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQ 449 I+ L+KKLI E+PA PLSD K+ +L E+ Sbjct: 398 IKNLIKKLIEEEDPANPLSDQKIADILKEK 427 >UniRef50_A0RKT0 RNA polymerase sigma-54 factor n=75 Tax=Bacillus RepID=A0RKT0_BACAH Length = 458 Score = 452 bits (1164), Expect = e-125, Method: Composition-based stats. Identities = 146/475 (30%), Positives = 261/475 (54%), Gaps = 44/475 (9%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 +K L S +LAMT +L+QAI +LQ + EL + L + NPL+E E Sbjct: 24 LKASLLQEQSLRLAMTQELRQAITMLQYNVQELSEFLYEQSLENPLIELGGFEREKKKSS 83 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 T +++++ +Y ++T T+ Sbjct: 84 NNSKSTSK-----------------------------------QVENQMEIYSVDST-TI 107 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 Q +L+ Q++ + +R +A+ I+ +D GYL E++ + + V+ ++ Sbjct: 108 QQHLLNQIQYYKIEEEERKVASFIIMNMDGNGYLQETNEELANLLS---APLHVVDRSVE 164 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 +Q +P GV A+++++CL +QL + + A ++ DH D+R L++V + Sbjct: 165 LVQSLEPAGVGARNIQECLTLQLKRLQRRNGL---AEEVVEDHFAYFVKKDWRKLVQVLK 221 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQIN 300 + L++AVN I SL P+PG + + +P Y++PD+ V+K +++N ++PR++I+ Sbjct: 222 CSNEELQDAVNCITSLQPKPGLAFSSDKPLYIVPDMAVKKDGDRLVLQMNERNMPRIEIH 281 Query: 301 QHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 Y+++ NN+ + + ++ Q +W+++SL+ R TLL+V I+E+Q+ FF +G E Sbjct: 282 SEYSALLNNSES-EVASYVSEKYQHVQWIMRSLKQRKQTLLQVMTIIMEKQRDFFWKGPE 340 Query: 361 YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAI 420 Y+KP+ L ++A+ + +HESTISR T KY+ +P G+FE+K FFS+ V+T S+ + Sbjct: 341 YLKPLALKEVAEELSVHESTISRATRNKYVQTPHGLFEMKSFFSNAVSTTEDEAVSTKRV 400 Query: 421 RALVKKLIAAENPAKPLSDSKLTSLLSEQ-GIMVARRTVAKYRESLSIPPSNQRK 474 + ++ L+ AEN KPLSD K++ LL E+ I+++RRTVAKYRE + IP S+ RK Sbjct: 401 KQFIQTLVEAENKKKPLSDQKISKLLEEEHEIVISRRTVAKYREQMHIPASSLRK 455 >UniRef50_A6CNF4 DNA-directed RNA polymerase subunit N n=1 Tax=Bacillus sp. SG-1 RepID=A6CNF4_9BACI Length = 430 Score = 452 bits (1163), Expect = e-125, Method: Composition-based stats. Identities = 140/476 (29%), Positives = 244/476 (51%), Gaps = 49/476 (10%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 + GL R S +L MT QL QAI LLQ S+ EL L+ NPLL+ E TR+ Sbjct: 3 LNTGLWQRQSLKLNMTQQLTQAIELLQYSSQELNAYLESKALENPLLQLEPVSYEERTRK 62 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 +G S D+I++ +L Sbjct: 63 RNQE--------------------------------YNGMSIDWIEE-----IAVQQHSL 85 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 ++L Q+ L + DR + + D++DE GYL +E + + ++ ++ Sbjct: 86 WEHLNAQLNLKTLNHEDRNTLSLLFDSLDENGYLPSNIESLFR--------VSDLSTYIE 137 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 +Q +P G+ A++L++CLL+Q+ + T E A II H ++T+ + Sbjct: 138 MLQSLEPAGIGARNLKECLLLQIQR---DTEAPEHAHSIIEHHFAAFCEKTWKTITKELG 194 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQIN 300 + ++ + +++L+PRPG + P+Y+ P++ V + V+L S+ +++ N Sbjct: 195 ITLSDIQLTADYVKTLNPRPGARFTSEAPQYIRPEMNVTRSKDGLEVQLVDGSVMKIKYN 254 Query: 301 QHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 Y + ++++ +F+R Q+ +WL+K L+ R TL++V +C+VE+Q+AFF G + Sbjct: 255 SEYDELIASSKDKEGLKFMRDKKQEFQWLLKMLDQRKTTLMKVGKCLVERQEAFFRYGPK 314 Query: 361 YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAI 420 +KP+ L ++A+ + +HESTISR KY+ +P G +E+K F S V + SS I Sbjct: 315 ELKPLTLKEVAETIGVHESTISRAVRGKYIGTPCGTYEMKALFVSGVGKDE-DAVSSEGI 373 Query: 421 RALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 +A + +++ E+ KPLSD + +L E+G+ V+RRTVAKYR+ L+IP S +RK+ Sbjct: 374 KAEIMQMVTTEDKKKPLSDQAIAVMLQEKGLHVSRRTVAKYRDQLNIPSSTRRKRY 429 >UniRef50_A4ISQ1 RNA polymerase sigma-54 factor RpoN n=3 Tax=Bacillaceae RepID=A4ISQ1_GEOTN Length = 435 Score = 452 bits (1163), Expect = e-125, Method: Composition-based stats. Identities = 152/479 (31%), Positives = 232/479 (48%), Gaps = 49/479 (10%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M+ L QL++T +L QAI LLQ S L+L+ L + NP LE T Sbjct: 1 MRAELWQEQRLQLSLTKELVQAIELLQYSALDLEAFLYEQSLENPFLEIRRGRMRRRTSR 60 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 T D + T+TL Sbjct: 61 T-----------------------------------------DKDRKQWLENISGRTETL 79 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 +L+ Q+ + + ++ A+DE GYL VPL ++ + EVE L+ Sbjct: 80 AGHLLAQLPGLMLPAKEERMVRHLIAALDEDGYLRVPLAELAARFS---VSEQEVERALR 136 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 +Q DP GV A+DL +CLL+QL + + E A I+ H A ++TL + Sbjct: 137 FVQSLDPPGVGARDLAECLLLQLERRPERD---ELAETIVRHHFVAFAEKAWKTLAKQLG 193 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKH-NGHWTVELNSDSIPRLQI 299 + L+ LI++L+PRPG P +++PD++V + +G W V N D P L Sbjct: 194 VSLGELQRVFELIRTLEPRPGIHYANETPHFIVPDLIVTRQADGGWIVTYNDDIHPELGW 253 Query: 300 NQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE 359 N+ Y + +F++ + WL KSLE R TL+ + I+++Q++ FE G Sbjct: 254 NKEYERHIVAVGDRHAERFMKEKYRQFTWLAKSLEQRKQTLVHLMGIIIDRQRSCFESGL 313 Query: 360 EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTA 419 +KPM + ++A+ + +HEST+SR KY+ +P G+ EL+ FFSS G ASS Sbjct: 314 SALKPMTMREVAEELGVHESTVSRAVRHKYVQTPFGMIELRRFFSSAATAGAGETASSVQ 373 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQ-GIMVARRTVAKYRESLSIPPSNQRKQLV 477 ++A+++ LI+AE+ PLSD +L LL +Q GI ++RRTVAKYRE L IP S +RKQ Sbjct: 374 VKAIIQTLISAEDRRAPLSDQQLADLLRDQHGIAISRRTVAKYREQLRIPSSAKRKQYT 432 >UniRef50_C9XR96 RNA polymerase sigma-54 factor n=5 Tax=Clostridium RepID=C9XR96_CLODC Length = 448 Score = 451 bits (1162), Expect = e-125, Method: Composition-based stats. Identities = 162/476 (34%), Positives = 278/476 (58%), Gaps = 32/476 (6%) Query: 2 KQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRET 61 L+L SQ+L MT QL+Q++ +L +S LEL++E+++ E+NPL+E ++ EI+ E Sbjct: 4 NNSLELTQSQKLIMTTQLKQSLSILNMSKLELEEEIKREAENNPLVE-VEKSGEINWEEY 62 Query: 62 QDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQ 121 + +D + L++ E+ + + + + + + L Sbjct: 63 --IKDMDRSRRLDRTEISYNPDNEVNLENL----------------------VKYSSNLY 98 Query: 122 DYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKR 181 + L +Q+ L +D + + I+D++DE GYL + I++++ +ID + E L Sbjct: 99 EDLKFQISLYKLTDKELEVCEYIIDSLDEDGYLRTEEKVIVDTL---KIDEELFEKCLIS 155 Query: 182 IQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRL 241 +Q+ +P GV A+ L +CL+IQ++ LEE I++ L+L+AN+ ++ + + + Sbjct: 156 VQQLEPSGVGARSLSECLMIQMASLGIYNEILEE---IVTKDLNLIANNKYKEISKKYNM 212 Query: 242 KEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQ 301 E +N+I++LDP+PG++ + Y+ PDV V K + + V LN +++IN Sbjct: 213 SLQKCVELINIIKTLDPKPGRTCSVEKSVYIQPDVTVEKIDDEFIVYLNEKDSYQIRINS 272 Query: 302 HYASMCNNARNDGD-SQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 +Y + N+++D +FI+ L A L+K++ESR T+L+++ IV+ Q F +G + Sbjct: 273 YYKDILKNSQSDESAKEFIKERLNSATGLMKNIESRKTTVLKIAEEIVKAQDEFLRKGTK 332 Query: 361 YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAI 420 Y+KP+ + DIA+ +E HESTISR KY+ +P G++E +YFFSS + TE ASST+I Sbjct: 333 YIKPLKMKDIAEKLEFHESTISRGVNGKYMLTPFGVYEFRYFFSSAIETENNEMASSTSI 392 Query: 421 RALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 + ++K+ I EN KPLSD ++ LL E+GI VARRTVAKYRE L IP S++RK+ Sbjct: 393 KKIIKETIKDENKKKPLSDDHISKLLKEKGINVARRTVAKYREELGIPSSSKRKEY 448 >UniRef50_D2R5L0 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Pirellula staleyi DSM 6068 RepID=D2R5L0_9PLAN Length = 494 Score = 451 bits (1161), Expect = e-125, Method: Composition-based stats. Identities = 150/491 (30%), Positives = 252/491 (51%), Gaps = 21/491 (4%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTH----EEI 56 + GL+ R Q + P++ Q++ +LQL ELQ+ ++Q L NPLLE +D +E Sbjct: 3 LSFGLEARQVQVQKLAPRMIQSMEILQLPLQELQERIEQELAENPLLEMLDRDPSLPDEQ 62 Query: 57 DTRETQDSETLDT------ADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDD--- 107 RE + + +D + L LD + S + D Sbjct: 63 VERELPNEKDVDDKPIVVDEAHNNADDFERLLNLDREVPDYFDESRRSSNRMEEDSDRAH 122 Query: 108 ELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVD--ETGYLTVPLEDILESI 165 ++ + ++LQD+L+ Q+ S +A I+ +D + GY L D+L Sbjct: 123 DVISNVADRPESLQDHLLHQLGEMDLSLELMQMAERIISTLDPLDGGYFRSSLRDLLPID 182 Query: 166 GDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLD 225 +E I E L IQ+ DP G+ A+DLR+CLL+QL+ T EE + +I+ HL+ Sbjct: 183 ATKE-QIALAERALALIQQLDPPGIGARDLRECLLLQLT---PTMFMYEELKTLITSHLE 238 Query: 226 LLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDV-LVRKHNGH 284 L ++ + + T D +++A + ++ L+P+P V PDV +VR +G Sbjct: 239 DLRDNRLPLIQKSTGYSIDRIQKAWSELRKLNPKPASGFSEAFVPNVTPDVAVVRGEDGQ 298 Query: 285 WTVELNSDSIPRLQINQHYAS-MCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRV 343 + V+++ P L I+++Y + + + ++I+ + A+WLI+S+E R TL +V Sbjct: 299 YLVQVDESRTPTLHISKYYRERLASGTATPEEREYIKRKINAAQWLIESIEQRRSTLTKV 358 Query: 344 SRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFF 403 S+ IV+ Q F ++G E+++P+ + IA V +H +T+SR K++ +PRGIF LK FF Sbjct: 359 SQAIVDHQTKFLDEGPEHIEPLKMQQIADKVGVHVTTVSRAVDDKFIQTPRGIFPLKRFF 418 Query: 404 SSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRE 463 T G + + IR +++++ EN PLSD L L +QG+ VARRTV KYR+ Sbjct: 419 VGGTQTAEGDDVAWDIIRIRLQEIVDKENKQAPLSDDDLVEELKKQGLNVARRTVTKYRQ 478 Query: 464 SLSIPPSNQRK 474 + IP S QR+ Sbjct: 479 KMGIPSSRQRR 489 >UniRef50_D1R8J1 Putative uncharacterized protein n=1 Tax=Parachlamydia acanthamoebae str. Hall's coccus RepID=D1R8J1_9CHLA Length = 500 Score = 449 bits (1156), Expect = e-125, Method: Composition-based stats. Identities = 150/490 (30%), Positives = 261/490 (53%), Gaps = 24/490 (4%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M+Q L + +Q++ M+PQ+QQAI LLQ+ +EL ++ LE NP+LE I + E D Sbjct: 13 MQQSL--KQTQRMIMSPQMQQAIHLLQMPLMELVDRIETELEQNPILESIQDYPEEDQDL 70 Query: 61 TQDSETLDTADALEQKEMPEEL-----------PLDASWDTIYTAGTPSGTSGDYIDDEL 109 T+ E AD E++ +EL +D + + T +++ Sbjct: 71 TRLEEDNSEADLDEEQPPEKELLFDEQDFEILKQIDEDFRDHFAESGNYYTKRTEEEEKQ 130 Query: 110 PVYQGETTQ---TLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIG 166 +Q + Q +L ++LM + T + D IA SI+ DE G+L L +I Sbjct: 131 KNFQLNSIQAHVSLFEHLMTIAQETFANPKDIQIAESIIGNFDERGFLQTSLTEIAVL-- 188 Query: 167 DEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDL 226 + + E++ VLK IQ FDP GV A DL++ LIQL K A II D + Sbjct: 189 -NDFSVKELQRVLKTIQTFDPFGVGASDLQESFLIQLRCQKKEHSL---AYKIIEDCYED 244 Query: 227 LANHDFRTLMRVTRLKEDVLKEAVNL-IQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHW 285 L ++ + + + +++A++ I LD PG S + ++PD ++++ +G Sbjct: 245 LLHNRLPIIKKHLNCSIEDIQKAIDKDISKLDLHPGASFSGEIAQTIVPDAMIKEEDGKL 304 Query: 286 TVELNSDSIPRLQINQHYASMCNNAR-NDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVS 344 + + SD +P +++N+ Y M + +D FIR + AKWL++++ RN T+ R++ Sbjct: 305 DIVVTSDFLPPIRLNKRYMKMLEDESLSDATRDFIRQRVISAKWLLRNIHHRNTTIDRIA 364 Query: 345 RCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFS 404 + + +QQ AFF+ + + P+ + +A + +HEST++R KY+ +PRG+ ++FF+ Sbjct: 365 QFLAQQQHAFFQNPDGQLVPLTMKTVADNLGLHESTVARAVAGKYVETPRGLLPFRFFFT 424 Query: 405 SHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRES 464 + T+ G + S+ +R +K +I E+ +KPLSD K++ LL +GI ARRTV+KYR Sbjct: 425 NAYMTDEGSDISAETVREAIKDIIDKEDKSKPLSDHKISDLLEIKGIHCARRTVSKYRAE 484 Query: 465 LSIPPSNQRK 474 L++ + QR+ Sbjct: 485 LNLGNTQQRR 494 >UniRef50_A4GID2 DNA-directed RNA polymerase specialized sigma subunit sigma54 n=1 Tax=uncultured marine bacterium HF10_19P19 RepID=A4GID2_9BACT Length = 504 Score = 449 bits (1156), Expect = e-124, Method: Composition-based stats. Identities = 166/500 (33%), Positives = 268/500 (53%), Gaps = 33/500 (6%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEE----- 55 + Q ++LR Q L MTPQLQQAI+LLQ++ LEL Q LQ+ + NP LE E Sbjct: 3 LSQSIKLRQKQSLVMTPQLQQAIKLLQMTNLELSQHLQEQMYDNPFLEVNGATETELSET 62 Query: 56 ------------------IDTRETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTP 97 + S ++A + +E+ + P Sbjct: 63 AKHTSGPADSEVLNKNLTATEGQNDVSALRESAALADDPTQNQEIENRFDTALVDMPSNP 122 Query: 98 SGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVP 157 + D P+ + L Q+ LT DR IAT ++A++ +G++ Sbjct: 123 GVRNKFADGDFDPIDSLTSEDGFYPMLFKQMNLTFSDPADRIIATHFINALEPSGWIGNS 182 Query: 158 LEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEAR 217 +E I E G +++ E VL +Q F+P G+ A+DL +CL IQL + ++ + + Sbjct: 183 VEAIAEESG---CSVEQAETVLAALQGFEPAGLFARDLAECLKIQLIENNQFSHLFGQ-- 237 Query: 218 LIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVL 277 + D+L+ L + + L R + + + E +++I++L+P+PG+ + E PDV+ Sbjct: 238 --LLDNLEQLGRGEIKQLARKFKCAPEDIVEMLSIIRTLNPKPGEHLGIEFREMPSPDVI 295 Query: 278 VRKHNGHWTVELNSDSIPRLQINQHYASMCNNAR--NDGDSQFIRSNLQDAKWLIKSLES 335 V + W+VELN ++P + +N+HYA + + + + L +A+WL +++E Sbjct: 296 VTRKKQGWSVELNRSTLPSVLVNEHYAELMAKQKRTDQAVQDYSAETLTNARWLKRAVEQ 355 Query: 336 RNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRG 395 RN T L++S I+ Q F E+G +Y+KP+ L D+A AV MHEST+SRVTT + +PRG Sbjct: 356 RNQTTLKISAEIIRHQTDFLEKGLDYLKPLSLRDVALAVGMHESTVSRVTTGLLISTPRG 415 Query: 396 IFELKYFFSSHVNTEGGG-EASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVA 454 LK FFS ++ + AS+ ++R +VKK+I+ E P KPLSD ++ ++SEQGI +A Sbjct: 416 GMPLKSFFSVNIASRDSDMNASAASVRNMVKKIISQEVPGKPLSDEAISKVISEQGIDLA 475 Query: 455 RRTVAKYRESLSIPPSNQRK 474 RRTVAKYRE L+IP S+QR+ Sbjct: 476 RRTVAKYREMLNIPSSSQRR 495 >UniRef50_A5EVL1 RNA polymerase sigma-54 factor n=1 Tax=Dichelobacter nodosus VCS1703A RepID=A5EVL1_DICNV Length = 469 Score = 447 bits (1151), Expect = e-124, Method: Composition-based stats. Identities = 164/475 (34%), Positives = 258/475 (54%), Gaps = 15/475 (3%) Query: 3 QGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQID--THEEIDTRE 60 Q L + L QQL++TPQLQQAI++L ++ +LQ E+ Q L N +LE D + +D+ E Sbjct: 6 QNLNINLKQQLSLTPQLQQAIKILNMNQQDLQVEIAQMLTQNFMLELDDHLQMQRVDSEE 65 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 E L E+ EL D W+ +Y + + + E L Sbjct: 66 EPPKEGL-------LDELNAELEYDCDWEEVYDSDWHDHAPYREQEIDFDAI-IEARPAL 117 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 YL Q++ P S A + + +DE GYL D+ + I + EA ++ Sbjct: 118 LPYLREQLQQMPLSPEVLGAAEAFISHLDEDGYLREKCADLAQQ---YRIKMPVAEAAIQ 174 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 I+ P GV A DL DCL +Q++ + TP+L + I++ H L + + + Sbjct: 175 AIKNCQPSGVGAFDLEDCLNLQIALLPENTPYLSVLKRIMTRHF-LFIGKNPQLICNRLD 233 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQIN 300 L E ++AV L+++L+PRP Q +Y+ P+V+VR+ G +E + P L+IN Sbjct: 234 LNESDYEQAVLLLKTLNPRPAQEFAHEHGQYIRPEVIVREKGGISFIETDEHIQPLLRIN 293 Query: 301 QHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 YA + + D D +++ L +A+W I +++ R DT+ RV+ IV QQ FF++GE+ Sbjct: 294 AEYAKLT-QSAVDQDKVLLQAQLNEARWFINAIDKRADTIQRVASVIVALQQDFFQEGEK 352 Query: 361 YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAI 420 M+P+ +A+ + +HEST+SR KYL RGIFEL+YFFSS + T G E SSTA+ Sbjct: 353 AMQPLTRQKVAELLNVHESTVSRAVNGKYLMCKRGIFELRYFFSSQLETTDGEEQSSTAV 412 Query: 421 RALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 +A++ +++ E+P KPLSD K+ +L ++G +ARRT AKYRE L I S R++ Sbjct: 413 KAVISEIVRQEDPKKPLSDQKIADILLKKGYKIARRTAAKYREELGIATSTMRRE 467 >UniRef50_B5ZLK5 RNA polymerase, sigma 54 subunit, RpoN n=2 Tax=Gluconacetobacter diazotrophicus PAl 5 RepID=B5ZLK5_GLUDA Length = 458 Score = 447 bits (1151), Expect = e-124, Method: Composition-based stats. Identities = 169/477 (35%), Positives = 258/477 (54%), Gaps = 34/477 (7%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 + L LR +Q L MTPQL+QAI LLQLS L+ ++Q LE NPLLE+ + + R Sbjct: 3 IGPRLALRQAQTLVMTPQLRQAIHLLQLSNLDACSFIEQELERNPLLERANLAGLEELRP 62 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 + LE+ D W T GT G +L Sbjct: 63 KVVAHGARHDPRLERVP-------DQDWAA--TTGTLPG----------------PAPSL 97 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 + L QV L+ DR + ++ +D G L P I +S+G D VE V + Sbjct: 98 HERLAQQVRLSWRDAGDRLVGAYLITLLDADGRLVPPTAVIAQSLGT---TFDHVERVRQ 154 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 + +F+P G+ A DL +CL QL + D+ P A ++ HLDLLA D R L + Sbjct: 155 TMMQFEPTGLFAHDLGECLAAQLRERDRLDP----AMAVLLRHLDLLARRDLRRLQGLCG 210 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRK-HNGHWTVELNSDSIPRLQI 299 + + L + + +++L PRP + VIPDVL++ +G W +ELN +++P + + Sbjct: 211 VDAEDLADMIAEVRTLSPRPARDFGDPAACSVIPDVLLQPAPDGDWMLELNPETMPSVVV 270 Query: 300 NQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE 359 N ++ D F+ L A WL+++L+ R DT++RV+ I+ +Q+ F + G Sbjct: 271 NSALSTRVALRARREDRPFLNERLASANWLVRALQQRADTIIRVATAIMRRQRGFLDHGI 330 Query: 360 EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGG-EASST 418 +++P+VL DIA+ V +HEST+SRVT KY+ +PRG+FELKYFF++ + GG + S+ Sbjct: 331 GHLRPLVLRDIAETVGLHESTVSRVTANKYIATPRGLFELKYFFTTAIPGRAGGADHSAE 390 Query: 419 AIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 AIR +K LI+ E+ K LSD + + L ++GI ++RRTVAKYR++L IP S QRK+ Sbjct: 391 AIRHRIKTLISQESDGKILSDDAIVTRLRKEGIDISRRTVAKYRDALRIPNSAQRKR 447 >UniRef50_C5ELZ1 RNA polymerase n=3 Tax=Clostridiales RepID=C5ELZ1_9FIRM Length = 461 Score = 447 bits (1151), Expect = e-124, Method: Composition-based stats. Identities = 139/481 (28%), Positives = 252/481 (52%), Gaps = 30/481 (6%) Query: 5 LQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDS 64 L+L++ Q ++ ++ Q+ +LQ+++ EL + + NP+++ ++ +E+ Sbjct: 3 LKLQVKQTQTLSQRMIQSAEILQMTSQELNTYINELALENPVIDIVEPPAGNQQKES--- 59 Query: 65 ETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYL 124 + E+ L++ + Y DY + +TLQDYL Sbjct: 60 -------------IEEQQWLNSFNEENYYLYQRQNNDDDYDFKNSWNINTDDGETLQDYL 106 Query: 125 MWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQR 184 Q+ FS + + +++++D GYL +EDI + D+ VE +L +Q+ Sbjct: 107 WSQLVTEEFSSLETDMIKFMLESLDNKGYLGEGVEDIASYF---QTDLSVVERLLYTLQQ 163 Query: 185 FDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKED 244 DP GV A++L +CL +QL + TP L II+ L+++A + + R L + Sbjct: 164 LDPAGVCARNLEECLSLQLERRQMLTPVLSS---IINGCLEMVARNQIPAIARKLHLSQA 220 Query: 245 VLKEAVNLIQSLDPRPGQSIQTGEP-EYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHY 303 +I+SL+P+PG S + E Y+IPDV + K H+ + LN P ++IN +Y Sbjct: 221 EAAGYCQIIKSLNPKPGVSFSSREKLRYIIPDVTIVKFKEHFDILLNESMYPNIEINSYY 280 Query: 304 ASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMK 363 + M N + +++ + ++ A+W+ + + R TL++VS+ I+E Q+ FF G ++ Sbjct: 281 SQMNRNPDSAELKEYLSNKIRQAEWVRQCVTQRGKTLMQVSKSILEHQEGFFTYGPSHLA 340 Query: 364 PMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVN-------TEGGGEAS 416 P+ LADIAQ +++HEST+SR ++KYL G++ + +FFS V+ + + Sbjct: 341 PLKLADIAQELDIHESTVSRAVSKKYLQCSWGVYPMNFFFSRKVSVQENTADPDNASAVT 400 Query: 417 STAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 + I+ ++++I AE+ KP SD L L+E+GI ++RRTVAKYRE I ++ RK+ Sbjct: 401 AADIKRALREIIDAEDKKKPYSDRLLGEKLAERGISISRRTVAKYREEEGIADASGRKEY 460 Query: 477 V 477 V Sbjct: 461 V 461 >UniRef50_Q0G1W5 DNA-directed RNA polymerase subunit N n=1 Tax=Fulvimarina pelagi HTCC2506 RepID=Q0G1W5_9RHIZ Length = 470 Score = 445 bits (1146), Expect = e-123, Method: Composition-based stats. Identities = 171/479 (35%), Positives = 262/479 (54%), Gaps = 24/479 (5%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 + LQ R SQ L MTPQL Q+IRLLQ EL+ L+ +E NPLL Sbjct: 3 LAAKLQFRQSQSLVMTPQLLQSIRLLQYGHGELKTFLEAEIERNPLL--------SMAPA 54 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 S+++ D + P E S Y + SG D +D +T +L Sbjct: 55 KPLSKSIQAVDGPQ----PGEGSAMPSRSERYGGTSGSGQRFDGLDTGFANV-ADTNISL 109 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 + + + S+ R IA + D +DE GY + + G D D VL Sbjct: 110 LGHALAEARDIAGSNDTRTIAEAFADELDENGYCRCDPAEFAIANG---FDPDRTTEVLL 166 Query: 181 RIQ-RFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVT 239 ++Q P G+ A++L+DC+ IQL + ++ P + + + D+L+LLAN DF L R+T Sbjct: 167 KLQAEAAPAGLFARNLKDCMAIQLKRRNRYDPIIAK----VIDNLELLANRDFAALRRLT 222 Query: 240 RLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHN-GHWTVELNSDSIPRLQ 298 + L + + I+SLDP+PG + E + PDVL+ G W VELN ++PR+ Sbjct: 223 GEDDHGLLDILAEIKSLDPKPGHAFDGRGGEGIEPDVLISADGEGGWVVELNPATLPRVL 282 Query: 299 INQHYASMCNN-ARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQ 357 ++ Y A + + F+ LQ A WL ++LESR T+++V+ IV++Q F + Sbjct: 283 TDRTYLKRVRKHAATEEERSFLSECLQSASWLERALESRAQTIMKVAEEIVKRQGGFLVE 342 Query: 358 GEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEA-S 416 G MKPM LA +A A+ MHEST+SRVT K++ +PRG+FE+++FF+ + GG+A S Sbjct: 343 GISGMKPMTLAAVADAIGMHESTVSRVTNMKFVATPRGVFEMRFFFTRAIAAANGGDAHS 402 Query: 417 STAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 + +++ +K+LI AE P K LSD ++ ++L ++GI +ARRTVAKYRE+ SIP S QR++ Sbjct: 403 AESVKLRIKRLIDAEVPGKVLSDDEIAAILKKEGIDLARRTVAKYREAQSIPSSIQRRR 461 >UniRef50_C1F1M0 RNA polymerase sigma-54 factor n=1 Tax=Acidobacterium capsulatum ATCC 51196 RepID=C1F1M0_ACIC5 Length = 557 Score = 445 bits (1145), Expect = e-123, Method: Composition-based stats. Identities = 147/551 (26%), Positives = 266/551 (48%), Gaps = 77/551 (13%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 ++ L L+++Q+ +TP L Q + +L L+ LEL++ +Q + NP+LE+++ + Sbjct: 4 LQPKLNLKVAQRQILTPGLMQMVSVLALNKLELKEMIQAEIAENPVLEEMEESVPLLDDV 63 Query: 61 TQDSETLD-------TADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQ 113 + E D +++ E+K+ +E+ + + G + S + + Sbjct: 64 ARREEDHDRGLEIKASSEESEKKDPFDEIDFGSYFQDYLDPGFRTPNSFELTEKPSIENF 123 Query: 114 GETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDID 173 TL D+L+WQ+ + R A ++ ++E GYL ED+LE E++ + Sbjct: 124 LSAPSTLSDHLLWQLGALTLTPAIRDAAEYLIGNLNEDGYLPADEEDLLEGYLREQLAPE 183 Query: 174 EVEAV--------------------------LKRIQRFDPVGVAAKDLRDCLLIQLSQFD 207 E+V L+ +++ DP+G+A +DLR+CL++Q++ Sbjct: 184 GAESVNGHAPSALTALPPAMAERARAHLASALEVVRQLDPIGIATRDLRECLMVQVAAQR 243 Query: 208 KTTPWL-------------------------------------------EEARLIISDHL 224 + + E A I+ H+ Sbjct: 244 REFDLIYQRTAVVSAFDEQAEDSAPAESTAQPESSAPGDPERLQRISVFETAAAILDRHM 303 Query: 225 DLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGH 284 LL D R L + + + A++ I++LDPRPGQ E + PDV K + Sbjct: 304 LLLQKRDPRELSKAVARSVEETQRAIDFIRTLDPRPGQRYNRSEARLIEPDVAFVKRDDE 363 Query: 285 WTVELNSDSIPRLQINQHYASMC-NNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRV 343 + V +N + +P L++N Y + + +++ + A L++++E R +T+L+ Sbjct: 364 YVVVMNDEDLPSLRLNHGYRRLLNKDGAEKDVKDYVKERYRSALQLMRNIEQRKNTILKT 423 Query: 344 SRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFF 403 I+ +Q F E G E MKPM++ ++A+ + +H ST+SR + KY+H+P+G++EL++FF Sbjct: 424 CESIIRRQTDFLENGIEAMKPMMIKEVAEEIGVHPSTVSRAVSNKYVHTPQGVYELRFFF 483 Query: 404 SSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRE 463 S VN G ++ VKKLI E+P+KPL+D ++ +L QGI V RRTVAKYRE Sbjct: 484 SEGVNGPEGSGTPLMLLKRKVKKLIEDEDPSKPLTDDQIAQMLQSQGIEVTRRTVAKYRE 543 Query: 464 SLSIPPSNQRK 474 + IP ++QR+ Sbjct: 544 DMKIPSTHQRR 554 >UniRef50_C6W3I8 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Dyadobacter fermentans DSM 18053 RepID=C6W3I8_DYAFD Length = 480 Score = 445 bits (1144), Expect = e-123, Method: Composition-based stats. Identities = 151/468 (32%), Positives = 256/468 (54%), Gaps = 9/468 (1%) Query: 13 LAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSETLDTADA 72 L +P Q + LL L+T+EL+Q +++ LE NP+LE+ + ++ + D + Sbjct: 12 LKYSPLQIQMLNLLHLTTMELEQRIKEELEENPILEEG-KEDSTSEEAPEEFDDADISSG 70 Query: 73 LEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTP 132 + + + D D D+EL + +D L QV Sbjct: 71 GDDNTVQDYYDWDEFRDDDIPDYKTYAN-NQSADNELYTRPMVEAISFRDDLKQQVHFLQ 129 Query: 133 FSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEE---IDIDEVEAVLKRIQRFDPVG 189 + + IA I+D++DE G+L + I + I ID DEV +LK IQ+ DP G Sbjct: 130 LDERQQLIADFILDSLDEDGFLRRESDVIADDISFANSMFIDTDEVNTMLKVIQQLDPPG 189 Query: 190 VAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEA 249 +AA DLR+CLLIQL++ D + A I+ D D L + ++ +MR+T L E+ LK+A Sbjct: 190 IAASDLRECLLIQLNRMDNQNDTWKWAYKIVCDAFDELGSRNYDKIMRITGLDEESLKKA 249 Query: 250 VNLIQSLDPRPGQSIQTG--EPEYVIPDVLVRK-HNGHWTVELNSDSIPRLQINQHYASM 306 + LI +L+P+P ++ E + PD ++ +G V+L + P L++N+ + M Sbjct: 250 IQLITTLNPKPASGLRNDAIVNESIKPDFMLWYTEDGEIEVQLTWGNSPALKLNKVFTQM 309 Query: 307 CNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE-EYMKPM 365 R+ +QF+++ + AKW I +++ R +T+L + IV+ Q +F+ G+ + ++PM Sbjct: 310 AEEKRDKATNQFLKNKMNSAKWFIDAIKQRENTMLNTLKAIVKLQYDYFQTGDIKKLRPM 369 Query: 366 VLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVK 425 +L D+A+ ++M ST+SRVTT KY+ +P GI LK F+ V E G E S+ I+ ++ Sbjct: 370 ILKDVAEIIDMDISTVSRVTTNKYVQTPFGIVLLKDLFTEGVTNEDGTEVSNREIQEAIR 429 Query: 426 KLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQR 473 ++++ E+ P +D ++T +L+ +G VARRTVAKYRE L+IP + R Sbjct: 430 EIVSEEDKRHPYNDQQITDMLAVKGYSVARRTVAKYREQLNIPTARLR 477 >UniRef50_UPI0001C34EB5 RNA polymerase factor sigma-54 n=1 Tax=Clostridium sp. M62/1 RepID=UPI0001C34EB5 Length = 469 Score = 444 bits (1143), Expect = e-123, Method: Composition-based stats. Identities = 141/480 (29%), Positives = 246/480 (51%), Gaps = 30/480 (6%) Query: 2 KQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRET 61 + L ++ Q A++ ++ + +LQ+ EL ++L + NP+++ E + Sbjct: 16 RTELFIKAEQTQALSQKMILSNEILQMGVQELCEKLGEIFLENPVVDLSQPSPEDE--RM 73 Query: 62 QDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQ 121 + L++ + + E D + + ++ E ++LQ Sbjct: 74 AKYQWLESLNDRNRDTYMHESRDDEEGNDDWK------------------FRQEDGESLQ 115 Query: 122 DYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKR 181 DYL Q+ L S D I T +++++D+ GYL PL+ + E + + + VE +L + Sbjct: 116 DYLWSQISLKELSGKDEEIITYLMESLDDRGYLDEPLDSVAERFHEPK---ERVEEILSQ 172 Query: 182 IQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRL 241 +Q +P GV AKDL +CLL+QL + +P A I+ +HL+LLA + + + L Sbjct: 173 LQTLEPAGVFAKDLSECLLLQLKRNRMDSPA---AEEIVREHLELLAANKIPVIAKKVHL 229 Query: 242 KEDVLKEAVNLIQSLDPRPGQSIQT-GEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQIN 300 + E I++L+PRPG + + Y+IPDV V K + + LN + P ++IN Sbjct: 230 SVEETAEICQAIRNLNPRPGSHFASREQLSYLIPDVTVVKFADRFEILLNESTYPTIEIN 289 Query: 301 QHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 +Y M + + ++R L+ A+W+ +E R T++ V++ I+ Q FFE+G Sbjct: 290 DYYRKMAVQSDSSQVHDYLREKLRQAEWIRTCMEQRGRTIMNVTKTILMLQSEFFEKGPS 349 Query: 361 YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTE---GGGEASS 417 ++KP+ +++A+ + +HEST+SR QKYL GI+ + YFFS ++ E GG S Sbjct: 350 HLKPLKQSEVAEMIGIHESTVSRAVRQKYLQCSWGIYPMNYFFSRGISEEKGRGGRAVSV 409 Query: 418 TAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQLV 477 ++ + ++I EN KP SD L L E+G ++RRTVAKYRE L IP + RK + Sbjct: 410 QEVKNALTEIIREENKKKPFSDRILAEKLEERGFTISRRTVAKYREELGIPDAGGRKVFL 469 >UniRef50_B3QT08 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Chloroherpeton thalassium ATCC 35110 RepID=B3QT08_CHLT3 Length = 517 Score = 443 bits (1141), Expect = e-123, Method: Composition-based stats. Identities = 158/511 (30%), Positives = 259/511 (50%), Gaps = 38/511 (7%) Query: 3 QGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQ-IDTHEEIDTRET 61 Q L R Q + ++PQ +LLQL ++L+Q ++Q LE NP+LE+ ++ EE E Sbjct: 4 QSLSQRQVQTMRLSPQQLLYTKLLQLPLIQLEQRVKQELEENPMLEEFSESDEEAGQPEE 63 Query: 62 QDSETLDTADA-----------------LEQKEMPEELPLDASW--------DTIYTAGT 96 ++ D E+ E LP D + + + G Sbjct: 64 MATDLSQNNDDENKLNEKSEQNEEDLYIAEKPTKDEPLPKDDDYTKEFDQEIEEYFPDGD 123 Query: 97 PSGTSGDYIDDE---LPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGY 153 G + +E +Q ++ + ++ + ++ + AIA IV +DE GY Sbjct: 124 EEGFNVPSFREEPSDESYFQPVFHESFTERVLNDLRYQDVTEKELAIAEEIVGNIDEDGY 183 Query: 154 LTVPLEDILESIGDEEIDIDEVE--AVLKRIQRFDPVGVAAKDLRDCLLIQLSQF----- 206 L P+E I + + I++ E E VL++I DPVG+ A++L++CLLIQL Sbjct: 184 LRCPIEVIADGLMTTGIEVTEAEILKVLEKIWYIDPVGIGARNLQECLLIQLEAKYQRTE 243 Query: 207 DKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQT 266 D E+A+LI++ + F LM + + + L +A+ LIQS +P+PG + Sbjct: 244 DIDDTLYEQAKLILNKYYHEFTMKHFEKLMTLLSISPEELTQALLLIQSFNPKPGGDVSA 303 Query: 267 GEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCN-NARNDGDSQFIRSNLQD 325 Y+IPD +V + N + +++I++ Y + ++ G +F+R+ + Sbjct: 304 S-SNYIIPDFIVTFDGKNLVAFSNERNSFQIRISEQYKPLLEDKSQPKGAKEFVRNKYEA 362 Query: 326 AKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVT 385 AK + ++E R TL RV ++ Q FF G +KPM+L D+A+ + ST+SRV Sbjct: 363 AKNFMTAIEMRRQTLQRVMNALLNLQYEFFTIGPNRLKPMILKDVAEVAGVDISTVSRVV 422 Query: 386 TQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSL 445 KY+ + +GI ELKYFFS+ + TE G E S+ I+ +K I E+ KPLSD K++ + Sbjct: 423 NGKYVQAHKGILELKYFFSTGLETESGDEISNKLIKEKIKSFIEKEDTRKPLSDDKISEM 482 Query: 446 LSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 L + G VARRTVAKYRE ++IP + RKQ+ Sbjct: 483 LQQNGFKVARRTVAKYREQMNIPVARLRKQI 513 >UniRef50_B6YQD2 RNA polymerase sigma-54 factor n=1 Tax=Candidatus Azobacteroides pseudotrichonymphae genomovar. CFP2 RepID=B6YQD2_AZOPC Length = 471 Score = 443 bits (1141), Expect = e-123, Method: Composition-based stats. Identities = 143/484 (29%), Positives = 248/484 (51%), Gaps = 31/484 (6%) Query: 4 GLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQD 63 QL QQ +PQ Q +LL+L+TLE++ + + LE NP+LE+I +E + + Sbjct: 3 KQQLSYKQQQKFSPQQIQQTKLLELTTLEVENRINEELEENPVLEEIPEPDEYGLQIERL 62 Query: 64 SETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDY 123 +++ + L S +G E+ + ++ +Y Sbjct: 63 NKS--------------DTFLGGSLREDNVHSYKFQQNGSLNRWEMVYAE---PESFHEY 105 Query: 124 LMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDE---EIDIDEVEAVLK 180 L+ Q++L S+ + I I+ +D+ GY+ + + + I + ++ I E++ VL+ Sbjct: 106 LLNQLKLKELSEEEIKIGQYIIGNMDDNGYIRQSFQTLSDDISFQYGHDVSISEIKKVLE 165 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 IQ DP G+ A DL++CLL+QL + K TP I+ H + A + +L ++ Sbjct: 166 SIQGLDPPGIGAGDLQECLLLQLRRK-KITPIRCLVIDILEKHFAIFAKKHYDSLCKIYN 224 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTG---EPEYVIPDVLVRKHNGHWTVELNSDSIPRL 297 + ++ LK+ + + L+P+PG ++ + ++IPD +V +G + ++P L Sbjct: 225 ISKENLKDVIREVALLNPKPGNICESSMESKLAHIIPDFIVEIIDGKLIFTMAKRNMPTL 284 Query: 298 QINQHYASMC------NNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQ 351 ++N+ Y+ + + + F++ + A+W I +++ RN TL I+E Q Sbjct: 285 KVNEGYSEILSNNVGNKSLKKREVVAFVKKKINSAQWFIDAIKQRNTTLYNTMLAIIELQ 344 Query: 352 QAFFEQGEE-YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTE 410 Q FF GEE +KPM L D++Q ST+SR T KY+ S GI+ L++FFS + E Sbjct: 345 QDFFLTGEEQALKPMKLKDVSQLCGYDISTVSRATINKYIQSDWGIYPLRFFFSEAMINE 404 Query: 411 GGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPS 470 G E S+ I+A++K I E+ P +D L +LL ++G +ARRTVAKYRE L+IP S Sbjct: 405 EGEEISTREIKAILKFFIKTEDKKNPFTDDVLANLLKKKGYNIARRTVAKYREQLNIPVS 464 Query: 471 NQRK 474 RK Sbjct: 465 RLRK 468 >UniRef50_P38944 Putative RNA polymerase sigma-54 factor n=34 Tax=Clostridium RepID=RP54_CLOK5 Length = 453 Score = 441 bits (1136), Expect = e-122, Method: Composition-based stats. Identities = 148/478 (30%), Positives = 254/478 (53%), Gaps = 27/478 (5%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M L L Q+LAMT ++Q +I+LLQ+S+ ELQ+ +++ L+ NP+L+ +++ + + Sbjct: 1 MDFALNLTQEQRLAMTQEMQLSIKLLQMSSFELQEYVEKELQENPVLDIKESNVDKVEK- 59 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 D LE KE+ + L D Y ++ P ++L Sbjct: 60 ----------DKLEYKEIIKNLDFDNYSHHSYDRNPD--------EEVSPFNFISEEKSL 101 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 ++YL Q+ + + I I++ +D+ GY + + E + +I + + Sbjct: 102 KEYLKDQIRDLDENQCIKTICLYIIENIDDRGY---LILENEEIEEELKISKELAAYCVD 158 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 I +P G+ A++L +CL IQ+ Q D E ++I +L+ +A + + + + Sbjct: 159 LIHSLEPHGIGARNLAECLKIQIKQKDMDE---ENIFIMIDKYLEFIAENKYNVIAKELN 215 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGE-PEYVIPDVLVRKHNGHWTVELNSDSIPRLQI 299 + +E +LI++L P+P + TGE Y+ PD ++K + + + +N D PRL I Sbjct: 216 IDVKQAQEYGDLIKTLSPKPSRGFYTGESVRYISPDAYIKKIDSEYFIIMNDDLTPRLTI 275 Query: 300 NQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE 359 N Y + NN + +++ L A +LIKS++ R T+ RV IVE Q+ +F+ GE Sbjct: 276 NAIYKDIINNDTDKDAVSYVKEKLNSALFLIKSIQHRKSTIYRVLEKIVEIQKDYFDYGE 335 Query: 360 EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGE-ASST 418 Y+KPM L +IA +++MHEST+SR KY+H RGI ++K F++ + E SS Sbjct: 336 SYLKPMTLKEIASSMDMHESTVSRAIRDKYIHINRGIVKIKDLFTTGMAASFSEENVSSL 395 Query: 419 AIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 I+ +KK+I E+ KPLSD K+ L++E+G+ ++RRTVAKYRE + I S RK+ Sbjct: 396 IIKNSIKKMIDNEDRKKPLSDQKICDLINEEGMNISRRTVAKYREEMGIKSSKGRKRF 453 >UniRef50_C7PK09 RNA polymerase, sigma 54 subunit, RpoN n=35 Tax=Bacteroidetes RepID=C7PK09_CHIPD Length = 497 Score = 441 bits (1136), Expect = e-122, Method: Composition-based stats. Identities = 151/483 (31%), Positives = 247/483 (51%), Gaps = 22/483 (4%) Query: 16 TPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDS-ETLDTADALE 74 +PQ Q ++LLQ+ T L++ +++ LE NP LE + E + ++ Q+ + D E Sbjct: 15 SPQQIQLMKLLQVPTAVLEERIKEELEENPALEYGEDAHEDEYKDPQEEYNNNEEGDDDE 74 Query: 75 QKEMPEELPLDA-SWDTIYTAGTPSGTSGDYIDDELPVYQGETT------QTLQDYLMWQ 127 + E D + G DD P T + ++L+ Q Sbjct: 75 FEPDGSENEYDNIDISEYVSEGDDDIADYKLRDDNYPDQDENKTIPVRVETSFHEHLLEQ 134 Query: 128 VELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEE---IDIDEVEAVLKRIQR 184 + + + AIA I+ ++D+ GYL + I++ + + D +E+ +++ IQ Sbjct: 135 LGMLELDERQNAIAEQIIGSIDDDGYLRREVSAIVDDLSFSQNVATDEEEIRELIRMIQE 194 Query: 185 FDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKED 244 FDP G+ A DL++CLL+QL + + + A LI+ ++ D + + + + +D Sbjct: 195 FDPPGICATDLKECLLLQLRRKPQDDFGVVGAYLILENYFDEFTKKHYEKIQKGLNMSDD 254 Query: 245 VLKEAVNLIQSLDPRPGQSIQT--GEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQH 302 LKEA+ I L P+PG + T YV+PD + +NG + LNS + P L+I++ Sbjct: 255 ALKEAIGQIIKLTPKPGGNFATLNKAESYVVPDFFILNNNGKLELTLNSKNAPDLRISEG 314 Query: 303 YASMCNNARNDGDSQ--------FIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAF 354 Y M FI+ + AKW I +++ R TLL I+ Q+ F Sbjct: 315 YRDMLKEYDRGDKKDKRQKEAVLFIKQKIDAAKWFIDAIKQRQHTLLSTMESIMGYQREF 374 Query: 355 FEQGEEY-MKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGG 413 F G+E M+PM+L DIA ++ ST+SRV KY+ + G F+LK+FFS ++T+ G Sbjct: 375 FLTGDETTMRPMILKDIADITQLDISTVSRVANSKYVQTEFGTFKLKFFFSESLSTDSGE 434 Query: 414 EASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQR 473 E S+ ++ ++ LI EN KPLSD LT +L ++G +ARRTVAKYRE L+IP + R Sbjct: 435 EVSTREVKKILSDLIEGENKRKPLSDENLTKMLQDKGYNIARRTVAKYREQLNIPVARLR 494 Query: 474 KQL 476 K+L Sbjct: 495 KEL 497 >UniRef50_C7R9H7 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Kangiella koreensis DSM 16069 RepID=C7R9H7_KANKD Length = 495 Score = 441 bits (1135), Expect = e-122, Method: Composition-based stats. Identities = 185/490 (37%), Positives = 286/490 (58%), Gaps = 16/490 (3%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTH--EEIDT 58 M LQL LSQQL + PQLQQ+I+LLQLS L LQQE+Q L++NPLL +D E Sbjct: 1 MNPNLQLSLSQQLKLNPQLQQSIKLLQLSQLALQQEIQYQLDNNPLLTLLDDSYCEPEAA 60 Query: 59 RETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQ 118 +SE + + + + + + ++ +D + + + Sbjct: 61 SSVSNSELDVSPLPTVFPNNRDTNNIGSLANLRHIDSGQHHSTYSIHNDGESNLENQFQE 120 Query: 119 T--LQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIG---DEEIDID 173 + L+++L WQ++++ S D IA +++ +D+ G+LTV ++I+E I + D D Sbjct: 121 SIGLREHLEWQIQMSSLSRADMEIAYYVIENIDDAGFLTVSHQEIIEQIKQDFEHRFDPD 180 Query: 174 EVEAVLKRIQRFDPVGVAAKDLRDCLLIQLS---------QFDKTTPWLEEARLIISDHL 224 EVEAV+ ++Q+ +P+G A+ +L+ LL+QL Q LE A+ ++ H Sbjct: 181 EVEAVIHQVQQLEPLGCASSNLQQFLLLQLQLAINNTSNPQQSALESALELAQRLVHHHF 240 Query: 225 DLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGH 284 D L H + L++ L + + +A+++IQ L +P EY+ PD+LV G Sbjct: 241 DYLCKHHYSKLIKRLSLTQQEMDDALSVIQCLRSKPNHQYIGEVTEYIRPDILVYNLQGS 300 Query: 285 WTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVS 344 W +L S++ P+L IN YA + D +++ NLQ A+W ++S+E+RNDTL RV+ Sbjct: 301 WLAQLASNNAPQLDINHQYAQALRQSNKTCDKHYLQQNLQRARWFMQSIEARNDTLKRVA 360 Query: 345 RCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFS 404 IV+ QQ FF+ GE ++PM L D+A+ +++HESTISR + K+L SP GI+ELKYFFS Sbjct: 361 DWIVQHQQNFFDCGESALRPMRLKDLAEDLKLHESTISRACSDKFLQSPNGIYELKYFFS 420 Query: 405 SHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRES 464 + V + GGE SS AI+ +K+ + AE KPLSD +L +L E+GI +ARRTVAKYRE+ Sbjct: 421 NAVPSTQGGEWSSKAIKNKIKQYVKAEPSRKPLSDIELAKMLQEEGIAIARRTVAKYREA 480 Query: 465 LSIPPSNQRK 474 L+I PS QRK Sbjct: 481 LNILPSGQRK 490 >UniRef50_C8N804 RNA polymerase sigma-54 factor n=1 Tax=Cardiobacterium hominis ATCC 15826 RepID=C8N804_9GAMM Length = 474 Score = 441 bits (1134), Expect = e-122, Method: Composition-based stats. Identities = 165/476 (34%), Positives = 264/476 (55%), Gaps = 8/476 (1%) Query: 2 KQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQI-DTHEEIDTRE 60 Q L L L Q L +TPQLQQAI+LL +++L+LQ E+ L N +LE+ D+ +E + Sbjct: 4 NQSLDLSLKQGLTLTPQLQQAIKLLNMNSLDLQVEISAMLMQNIMLERKNDSLQERGSGS 63 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 ++ + D + + EL D++WD Y + L +Y L Sbjct: 64 DENENSEHDPDNGLIQTLSGELEYDSTWDEHYDHDWKDHQPYHEEESNLELY-LSGRPDL 122 Query: 121 QDYLMWQVELTP-FSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVL 179 +L Q+ P S+ R A + +D+ GY + E ++ ++ L Sbjct: 123 GAWLEEQINQMPHLSEARRRAALIVAFELDDDGYYRADNHKLAEQ---YQLSAADIADGL 179 Query: 180 KRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVT 239 + +Q+ P G+AA+DL +CL +Q++ TPW EE + I+ + + + + + + Sbjct: 180 RIVQQCQPTGIAARDLEECLNLQIAALPADTPWREELQKIMQRYFGFI-SKNPAMIRQRL 238 Query: 240 RLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQI 299 + E A+ L++SLDPRPGQS P+Y+ P+++VR+ NG +E + P L I Sbjct: 239 GMNEATYNHAIALLRSLDPRPGQSYTEQAPQYIEPEIIVREKNGISYIETGENIRPELTI 298 Query: 300 NQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE 359 NQ YA + A+ D +++ LQ+A+W + +++ R DT+ RV+ IV QQ FF++GE Sbjct: 299 NQDYAKIAEIAKG-ADKTLLQAQLQEARWFLTAIDKRADTIRRVAHIIVALQQDFFQEGE 357 Query: 360 EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTA 419 M+P+ +A+ +E+HEST+SR KYL RGI+EL+YFFS+ + G + S A Sbjct: 358 AAMRPLSRQKVAEMLEIHESTVSRAVNGKYLMCKRGIYELRYFFSAQLENSEGDDQSIIA 417 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 I+AL+ ++I E P KPLSD K+T LL+EQG +ARRTV KYRES+ IP + R++ Sbjct: 418 IKALIAEIINGEKPEKPLSDQKITDLLNEQGHKIARRTVTKYRESMDIPTTTLRRK 473 >UniRef50_D2UDB4 Probable rna polymerase sigma-54 factor protein n=1 Tax=Xanthomonas albilineans RepID=D2UDB4_XANAL Length = 466 Score = 441 bits (1134), Expect = e-122, Method: Composition-based stats. Identities = 183/476 (38%), Positives = 267/476 (56%), Gaps = 21/476 (4%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 MK + +L QQL +TPQL Q+IRLLQL L+L+ E+++ALE+NPLL Sbjct: 1 MKPTVSAQLGQQLHLTPQLLQSIRLLQLDGLQLEMEIRRALENNPLL--------ELEEP 52 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 +E +A+ Q +ELP + WD P+ D DD L + Sbjct: 53 EAATEAETAVEAVLQTAAFDELPEPSMWDV------PATGWNDGEDDRLQHIAAGESTDP 106 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDI-LESIGDEEIDIDEVEAVL 179 ++ ++ L + A ++ D+ GYL L+ + L + ++ +VE Sbjct: 107 HLRVLQRLAL-ELPPREIEAAAFWLEHCDDAGYLDDALDTLTLLACTRLDLSAAQVETAR 165 Query: 180 KRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVT 239 +R+ DP G+AA DLR+CL +QL P A I+ L LLA+HD+ L R Sbjct: 166 QRLLHGDPAGLAACDLRECLHVQLHDLPGPVPGRHLAARILDGDLHLLASHDYALLARKL 225 Query: 240 RLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQI 299 + + ++EAV LI SL PRPG S+Q + +VIPDV+ + +G W V LN + R+ I Sbjct: 226 DAEAEDVREAVRLILSLQPRPGDSLQPQDLGHVIPDVVAWQADGSWRVALNPATTHRVNI 285 Query: 300 NQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE 359 N + A +Q +R LQ+A+WL + L R +TLLR +R IVE Q AF +GE Sbjct: 286 NPMHERALAEAG--EAAQPLREMLQEARWLTRGLSMRYETLLRTTRSIVEHQAAFLNKGE 343 Query: 360 EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTA 419 E M P+ L ++A A+ MHEST+SR+TT KYL +PRG FELK+FF+ + G S A Sbjct: 344 EAMAPLTLKEVADAIGMHESTVSRITTGKYLQTPRGTFELKHFFAVRL---EGAAVSGQA 400 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 +RA+V++LI AE ++PL+D + +LLS QG+ VARRTVAKYRE L I P+ +R++ Sbjct: 401 VRAMVRRLIEAEPSSRPLADEAIAALLSRQGVNVARRTVAKYREQLDIAPARERRR 456 >UniRef50_C8PV20 RNA polymerase sigma-54 factor n=1 Tax=Enhydrobacter aerosaccus SK60 RepID=C8PV20_9GAMM Length = 599 Score = 441 bits (1134), Expect = e-122, Method: Composition-based stats. Identities = 166/440 (37%), Positives = 274/440 (62%), Gaps = 20/440 (4%) Query: 51 DTHEEIDTRETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELP 110 D + E + +D+++ L +++ ++P+DA WD IY+ + + T D +D Sbjct: 161 DADSDYRYDEEYGLDGIDSSEHLSSQQV--DMPVDAQWDDIYSYESSAATGIDS-EDSQD 217 Query: 111 VYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDE-- 168 Y+ T +QDY+ WQ+ L S D +A ++D++DE G++T+ +++ +S Sbjct: 218 DYKLATQGNIQDYVRWQLNLRRLSTIDMLMAEYLIDSMDERGFITLSNDELFQSFDTMLS 277 Query: 169 -------EIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIIS 221 ++ ++++E V+K+IQ +P+GV A++L +CLLIQL++ TP + A+ I+ Sbjct: 278 FYQVENVDLALEDIELVVKQIQNCEPLGVGARNLAECLLIQLNKLPSDTPSWQAAKQILM 337 Query: 222 DHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPE-------YVIP 274 H + AN++ L++ + L ++ A+ L+++L+P P S + + + Y IP Sbjct: 338 -HSEFFANNNINALLKSSNLDVSEIQPALALLRTLNPNPALSYEKSQRQLDNGIESYDIP 396 Query: 275 DVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLE 334 DV+V + HW V LN +++P+L+INQ YA + + N +++ L DA+ I+S+E Sbjct: 397 DVIVVQRGQHWEVSLNPETLPKLRINQVYAKLVSRNDNSEQGVYLKEQLYDARLFIRSIE 456 Query: 335 SRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPR 394 RN LL+V+ CIV++QQAFFEQG M+PMVL D+A V +HEST+SR+TT K + +P+ Sbjct: 457 ERNQNLLKVATCIVKRQQAFFEQGVMAMQPMVLKDVADEVGLHESTVSRITTSKTIVTPK 516 Query: 395 GIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVA 454 G+F LKYFFSS V+++ G SSTAI A++K++I AE+P KPLSDS + L ++GI +A Sbjct: 517 GLFSLKYFFSSQVSSDEGEGVSSTAISAMIKQMIEAEDPKKPLSDSSIMKNLQDKGIDIA 576 Query: 455 RRTVAKYRESLSIPPSNQRK 474 RRTV KYRE ++I S QRK Sbjct: 577 RRTVTKYREGMNIGSSTQRK 596 Score = 55.6 bits (133), Expect = 4e-06, Method: Composition-based stats. Identities = 43/126 (34%), Positives = 65/126 (51%), Gaps = 10/126 (7%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 MK G+ +L+ + +TPQ+QQAIRLLQLS+LEL+QE+Q L+SNP+LE+ + E Sbjct: 1 MKIGIGAKLTTGMTLTPQMQQAIRLLQLSSLELEQEVQLKLDSNPMLEREEEWE------ 54 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 + + AD L E E + +D Y + + + Y T+ L Sbjct: 55 ----TSYEDADNLPDGENYPEHDTNDDYDYDYDEDDYKVEGVELSEADFDDYTRHETEVL 110 Query: 121 QDYLMW 126 +DYL Sbjct: 111 EDYLAS 116 >UniRef50_B0RT01 RNA polymerase sigma-54 factor n=10 Tax=Bacteria RepID=B0RT01_XANCB Length = 487 Score = 440 bits (1133), Expect = e-122, Method: Composition-based stats. Identities = 186/476 (39%), Positives = 266/476 (55%), Gaps = 20/476 (4%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 MK + +L QQL +TPQL Q+IRLLQL ++L+ E+++ALE+NPLLE + + D Sbjct: 21 MKTTISAQLGQQLHLTPQLLQSIRLLQLDGMQLELEIRRALETNPLLELEELADSSDEAP 80 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 + + D A +ELP W+ S +G+ D V GE+T Sbjct: 81 SAEDGATDMAAF-------DELPESTMWEV-----QSSSWNGEDDDRMQRVAAGESTDP- 127 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDE-EIDIDEVEAVL 179 ++ ++ L +TD A ++ D+ GYLT L + + I +D EA+ Sbjct: 128 HVRILRELAL-DLDETDLGTAAFWLEQTDDAGYLTEALPTLQQLAATRLGISVDAAEAIR 186 Query: 180 KRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVT 239 +R+ DP G+AA DLR+CL QL+ P A I++ LDLLA HD+ L R Sbjct: 187 QRLLHGDPAGLAACDLRECLQAQLAALPGRVPARHLAGRILAGDLDLLAGHDYALLARAH 246 Query: 240 RLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQI 299 D ++EAV LI SL PRPG + VIPDVL +G W V LN + R+ I Sbjct: 247 DADVDDVREAVRLILSLQPRPGDDLLQETNASVIPDVLAWHADGSWRVALNPATTHRVSI 306 Query: 300 NQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE 359 N + A + Q +R LQ+A+WL + L R +TLLR +R IVE+Q AF +GE Sbjct: 307 NPVHERALAEAGDAA--QPLRDMLQEARWLTRGLSMRYETLLRATRAIVERQAAFLARGE 364 Query: 360 EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTA 419 E M P+ L +IA + MHESTISR+TT KY+ +PRG FELK+FF+ + G S A Sbjct: 365 EAMAPLTLKEIADEIGMHESTISRITTGKYIQTPRGTFELKHFFAVRL---EGASVSGQA 421 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 ++A+V++LI +E +PL+D + LLS QG+ +ARRTVAKYRE L I P+ +R++ Sbjct: 422 VKAMVRRLIESEPAGRPLADEAIAGLLSRQGVNIARRTVAKYREQLDIAPARERRR 477 >UniRef50_Q2B706 DNA-directed RNA polymerase subunit N n=1 Tax=Bacillus sp. NRRL B-14911 RepID=Q2B706_9BACI Length = 443 Score = 440 bits (1131), Expect = e-122, Method: Composition-based stats. Identities = 146/477 (30%), Positives = 248/477 (51%), Gaps = 38/477 (7%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M GL + S +LAMT +L QAI LLQ S LEL L+ NPL++ E Sbjct: 3 MNAGLFQQQSLKLAMTQELSQAIALLQYSALELTAFLESRALENPLMQI----------E 52 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 T++ +D + + D SW A L Sbjct: 53 TENVRAMDPRRDRVRGASSKLKKDDRSWIEQIRAKDNL---------------------L 91 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 +DYL+ Q+E+ S I I+ ++DE GYL + +I + + E D E L Sbjct: 92 EDYLISQLEIKYISPLMDKIIRRIIKSIDENGYLRESVTEIADELCVSEGDAAE---ALA 148 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 +Q +P G+ A+ L++CLL+Q+ + + A +I+ +H + A+ ++ L + Sbjct: 149 ELQLLEPAGIGARTLQECLLLQVQRLLSPD---DLAEVIMEEHFEWFADKKWKQLASLLG 205 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQIN 300 ++ ++ +L+++L+PRP + Y++PDV V + + + + +P++ N Sbjct: 206 VELKDIQRVSDLVRTLNPRPAAAFSKESAGYIVPDVAVSWDGSSFLITVQDELLPKVSFN 265 Query: 301 QHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 Y + + ++++ QD W+++SLE R DT+ +V+ +VE+QQ FF +G Sbjct: 266 SQYYESFKSTGDKEVRKYLQDRSQDYNWIVRSLEQRKDTIKKVTMKLVEKQQDFFIEGPA 325 Query: 361 YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAI 420 ++PM + +IA +E+HEST+SR +KY+ +P G FELK FF+S V T G ASS ++ Sbjct: 326 KLRPMTMKEIADELEIHESTVSRTVREKYVQTPFGTFELKTFFTSAVKTTGADGASSASV 385 Query: 421 RALVKKLIAAENPAKPLSDSKLTSLLSE-QGIMVARRTVAKYRESLSIPPSNQRKQL 476 + + ++ AE+ KPLSDS++ S+L + I+++RRTVAKYR+ L IP S +RK+ Sbjct: 386 KKKIAAMVEAEDKLKPLSDSEIMSILEKGDAIVISRRTVAKYRDQLGIPSSAKRKRY 442 >UniRef50_A9H5R6 RNA polymerase sigma-54 factor 1 n=3 Tax=Gluconacetobacter diazotrophicus RepID=A9H5R6_GLUDA Length = 469 Score = 439 bits (1129), Expect = e-121, Method: Composition-based stats. Identities = 152/474 (32%), Positives = 266/474 (56%), Gaps = 27/474 (5%) Query: 2 KQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRET 61 + + + +Q L M+ +++Q+I++LQLS EL + L +E NPLLE+ T Sbjct: 7 QPRQEFKQNQGLFMSARMRQSIQILQLSNAELHEFLDAEVEKNPLLERDPTT-------- 58 Query: 62 QDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQ 121 +A E+ + P+ + AG + SG +DD+ E+ L+ Sbjct: 59 -------SAPLAERPGLAAPPPMMRAPGATGDAGRWTSDSG--LDDDGTGRLAESAPALR 109 Query: 122 DYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTV-PLEDILESIGDEEIDIDEVEAVLK 180 D + Q+ L+ + T+R I ++ A+D G L +DI ++ ++ + +VEA+ + Sbjct: 110 DVMFEQLVLSGCTTTEREIGAHLIAALDPAGRLAGGATDDIAATL---QVTLRDVEAIRQ 166 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 R+ RFDP G+ A LR+CL QL + ++ P + + D+LDLLA HD + L + Sbjct: 167 RMMRFDPAGLFATSLRECLAAQLQERNRFGPAMAR----LLDNLDLLARHDLKRLRQACD 222 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKH-NGHWTVELNSDSIPRLQI 299 + L++ + +++LDP+PG + ++PD+L+ + G WT+ELN +S PR+ + Sbjct: 223 VSATDLEDMIAELRTLDPKPGAEHGSTLT-VIVPDILMEQTAEGGWTLELNPESTPRVVL 281 Query: 300 NQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE 359 N ++ + + + ++ L A WLI++L+ R+ T+LRVS I+ +Q+ F + G Sbjct: 282 NSALSTRMSLRAHGAERTYLNDTLTSANWLIRALQQRSMTILRVSTEILRRQEDFLQHGP 341 Query: 360 EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTA 419 + ++P+ L +A+A+ +HEST+SRVT KY+ +PRG+ LK+FF + + G S+ A Sbjct: 342 QALQPLNLRTVAEALNIHESTVSRVTANKYVATPRGVLPLKFFFVAAMTGNDGEIRSNIA 401 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQR 473 I+++++++I E P LSD ++ L QGI +ARRTVAKYRE++ P S QR Sbjct: 402 IQSVIRRMIQGERPDAVLSDEAISLTLRRQGIDIARRTVAKYREAMGFPNSLQR 455 >UniRef50_B0PGS4 Putative uncharacterized protein n=1 Tax=Anaerotruncus colihominis DSM 17241 RepID=B0PGS4_9FIRM Length = 447 Score = 438 bits (1128), Expect = e-121, Method: Composition-based stats. Identities = 133/472 (28%), Positives = 228/472 (48%), Gaps = 29/472 (6%) Query: 5 LQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDS 64 L +RL Q + P+++Q++R+LQ+ +++L + L++ NP+ E ++ + + +E Sbjct: 3 LGVRLEQNQILAPRMEQSVRILQMDSVQLGEYLKELALENPVAE-VEPPPQREQKEKLAQ 61 Query: 65 ETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYL 124 L+ + ++E D D TP+ ++L D+L Sbjct: 62 RKLEWLENQTRREQENMGYYDDDGDLTPEQNTPAPQD----------------ESLTDHL 105 Query: 125 MWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQR 184 + QVE A A ++ +D+ GYL E + G + +E + +Q Sbjct: 106 LAQVESAAVPRALAAAARYVIGCLDDNGYLKADPEQMRAKAGACDA---LLERAIALVQS 162 Query: 185 FDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKED 244 FDP GV A+DL +CL +Q+ D AR + D L +A L T Sbjct: 163 FDPPGVGARDLAECLCLQIPASD------ALARRLARDFLPEIAKKRVGVLAAKTGASAG 216 Query: 245 VLKEAVNLIQSLDPRPGQSIQTGE-PEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHY 303 ++ AV I+ L+P+PG Y+ PD++V H+ V L + P+++++ Y Sbjct: 217 EVEAAVARIRRLNPKPGALYGAHVVAHYITPDIVVTSFGDHYNVMLCEFAYPQVRLSDSY 276 Query: 304 ASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMK 363 + + ++I + W+IK +E+RN TL+ V+R IV QQ+ FF G +++ Sbjct: 277 LQIARETADPEVIKYIGEKIDQVNWVIKCIENRNRTLVEVARAIVRQQERFFRYGPQHLG 336 Query: 364 PMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRAL 423 + + +IA V +HEST+SR KYL G++ L+YFF E GG SS ++ Sbjct: 337 VLRMREIAGLVGLHESTVSRAVRGKYLQCAHGVYPLRYFFVKG--PEHGGAVSSETVKYK 394 Query: 424 VKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 ++ LI E+ P SD L LL+ GI ++RRTVAKYR + +P ++ R + Sbjct: 395 LRALIDTEDHTHPFSDRALCELLAADGISISRRTVAKYRGEMGVPGASGRVR 446 >UniRef50_B4SIK0 RNA polymerase, sigma 54 subunit, RpoN n=3 Tax=Stenotrophomonas RepID=B4SIK0_STRM5 Length = 469 Score = 438 bits (1127), Expect = e-121, Method: Composition-based stats. Identities = 186/477 (38%), Positives = 265/477 (55%), Gaps = 20/477 (4%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 MK L +L QQL +TPQL Q+IRLLQL L L+QE+Q+ L+SNPLLE + Sbjct: 1 MKAALSTQLGQQLHLTPQLLQSIRLLQLDGLHLEQEIQRLLDSNPLLEIEEAEAPAAEST 60 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 D+ TL+TA +ELP + WD ++ D DD + + Sbjct: 61 DADATTLETAAF-------DELPESSMWDVAGSSWQ------DGDDDRMARIAAGESSDP 107 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDE-EIDIDEVEAVL 179 Q ++ ++ L D + A+A +D DE GYL PL + + +I D VEA+ Sbjct: 108 QLRVLQRLSL-DMDDRELAVAAFWLDHCDEAGYLQAPLAQLQLLASAQFDIAADGVEAIR 166 Query: 180 KRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVT 239 +++ +P G+AA+DLR+ L QL P A I+ LD LA HD+ L R Sbjct: 167 QQLLHGEPAGMAAQDLREGLQAQLRSLHGVVPARHLAARILDGALDALAAHDYPALARQH 226 Query: 240 RLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQI 299 + D ++EAV LI SL PRPG S+ V+PDV+ + W V LN + R+ I Sbjct: 227 DAEIDDVREAVRLILSLQPRPGDSLLPERNAVVVPDVVAWHADNQWKVALNPATSRRVSI 286 Query: 300 NQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE 359 N Y A + +R LQ+A+W + L R DTLLR +R IVE+Q AF +GE Sbjct: 287 NSQYEQAL--AETSEAAPALREMLQEARWFSRGLSMRYDTLLRTARVIVERQAAFLVRGE 344 Query: 360 EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTA 419 E M P+ L ++A+ + MHEST+SR+TT K+L +PRG FELK+FF+ + G S A Sbjct: 345 EAMAPLTLKEVAEEIGMHESTVSRITTGKFLQTPRGTFELKHFFAVRL---EGASVSGQA 401 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 ++A+V++LI AE +PL+D + LLS QG+ +ARRTVAKYRE L I P+ +R++L Sbjct: 402 VKAMVRRLIDAEPAGRPLADEAIAGLLSRQGVNIARRTVAKYREQLDIAPARERRRL 458 >UniRef50_B8DD95 RNA polymerase sigma-54 factor n=20 Tax=Listeria RepID=B8DD95_LISMH Length = 447 Score = 436 bits (1123), Expect = e-121, Method: Composition-based stats. Identities = 137/469 (29%), Positives = 241/469 (51%), Gaps = 45/469 (9%) Query: 13 LAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSETLDTADA 72 L MT QL Q+I +LQ +T +L L+ NPL+E I Sbjct: 19 LNMTQQLSQSIAMLQFATADLVAFLEDKALENPLIEVIPGS------------------- 59 Query: 73 LEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTP 132 D + D Y++ +G+S D E + TL D L Q+ L Sbjct: 60 ------------DFATDFSYSSRKSTGSSDDTDWLEQI---ADNKLTLADALKEQLHLMD 104 Query: 133 FSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAA 192 + T + I +++++++ GYL + L+D+ ++ +D V L+ +Q +P GV A Sbjct: 105 VTQTQKIIVLYLIESLNDNGYLQIDLKDVSAAL---LMDDSSVLEGLEILQSMEPAGVGA 161 Query: 193 KDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNL 252 +D R+C+L+Q+ + P++ A +I A ++ + + ++E + Sbjct: 162 RDARECILLQIERSP-DAPYI--AYDVIQKFFTEFAEKKWKKIAAEMDVSLQDIQEVSDW 218 Query: 253 IQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARN 312 IQ+L+P+PG ++ +YV+PD+++ +H + V L +P+++ + Y Sbjct: 219 IQTLNPKPGSEFESERVQYVVPDLILLQHEDEFAVSLAKQFLPQVRFQEAYYETMRATEE 278 Query: 313 DGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQ 372 +QF+R + W+ K +E R +TL RV IV Q+A+F +++P+ L ++A+ Sbjct: 279 KDVAQFLREKAGEFDWIKKGIEQRENTLQRVGEAIVSHQKAYFLDNSAHLQPLTLKEVAE 338 Query: 373 AVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVN-----TEGGGEASSTAIRALVKKL 427 + +HEST+SR KY+ + G++ELK FF+S + E G+ SST I+ LV++ Sbjct: 339 ELGVHESTVSRAVNGKYMETTNGVYELKRFFASGLQKKSSENENTGDISSTTIKKLVQEF 398 Query: 428 IAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 +AAE+ KPLSD K+ +L+E+ I V+RR +AKYR L+IP S++RK+ Sbjct: 399 VAAEDKLKPLSDQKIVDMLAEKEIQVSRRAIAKYRLELNIPSSSKRKRF 447 >UniRef50_B5YI16 RNA polymerase sigma-54 factor n=1 Tax=Thermodesulfovibrio yellowstonii DSM 11347 RepID=B5YI16_THEYD Length = 471 Score = 436 bits (1121), Expect = e-120, Method: Composition-based stats. Identities = 142/441 (32%), Positives = 247/441 (56%), Gaps = 13/441 (2%) Query: 36 ELQQALESNPLLEQIDTHEEIDTRETQDSETLDTADALEQKEMPEELPLDASWDTIYTAG 95 +Q L NP+LE + E I E E + + E++ +D + G Sbjct: 38 YIQLELMENPILELDEETENIQENEVSSEEYEEPV----AVDKLEKIMIDEYFAERADDG 93 Query: 96 TPSGTSGDYIDDELPVYQGETTQT-LQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYL 154 G ++++ +T T L ++L+WQ+ L+ D RA+A ++ +DE GYL Sbjct: 94 RDLGYFNPGVEEKPSFELFYSTTTDLWEHLLWQLRLSKAPDKIRAVAEVVIGNIDEDGYL 153 Query: 155 TVPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLE 214 E+I + + D + V+ + +Q FDP GVAA+D+++CL++Q+ ++ Sbjct: 154 KATEEEIAKM---SDTDNETVKQAIALVQEFDPAGVAARDIKECLILQIKALGLGDTLVQ 210 Query: 215 EARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIP 274 I +HL+ + + + + + D + ++V +I+ L+PRPG++ + +P Sbjct: 211 SF---IEEHLEDIKKKKYENIAKRFGISIDEVIKSVKIIEKLEPRPGRNFSKTQVNIPVP 267 Query: 275 DVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARND-GDSQFIRSNLQDAKWLIKSL 333 DV V K G + + LN + IP+L++++ Y + + +++R ++A L++S+ Sbjct: 268 DVYVTKVEGEYQIILNDEGIPKLRLSKIYRELFTEKNLPVQEKKYLREKFKNAVELLRSI 327 Query: 334 ESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSP 393 E RN T+ RV+ +V+ Q+ FF++G Y+KP+ L DIAQ + +HESTISRVT+ KYL Sbjct: 328 EQRNKTIYRVTESLVKFQKEFFDKGVSYVKPLNLKDIAQDLGLHESTISRVTSNKYLACE 387 Query: 394 RGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMV 453 G+F ++FFS+ +++ GG S+T ++ L++K+I EN PLSD +++ +L +QGI + Sbjct: 388 HGLFNFRFFFSNALSSNHGG-ISTTLVKDLIQKIINEENHTNPLSDKEISDMLKKQGIDI 446 Query: 454 ARRTVAKYRESLSIPPSNQRK 474 ARRTVAKYRE L IPP RK Sbjct: 447 ARRTVAKYREELKIPPKPLRK 467 >UniRef50_UPI000169A703 RNA polymerase sigma-54 factor n=5 Tax=Enterobacteriaceae RepID=UPI000169A703 Length = 353 Score = 435 bits (1120), Expect = e-120, Method: Composition-based stats. Identities = 280/351 (79%), Positives = 318/351 (90%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 MKQGLQL+ SQQLAMTPQLQQAIRLLQLSTLELQQE+Q ALESNPLLEQ D HEEID +E Sbjct: 1 MKQGLQLKFSQQLAMTPQLQQAIRLLQLSTLELQQEIQLALESNPLLEQTDLHEEIDAKE 60 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 T DSE+LDT +ALEQK+MPEELPLDA+WD IYTAGTPSG DY DDELPVYQGETTQTL Sbjct: 61 TVDSESLDTREALEQKDMPEELPLDATWDEIYTAGTPSGMGNDYSDDELPVYQGETTQTL 120 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 QDYLMWQV+LTPF++TD AIATSIVDAVD+TGYLTVPLEDILES+GDE + +DEVEAVLK Sbjct: 121 QDYLMWQVDLTPFTETDAAIATSIVDAVDDTGYLTVPLEDILESMGDENVALDEVEAVLK 180 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 RIQ FDP+GVAA++LR+CLL+QLSQ+ K TP+L EARLI+S++LDLL NHDFR ++R++R Sbjct: 181 RIQHFDPIGVAARNLRECLLVQLSQYAKDTPYLAEARLIVSEYLDLLGNHDFRMMIRLSR 240 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQIN 300 LKED LKEA+ LIQSLDPRPGQSI TGE EYVIPDVLVRK G WTVELN+DSIPRL++N Sbjct: 241 LKEDTLKEAIALIQSLDPRPGQSINTGESEYVIPDVLVRKEKGIWTVELNADSIPRLKVN 300 Query: 301 QHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQ 351 Q YA+M N+ RND D QFIRSNLQ+AKWLIKSLESRN+TLL+V+RCIVEQQ Sbjct: 301 QQYAAMGNSVRNDSDGQFIRSNLQEAKWLIKSLESRNETLLKVARCIVEQQ 351 >UniRef50_UPI00016C46F0 RNA polymerase subunit sigma-54 n=1 Tax=Gemmata obscuriglobus UQM 2246 RepID=UPI00016C46F0 Length = 488 Score = 435 bits (1119), Expect = e-120, Method: Composition-based stats. Identities = 155/484 (32%), Positives = 250/484 (51%), Gaps = 32/484 (6%) Query: 19 LQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSETLD-TADALEQKE 77 + Q++ +LQLS +LQ ++ AL+ NP LE + E D T + D E Sbjct: 1 MIQSMEILQLSITDLQAKIDDALQENPFLELKEKLGETDEPPTDFNPDAPLKHDETGDLE 60 Query: 78 MPEELPLDASWDTIYTAGTPSGTSGDYIDD----ELPVYQGETTQTLQDYLMWQVELTPF 133 L+ WD + + + E + +LQDYL Q+ Sbjct: 61 FNRLEELNRDWDDHFNEEHRGSRASLEEEGDRKLEAMANMPDRPPSLQDYLADQIGELDI 120 Query: 134 SDTDRAIATSIVDAVDETGYL----------------TVPLEDILESIGDEEIDIDEVEA 177 + DR +A I VD TGYL TV LE+I ++ D + ++VE Sbjct: 121 EEDDRRLARHICSFVDRTGYLGARERANENDDKDTFRTVTLEEIA-ALYDRLVTPEDVED 179 Query: 178 VL-KRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLM 236 VL +QR +P GVAA+DL++CLL+Q+ P + R +I DHL+ +A + + Sbjct: 180 VLVHVVQRLEPAGVAARDLKECLLLQV---PHDAPHADALRTLIRDHLEDVAYNRIPVIQ 236 Query: 237 RVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRK-HNGHWTVELNSDSIP 295 + TRL+ ++EA+ I LDP+PG +YV+PDV+V + + +TV L + +P Sbjct: 237 KATRLEIAAIQEAIEEIHHLDPKPGLKFSDSGTQYVMPDVVVERADDNDYTVRLTDEWVP 296 Query: 296 RLQINQHYASMCNNAR-NDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAF 354 R+++++ MC +D +R LQ A WL+K++E R +TL++V++ I++ Q+AF Sbjct: 297 RIRVSKRVVDMCKRQDLDDKVKDKLRQKLQQADWLVKAVEQRRNTLMKVTKAIIDHQRAF 356 Query: 355 FEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGE 414 + G E+++P+ + IA V++H +T+SR K++ +PRG+F LK FF + Sbjct: 357 LDFGPEHIQPLKMQQIADQVKVHVTTVSRAVDDKWVQTPRGVFPLKRFFGGGKAKDENDV 416 Query: 415 ASS----TAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPS 470 S ++ + +L++ E+ A PLSD +L + L G VARRTV KYR+ L IP S Sbjct: 417 NSEVVAYEVMKQKLLELVSNEDKANPLSDEELVARLKAGGCPVARRTVTKYRKMLKIPSS 476 Query: 471 NQRK 474 QRK Sbjct: 477 RQRK 480 >UniRef50_C9KMQ5 RNA polymerase sigma-54 factor n=1 Tax=Mitsuokella multacida DSM 20544 RepID=C9KMQ5_9FIRM Length = 455 Score = 434 bits (1116), Expect = e-120, Method: Composition-based stats. Identities = 156/478 (32%), Positives = 251/478 (52%), Gaps = 28/478 (5%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 ++Q L + LSQ LAMT QLQQAI++LQLS+ +L +++ NP+LE + E Sbjct: 4 IEQSLGMNLSQHLAMTMQLQQAIQILQLSSQDLCAVIEKEYLENPVLEMEYPTGRRELYE 63 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 S + + G+ DD TL Sbjct: 64 QDGSMNV------------------RALADYLDGGSKQPAYFTDEDDRQFDAAAPLHMTL 105 Query: 121 QDYLMWQVELTPF-SDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVL 179 ++ L+ QV T ++ +RA+AT +V ++D GYLT+P + ++G E E+ +L Sbjct: 106 EEELLEQVNFTFKENEYERAVATFLVGSLDSRGYLTLPTAEAARAMGCSEA---EILRIL 162 Query: 180 KRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVT 239 IQ F+P GV A+DL +CL +Q + + +I HLD +A H + + Sbjct: 163 AVIQSFEPAGVGARDLAECLRLQAERQGIYEGLIA---AVIDRHLDEVAAHRIKEIAAAE 219 Query: 240 RLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQI 299 ++ ++ AV++++ L+P+PG + TG P Y+ PDV++R+ + VE+ +P+L I Sbjct: 220 HVEPAAVQMAVDIVRRLNPKPGAAYGTGAPAYITPDVIIRRGEQGYEVEVEESDVPQLHI 279 Query: 300 NQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE 359 + Y ++ + ++I S L A WLI S+E R T+ RV IV +Q A+FE+G Sbjct: 280 SALYRQ--SDTFDKATQKYIASRLHAASWLINSIEQRRATIRRVVEEIVRRQPAYFEKGP 337 Query: 360 EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFS-SHVNTEGGGEASST 418 +++PM + D+A + +HEST+SR KY P GI L+ FF+ +E G + ++ Sbjct: 338 AFLQPMTMKDVADTIGVHESTVSRAVANKYAELPTGIVALRSFFTLRSTRSETGEDVAAA 397 Query: 419 AIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 ++ ++ LI ENP KPLSD KL +LL +GI ++RRTV KYRE L S +RK+ Sbjct: 398 QAKSAIEALIKGENPKKPLSDQKLCTLLKSKGIALSRRTVMKYREQLGYDSSVKRKRY 455 >UniRef50_Q0EWW0 DNA-directed RNA polymerase subunit N n=1 Tax=Mariprofundus ferrooxydans PV-1 RepID=Q0EWW0_9PROT Length = 464 Score = 433 bits (1115), Expect = e-120, Method: Composition-based stats. Identities = 158/478 (33%), Positives = 277/478 (57%), Gaps = 23/478 (4%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M+ L +L Q+LA+TPQL Q++++L ++++EL L++++ESNP+L+ ID + T Sbjct: 1 MQTKLAHKLGQRLALTPQLTQSLKVLAMNSMELDAYLEESIESNPMLD-IDFNATPTTDA 59 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 + L+ ++ + +E D W+T+Y + S D ++ P++Q E Q+L Sbjct: 60 AGEERALEISEQDQWRE-----QGDNRWETMY-----ASASRDDYNEREPLWQQE--QSL 107 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDE-EIDIDEVEAVL 179 + L QV+ P S+ + IA ++D++D+ GY + + + + DE D + V+ VL Sbjct: 108 SESLHEQVDRQPMSEAEHRIAHMLIDSLDDDGYFRLGTDAFVREVADEITTDAEAVDNVL 167 Query: 180 K-RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRV 238 IQ+ DP G+ A+DL +CLL+QL + W+ + ++ + D L D L Sbjct: 168 HNVIQQLDPSGLGARDLTECLLLQLDGSQEIDIWV---KRLLLHYSDKLLLPD-DELAAA 223 Query: 239 TRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKH-NGHWTVELNSDSIPRL 297 + ++ A + ++ LDP PG ++ E Y+ P+++ R++ N V++ + Sbjct: 224 ADCDVETVQLARSRMRRLDPFPGHGLRGEENYYIRPEIVFRRNSNNDIEVDIPGTGWRGI 283 Query: 298 QINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQ 357 ++N+ + + D +F+ +++AKWL+ +L+ R++TL++V+ C+ E+Q+AF E Sbjct: 284 RLNEQWKEHEWKGK---DKEFMSQAMKEAKWLLHALDQRSETLMKVALCLAERQRAFLEY 340 Query: 358 GEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASS 417 G +KP+ L D+A+ V +HESTISRVT KY +P G+ EL+ FFS+ + T GGG S Sbjct: 341 GILGLKPLTLQDVAEDVGLHESTISRVTNSKYAETPIGLIELRRFFSAGLPTRGGGTISV 400 Query: 418 TAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 ++ VK LI +E +P+SD + L +GI +ARRTVAKYRE L +PPS+QR++ Sbjct: 401 YRVQQRVKALIDSEPAGRPISDQAIADRLQAEGIEIARRTVAKYREQLGLPPSSQRRR 458 >UniRef50_Q2S3F8 RNA polymerase sigma-54 factor n=2 Tax=Sphingobacteriales RepID=Q2S3F8_SALRD Length = 504 Score = 433 bits (1115), Expect = e-120, Method: Composition-based stats. Identities = 164/493 (33%), Positives = 271/493 (54%), Gaps = 23/493 (4%) Query: 5 LQLRLSQ--QLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQ 62 L+L+ Q Q ++PQ Q I+LLQL T +L++ +++ LE NPLLE+ EE + Sbjct: 6 LELKQEQDLQQKLSPQQIQYIKLLQLDTFDLERRIEEELEENPLLEEGLGEEEQREEDEI 65 Query: 63 DSETLDTADALEQKEMPEELPLD---ASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQT 119 D+ + + LE ++ E+ ++ + D +Y G GD D + P+ Q+ Sbjct: 66 DATAEEMENELETEDDEEDFDVEDLLNNTDDMYGYNASPGYQGDDEDRDRPM---PADQS 122 Query: 120 LQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESI---GDEEIDIDEVE 176 L + L Q+ +TD IA I+ ++DE GYL ++ IL+ I EI+ ++V+ Sbjct: 123 LPEQLQGQISFLNLDETDEIIADQIIGSIDEDGYLKREIDSILDDILFNHGIEIEEEDVQ 182 Query: 177 AVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLM 236 VL+++Q +P G+AA+DL++CLL+QL + + + A ++ D + F L Sbjct: 183 KVLRQVQSLEPAGIAARDLQECLLLQLRRMPEDVDGRDTAIAMLEDEYEAFTKKHFDKLQ 242 Query: 237 RVTRLKEDVLKEAVNLIQ-SLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIP 295 + + E LK A +LI+ LDP+PG+ + E Y+ PD VR +G + + LN + P Sbjct: 243 KRLDVDERELKTAFDLIRQRLDPKPGEGEFSEETNYITPDFSVRYVDGEFVITLNGRNAP 302 Query: 296 RLQINQHYASMCNNARNDGDSQ-----------FIRSNLQDAKWLIKSLESRNDTLLRVS 344 L +++HY M + S F++ A+W I S+ R T+ V Sbjct: 303 DLHVSRHYRKMLEKLKAQKKSDDVDEVDEETEEFLKDKFSSAQWFIDSINQRRHTMYLVM 362 Query: 345 RCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFS 404 IV+ Q+ FF GE ++KPM+L DIA+ ++M ST+SRV KY+ + G++ELKYFFS Sbjct: 363 DAIVQLQEDFFRYGEGHLKPMILKDIAEIIDMDISTVSRVVNGKYVQTEWGVYELKYFFS 422 Query: 405 SHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRES 464 + T G E S+ ++A +++++ AE+ P+SD L L E+G +ARRTV+KYR+ Sbjct: 423 EGLETVDGEEVSNKEVKAELQRIVDAEDKTDPMSDQDLADALEEKGFKIARRTVSKYRKQ 482 Query: 465 LSIPPSNQRKQLV 477 LSIP + R+++V Sbjct: 483 LSIPVARLRREIV 495 >UniRef50_B8CYG5 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Halothermothrix orenii H 168 RepID=B8CYG5_HALOH Length = 436 Score = 432 bits (1112), Expect = e-119, Method: Composition-based stats. Identities = 156/477 (32%), Positives = 262/477 (54%), Gaps = 45/477 (9%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 ++ L L Q+L MTP+L+ AI+LLQ S EL+ L++ L+ NPLLE +E Sbjct: 3 LRFDLDLNQKQELVMTPKLKLAIKLLQYSYQELENYLEEELKRNPLLE----------KE 52 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 + + + + + D +++ L Sbjct: 53 SSNGDYFQNHKNYSDYDYSNDRNSDNNYENF----------------------VTYKINL 90 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 +YL Q+ D + IA I+ +D+ GYL + +I +++ EVE VLK Sbjct: 91 TEYLESQL-YQVCEDHELKIARYIIGNLDDRGYLRTTVSEIGHHF---KVEESEVEKVLK 146 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 ++Q+ DPVGV A+++R+ LL++L E A+ I+++ LD LA+ + +++ + Sbjct: 147 KVQQLDPVGVGARNIREALLVKLGNLG-DDENTEIAKNIVTNFLDELASGKIKEIIKKIK 205 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEPE-YVIPDVLVRKHNGHWTVELNSDSIPRLQI 299 ++ + +A+NLI+ L+P P E +++PDV+VRK G + VE+NS P L+I Sbjct: 206 KDKEQVLKAINLIKELEPYPAAGFAAKENTGFIVPDVIVRKVEGKFVVEMNSSLTPSLKI 265 Query: 300 NQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE 359 N +Y M + + +++ N + A WLI+S+E R T+ R++ I +QQ F E+G Sbjct: 266 NPYYYKMLQDVGGES-REYLEKNYKSALWLIRSIEQRRITIYRIAMAITNRQQEFLEKGI 324 Query: 360 EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTA 419 +Y+KP+ + ++A + +HEST+SR TT KY+ +P+GI+ELK+FFS VN S+T+ Sbjct: 325 KYLKPLTMEELADTLGIHESTVSRATTSKYIQTPQGIYELKFFFSGGVN-----GVSTTS 379 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQ-GIMVARRTVAKYRESLSIPPSNQRKQ 475 I+A +K+ I E PLSD KL +L ++ G+ ++RRTVAKYR+ + IP S +RK+ Sbjct: 380 IKAYLKEYIDKEGAKNPLSDKKLARILKDEIGVNISRRTVAKYRKQMGIPSSRKRKK 436 >UniRef50_Q9K710 RNA polymerase sigma factor (Sigma54) n=1 Tax=Bacillus halodurans RepID=Q9K710_BACHD Length = 445 Score = 432 bits (1111), Expect = e-119, Method: Composition-based stats. Identities = 147/478 (30%), Positives = 250/478 (52%), Gaps = 36/478 (7%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M+ GL + + L MT +L+QAI LLQ ST++L +++ NPL+E D + + Sbjct: 1 MEFGLFQQQTTSLVMTNELRQAISLLQYSTVDLAAFIEEQALENPLIELKDRSDRV---- 56 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 L + ++E PE + D+ Y L Sbjct: 57 ------LSEHIRMMREERPE-----------------GEGTLDWSQSSPFDYLHVERLNL 93 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 DYL+ Q P + + + ++ + GYL+ L + +G + E E L Sbjct: 94 SDYLIQQARDLPLNKNEFEWLCYFIYSLRDDGYLSRSLHSLQADLGLTD---QEAEKTLY 150 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 +Q +P G+ A+ L++CLL+QL + + P A I+ +++LLA ++ + + Sbjct: 151 HLQHLEPAGIGARSLQECLLLQLQRKKQRDPL---AETIVEHYMELLAEKRWKMIADDLQ 207 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQIN 300 + ++ + IQ LDPRPG I Y++PDV + G T+ L D +P++ +N Sbjct: 208 ISLADVQRVYDCIQQLDPRPGSQIGGEPTNYLVPDVTIDWVEGELTILLQDDYLPKITLN 267 Query: 301 QHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 + Y ++ + + +Q+ + +WL+KS++ R TLL+V+ I+ +Q+AFFE+ E Sbjct: 268 RQYQTLLTDGEGEA-AQYAKEKYHQMQWLVKSIQQRQQTLLKVTEAILRKQRAFFEEKEG 326 Query: 361 YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGG-EASSTA 419 ++P+ L ++A+ + +HEST+SR TT KY +PRG+ ELK FF S +++ G SS + Sbjct: 327 ALQPLTLREVAEEIGVHESTVSRATTNKYAQTPRGLLELKSFFVSSISSRFGEKGPSSDS 386 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQ-GIMVARRTVAKYRESLSIPPSNQRKQL 476 ++ LV+KL+ EN AKPLSD K+ LL +Q + +RR +AKYR+ L IP S +RK+ Sbjct: 387 VKKLVRKLVEEENKAKPLSDQKIAHLLKDQYNVEASRRVIAKYRDELGIPSSTKRKRY 444 >UniRef50_P24219 RNA polymerase sigma-54 factor n=7 Tax=Bacillus RepID=RP54_BACSU Length = 436 Score = 431 bits (1110), Expect = e-119, Method: Composition-based stats. Identities = 139/478 (29%), Positives = 240/478 (50%), Gaps = 45/478 (9%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M LQ + +T +L+QAI LL + EL + + + NPL+E+ +T + Sbjct: 1 MDMKLQQVQVLKPQLTQELRQAITLLGYHSAELAEYIDELSLENPLIERKETDTPPLSYH 60 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 + ++ +A Q P +TL Sbjct: 61 KTNKNRMNAQEAGLQLSNP-------------------------------------QKTL 83 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 QD L Q ++T++ I ++ ++D GYL +E+ + + E EAVL Sbjct: 84 QDALKQQSLDMNLTNTEKKIFNYLIHSLDSNGYLEEDIEEAARRLS---VSAKEAEAVLA 140 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 ++Q +P G+ A+ L++C+L+QL + E+A +++S H D A ++TL T Sbjct: 141 KLQSLEPAGIGARSLQECILLQLQRLPNRN---EQAEMLVSAHFDAFAQKKWKTLSVETG 197 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQ-TGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQI 299 + +++ + I +L PRPG + Y+ PD+ + NGH ELN+ S P + + Sbjct: 198 IPLHTIQDISDDIAALHPRPGLLFARPEQDVYIEPDIFITVKNGHIAAELNTRSFPEIDL 257 Query: 300 NQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE 359 + Y ++ ++ ++ + Q+ +WL ++L R T+ R+ ++ +Q+ FF +G Sbjct: 258 HPQYRTLLSSGSCQDTVSYLSAKYQEWRWLSRALRQRKQTITRIINELITRQKDFFLKGR 317 Query: 360 EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTA 419 MKP+ L ++A + +HEST+SR K + +P G+FE+K FFS+ G G+AS+ A Sbjct: 318 SAMKPLTLREVADCLSLHESTVSRAIKGKTIQTPYGLFEMKLFFSAKAEASGDGDASNYA 377 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQ-GIMVARRTVAKYRESLSIPPSNQRKQL 476 ++ ++ LI E+ KPLSD KL LL EQ GI ++RRTVAKYR+ ++IP S RK+ Sbjct: 378 VKTHLENLINQEDKTKPLSDQKLVDLLYEQHGIQISRRTVAKYRDQMNIPSSAARKRY 435 >UniRef50_B0S8M7 DNA-directed RNA polymerase sigma-54 subunit n=6 Tax=Leptospira RepID=B0S8M7_LEPBA Length = 473 Score = 431 bits (1110), Expect = e-119, Method: Composition-based stats. Identities = 155/479 (32%), Positives = 264/479 (55%), Gaps = 14/479 (2%) Query: 1 MKQG--LQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDT 58 MK G L R +Q+L MT L+Q+I LL LSTLEL ++Q L NPLL+++ E+ Sbjct: 1 MKLGASLSHRQTQKLVMTQDLRQSIELLSLSTLELSDKIQNELLENPLLDELGVDEKTKM 60 Query: 59 RETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETT- 117 E + + + L E D +W Y+ P + D + T Sbjct: 61 PELFSIDEVKRLEKLNH-----EKSTDVNWQDSYSLEGPRTYDSEASDRNQKYIESSTRG 115 Query: 118 QTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEA 177 +TL+++L+ Q+ L + + I ++ +D+ G++T L + + +G E ++ Sbjct: 116 ETLEEHLLNQLRLIKLTKLEFEIGEVLISMIDDKGFITDDLTLVAKEMGYPE---PKLRR 172 Query: 178 VLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMR 237 VL+ I DP+G+ AKD+++ LLIQ L + +I + L L D++ + + Sbjct: 173 VLQVINELDPIGIGAKDMQETLLIQGRILFPENTLLHQ---LIGEFLSDLEKVDYKKIAK 229 Query: 238 VTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRL 297 ++ E+ + LI+ L+P P + Q + +YV+ DV+V++ + + +N + +P+L Sbjct: 230 NLKITEEEILSLARLIKKLEPYPATTYQGRKIDYVVADVVVKEVGNEFNIFINDEWLPKL 289 Query: 298 QINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQ 357 I + Y + + ++ ++ A+WLI+S++ R TL RV CI++ Q FF Sbjct: 290 TIQEEYKELLGQKLPPKEKEYFQTKYSSAQWLIRSIQQRRQTLQRVVSCIIDFQVDFFRG 349 Query: 358 GEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASS 417 G ++KP+ L ++A+ + +HESTISR+TT KY+ + GIFELK+FFSS V + GG+ SS Sbjct: 350 GIGFIKPLTLKEVAEKLGLHESTISRITTNKYIQTTWGIFELKWFFSSGVKSAEGGKESS 409 Query: 418 TAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 I +++ L+ E+ PLSD + L+ ++GI +ARRTVAKYR+ L I PSN+RK++ Sbjct: 410 KKIHEIIRNLVKEEDEQNPLSDQDIVELMEKKGIEIARRTVAKYRKVLRILPSNERKRI 468 >UniRef50_A1TNE5 RNA polymerase, sigma 54 subunit, RpoN n=2 Tax=Acidovorax RepID=A1TNE5_ACIAC Length = 468 Score = 430 bits (1107), Expect = e-119, Method: Composition-based stats. Identities = 152/488 (31%), Positives = 246/488 (50%), Gaps = 49/488 (10%) Query: 5 LQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDS 64 L R +Q ++P+LQ+A++LLQ+ T E Q + A++ NP L Sbjct: 6 LGARQTQTPHLSPRLQKAVQLLQMPTAEFIQSVMAAVDENPFL----------------- 48 Query: 65 ETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYL 124 + +W + +P SGD + + + T TLQ++L Sbjct: 49 -----EEDEAAAPAAPGPEEGPAWTAAPGSRSPQAGSGDGL---SMLDREPATATLQEHL 100 Query: 125 MWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDE-EIDIDEVEAVLKRIQ 183 Q+ L D +A+ +V+ + + GYL L+ + G E E +E++A L+ +Q Sbjct: 101 HSQLRLLRLPDRAFLLASLVVEELSDDGYLLASLDSLCRDYGVEPEATAEELDAALRTVQ 160 Query: 184 RFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHD----FRTLMRVT 239 +P GV A+DL++CL +QL R + L A R L Sbjct: 161 SLEPAGVGARDLQECLRLQLPAV-----ACPLQRALCDAVLARAAEGSGPQAMRQLAARL 215 Query: 240 RLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQI 299 + ++EA+ ++ LDP PG + +Y++PDV+ K G WTV LN +PR+++ Sbjct: 216 DVPAHAVREAMERLRHLDPHPGWRHGSQPVQYIMPDVIAHKARGQWTVSLNEAVMPRVRV 275 Query: 300 NQHYASMCNNARNDGDSQF--------------IRSNLQDAKWLIKSLESRNDTLLRVSR 345 ++ Y + + + D + + L +A+W ++ ++ R T+L V+R Sbjct: 276 HRQYQQLLQSPADAPDGPAPAPEDTGARNAHRDLAAQLAEARWTVRHVQQRFSTVLDVAR 335 Query: 346 CIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSS 405 I+ +Q F E G M+P+ L DIA+ + +H ST+SRVT KYL +P G+FELKYFFS Sbjct: 336 AILRRQPHFLEYGPIGMRPLALKDIAEELGVHVSTVSRVTNNKYLQTPFGLFELKYFFSR 395 Query: 406 HVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESL 465 + T G ++S TAIR LV++++AA++ +PLSD + L QGI +ARRTV KYR+ L Sbjct: 396 AMTTPAGRDSSPTAIRGLVQEILAADDGQRPLSDVDIARQLERQGIRIARRTVTKYRQQL 455 Query: 466 SIPPSNQR 473 IPP+ QR Sbjct: 456 RIPPAEQR 463 >UniRef50_C9BP10 RNA polymerase sigma-54 subunit n=11 Tax=Enterococcus faecium RepID=C9BP10_ENTFC Length = 444 Score = 428 bits (1101), Expect = e-118, Method: Composition-based stats. Identities = 137/479 (28%), Positives = 240/479 (50%), Gaps = 46/479 (9%) Query: 2 KQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRET 61 + + +Q+LAMT QLQQ+I++LQ ++ EL ++ NPL+E ++ Sbjct: 6 NFSQKQQQTQKLAMTQQLQQSIQVLQYNSEELLAFVENQAMENPLVEVVEPE-------- 57 Query: 62 QDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQ 121 W Y + S G+ + +T +L Sbjct: 58 --------------------------WQPDYIKASSSSYEGE--ETNYLNQIPDTKGSLF 89 Query: 122 DYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKR 181 D L+ QV L R I +V+ +D G+LT+ LE+ + IG I ++ L Sbjct: 90 DSLIEQVHLNYRDTFLRKIVLYLVEYIDLNGFLTISLEEAGKEIGATPI---QMLDALTL 146 Query: 182 IQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRL 241 IQ+ +P GV A+ L++CL++Q + D E A +++ + + L ++ + + + Sbjct: 147 IQQLEPAGVGARSLQECLMLQTERDDY---APELAYIVLEECFEELVERKWKEIAQRFSV 203 Query: 242 KEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGH-WTVELNSDSIPRLQIN 300 +++ + +Q+L P PG+ Y+IPDV V + V N + P ++ Sbjct: 204 DLHAVQQIFDYLQTLSPSPGRIFDRSSELYIIPDVRVLVDDDKNVQVISNRKNQPNIRFQ 263 Query: 301 QHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 + Y + + +++ Q+ +WL K++ R DT+LRV++ IV +Q+AFF E Sbjct: 264 ESYFKQMSQQADKETENYLKERKQEFEWLKKTILQRGDTILRVAQVIVSRQKAFFIDKER 323 Query: 361 YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHV---NTEGGGEASS 417 +KP+ L ++A +++HEST+SR KYL + G+FELK FF++ + +TE + S+ Sbjct: 324 PIKPLTLKEVATEIDVHESTVSRAVNGKYLETDFGVFELKKFFTTRIPTNSTEQTEDLSA 383 Query: 418 TAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 + +++L+ E+ KPLSD KL LL + I ++RRTVAKYR+ L IP S++RK+ Sbjct: 384 DTAKKKLQELVDQEDKNKPLSDQKLVELLKKDEIAISRRTVAKYRDLLGIPSSSKRKRY 442 >UniRef50_C5TQ27 RNA polymerase sigma-54 factor n=8 Tax=Neisseriaceae RepID=C5TQ27_NEIFL Length = 451 Score = 427 bits (1098), Expect = e-118, Method: Composition-based stats. Identities = 163/478 (34%), Positives = 253/478 (52%), Gaps = 39/478 (8%) Query: 4 GLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQD 63 L L+L Q + +LQQ++R+LQ+S LEL++E++ L NPLLE+ +T E D+ + Sbjct: 3 SLVLKLKQTQQLNQRLQQSLRILQMSGLELEREVEDWLLDNPLLERPETDEFADSGLNR- 61 Query: 64 SETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDY 123 T+ SGD +D E + + Y Sbjct: 62 --------------------------TVTMPRAGQQLSGDDAEDIWSNIAEE--EDFKHY 93 Query: 124 LMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDE-EIDIDEVEAVLKRI 182 L QV P S + A ++D + E GYLT LE+I++ E +D + ++ + Sbjct: 94 LHAQVCEHPLSQVEAAYVHVLIDFLGEQGYLTDSLEEIIDHTPLEWMLDEEALQNAQDIL 153 Query: 183 QRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRL- 241 Q FDP GVAA DL + L++QL + +P + A ++ L L + + ++R +L Sbjct: 154 QTFDPPGVAAADLTESLMLQLMRLPA-SPARQMAAHLVQSSLQDLGKNRKQNVLRFRKLY 212 Query: 242 ---KEDVLKEAVNLIQSLDPRPGQSIQTGEP-EYVIPDVLVRKHNGHWTVELNSDSIPRL 297 + ++ A+++I L+P P + P Y+ PDV V++ W V N + P+L Sbjct: 213 PDTDSETIEAALDMIAELNPYPAYGFASATPTPYIQPDVWVKEGKDGWEVISNEAAWPKL 272 Query: 298 QINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQ 357 Q+NQ Y + +A + + +AK I SLE R T+LR++ IV+ Q+ FF Sbjct: 273 QLNQEYCDLMKSAEEGALG--WKEKINEAKQRIDSLELRKSTVLRLAEYIVKNQEDFFIF 330 Query: 358 GEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNT-EGGGEAS 416 GE + PM++ D A + + ESTISR QKYL PRG+F L+YFF+ VN + G S Sbjct: 331 GEIGLSPMLMKDAAAELGLAESTISRAANQKYLSCPRGLFALRYFFTQAVNADDDGEGFS 390 Query: 417 STAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRK 474 AI+A++ +LI +E+ +KP SD L LL ++GI +ARRTVAKYRESL IPP+++RK Sbjct: 391 QGAIKAVLSQLIESEDSSKPYSDETLVKLLKQRGIEIARRTVAKYRESLDIPPAHKRK 448 >UniRef50_Q6M9X4 Putative RNA polymerase sigma-54 factor (Sigma-N) n=1 Tax=Candidatus Protochlamydia amoebophila UWE25 RepID=Q6M9X4_PARUW Length = 492 Score = 425 bits (1093), Expect = e-117, Method: Composition-based stats. Identities = 145/483 (30%), Positives = 259/483 (53%), Gaps = 13/483 (2%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEID--T 58 M+Q + L+Q+L M+ +QQAI LLQL LEL+ +++ + SNPLL+ I +E Sbjct: 13 MQQKQGMNLTQRLMMSTHMQQAIHLLQLPILELEPFIEEQVVSNPLLDIIPIEKEGAFIE 72 Query: 59 RETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGET-- 116 T SE ++ ++ +++ LD + + + +++L Y + Sbjct: 73 ERTSASEKMEKEITIDDRDLAILNRLDEDYREHFAGSETTPMKRSSEEEKLKSYLENSIC 132 Query: 117 -TQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEV 175 +L + L Q T + + AIA ++ +D G+L PL++I ++ V Sbjct: 133 ADPSLLEKLHQQAIDTFNNQQELAIADILIGYIDANGFLKTPLQEICLL---HNLEESAV 189 Query: 176 EAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTL 235 + +L+ +Q F+P G+AA +++ LLIQL K A +I D+ + L ++ + Sbjct: 190 KDILREMQEFEPYGIAAASIQESLLIQLRCLHKEGKL---AYRLIKDYYNELLHNHIPLI 246 Query: 236 MRVTRLKEDVLKEAVNL-IQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSI 294 + + ++EA+ I LD PG + +IPDV +R+ V+++ D Sbjct: 247 QKQLKCSFSEIQEAIEKDIAKLDLHPGTHFSAQTSQVLIPDVTLRQEGEKLIVDVDRDRA 306 Query: 295 PRLQINQHYASMCNNARND-GDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQA 353 P L+IN+ Y + N++ QFI+ +L A+WL+++L+ R T+ R++ + Q Sbjct: 307 PTLKINRKYLRLLNDSSTSNETKQFIKRHLFSARWLVRNLQQRYSTIERIAEFLAVNQYE 366 Query: 354 FFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGG 413 FF Q + +KP+ + IA A+E+HESTI+R + KY++SP+GIF L+ FF++ +E G Sbjct: 367 FFTQPDGQLKPLTMKTIADALELHESTIARTVSNKYINSPKGIFSLRSFFTTKYTSEEGE 426 Query: 414 EASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQR 473 + S+ ++ + ++I+ EN +P SD K++ L +GI ARRTVAKYR++L + + QR Sbjct: 427 DLSAKTVKEAILEIISGENKLRPFSDEKISEFLKSKGITCARRTVAKYRQALDLGNTQQR 486 Query: 474 KQL 476 K+ Sbjct: 487 KKF 489 >UniRef50_B2RK26 RNA polymerase sigma-54 factor n=2 Tax=Porphyromonas gingivalis RepID=B2RK26_PORG3 Length = 485 Score = 425 bits (1093), Expect = e-117, Method: Composition-based stats. Identities = 153/494 (30%), Positives = 243/494 (49%), Gaps = 27/494 (5%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 +KQ L R QQ ++ Q Q I+LL+L +EL++ +Q+ LE+NP LE+ EE+ Sbjct: 2 LKQTLAQR--QQQNLSVQQIQQIKLLELPAIELEERIQKELEANPALEEGAYDEEVA--- 56 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 T D L + + D + D + +L Sbjct: 57 ---GSADGTEDNLMGDDTSDLSLGDYRTEEDIPEYKLREIQ-DRNSRREEIPFSAAVPSL 112 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDE---EIDIDEVEA 177 D L+ Q++ P +D + +A I+ ++E GYL LE+IL+ + E D EVE Sbjct: 113 NDRLVEQLKFLPLTDRQQQLAPYIIGNIEEDGYLHRDLEEILDDLAFRAGIEADKKEVEE 172 Query: 178 VLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMR 237 V+ +Q DP G+ A+DL++CLL+QL + T + A I+++H D + F L Sbjct: 173 VIGLVQSLDPPGICARDLKECLLLQLKRLP-DTTARQTALHILTNHYDDFVSKRFEQLQE 231 Query: 238 VTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEY---VIPDVLVRKHNGHWTVELNS-DS 293 L + +KEA LI L+P+P V PD +V + V L Sbjct: 232 GASLSDSEMKEAFELIMQLNPKPANGWGDDAEATMNRVHPDFIVERMGDDLVVSLTRGRD 291 Query: 294 IPRLQINQHYASMCNNARNDGDSQ---------FIRSNLQDAKWLIKSLESRNDTLLRVS 344 I L+++ Y M + ++ ++ F++ + A+W I++L R +TL R Sbjct: 292 IQPLRVSPVYQEMMQDYQSSAKNRSRERKQTLLFVKQKVDQAQWFIEALRQRRETLQRTM 351 Query: 345 RCIVEQQQAFFEQGEEY-MKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFF 403 IV Q A+F GE +KPM+L D+A STISRV+ KY+ + GIF LK+FF Sbjct: 352 EAIVRLQDAYFRSGELADLKPMILKDVADPTGYDVSTISRVSNSKYVQTDFGIFSLKHFF 411 Query: 404 SSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRE 463 S + G E S+ ++ ++ + I +E+ PL+D++L +L+E G +ARRTVAKYRE Sbjct: 412 SDGTVNDKGEEVSTREVKRVLAEAIDSEDKRSPLNDTELAEVLAENGYRLARRTVAKYRE 471 Query: 464 SLSIPPSNQRKQLV 477 L P + RK++V Sbjct: 472 QLGYPTARMRKEVV 485 >UniRef50_A5WCB6 RNA polymerase, sigma 54 subunit, RpoN n=3 Tax=Psychrobacter RepID=A5WCB6_PSYWF Length = 581 Score = 425 bits (1092), Expect = e-117, Method: Composition-based stats. Identities = 163/426 (38%), Positives = 267/426 (62%), Gaps = 25/426 (5%) Query: 70 ADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVE 129 A+A ELP+D WD IYT + D + YQG T+ +LQD++ WQ+ Sbjct: 157 AEASNLDTSLGELPIDTEWDDIYTHSPTGLAAPDTQ--GMSDYQGATSVSLQDHIRWQLT 214 Query: 130 LTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGD--------EEIDIDEVEAVLKR 181 + S IA ++DA+D+ G++ + + ++ +S + ++I+++ ++ V++ Sbjct: 215 FSKLSSVQSLIADYLIDALDDHGFIQIDMAELKDSFDEMASFYQWQQKIELEHIQQVIEL 274 Query: 182 IQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRL 241 IQ +P+GV A++L + L IQL D+ TP++ +A ++ +H LL +++ + LM T L Sbjct: 275 IQSCEPLGVGARNLAESLQIQLRALDENTPYMRQALRLLDEH-QLLVSNNIKELMSRTGL 333 Query: 242 KEDVLKEAVNLIQSLDPRPGQSIQTGEPEY-------VIPDVLVRKHNGH------WTVE 288 K + + A+ LI++L+ PG + +P+Y IPDV+V+ + W VE Sbjct: 334 KNNEISPALELIRTLNAAPGLAFSKAQPDYGSTPEVYDIPDVIVQLVHNQGGGEAVWKVE 393 Query: 289 LNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIV 348 LN +++P+L+INQ YAS+ + D+ ++R NL DA+ I+S+E RN LL+V+ CI+ Sbjct: 394 LNPETLPKLRINQQYASLVKRGDDSPDNVYLRDNLMDARLFIRSIEERNHNLLKVATCII 453 Query: 349 EQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVN 408 + QQ F QG MKP++L ++A+ V +HEST+SR+TT K + +P+G+F LK+FFSSHV+ Sbjct: 454 KMQQDFLLQGATAMKPLILKEVAEEVGLHESTVSRLTTSKSILTPQGLFSLKHFFSSHVS 513 Query: 409 TEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIP 468 ++ G + SSTAI A+++ LI AE+P KP+SDS + L +QGI +ARRTVAKYRE+++I Sbjct: 514 SDQG-DVSSTAISAMIEALIDAEDPKKPMSDSAIKQHLQQQGIDIARRTVAKYREAMNIG 572 Query: 469 PSNQRK 474 S QRK Sbjct: 573 SSTQRK 578 Score = 66.8 bits (162), Expect = 2e-09, Method: Composition-based stats. Identities = 72/291 (24%), Positives = 120/291 (41%), Gaps = 49/291 (16%) Query: 2 KQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRET 61 L LS +TPQ+QQAI+LLQLS+LEL+QE+Q L+SNPLLE+++ ++ID + Sbjct: 5 SFNLGFNLSTTQKLTPQMQQAIKLLQLSSLELEQEVQMKLDSNPLLERVED-DDIDAEDF 63 Query: 62 QDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQ 121 E L + + + P D + Y G + D L L Sbjct: 64 NSIEELTRLELDAEAQKEVYDPYDDDYGLEYQEGATEDVFSELDGDGLGNLGDLN--DLN 121 Query: 122 DYLMWQVELTPFSDTDRAIATSIVD---AVDETGYLTVPLEDILESIGDEEIDIDEVEAV 178 D ++ T ++ D +++ D L ++ S+G+ ID + Sbjct: 122 DLNENALDDTNKTEGDIEQNQALISITTTADND--LKAEASNLDTSLGELPIDTE----- 174 Query: 179 LKRIQRFDPVGVAAKD--------------LRDCLLIQLSQFDKTTPWLEEARLIISDHL 224 I P G+AA D L+D + QL T L + +I+D+L Sbjct: 175 WDDIYTHSPTGLAAPDTQGMSDYQGATSVSLQDHIRWQL-----TFSKLSSVQSLIADYL 229 Query: 225 -DLLANHDFRTLMRVT----------------RLKEDVLKEAVNLIQSLDP 258 D L +H F + +++ + +++ + LIQS +P Sbjct: 230 IDALDDHGFIQIDMAELKDSFDEMASFYQWQQKIELEHIQQVIELIQSCEP 280 >UniRef50_D2LXG7 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Bacillus cellulosilyticus DSM 2522 RepID=D2LXG7_BACS4 Length = 433 Score = 423 bits (1089), Expect = e-117, Method: Composition-based stats. Identities = 135/464 (29%), Positives = 233/464 (50%), Gaps = 48/464 (10%) Query: 14 AMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSETLDTADAL 73 MT +L+Q I +LQ S +ELQ + + L NPL+E I++ E + + AD Sbjct: 16 VMTNELRQGIAMLQCSAMELQDYIHELLLENPLIE-------IESFENNNWTAITHADE- 67 Query: 74 EQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPF 133 + S D++D L+ +L Q+ Sbjct: 68 -------------------STSAIEHISKDFVD-------------LKQFLQNQITFLDL 95 Query: 134 SDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAK 193 + + IA VDE GYL P +I + + + EV + IQ +P GV A Sbjct: 96 DKSIKNIALYAAQCVDENGYLLHPPSEIAIELN---VSLTEVTKAIDIIQTLEPAGVGAS 152 Query: 194 DLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLI 253 L+ CLLIQ+ Q + E+A I+ ++ + LAN +T+ + L++ + I Sbjct: 153 SLQQCLLIQMRQQKERD---EQAEFILENYFEELANKQLKTIANKENISVLKLQKITDKI 209 Query: 254 QSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARND 313 Q L+P+PG YV+PDV V+ + + ++ + +P+L +N++Y + N+ + Sbjct: 210 QQLNPKPGAIFSNEPCTYVVPDVSVKSTIEGFKLYIHDELLPKLTLNKNYQELMKNS-DT 268 Query: 314 GDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQA 373 +++I+ + W+ K +E R TL V+ I+E+Q F + G ++P+ L +A Sbjct: 269 TINKYIQKKYEQYVWIKKCIEQRQKTLFDVASTIIEKQLDFLKGGAVNLRPLTLKTVADH 328 Query: 374 VEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENP 433 + +HEST+SR T KY+ +P G++ KYFF++ V + G SS +++ +K++I E+ Sbjct: 329 LGIHESTVSRATMNKYIETPMGLYPFKYFFTASVGSNKGQTNSSESVKTHLKQMIDNEDK 388 Query: 434 AKPLSDSKLTSLLSE-QGIMVARRTVAKYRESLSIPPSNQRKQL 476 KP SD KL +++ E I V+RRTVAKYR+ ++IP S +R++ Sbjct: 389 TKPFSDDKLATMIHENYAIAVSRRTVAKYRDEMNIPGSRKRRRF 432 >UniRef50_Q01PW4 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Candidatus Solibacter usitatus Ellin6076 RepID=Q01PW4_SOLUE Length = 535 Score = 423 bits (1088), Expect = e-117, Method: Composition-based stats. Identities = 153/536 (28%), Positives = 251/536 (46%), Gaps = 69/536 (12%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRL---------------------LQLSTLELQQEL-- 37 + LQL+++Q+ +TP L Q + + L+ ST E +E+ Sbjct: 4 LSPRLQLKVAQKQILTPGLVQMVTVLQLNRLELKEMITQEIVKNPVLEESTNEPGEEITP 63 Query: 38 ----------------QQALESNPLLEQIDTHEEIDTRETQDSETLDT------------ 69 + L +L ++ + + + D Sbjct: 64 EELLPLLEAEHVQDPADRQLLEAAVLTDANSVDGSNGSAINGNLFPDAEESAAAAAVAEN 123 Query: 70 ---------ADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 A+A + +E+ + +D G S S + TL Sbjct: 124 DTIATNDPLAEAPAATDPFDEIDFGSFFDEYLDPGYKSPASESVEKPSFETF-LTAPITL 182 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 D+L Q+ ++ SD R A SI+ +DE GYL+ L++I EVE L Sbjct: 183 GDHLRSQLSVSLASDEVRDAAESIIGNLDEDGYLSASLDEIAAMGSH---TAAEVEQALI 239 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 +Q DP GV A++LR+CLL+Q+ + A I+S+ L LL ++ + +V Sbjct: 240 VVQSLDPAGVGARNLRECLLLQIESINGRGGV---AWQIVSNCLRLLETKQYKEIAKVLS 296 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQIN 300 + ++ AV++IQ L+PRPG V PDV K + +++N + +P+L++N Sbjct: 297 RPLEHIETAVHMIQHLNPRPGLRYSGAGARVVEPDVFFTKDGDDYIIQMNDEDVPQLRLN 356 Query: 301 QHYASMC--NNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQG 358 Y M N ++R A L+K++E R T+L+V + IV +Q F G Sbjct: 357 AQYRRMLDRENGATKEVRDYVRERYTSAIQLMKNIEQRKQTILKVCQAIVRRQTEFLSHG 416 Query: 359 EEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASST 418 +Y+KPM++ ++A+ V +H ST+SR KY+H+P+G+FEL+YFFS V GG Sbjct: 417 LDYLKPMMIKEVAEEVGVHPSTVSRAVASKYVHTPQGVFELRYFFSEAVQGPSGGGTPLL 476 Query: 419 AIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRK 474 ++ VKK+I E+ +KPL+D ++T LL +GI V RRTVAKYRE + IP ++QR+ Sbjct: 477 LLKRKVKKMIDDEDRSKPLTDEQITLLLQGEGINVTRRTVAKYREDMKIPSTHQRR 532 >UniRef50_B9JZG8 RNA polymerase sigma-54 factor n=1 Tax=Agrobacterium vitis S4 RepID=B9JZG8_AGRVS Length = 482 Score = 423 bits (1087), Expect = e-117, Method: Composition-based stats. Identities = 150/466 (32%), Positives = 241/466 (51%), Gaps = 46/466 (9%) Query: 48 EQIDTHEEIDTRETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTP---------- 97 E E D+ D + ++ E L + P Sbjct: 15 EPGTDSEAPPAPAPSDTLQSDWYEHGGDGDLNERLDANFGTAFSDDGANPKTDAPEMLGQ 74 Query: 98 ----SGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGY 153 G GD +L + +L+D+L Q+ S +DR IA +++D +DE GY Sbjct: 75 WKSMPGAQGDGEGYDLDDFVAGKV-SLRDHLGQQLPFVLSSASDRMIALALIDQLDEAGY 133 Query: 154 LTVPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWL 213 L L+++ +G D++E +L +Q +P G+ A+ L +CL IQL Q D+ P Sbjct: 134 LRADLDEVATQMGASR---DDMERILAALQTMEPAGLFARSLGECLAIQLRQRDRLDP-- 188 Query: 214 EEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVI 273 A + +LD LA DF +L R+ + E+ L + + I+ L+P+PG +T E V+ Sbjct: 189 --AMAALIGNLDYLAKRDFASLKRLCGVDEEDLLDMLAEIRKLNPKPGAGFETDALETVV 246 Query: 274 PDVLVRKH-NGHWTVELNSDSIPRLQINQHYASMCN----------------------NA 310 PD+LV G W VELN++++PR+ +N Y + + Sbjct: 247 PDILVAPSLEGGWLVELNAETLPRVLVNNAYFTEIRRSSLREGAMKTANGQSGNSKTGQS 306 Query: 311 RNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADI 370 + +G+ F+ LQ A WL +SL+ R T+++V+ I+ QQ AF G ++++P+ L + Sbjct: 307 KAEGEQAFLTDCLQTANWLTRSLDQRAKTIMKVATEIIRQQDAFLRHGVDHLRPLNLKTV 366 Query: 371 AQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGE-ASSTAIRALVKKLIA 429 A A++MHEST+SRVT+ KY+ +PRG+FELKYFFS + + GG+ S+ A+R ++ LIA Sbjct: 367 ADAIKMHESTVSRVTSNKYMLTPRGLFELKYFFSVSIGSAEGGDSHSAEAVRHRIRMLIA 426 Query: 430 AENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 E+P LSD + L G+ +ARRTVAKYRE+++I S QR++ Sbjct: 427 QESPENILSDDDIVESLKNGGVELARRTVAKYREAMNIASSVQRRR 472 >UniRef50_C3J8N1 RNA polymerase sigma-54 factor n=2 Tax=Bacteria RepID=C3J8N1_9PORP Length = 488 Score = 421 bits (1084), Expect = e-116, Method: Composition-based stats. Identities = 158/487 (32%), Positives = 253/487 (51%), Gaps = 15/487 (3%) Query: 4 GLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQD 63 Q Q+LA+ Q Q I+LL++S EL +++ L +NP LE ++ EE + Sbjct: 3 KQQQEQRQKLAIDVQQIQQIKLLEVSGEELADRIREELATNPALEVVEESEETTPEDNFL 62 Query: 64 SETLDTADALEQKEMPEEL-PLDASWDTIYTAGTPSGTSGDYIDDELPVY-QGETTQTLQ 121 E + EQ+ + ++ P D + D DD+ P Y Q +L Sbjct: 63 DEEPLSNTENEQEGLQDDFSPEDYTADDEREDALREPPRPSAGDDDGPSYVQPNEAPSLS 122 Query: 122 DYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEE---IDIDEVEAV 178 D L Q+ SD + IA I+ + + GYL+ L +I +++ E E+E + Sbjct: 123 DELHEQLISLTLSDRELTIAEYIIGNLSDDGYLSASLHEISDALLFNENLDASDAEIEEM 182 Query: 179 LKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRV 238 + RIQ+ DP G+AA+DLR+ LL+QL + K A II + + LA H + ++R Sbjct: 183 IHRIQQLDPPGIAARDLRESLLLQLRRLPK-DEVHSLALSIIEGYFEDLAAHRYDRIIRG 241 Query: 239 TRLKEDVLKEAVNLIQSLDPRPGQSIQT---GEPEYVIPDVLVRKHNGHWTVELNSD-SI 294 + D EA +I+ L+PRP + ++PD V HNG + +N ++ Sbjct: 242 LAITPDRFSEAQRIIRQLNPRPASGYGSNLEAAVARIVPDFTVHLHNGELQLWINDAPNL 301 Query: 295 PRLQINQHYASM----CNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQ 350 P+L I+ Y ++ + F S + +A+ I +L+ R TLL V IV+ Sbjct: 302 PQLGISPAYLAITKAPIRSEAEKTSRAFASSRIAEARQFIDALKRRRKTLLHVVGAIVQA 361 Query: 351 QQAFFEQGE-EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNT 409 Q+ FF G+ + ++P+VL IA+ V + S+ISR+T +KY+ S GI+ LK+FFS Sbjct: 362 QEDFFRTGDIQQLRPLVLRQIAETVALDISSISRITQRKYIQSDYGIYPLKFFFSEGTTG 421 Query: 410 EGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPP 469 G SS + + L+++LI E+ PLSD++L +LLS++GI +ARRTVAKYRE L IP Sbjct: 422 SDGEAVSSRSTKDLLRQLIEKEDKRTPLSDTELGALLSQEGIPIARRTVAKYREQLGIPI 481 Query: 470 SNQRKQL 476 + R++L Sbjct: 482 ARLRREL 488 >UniRef50_C6VM89 RNA polymerase factor sigma-54 n=5 Tax=Lactobacillaceae RepID=C6VM89_LACPJ Length = 445 Score = 415 bits (1066), Expect = e-114, Method: Composition-based stats. Identities = 131/474 (27%), Positives = 231/474 (48%), Gaps = 44/474 (9%) Query: 6 QLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSE 65 Q R SQ+LAMT +LQQ+I++LQ + EL+ L Q NPL++ Sbjct: 10 QQRQSQKLAMTQRLQQSIQMLQFNVEELRDFLTQKALENPLID----------------- 52 Query: 66 TLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLM 125 +D +W+ + + + + D + +L +YL+ Sbjct: 53 ------------------VDTNWNNNHASLN-AAKNVTTKADFIERVSTSNQHSLFEYLL 93 Query: 126 WQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQRF 185 Q+ LT R I +++ VD GYL + + + I E+ + +Q+ Sbjct: 94 DQIHLTMRDTHLRQIVLYLIEYVDVNGYLRIDERQVRQETKATPI---ELLDAITLLQQL 150 Query: 186 DPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDV 245 DP GV A+ L++ L++Q D A +++ + D L N + L + ++ Sbjct: 151 DPPGVGARSLQEALMLQTENDDH---APNLAYIVLEESFDELVNRQWDLLAKKYQVTLAD 207 Query: 246 LKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYAS 305 + + +++L P PG +I Y+ PD++V G + S + P ++ Y Sbjct: 208 ISSIYDYVRTLTPVPGAAIGQETTGYIFPDLVVTNQGGQLALRTASMAQPVVKFRSRYYQ 267 Query: 306 MCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPM 365 + +++++ + W+ SL+ R T+ RV I+E+Q FF + ++P+ Sbjct: 268 QMGQHDDQEVTEYLKEKKSEYDWIANSLQQREATIFRVGTAIIERQADFFLEKTTDLRPL 327 Query: 366 VLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVN--TEGGGEASSTAIRAL 423 +L D+AQ +++HESTISR KY+ + G+FELK FF+ V+ GG S+ +++ Sbjct: 328 LLRDVAQQLKVHESTISRSINGKYIQTDFGMFELKRFFTKAVSKRPTGGKIVSADSVQHR 387 Query: 424 VKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQLV 477 + LI EN KPLSD K+ +L+ + + ++RRTVAKYRE+L+IP S++RKQ + Sbjct: 388 IVTLIEQENKEKPLSDQKIVQILNAENVELSRRTVAKYRENLNIPSSSRRKQYL 441 >UniRef50_Q5WDK1 DNA-directed RNA polymerase sigma-54 factor sigma-L n=1 Tax=Bacillus clausii KSM-K16 RepID=Q5WDK1_BACSK Length = 445 Score = 413 bits (1063), Expect = e-114, Method: Composition-based stats. Identities = 146/481 (30%), Positives = 236/481 (49%), Gaps = 46/481 (9%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M+ GL R + L MT +L+QA+ LLQ S++++ L++ NPLLE + RE Sbjct: 1 MEIGLLQRQTTSLVMTQELRQALHLLQYSSVDVIAYLREQALENPLLELHEQSTLSRERE 60 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQG--ETTQ 118 GT DD+ Q + + Sbjct: 61 LV--------------------------------GTRPIRQPMSSDDKQAALQNVAQRGR 88 Query: 119 TLQDYLMWQVELTP-FSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEA 177 TL D L Q+ +P S+ D+ T ++ + E GYL L + D I E E Sbjct: 89 TLADELYEQLIESPTLSENDKCELTYLIGNLREDGYLGEALPQL---CADRNITESEGER 145 Query: 178 VLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMR 237 +L +Q F+P GV A+ L +CL +QL + P A I+ +HL+ LA ++ L + Sbjct: 146 LLAILQSFEPAGVGARSLGECLALQLKRMPDCHPL---AIDIVLNHLEALAARKWKQLAK 202 Query: 238 VTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHN-GHWTVELNSDSIPR 296 + ++ + ++ LDP+PG YV PDVL+ K G V +N D +P Sbjct: 203 QYGVAVQDIQHLYDQLKELDPKPGLRYSKETAIYVQPDVLMAKDESGKLLVFMNDDILPA 262 Query: 297 LQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFE 356 +++++ Y + S + + Q +WL +SLE R T+ RV+ + Q + Sbjct: 263 IRVHEEYDHLLKQQV--ETSAYAKQKRQHVEWLKRSLEQRQQTVRRVAEVLASMQADYLL 320 Query: 357 QGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEAS 416 Q +KP+ L D+AQ + +HEST+SR T KY +PRG+ ELK FS HV ++ + + Sbjct: 321 QPSGVLKPLTLNDVAQVLGIHESTVSRATANKYAQTPRGLVELKTLFSGHV-SKSDAQLT 379 Query: 417 STAIRALVKKLIAAENPAKPLSDSKLTSLLS-EQGIMVARRTVAKYRESLSIPPSNQRKQ 475 + ++ +K++I+ E+ +KPLSD KL L ++G+ ++RR VAKYR+ L I PS++RK+ Sbjct: 380 NHHVKVWLKEMISVEDKSKPLSDQKLAEQLRIDKGVALSRRVVAKYRDELGILPSSKRKR 439 Query: 476 L 476 Sbjct: 440 Y 440 >UniRef50_Q11E47 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Chelativorans sp. BNC1 RepID=Q11E47_MESSB Length = 456 Score = 413 bits (1062), Expect = e-114, Method: Composition-based stats. Identities = 143/478 (29%), Positives = 241/478 (50%), Gaps = 36/478 (7%) Query: 4 GLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQD 63 L + + Q L ++ ++ QA+ +LQ EL L++ +E NPLL D E + + Sbjct: 6 NLGVGVRQSLTISREMVQAVEILQYDREELAAFLREQVEKNPLLRMKDRAEAAPGQGLGE 65 Query: 64 SETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDY 123 D+ D +G +GD D + + TL + Sbjct: 66 RWRRDSGDRA----------------------FATGAAGDAPDIASSIGE---EVTLSAH 100 Query: 124 LMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQ 183 L Q+ L + R A ++D+++E GYL + E +G + DE++A + +Q Sbjct: 101 LHLQLALVKCTPEVRVRAGQVIDSLEEDGYLRQDPVKLAELLGCSQ---DEMDAAIALVQ 157 Query: 184 RFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKE 243 FDP GV A++L +CL +QL + + P A + H DL+ + + L + + E Sbjct: 158 TFDPAGVCARNLAECLQLQLREQGELRP----AMAALLTHTDLIVKGEVKRLAAICGVSE 213 Query: 244 DVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHN-GHWTVELNSDSIPRLQINQH 302 ++ + ++SLDP PG+++ +PDVLV G VELN D IP+L +++ Sbjct: 214 SEVRVMLRKLRSLDPAPGRALDCTPVCPALPDVLVDLTPTGALKVELNPDLIPKLLLDRS 273 Query: 303 Y-ASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEY 361 Y A + + R + ++ ++ L+++L+ R T+LR+ R IV +Q+A+F G + Sbjct: 274 YHAEVSSQIREKDEKSYLDECMRSGALLMRNLDRRFTTMLRICREIVRRQEAYFRHGLSH 333 Query: 362 MKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSH--VNTEGGGEASSTA 419 ++P+ +IAQ + +HEST+SR T KY+ RG+ +K+FFS G +S Sbjct: 334 LRPLTQGEIAQELGIHESTVSRATANKYILCSRGLLPVKFFFSEALGGTGTDGLGHASET 393 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQLV 477 IR +++++ E P K LSD + +LL +GI +ARRTVAKYR L IP S R++L Sbjct: 394 IRRRIREVVDGETPEKILSDDVIAALLHGEGIDIARRTVAKYRSQLKIPSSADRRRLA 451 >UniRef50_A6DS74 Putative uncharacterized protein n=1 Tax=Lentisphaera araneosa HTCC2155 RepID=A6DS74_9BACT Length = 470 Score = 412 bits (1060), Expect = e-113, Method: Composition-based stats. Identities = 133/473 (28%), Positives = 242/473 (51%), Gaps = 11/473 (2%) Query: 6 QLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSE 65 + Q+ + P ++ +L L +ELQQ++ + L NP LE E + Sbjct: 8 SQTMRQEQTLAPHQLLSLEILSLPVMELQQKINEELALNPTLELDKALGENLAGDPLSES 67 Query: 66 TLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLM 125 T T++A+ + E L ++ Y + Q L +L+ Sbjct: 68 TEMTSEAMNAVDKDESLIGMVQLESYYGDSAFNPDQDKKRQHYFDSL--SCEQDLSSFLL 125 Query: 126 WQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQRF 185 Q+ SD D IA I+ +++ GYL +E++ + + + VL+ +Q F Sbjct: 126 SQIHQGEISDEDIEIANVIIALLNDRGYLNASIEEVA---FNAMCPLKDASRVLELLQTF 182 Query: 186 DPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDV 245 DP G+AA+DLR+CLLIQL ++ HL+ L + + + R ++ Sbjct: 183 DPPGIAARDLRECLLIQLK-----NEKGSLIYRLVDKHLEKLEKNKIKEIARSLKISPIE 237 Query: 246 LKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYAS 305 +++ + +Q L+P PG + P+++ PD++ + V + D +PRL++++++ + Sbjct: 238 VQDLIEYLQRLNPAPGLAYSNKRPDFISPDIIFELKDDEIEVTSSKDFVPRLRLSENFMN 297 Query: 306 MCNNAR-NDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKP 364 M + + ++R L +++ L+ SL+ R TLLR+SR + Q++FF ++P Sbjct: 298 MLEDPKVEAETKTYLREKLAESRSLLASLDLRESTLLRISRLVARDQKSFFTGKSSSLQP 357 Query: 365 MVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALV 424 + + +I+ +E+HE+TISR KYL SP+GIF L+ FF+ V G E ++ I+ ++ Sbjct: 358 VTMREISGELELHETTISRAVAGKYLDSPKGIFPLRDFFNHAVKVNEGEEMTAEGIQEII 417 Query: 425 KKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQLV 477 +++I E+P KP+SD K+ + L E GI +ARRTVAKYRE+ +++RK + Sbjct: 418 REIINDEDPEKPISDGKILTQLEEMGINIARRTVAKYREAAGFSAASKRKMIF 470 >UniRef50_A8UBI0 RNA polymerase sigma-54 factor n=28 Tax=Lactobacillales RepID=A8UBI0_9LACT Length = 449 Score = 412 bits (1059), Expect = e-113, Method: Composition-based stats. Identities = 132/479 (27%), Positives = 233/479 (48%), Gaps = 38/479 (7%) Query: 2 KQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRET 61 +Q QQLAMTPQLQQ+I++LQ + +L + L+Q NP + I + T Sbjct: 4 EQNYTQLQKQQLAMTPQLQQSIQMLQYNRKDLVEFLKQKSLENPFI-------SISVKST 56 Query: 62 QDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQ 121 ++ T + ++ + WDT+ T +L Sbjct: 57 PRNQGTSTQKYNSNQSRTDQTSNGSVWDTVATTPAA---------------------SLY 95 Query: 122 DYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKR 181 ++ Q+ L+ R + + +D GYLTV LED + + D ++ L Sbjct: 96 ATVIDQIHLSFRETALRDLIIWLAQYLDNNGYLTVSLED---ACTLTQADPLQLLDALTL 152 Query: 182 IQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRL 241 +Q+ +P GV A++L++CL++Q + ++ A LI+ + + AN + + + + Sbjct: 153 LQQLEPAGVGARNLQECLMLQTERKEE---APNLAYLILEEEFEAFANRKWECIAKRYAI 209 Query: 242 KEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNG-HWTVELNSDSIPRLQIN 300 ++E + I++L P PG + +Y+ PD+ V+ + V +P + Sbjct: 210 SLSEVQEVSDFIKTLTPHPGAIFSSTPTQYIRPDLSVKVTDEQEIVVSSVKSGLPVIIFQ 269 Query: 301 QHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 + Y ++ S F+ + +WL ++L R DT+L++ IV Q+AFF + Sbjct: 270 KEYYEELKVLKDKEVSTFLTEKQSEYEWLKRTLIQREDTILKIGIAIVNAQKAFFLSEDH 329 Query: 361 YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHV---NTEGGGEASS 417 ++ + L IA+ + +HEST+SR KYL + G+FELK+FF++ + + + G SS Sbjct: 330 PIQSLTLKTIAEELSIHESTVSRAINGKYLTTEFGLFELKHFFTNALLSTSEDHDGAISS 389 Query: 418 TAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 I+ ++ LI E+ KPLSD K+ +L + GI ++RRTV KYRE+L I S +RK+ Sbjct: 390 NQIKKEIQSLIQNEDTKKPLSDQKIVDILQKDGIKISRRTVTKYREALFIASSPKRKRF 448 >UniRef50_A6L093 RNA polymerase sigma-54 n=31 Tax=Bacteroidales RepID=A6L093_BACV8 Length = 489 Score = 411 bits (1056), Expect = e-113, Method: Composition-based stats. Identities = 132/479 (27%), Positives = 247/479 (51%), Gaps = 25/479 (5%) Query: 14 AMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSETLDTADAL 73 ++PQ ++LL+L T+EL++ + + NP LE+ +E+ E ++E ++ D Sbjct: 18 TLSPQQILVVKLLELPTVELEERIHSEILDNPALEE---GKEMPENEDDNTEYVENEDGN 74 Query: 74 EQKEMPEELPLDASWDTIYTAG-TPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTP 132 L ++ D I S + + +E+P + + L Q+++ Sbjct: 75 TDSNEDFSLGDYSNEDDIPDYKLQEHNRSKEGVAEEIPFSDAV---SFYEILKDQLQMQE 131 Query: 133 FSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEE---IDIDEVEAVLKRIQRFDPVG 189 + R IA ++ ++D+ G L +E I++ + +E+ +L+ IQ FDP G Sbjct: 132 LTPEQRDIAEYLIGSLDDDGLLRKNMESIMDELAIYRGIYTTEEELNKILEIIQDFDPAG 191 Query: 190 VAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEA 249 + A+ L++CLL+Q+ + +P + II D + +++ + E+ EA Sbjct: 192 IGARSLQECLLLQIQRK-ADSPLKQIELDIIGKCCDEFTRKNKERIIQKLGITEEQYNEA 250 Query: 250 VNLIQSLDPRPGQSIQTG---EPEYVIPDVLVR-KHNGHWTVELNSDSIPRLQINQHYAS 305 V+ + L+PRPG S+ + +IPD +V + T+ LN+ ++P L++++ + Sbjct: 251 VSDLTKLNPRPGSSLGEAMGKNMQQIIPDFIVETYEDDTITLSLNNRNVPELRLSRQFTE 310 Query: 306 MCNNARNDGDSQ---------FIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFE 356 + + + D+Q F++ + A+ I +++ R TLL + I++ Q+ FF Sbjct: 311 LLDEHTRNKDNQSKASKDALMFLKQKVDAAQGFINAVKQRQHTLLTTMQAIIDIQRPFFL 370 Query: 357 QGEEYM-KPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEA 415 +G+E + KPM+L D+A+ + STISRV+ KY+ + GI+ LK+FFS TE G E Sbjct: 371 EGDESLLKPMILKDVAERSGLDISTISRVSNSKYVQTNYGIYSLKFFFSDGYTTEDGEEL 430 Query: 416 SSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRK 474 S I+ ++K+ + E+ KP +D +L L +G +ARRTVAKYR+ L+IP + R+ Sbjct: 431 SVREIKRILKECVDTEDKEKPYTDDELAETLKTKGYPIARRTVAKYRQQLNIPVARLRR 489 >UniRef50_A7B1W8 Putative uncharacterized protein n=1 Tax=Ruminococcus gnavus ATCC 29149 RepID=A7B1W8_RUMGN Length = 442 Score = 409 bits (1051), Expect = e-112, Method: Composition-based stats. Identities = 127/471 (26%), Positives = 241/471 (51%), Gaps = 33/471 (7%) Query: 4 GLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQD 63 GL+L++ Q+ + + + R+LQ++ E+ +Q+ NPL+E + E ++ Sbjct: 2 GLELKVEQKQRVYQKQIEQARILQMNAQEIAVYIQEVALENPLIEVEELAEAPLEELVRE 61 Query: 64 SETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDY 123 D + E D W S G + ++ Q ++L D Sbjct: 62 -------DMRKSDETGVTASEDTDW---------SYAGGHQLLEDWWTLQ---EESLVDI 102 Query: 124 LMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQ 183 + Q+ P + ++ I + ++D GYL + ++ + E I + E+ + L+ ++ Sbjct: 103 IHQQLLTMPIGEKEKKIVEKLAGSLDSRGYLEISVKKLAEYI---PCSVRELRSALEILK 159 Query: 184 RFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKE 243 +P G+ A DL++CL++QL + + A ++ ++L+ L+ H + + +E Sbjct: 160 SLEPAGIGAADLKECLILQLKRQKDS----RLAITLVKNYLEDLSKHKISAIAKELGEEE 215 Query: 244 DVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHY 303 +++A + I++L+P+PG+ YVIPD++V K +G + ELN L++N+ Y Sbjct: 216 AAVRDAFSRIRTLNPKPGRIYGRNTGGYVIPDIIVSKEHGKYIAELNEAVYRELRLNEFY 275 Query: 304 ASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMK 363 + +++ ++I A+WL +E R+ TL R++ +V+ Q+ F + G++ MK Sbjct: 276 VKL-RDSKEAEVREYIMQKQAQAEWLRACIEQRSHTLQRIADILVDFQRMFLDSGKD-MK 333 Query: 364 PMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRAL 423 P+ D+AQ +E++ESTISR KYL G++ L F +G E SS +++ + Sbjct: 334 PIRQKDVAQIMEVNESTISRAVKGKYLQCGWGVYALSDFM-----PKGTEEVSSDSVKLM 388 Query: 424 VKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRK 474 ++ I +E+ KPLSD KL L E+GI ++RRTVAKYR ++I + R+ Sbjct: 389 LRNFIQSEDKKKPLSDQKLAQKLGEEGIQISRRTVAKYRMQMNILDAAGRR 439 >UniRef50_A3V230 Sigma-54 factor (RpoN2) n=1 Tax=Loktanella vestfoldensis SKA53 RepID=A3V230_9RHOB Length = 445 Score = 409 bits (1051), Expect = e-112, Method: Composition-based stats. Identities = 148/479 (30%), Positives = 247/479 (51%), Gaps = 46/479 (9%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M L Q L TPQLQQAI+LL + LEL +++ E NP +E Sbjct: 1 MTPNAHLAQKQSLVFTPQLQQAIKLLLFNNLELSNYVEKIAEENPFVEV----------- 49 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 E+PE + + + D D + + +TQ Sbjct: 50 ----------------ELPEM--------RVPAPRVMASSQRDPSFDPISLLADRSTQGF 85 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 L QV+ ++RAI +I VD +G+L++P + +++G +D V VL+ Sbjct: 86 AAQLFAQVDDILTEQSERAIGYAIASHVDPSGWLSIPTPLLADNLG---VDDACVCTVLR 142 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 ++Q +P G+ A++L +CL++Q+ D A LII +L L+ L R T Sbjct: 143 KLQSAEPAGLFARNLAECLVLQIVADDPD----RSALLIIMQNLVLVERGAIPELRRKTG 198 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVI-PDVLVRK-HNGHWTVELNSDSIPRLQ 298 + +K + ++ +P+PG ++ PD+L + +G W VELN ++P L+ Sbjct: 199 CSAEEVKRLLRRLREFNPKPGLALSDDVMMSARAPDILAARGQDGEWYVELNGATLPILK 258 Query: 299 INQHYASMCNN-ARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQ 357 +++ ++D D ++R L +A+WL +++ RN+T ++V+ IV Q+AF E Sbjct: 259 VDEVEGRRVRKLVKHDSDQAYVRDTLGNARWLKRAIAQRNETSIKVAAEIVRFQKAFLEH 318 Query: 358 GEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGE-AS 416 G ++M+P+ L +A AV +HESTISRVT+ + +P+G F LK FFS+ ++ +G E S Sbjct: 319 GMQHMRPLKLKTVADAVGLHESTISRVTSSLMMQTPQGSFPLKTFFSTAIDLDGTDEGVS 378 Query: 417 STAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 + +R ++ LI AENP+ PLSD + L +G+ +ARRT+AKYR+ IP S+QR++ Sbjct: 379 ARMVREKIRNLIGAENPSGPLSDEFIAQSLQCEGLSIARRTIAKYRKLDKIPSSSQRRR 437 >UniRef50_Q3J1U1 Sigma-54 factor (RpoN2) n=4 Tax=Rhodobacter sphaeroides RepID=Q3J1U1_RHOS4 Length = 444 Score = 408 bits (1050), Expect = e-112, Method: Composition-based stats. Identities = 138/482 (28%), Positives = 228/482 (47%), Gaps = 55/482 (11%) Query: 1 MKQGLQL------RLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHE 54 M G+QL Q L +T QLQQAI LLQ+ EL ++ E NP +E Sbjct: 3 MTPGMQLYTAQSFAQRQSLVVTAQLQQAICLLQMPNAELSSFIESQSEENPFIELRLPPA 62 Query: 55 EIDTRETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQG 114 + P G + D + Sbjct: 63 PV-------------------------------------PSAPLGKTAPEDWDRVAGLAA 85 Query: 115 ETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDE 174 + +L ++ ++ F A A +DA++ G+L P+E++ G + ++ Sbjct: 86 DPGPSLYVHVAAEIARLGFDAPQAAAAQVFLDALEPWGWLGRPMEELAFRAG---LSLEA 142 Query: 175 VEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRT 234 EA+L R+Q+ +P G+ A+ L +CL +Q + TP + A D + Sbjct: 143 AEALLARLQKIEPAGLFARTLAECLQLQAEEQGLLTPLFAAVLAHLPLL----AAADLKG 198 Query: 235 LMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSI 294 L R + LK + ++ L+P+PG P PD++V + W V+LN ++ Sbjct: 199 LCRACGCGMEDLKAVLRSLRGLNPKPGALFDAAPPPQRPPDLVVSRGAEGWRVDLNRSTL 258 Query: 295 PRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAF 354 P + + A + ++ L AKWL +++E RN T L++ +V +Q+ F Sbjct: 259 PSVVVRSDAAEGFARTA----APYVGERLSVAKWLARAVEHRNQTTLKIGAEVVRRQRGF 314 Query: 355 FEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGE 414 E+G M PM L ++A AV +HEST+SRV++ + +P+G F LK FF++ + G Sbjct: 315 LEEGLARMAPMTLREVADAVGVHESTVSRVSSGLMIATPQGTFPLKSFFTAALAAREGDT 374 Query: 415 A-SSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQR 473 A S+ A+R V++L+ AE+P PLSD + ++S++G+ +ARRTVAKYRE L+IP S QR Sbjct: 375 AGSAAAVRHRVRQLVQAESPDDPLSDDAIAKIISDEGVTLARRTVAKYREQLNIPSSVQR 434 Query: 474 KQ 475 ++ Sbjct: 435 RR 436 >UniRef50_B0P364 Putative uncharacterized protein n=3 Tax=Clostridiales RepID=B0P364_9CLOT Length = 434 Score = 408 bits (1048), Expect = e-112, Method: Composition-based stats. Identities = 135/474 (28%), Positives = 238/474 (50%), Gaps = 44/474 (9%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M + L Q ++ Q++++L L EL LQ NPLL+ + ++ Sbjct: 1 MNFSPKTTLVQTQTLSQTQLQSLKILSLDNFELNNFLQNEYIENPLLDYNE-----NSNL 55 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 ++ + + A E +++ +E+P D+ ++ + Sbjct: 56 PSWNQYVSYSSAKEDEDIYKEIP-------------------DFSENGI----------- 85 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 +++L+ Q+ FSD +++D +D+ GY + L+D + G IDI V+ L Sbjct: 86 KEFLLDQLNQRNFSDLQWTAMQTMIDCLDDCGYFKLSLKDFSQWFG---IDISTVKYCLD 142 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 + +P+G+ +KDL CLL QL + TP L + II HLD +A T+ + Sbjct: 143 ILSSLEPLGIFSKDLPHCLLRQLEARQELTPELNQ---IIRYHLDDIAAGKINTITQKLS 199 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQIN 300 + +++ + I+ L+PRP T +Y++PD+L+ + W + LN I + Sbjct: 200 MSTQDVRKCIAKIRELNPRPISGFLTNSTDYIVPDILIDYQDSSWIIRLNDQWIGNYSLC 259 Query: 301 QHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 +Y +M + +++ ++ R + ++ S+E R +T+L+++ ++E+Q+ +F G Sbjct: 260 DYYLNMMHTSQSPELKEYFRKKYNRVQLIMHSIEQRRETILKITSAVLERQKDYFT-GNS 318 Query: 361 YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAI 420 +KPM LADIA + MH STISR KYL P G+ LK F+S + S + Sbjct: 319 TLKPMTLADIASDISMHTSTISRGIKNKYLQYPFGVVYLKDLFTSSAGKKDNN--SPITV 376 Query: 421 RALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRK 474 + +K +IA+ENP KP SDS L++LL ++GI ++RRTVAKYRE + I + RK Sbjct: 377 KKQLKAIIASENPNKPYSDSTLSNLLKQKGIKISRRTVAKYREEIGIKSTYNRK 430 >UniRef50_C9LBN7 RNA polymerase sigma-54 factor n=1 Tax=Blautia hansenii DSM 20583 RepID=C9LBN7_RUMHA Length = 438 Score = 407 bits (1047), Expect = e-112, Method: Composition-based stats. Identities = 126/474 (26%), Positives = 236/474 (49%), Gaps = 40/474 (8%) Query: 5 LQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE-TQD 63 L+ L Q ++ ++ QA+ +LQ++ +L++ +Q+A+ NP++E +T + D E + Sbjct: 3 LKQELEIQARVSQEMVQAVSILQMTAWDLKEYVQEAMLENPVIELEETTRKQDNEEIVRK 62 Query: 64 SETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDY 123 E ++ D + +EL +E + E L++Y Sbjct: 63 LEWMENGDYQNKVYYQQEL------------------------EESNEFWEENEPDLREY 98 Query: 124 LMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQ 183 L+ Q+ +I ++ ++DE GYL E+I + +G ++E++ + + Sbjct: 99 LLEQMAFMDLDKKAASIIRYMIQSLDERGYLLENEEEIADILG---RSLEEIQRARQILC 155 Query: 184 RFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKE 243 +P+GV A +L++CLLIQL + T+ A I+ ++++ + +++ T Sbjct: 156 TMEPLGVGALNLQECLLIQLRKKGCTS----LACEIVENYIEEFGKNQLSKIVKKTGRDL 211 Query: 244 DVLKEAVNLIQSLDPRPGQSI-QTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQH 302 + +A I+ +P+P Y+IPDV+V K ++ + +N P + I+ Sbjct: 212 KEIAQACEQIKEQNPKPAGYFPARPYKNYIIPDVIVVKLKDYFEILVNDYDSPEIFISPF 271 Query: 303 YASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYM 362 Y M + + ++I+ ++ A+WL +E RN TLL+++ I+ Q FF++G+ Y+ Sbjct: 272 YRQMMRE-QGEETGKYIKEKIRQAEWLKSCIEQRNRTLLQLTEEILRSQTEFFQRGKNYL 330 Query: 363 KPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRA 422 KPM + A+ +++H STISR KYL G+F L +FFSS G + + I+ Sbjct: 331 KPMTQKEAAEKLQVHPSTISRAVQGKYLQCTWGMFPLSFFFSS------GTDKGAEYIKE 384 Query: 423 LVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 +K++I E+ P SD L L E I ++RRT+AKYR S+ I + RK+ Sbjct: 385 CLKRIIENEDKKNPYSDRVLAEKLQEMDIDISRRTIAKYRNSMHISEALGRKEY 438 >UniRef50_B1HSZ7 RNA polymerase sigma-54 factor n=2 Tax=Bacillaceae RepID=B1HSZ7_LYSSC Length = 428 Score = 407 bits (1046), Expect = e-112, Method: Composition-based stats. Identities = 135/475 (28%), Positives = 237/475 (49%), Gaps = 53/475 (11%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M+ ++ Q+ M+ QL+QAI LLQ ST EL+Q +++ NPL+E + Sbjct: 1 MQLSIKQTQELQIVMSAQLRQAIELLQYSTQELEQYIREQELVNPLIELSEP-------- 52 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 E L + + Y S + + Sbjct: 53 ----------------TFKEHLQISKTCGRHYNNWHLSTK---------------CEKNI 81 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 +D L QV LT ++ D + I+ +D+ GY ++ + E+E + Sbjct: 82 RDELFQQVRLTFDNEKDIQLLKHIIYHLDDNGYYEQSIQSSYNDL--------EIEKGIH 133 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 +Q P+G+ A++L++CLL+Q + + +P A IIS++L+ LA+++++ + + Sbjct: 134 LLQTIGPLGIGARNLKECLLLQ-TIYGPNSPA--HADTIISNYLEELAHNNWKKISKELD 190 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQIN 300 + + L+ IQSL P+ IPD++V +G T LN +P++ I+ Sbjct: 191 ISLNDLQIIYLFIQSLQPKLSSLFYQELVHTTIPDIIVDIVDGGITFSLNDYYLPKVSIH 250 Query: 301 QHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 Y + + + + +L D WL+ S+E R +T++ + + ++E+Q+ FF G + Sbjct: 251 ADYFPYIK--AHSSEKSYFKKHLADYHWLVNSIEQRRNTMINIMKALIEKQRKFFLDGLD 308 Query: 361 YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAI 420 ++P+ L +IA +++HEST+SR+TT KY+ + G FELK FSS ++T G S + Sbjct: 309 AIQPLTLREIADQIDVHESTVSRITTNKYVQTAFGTFELKELFSSKLSTANGHSVSQIKV 368 Query: 421 RALVKKLIAAENPAKPLSDSKLTSLLSEQ-GIMVARRTVAKYRESLSIPPSNQRK 474 ++L+ I +EN AKP SD K+ + GI ++RRT+AKYRE +SIP S +RK Sbjct: 369 KSLLSDYIKSENKAKPFSDQKIAEYFNSALGIEISRRTIAKYREDMSIPSSARRK 423 >UniRef50_D1PTK8 DNA-directed RNA polymerase sigma subunit RpoN n=8 Tax=Prevotella RepID=D1PTK8_9BACT Length = 525 Score = 407 bits (1046), Expect = e-112, Method: Composition-based stats. Identities = 125/483 (25%), Positives = 229/483 (47%), Gaps = 29/483 (6%) Query: 19 LQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE----------TQDSETLD 68 + Q ++LL++ EL++ + L+ NP LE+ + RE +D Sbjct: 35 MLQ-VKLLEMPLAELEENVLSELDDNPALEERRDDPDDSGRERDGEDGMLSDPEDEPYEQ 93 Query: 69 TADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQV 128 + E++E + D A S D + T++ D L Q+ Sbjct: 94 KTEREEREEALNNALENLGSDDELPAPAGYTGSQGGSDADYEEIVWGDTRSFYDKLKEQM 153 Query: 129 ELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDE---EIDIDEVEAVLKRIQRF 185 + ++ R++ ++ ++D+ G L L+ I + + ++ + +E VL R+Q F Sbjct: 154 GVLVLTEEQRSVMEYLIGSLDDDGLLRKSLDTISDELAIYHNIDVSEEFIEDVLHRLQAF 213 Query: 186 DPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDV 245 DP G+ A+ L++CLL+Q+ + + + R ++ + D + + + +L + Sbjct: 214 DPPGIGARSLQECLLLQIERR-QDSKLTRLMREVVEQYYDEFTKKHWGRIAQALQLTHEQ 272 Query: 246 LKEAVNLIQSLDPRPGQSIQTG---EPEYVIPDVLV-RKHNGHWTVELNSDSIPRLQINQ 301 ++ L+P+PG S+ + + PD L+ GH + +N IP L+++ Sbjct: 273 ADVVHEELRKLNPKPGASLGETLGRNTQQITPDFLIDTDEEGHVSFTINRGRIPELKVSP 332 Query: 302 HYASMCNNARNDGDSQ---------FIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQ 352 ++ M R+ + + ++ A+ I+++ R TL + I+ Q+ Sbjct: 333 SFSDMVKTYRSSKHQMNRQEKEALLYAKQKVEKAQGFIEAVRQRRHTLYVTMKAIINWQK 392 Query: 353 AFFEQGEEY-MKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEG 411 FF+ G+E +KPM+L DIA+ + STISRV+ KY +P G F L++FF+ TE Sbjct: 393 KFFQDGDEADLKPMILKDIAEKTGLDISTISRVSNIKYAQTPWGTFPLRFFFTDGYVTED 452 Query: 412 GGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSN 471 G E S+ I+ ++K+L+ EN P SD L L ++G +ARRTVAKYRE L +P + Sbjct: 453 GEELSTRKIKMVLKELVRKENKKMPFSDEALARELKKKGYPIARRTVAKYREQLGLPVAR 512 Query: 472 QRK 474 RK Sbjct: 513 LRK 515 >UniRef50_B3ESG5 Putative uncharacterized protein n=1 Tax=Candidatus Amoebophilus asiaticus 5a2 RepID=B3ESG5_AMOA5 Length = 479 Score = 406 bits (1045), Expect = e-112, Method: Composition-based stats. Identities = 151/495 (30%), Positives = 268/495 (54%), Gaps = 38/495 (7%) Query: 3 QGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQ 62 Q L+L +TPQ Q ++LLQ+ ++++ +QQ L NP+LE + + E +E + Sbjct: 2 QKLRLTQKLTQKLTPQQIQLVKLLQIPSIDINARIQQELAENPVLEPANDNVEY-LQEAE 60 Query: 63 DSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQ---T 119 D+ +DT E+P++ L T DY +E + + + + Sbjct: 61 DNSAIDTMTVGYIDELPQKNYL---------------TYRDYEAEERWLRKEASVPNRYS 105 Query: 120 LQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEE---IDIDEVE 176 LQ+ L+ Q+E+ + I ++ +++ GY+ L + + + + EVE Sbjct: 106 LQEQLLEQLEMLRLDEGQHKIGEYLIGSLETDGYIRRDLAALANDLLLTQYIQTNETEVE 165 Query: 177 AVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLM 236 +LK+IQ FDP G+ A+ L++CLLIQL++ + P A I++ +L + ++ Sbjct: 166 TILKKIQTFDPPGIGARSLQECLLIQLNRQP-SKPVRNMAIQILNQTFELFTKKHYSQII 224 Query: 237 RVTRLKEDVL-KEAVNLIQSLDPRPGQSIQTG--EPEYVIPDVLVRKHNGHWTVELNSDS 293 + +++ L KEA+ LI L+P+PG ++ + + + + PD LV KHN V LN+ + Sbjct: 225 KKLAIEDQELFKEALELIAKLNPKPGGTLGSDIQQNQILYPDFLVTKHNQQLEVRLNAYN 284 Query: 294 IPRLQINQHYASMCNNARN-----------DGDSQFIRSNLQDAKWLIKSLESRNDTLLR 342 P L++++ Y + ++ S F++ + AKW I++L R TLLR Sbjct: 285 TPELRLSRSYIHILETSQKLGKDKKKSPSLQAASSFVKQKAESAKWFIEALNQRKKTLLR 344 Query: 343 VSRCIVEQQQAFF-EQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKY 401 + IV+ Q FF E+ E +KPM+L D+A+ +EM ST+SR+ K + + GI+ LK+ Sbjct: 345 TMQAIVQLQYDFFMEEDESKLKPMILKDVAKIIEMDISTVSRIVNNKSVQTQFGIYPLKF 404 Query: 402 FFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKY 461 FF+ ++T G + SS A++ + +LI E+ +P +D +LT++L ++G +ARRTVAKY Sbjct: 405 FFTEAISTTMGEDVSSKAVKQALLELIQQESKQQPYADEQLTAMLVDKGYHIARRTVAKY 464 Query: 462 RESLSIPPSNQRKQL 476 RE L++P + RK+L Sbjct: 465 REQLNMPVARLRKEL 479 >UniRef50_D1W3B9 RNA polymerase sigma-54 factor n=1 Tax=Prevotella buccalis ATCC 35310 RepID=D1W3B9_9BACT Length = 556 Score = 406 bits (1043), Expect = e-111, Method: Composition-based stats. Identities = 130/478 (27%), Positives = 240/478 (50%), Gaps = 25/478 (5%) Query: 19 LQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHE----EIDTRETQDSETLDTADALE 74 + Q ++LL++ EL++ + L+ NP LE+ + E E D R+ ++ + + + E Sbjct: 83 MLQ-VKLLEMPLTELEESVNAELDDNPALEKAEGDERHEDETDGRDEREEDFAERTEREE 141 Query: 75 QKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFS 134 ++E ++ + D + D D E VY T++ D L Q+ + + Sbjct: 142 REEALDKALENIGRDDEMPDAYGAYHPQDNADYEEIVYGD--TKSFYDKLKEQMMMENLT 199 Query: 135 DTDRAIATSIVDAVDETGYLTVPLEDILESIGDE---EIDIDEVEAVLKRIQRFDPVGVA 191 DT + + ++ ++D+ GYL +E I + + ++ ++E VL +Q FDP G+ Sbjct: 200 DTQKDVMEYLIGSLDDDGYLRKDVESISDELAIYHNIDVTPTQIEEVLYILQWFDPAGIG 259 Query: 192 AKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVN 251 A+ L++CLL+Q+ + + + + +++ D + + +L + L+ Sbjct: 260 ARSLQECLLLQVERRP-ESKLKDILQQVVTRQFDAFTKKHWDKIQANLKLSDLQLRAVQE 318 Query: 252 LIQSLDPRPGQSIQTG---EPEYVIPDVLV-RKHNGHWTVELNSDSIPRLQINQHYASMC 307 I+ L+P+PG S+ + + PD ++ N + + LN IP+L I+ ++ M Sbjct: 319 EIRKLNPKPGASMGETMGRNVQQITPDFIIDVDDNNNISFTLNQGKIPQLTISPSFSDMV 378 Query: 308 NNARNDGDSQ---------FIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQG 358 + +N+ ++ + + + A+ I +++ R TL + I++ Q+ FF G Sbjct: 379 DTYKNNKENMNRQEKEALLYAKQKVDKAQGFIDAIKQRRHTLYITMKAIIDWQRKFFIDG 438 Query: 359 EEY-MKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASS 417 +E +KPM+L DIA E+ STISRV+ KY + G F L++FF+ TE G E S+ Sbjct: 439 DESDLKPMILKDIADKTELDISTISRVSNIKYAQTKWGTFPLRFFFTDSYTTEDGEELST 498 Query: 418 TAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 I+ +K++I E+ KP SD L L + G VARRTVAKYRE L + + RK+ Sbjct: 499 RKIKLALKEIIDHEDKRKPFSDEALAKELKKMGYPVARRTVAKYREQLGLSVARLRKE 556 >UniRef50_B0VJD8 RNA polymerase sigma-54 factor n=1 Tax=Candidatus Cloacamonas acidaminovorans RepID=B0VJD8_9BACT Length = 485 Score = 404 bits (1039), Expect = e-111, Method: Composition-based stats. Identities = 140/491 (28%), Positives = 241/491 (49%), Gaps = 25/491 (5%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQ-------IDTH 53 M+Q L L+ Q+LA+ P++ Q++++L L LEL+ ++Q L +NPLLE Sbjct: 4 MEQYLSLKQKQELALKPKMLQSLKMLALPILELESYIKQELVNNPLLELREEKDEDDIDE 63 Query: 54 EEIDTRETQDSETLDTADALEQK-----EMPEELPLDASWDTIYTA--GTPSGTSGDYID 106 + + S ++ +D E E E + +W+ +++ G S + D+ + Sbjct: 64 SNFEQSTPESSTPIEESDMSENHLETLAEAEELTEILDTWNEYHSSYEGWSSDSETDHTE 123 Query: 107 DELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIG 166 + + + L Q+ + + T IVD+ D G+L +I+ Sbjct: 124 ALIRYEENGKEKFL-----EQLFPLELPENEIDFITDIVDSCDSYGFLPKGF-NIVNLAK 177 Query: 167 DEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDL 226 I + E + I P G++A+++ +CL+ QL++ K L ++S+H + Sbjct: 178 KYLITAERAEGLHNIILSLSPKGISARNITECLMAQLTEEQKQNRILVG---LVSEHFEN 234 Query: 227 LANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWT 286 L + ++ + + E+ + A I LDP+PG I + YV PDV ++ +G + Sbjct: 235 LIHRRYQKIASAYGVSEETILLAKEQISKLDPKPGLRILSTSAVYVFPDVTMKLIDGKYE 294 Query: 287 VELNSDSIPRLQINQHYASMCNNARNDGDS-QFIRSNLQDAKWLIKSLESRNDTLLRVSR 345 + +N P + I+ Y M N D ++ Q++R + AK+LIKS+ R TL RVS Sbjct: 295 IIINDHITPNIIISPRYRKMINRGYFDKETMQYVRERINSAKFLIKSIYMRMRTLERVSL 354 Query: 346 CIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSS 405 I+ Q FF G MKP+ A IA+ + ++ESTISRV KY +P GI+ K FF+S Sbjct: 355 SIINHQYDFFYLGTGQMKPLTYAVIARDLGVNESTISRVVKHKYAETPYGIYAFKDFFTS 414 Query: 406 HVN-TEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRES 464 + S ++ + +LI E+ KP SD +L LL +G+ ++RR + KYR+ Sbjct: 415 TAGFDDDYQSVSRQKVKTHLIRLIETEDKKKPYSDQELVELLKAEGLNISRRIITKYRDE 474 Query: 465 LSIPPSNQRKQ 475 L I S+ R+Q Sbjct: 475 LGILNSHLRRQ 485 >UniRef50_B2UL79 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Akkermansia muciniphila ATCC BAA-835 RepID=B2UL79_AKKM8 Length = 465 Score = 403 bits (1035), Expect = e-110, Method: Composition-based stats. Identities = 151/483 (31%), Positives = 260/483 (53%), Gaps = 32/483 (6%) Query: 2 KQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRET 61 + LQ +++Q+A++ +Q +++LQ S LEL+Q ++QALE+NP+LE++ + Sbjct: 3 EVSLQHGMTRQMAVSQSMQTGMQILQASALELRQIIRQALETNPMLEELPDASPEALEDG 62 Query: 62 QDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQ 121 D DA ++E W+ G SG + D ++L+ Sbjct: 63 PDG------DAWNERE--------DGWNEFTAEGRLSGDAAARRDFMYESVV--APESLK 106 Query: 122 DYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKR 181 +LM Q + + + R ++DA+DE G+LT +++ E D++E A L+ Sbjct: 107 THLMDQAQHSALTGRARDALFLLIDALDERGFLTESPQELEEQGCFSMRDMEEALAALR- 165 Query: 182 IQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRL 241 DP GV A +LRD LLIQL Q A ++ LA H + R+ + Sbjct: 166 --EMDPPGVGAANLRDSLLIQLEQRGLK---RSLAFRLVKRCWRELAAHKYEEAARLLDV 220 Query: 242 KEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHN-GHWTVELNSDSIPRLQIN 300 + + A+ +I+SL P PG + G +++PDV+V + G V L S+ +PRL +N Sbjct: 221 EPGAVAAALEVIRSLTPDPGGAYAPGGNPHLLPDVIVEEGPSGVLEVILTSEYLPRLSMN 280 Query: 301 QHYASMCNN-ARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE 359 + Y + + + Q++R ++ + L+++L+ R +T+LR++R IV +Q+ FF G Sbjct: 281 ERYMELMAEGSGSRELRQYLRRAFREGQELLRALDMRQETVLRLARVIVRRQEDFFRSGP 340 Query: 360 EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGG------- 412 +K M + ++A+ + +H ST+SR KYL G+ EL+ FFS+ V +EGG Sbjct: 341 SRLKAMGMEEVAEEMGVHVSTVSRACRDKYLLCRWGMKELRSFFSAGVPSEGGVSPDGAA 400 Query: 413 -GEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSN 471 G ++ A++ L+++LIA E+ +KPLSD+ L + L E+G+ +ARRTVAKYRE + I P++ Sbjct: 401 SGAVAAGAVQELMRRLIAEEDSSKPLSDAGLAAALREKGVNIARRTVAKYREQMKILPAS 460 Query: 472 QRK 474 R+ Sbjct: 461 LRR 463 >UniRef50_C4GJ01 Putative uncharacterized protein n=1 Tax=Kingella oralis ATCC 51147 RepID=C4GJ01_9NEIS Length = 453 Score = 402 bits (1034), Expect = e-110, Method: Composition-based stats. Identities = 157/484 (32%), Positives = 258/484 (53%), Gaps = 43/484 (8%) Query: 2 KQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRET 61 +QL+L Q ++ +QQ++R+LQ+S +E+++E++ L NPLL++++ E+ Sbjct: 3 STNIQLKLRQTQQLSQNMQQSLRVLQMSGIEIEREVEDWLADNPLLDRVEQPEKT----- 57 Query: 62 QDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQ 121 E T + ++ + + ++W+ + +TL Sbjct: 58 --YEPPQTTADIAKRGVSLDDDDSSAWENL-----------------------AQEETLN 92 Query: 122 DYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDE-EIDIDEVEAVLK 180 YL QV P + ++ A ++D +D+ GYLT +E+I+E E ++ D++E L+ Sbjct: 93 AYLHKQVAEHPLTPSEAARVHILIDFLDDKGYLTESIEEIIEHTPLEWMLEEDDMEIALE 152 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 ++ FDP G+A DL LL QL + + A II+ HLD + + + L R ++ Sbjct: 153 HLRAFDPAGIATPDLTQSLLYQLDRLP-LSEARRCAAQIITRHLDQITQNTPKNLNRFSK 211 Query: 241 L----KEDVLKEAVNLIQSLDPRPGQSIQTGEP-EYVIPDVLVRKHN-GHWTVELNSDSI 294 L E VL++A+ +I +L P P + EP +YV PDV V+K++ G W N +S+ Sbjct: 212 LLPEYSETVLRDALEIITNLRPYPSYGFASEEPTQYVRPDVFVQKNDKGEWYAISNEESL 271 Query: 295 PRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAF 354 P+++IN R + AK I L+ R T+LRV+ I+ QQ F Sbjct: 272 PQIKINTEIIEALQ--EESNLDPIWREKINGAKQKIDMLQQRKSTILRVAEYILAHQQDF 329 Query: 355 FEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHV---NTEG 411 F GE + PM+L D A+ +E+ ESTISR + KYL P+G+F L+YFFS + ++E Sbjct: 330 FYFGEIGLVPMLLKDCAKHLELAESTISRAVSNKYLACPQGLFALRYFFSQNAAINDSET 389 Query: 412 GGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSN 471 G S+ AI++++ +++ E+ KP SD L LL +QGI +ARRTVAKYRE L IP Sbjct: 390 GNAISANAIKSVIAQIVEHEDKTKPHSDCSLHRLLQQQGINIARRTVAKYREQLGIPTVQ 449 Query: 472 QRKQ 475 QR++ Sbjct: 450 QRRE 453 >UniRef50_C8WN98 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Eggerthella lenta DSM 2243 RepID=C8WN98_EGGLE Length = 474 Score = 402 bits (1033), Expect = e-110, Method: Composition-based stats. Identities = 143/482 (29%), Positives = 235/482 (48%), Gaps = 25/482 (5%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M+ + + + P Q + +L L L ++ +E NPLL+ H + E Sbjct: 11 MEARSNVSVRTKQHFAPTAIQGLEVLSLPVARLDAYVRDLVERNPLLDFDYDHGSLSFEE 70 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGE--TTQ 118 D E D A E + A PS + D +L + E T+ Sbjct: 71 LPDEEDGDAAADAETAAE------------GFDARPPSAIAWDARGFDLARLRDECSQTE 118 Query: 119 TLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAV 178 TL ++ Q+ + DRA+ ++++ +D+ GY + + + G I++ + + Sbjct: 119 TLHSHVRMQLTGVRVGEEDRALLDALIENIDDDGYFSGSMHALCAEAG---RSIEDGQRL 175 Query: 179 LKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRV 238 L+ +Q+ P GV A+DL +CL +Q+ D P+ + R ++ LD LA + LMRV Sbjct: 176 LELVQQLSPRGVGARDLAECLALQI---DDGLPYADVIRDMLRTGLDDLAENRTTKLMRV 232 Query: 239 TRLKEDVLKEAVNLIQSLDPRPGQSIQTGE-PEYVIPDVLVRKHNGHWTVELNSDSIPRL 297 L D L +I +LDPRPG S + YVIPD+ +R+ ++V++ + L Sbjct: 233 YHLTIDDLAAIREVICTLDPRPGSSFSQRKGTVYVIPDITIRRDGTAFSVQVTGELSETL 292 Query: 298 QINQHYASMCNNAR-NDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFE 356 +N Y M +D +++ +A + +++ R TL R + E Q FF Sbjct: 293 VLNGSYDRMEQRGGMDDEAREWLHEKRAEADAALANIDQRRQTLHRFGVYLAEVQYDFFM 352 Query: 357 QGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNT---EGGG 413 GE M+P+ + A A+ +H STISR KY +P G+F LK+FFSS V E Sbjct: 353 GGEARMRPLTMQQAADALGVHVSTISRTVQDKYALTPWGVFPLKHFFSSSVACTAEERRH 412 Query: 414 EASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQR 473 SS AI+ +K L+A E+ PLSD+ +T++L+ +G+ + RRTVAKYRE+L I +QR Sbjct: 413 ALSSLAIKDRIKDLVAQEDRRTPLSDATITAILNGEGVDIKRRTVAKYREALGIGRQSQR 472 Query: 474 KQ 475 ++ Sbjct: 473 RR 474 >UniRef50_C0QWG2 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Brachyspira hyodysenteriae WA1 RepID=C0QWG2_BRAHW Length = 434 Score = 400 bits (1028), Expect = e-110, Method: Composition-based stats. Identities = 130/475 (27%), Positives = 243/475 (51%), Gaps = 52/475 (10%) Query: 2 KQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRET 61 ++ + L + Q + + ++ L +EL++++++A+E NP LE Sbjct: 9 NTSIRTAIKNDLRLNYQTRVWLDVIALPAIELKEKIEKAMEENPFLEY------------ 56 Query: 62 QDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQ 121 ++ Y+ + +G+ + I + ++L Sbjct: 57 -------------------------DFNDNYSKPSSAGSDINSI---IENTVENNKESLF 88 Query: 122 DYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKR 181 +L Q+++T + +A I ++E GYLT+ ++I + DI ++E ++ Sbjct: 89 SHLKSQIDITFNDKKEIELAEQICSFINEDGYLTIESDEISNILN---ADIKQIEKIISI 145 Query: 182 IQRFDPVGVAAKDLRDCLLIQLSQFDKT---TPWLEEARLIISDHLDLLANHDFRTLMRV 238 I+ FDP GV AK++ +CL IQL K + A I+ ++LD L+ ++ + Sbjct: 146 IKTFDPYGVGAKNINECLSIQLKMKKKEADEKEIYDTAINIVENYLDELSKKNYDKIALN 205 Query: 239 TRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQ 298 ++ + + +A+ LIQ+L+P P + T +Y++P++ + K N +W V+ + IP L+ Sbjct: 206 LNIEVNTVLKALKLIQTLEPYPAREYDTSSVKYIVPELFIFKENDNWFVKTDETFIPHLK 265 Query: 299 INQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQG 358 I++ Y + + + F++ ++A+ LI + R TLL++ +++ Q FFE G Sbjct: 266 ISKKYIKLLDREESKDSINFLKEKKKEAESLINASNDRKKTLLKIGEALLKFQINFFEYG 325 Query: 359 EEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASST 418 +E+MKP+ L D++ V + ESTISR+ KYL++ G F +KYFFS VN G S Sbjct: 326 KEFMKPLTLKDMSLEVNLSESTISRIANGKYLNTVWGTFSIKYFFSRAVN----GGLGSR 381 Query: 419 AIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQR 473 ++ ++K++I EN LSD K+ +L +GI ++RRTVAKYR+S++I S R Sbjct: 382 GVKEIIKRII--ENSPAKLSDEKIRLILKSEGIDISRRTVAKYRKSMNIFSSRNR 434 >UniRef50_C2ME31 RNA polymerase sigma-54 factor n=1 Tax=Porphyromonas uenonis 60-3 RepID=C2ME31_9PORP Length = 492 Score = 399 bits (1025), Expect = e-109, Method: Composition-based stats. Identities = 141/481 (29%), Positives = 237/481 (49%), Gaps = 21/481 (4%) Query: 14 AMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSETLDTADAL 73 +T + Q I+LL+L EL+Q + +E NP LE+ T + +E +D++ + Sbjct: 15 TLTARQIQQIQLLELPVTELEQRISAEIERNPALEEAYTARDDSNESNATNEQVDSSLSQ 74 Query: 74 EQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPF 133 ++ E + D I + +E+P +L DYL Q+ Sbjct: 75 SDQDRLEARNEFGNDDEIPAYRLRMIAEREQQREEIPFAAHGL--SLTDYLDNQLSTLEL 132 Query: 134 SDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEE---IDIDEVEAVLKRIQRFDPVGV 190 ++ + + IV + E GYL L I + + +E E+ +L+ IQ DP GV Sbjct: 133 TERQQLLVPYIVGNLREDGYLDRSLPLIAQDLLLKEGIDASEQELAELLQIIQSLDPPGV 192 Query: 191 AAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAV 250 A+ L++CLL+QL + +++ + A I+S + D A F L + + L+ Sbjct: 193 GARTLQECLLLQLHRMEQSETVVN-AEKIVSSYFDDFAYKRFERLTKR-GFDQKQLEAVS 250 Query: 251 NLIQSLDPRPGQSIQTGEPEY---VIPDVLVRKHNGHWTVELNS-DSIPRLQINQHYASM 306 +LI L P+PG + V PD ++ +H G T+ L IP L ++ Y M Sbjct: 251 SLIHQLSPKPGNGFDSSAETLLSKVTPDFIITEHEGELTLTLTDQREIPALTVSPSYKQM 310 Query: 307 CNNARN---------DGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQ 357 + R+ Q+ R ++DA+W I +L+ R DTL I+ Q+ FF Sbjct: 311 IADYRDASTSERAKLKETIQYTRDRVKDAEWFISALQQRYDTLRTTMTIIMTLQRDFFLS 370 Query: 358 GEE-YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEAS 416 G+ ++PM+L D+A+ + STISRV+ KY+ GI+ +K+FFS + + G + S Sbjct: 371 GDIIDLRPMILKDVAELARLDISTISRVSNSKYVQCQWGIYPVKFFFSESMQAKDGSDVS 430 Query: 417 STAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 + I+ +K++I E+P +PL+D +LT LS QG +ARRT AKYR+ L +P + R++L Sbjct: 431 TKVIKDCLKQIIDGEDPRQPLTDDQLTEELSRQGYDIARRTTAKYRQQLGLPTARLRRKL 490 Query: 477 V 477 Sbjct: 491 T 491 >UniRef50_A4SER6 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Chlorobium phaeovibrioides DSM 265 RepID=A4SER6_PROVI Length = 447 Score = 395 bits (1016), Expect = e-108, Method: Composition-based stats. Identities = 153/477 (32%), Positives = 235/477 (49%), Gaps = 41/477 (8%) Query: 7 LRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSET 66 L+ Q+ ++ Q + +LLQL L+Q + + L+ NPLLE ++ +E E + S Sbjct: 6 LQQKQKAQLSTQQIISSQLLQLPLANLEQRIYEELQENPLLEAVEAEKENSLDERERSSA 65 Query: 67 LDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMW 126 + + +Q + + L+ Sbjct: 66 SSGGQSSGE----------------------------------HFFQAVQFDSFHEILLK 91 Query: 127 QVELTPFSDT-DRAIATSIVDAVDETGYLTVPLEDILESI--GDEEIDIDEVEAVLKRIQ 183 Q+ L + + +A I+ +D GY E I++S+ E+D DEVEA+ +I Sbjct: 92 QLALQENIERGEVEVAIEILGNLDSDGYFVEDPEVIVDSLRIAGLEVDGDEVEAIRLKIL 151 Query: 184 RFDPVGVAAKDLRDCLLIQL--SQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRL 241 DP GVAA DLR+ LL+QL S+ + A I+ H D + F L++ Sbjct: 152 HLDPPGVAALDLRERLLVQLHSSRGKASVRVRGVAEAILIHHFDDFIHRRFERLVKKLPH 211 Query: 242 KEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQ 301 + + + A+N I +LDP PG Q Y+ PD LV NG T LN S ++++ Sbjct: 212 QPEEIDAAINAIVALDPHPGI-FQDEGGHYISPDFLVSFDNGELTASLNDRSALSVKVSD 270 Query: 302 HYASMC-NNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 Y + + D QFIR N+Q A +LESR TLL+V +++ Q AFF G Sbjct: 271 RYRDILGKRQGSKEDLQFIRRNMQRANDFASALESRRQTLLKVIESLMKHQYAFFADGPA 330 Query: 361 YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAI 420 ++ P+ + IA + STISR KY+ + G+FELKYFF+ + T+ G + SS I Sbjct: 331 FLAPLGMKTIAADTGLDISTISRAANSKYVQTRFGVFELKYFFTGAIQTDDGEDVSSKVI 390 Query: 421 RALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQLV 477 + + +I AE P+KPLSD +LT++LSEQG +ARRTVAKYRE + IP + RK++ Sbjct: 391 KQHLADMIEAEEPSKPLSDDRLTAMLSEQGFQIARRTVAKYREQMQIPVARLRKKIF 447 >UniRef50_C9LEP5 RNA polymerase sigma-54 factor n=1 Tax=Prevotella tannerae ATCC 51259 RepID=C9LEP5_9BACT Length = 491 Score = 395 bits (1015), Expect = e-108, Method: Composition-based stats. Identities = 138/471 (29%), Positives = 238/471 (50%), Gaps = 24/471 (5%) Query: 24 RLLQLSTLELQQELQQALESNPLLEQI--DTHEEIDTRETQDSETLDTADALEQKEMPEE 81 RLL+L ++L+Q ++ LE N LE++ D +EE ET +++ ++ A ++ +E Sbjct: 26 RLLELPVMDLEQRVRNELEDNAALEEVGPDKNEEDMAAETTEADDNESETAEDEPHADDE 85 Query: 82 LPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIA 141 + D I + + +L D L Q+ + R I Sbjct: 86 TADYLTEDDIPDYLLRQRNEAEEREVQLAATNNA-----YDELYRQIGEHDLDEQQRRIM 140 Query: 142 TSIVDAVDETGYLTVPLEDILESIGDEE---IDIDEVEAVLKRIQRFDPVGVAAKDLRDC 198 ++ ++D GYL L I + + + + +E+E +L +QRF+P G+ A+DL++C Sbjct: 141 EYLIGSLDNDGYLRKDLRTIGDELAIYQNLDVSEEELERLLHLLQRFEPRGIGARDLQEC 200 Query: 199 LLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDP 258 L +QL + + + A I+ H + T+ + ++ L++A LI+ L+P Sbjct: 201 LRVQLESPEFKSSFKALAIAIVDRCFKDFTYHHWNTIKVRLKTDDESLQQAAQLIRRLNP 260 Query: 259 RPGQSIQT---GEPEYVIPDVLVR-KHNGHWTVELNSDSIPRLQINQHYASMCNNARNDG 314 +PG ++ G IPD V + +G +V LN+ +P L++++ + Sbjct: 261 KPGSALNETTIGTAPTAIPDFYVHVEDDGSISVRLNNGDVPELRVSKAFKDTVREFGGHK 320 Query: 315 DSQ--------FIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEY--MKP 364 D + R + DA+ ++ + R TL+ V R IVE+Q+ FF ++ + P Sbjct: 321 DLNKSQRDAYVYARKKVGDAQLFLELINRRRKTLMGVMRGIVERQRDFFLNDDDEMLLVP 380 Query: 365 MVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALV 424 M L D+A+ + ST+SRVT KY+ + RG++ LK+FFSS + G E SS +A + Sbjct: 381 MTLRDVAEKAGVDISTVSRVTGSKYVQTQRGLYPLKFFFSSQFTSGEGEELSSRQAKAAL 440 Query: 425 KKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 ++ IAAE+ PL+D LT ++ E+G ++RRTVAKYRE L IP S RKQ Sbjct: 441 REAIAAEDKRHPLADEALTIVMKEKGFPISRRTVAKYREQLGIPKSGLRKQ 491 >UniRef50_D1CE57 RNA polymerase, sigma 54 subunit, RpoN n=2 Tax=Bacteria RepID=D1CE57_THET1 Length = 478 Score = 393 bits (1011), Expect = e-108, Method: Composition-based stats. Identities = 136/496 (27%), Positives = 245/496 (49%), Gaps = 43/496 (8%) Query: 1 MKQGLQLRLSQQLAM--TPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTH----- 53 M+ + +Q++ + +P L +A +L LS EL+Q + L NP LE +D Sbjct: 3 MQMSQEQNQAQEMTIKASPSLIEANYILSLSLPELRQTILNELSQNPALELVDHETCPFC 62 Query: 54 EEIDTRETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQ 113 E+ ++ + + + + E+L D+ + Y+A + S S D DD P+ Sbjct: 63 GEVMVGGKCENCSREDSKTDHTDTVNEDL--DSLYYESYSATSRSLVS-DDEDDFDPMSI 119 Query: 114 GETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDID 173 + Q + L + + + D IA +++++DE GYL PL+ I +G D+ Sbjct: 120 VASEQDFHESLRSDLH-SILPEEDYEIADYLIESLDENGYLRQPLDAIARELG---RDVQ 175 Query: 174 EVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWL-EEARLIISDHLDLLANHDF 232 VE VL+R+Q P GV A++L++CLL+QL ++ + E R I+ ++++ L +H + Sbjct: 176 RVEWVLQRLQEIAPAGVGARNLQECLLLQLRYLEQEGEIIPEYVRAILENYIEELGSHKY 235 Query: 233 RTLMRVTRLKEDVLKEAVNLIQ-------SLDPRPGQSI-QTGEPEYVIPDVLVRKHNGH 284 + R + + + EA I+ SLDP G++ Y+ PDV++ + G Sbjct: 236 GYIARKLKTSPEKVAEARQFIKQKLSPYPSLDPAVGRTWKSPSRSTYISPDVIIFEREGK 295 Query: 285 WTVELNSDSIPRLQINQHYASMCNNAR------NDGDSQFIRSNLQDAKWLIKSLESRND 338 VE+ L+++ Y + + ++ + I+ + K I ++ R Sbjct: 296 LEVEVVEGRQFELRLSPAYQQIAKDLEAHPNSYSENERTHIKEYISRTKMFISNVNQRRK 355 Query: 339 TLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSP-RGIF 397 T+ +++ +VE Q+ F G ++KP+ A +A + +HEST+SR T KY+ P R + Sbjct: 356 TIYKIASALVELQEDFIRYGVRHLKPLTRAMLADYIGVHESTVSRATAGKYVMLPNRKVI 415 Query: 398 ELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRT 457 FF++ ++ I+ ++K++I +E+ A L+D ++ L E+GI VARRT Sbjct: 416 PFSDFFTASLS-----------IKDVIKEIIMSEDKA--LTDRQICDKLRERGIRVARRT 462 Query: 458 VAKYRESLSIPPSNQR 473 VAKYR L I PS R Sbjct: 463 VAKYRAELGILPSTLR 478 >UniRef50_C2ECN0 RNA polymerase factor sigma-54 n=1 Tax=Lactobacillus ruminis ATCC 25644 RepID=C2ECN0_9LACO Length = 449 Score = 393 bits (1010), Expect = e-108, Method: Composition-based stats. Identities = 134/466 (28%), Positives = 227/466 (48%), Gaps = 49/466 (10%) Query: 13 LAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSETLDTADA 72 LAMT Q+QQ+IR+L+ + +L L NP + +H + +E A Sbjct: 29 LAMTQQMQQSIRILKYGSEDLHNFLSNVELENPFMIVNVSHSYVTGGLDHQNEHDIAEFA 88 Query: 73 LEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTP 132 +E+K Q+L DYLM QV+LT Sbjct: 89 VEKK----------------------------------------AQSLYDYLMDQVKLTM 108 Query: 133 FSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAA 192 R + + +D+ GYL LE + + G ID + L +Q+ DP G A Sbjct: 109 RKTPIRDMVVYFISQLDQNGYLKADLEKLSKEKG---IDKVLMLDALTLLQQLDPPGTGA 165 Query: 193 KDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNL 252 ++L++CL++Q+ Q+D + P A I+ + + N + + + + +++ ++ Sbjct: 166 RNLQECLILQV-QYDSSAPL--NAEKILKEDFEDFTNRKWSKIAKKHCISIGDVQKILDY 222 Query: 253 IQSLDPRPGQSIQTGEPEYVIPDVLVRKH-NGHWTVELNSDSIPRLQINQHYASMCNNAR 311 +Q+L P PG E Y+ PD+++ K +G V+L +S P ++ + Y N+ Sbjct: 223 VQTLSPAPGAIYDQSEVGYIEPDLVIEKKLDGSLEVKLTKESNPEIRFKKEYYESLKNSS 282 Query: 312 NDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIA 371 + +++ + + + + + R +TLLR+ R IVE+Q FF + +KP +L D A Sbjct: 283 DKHVLDYLKEKRNEFEKIQEDVLMRGNTLLRLGRLIVERQHDFFTESNRPLKPFLLRDAA 342 Query: 372 QAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVN--TEGGGEASSTAIRALVKKLIA 429 Q +++HESTISR + KYL + ELK FFS V+ E G S+ I+ ++ ++ Sbjct: 343 QKLQLHESTISRAVSGKYLLYEGKVMELKEFFSRAVSYAGENGENVSADEIQQKIRLIVE 402 Query: 430 AENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 E+ PLSD K+ + E+G+ V+RRT+AKYRE L IP S+ RK+ Sbjct: 403 KEDKKNPLSDQKIVDKMKEEGLKVSRRTLAKYRERLGIPASSFRKR 448 >UniRef50_B0NX39 Putative uncharacterized protein n=1 Tax=Clostridium sp. SS2/1 RepID=B0NX39_9CLOT Length = 431 Score = 390 bits (1002), Expect = e-107, Method: Composition-based stats. Identities = 126/474 (26%), Positives = 233/474 (49%), Gaps = 46/474 (9%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M ++L + Q++++L EL++ LQ NPL+E ++ +E Sbjct: 1 MSYEMKLEQGLSQQLNQFQVQSLKILSFDNYELEKFLQDEYAENPLMEHKESGKEF---- 56 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 T G +G Y D E + + + Sbjct: 57 ----------------------------------FTLHGNAGGYQDIEQSDIEDKKIEDP 82 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 + + M Q+ ++ + + + ++E+G L V ++I +G EE D E +L Sbjct: 83 EAFFMEQLNAKDYTKKEWNVMKYMAQCLEESGLLLVSTKEISHKLGIEEKD---CERLLD 139 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 +++ +P GV A+ + +CLL+QL + ++ R I+ +HL+ +A T+ R Sbjct: 140 HLKQLEPAGVFAESVSECLLLQLEREGILN---DDLRYIVENHLEDIAMGHLSTVSRALD 196 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQIN 300 +K +++ + IQ L+PRP G +Y++PD+L+ K + LN D I IN Sbjct: 197 IKTSQVRKYIFKIQELNPRPLSGYTGGTDQYIVPDILMEKDGEELKIRLNDDWIGDYSIN 256 Query: 301 QHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 +Y M A + ++ R + +++I S+E R +T+L++S+ I+++Q+ +F + + Sbjct: 257 DYYVKMMEQAEDSELKEYFRKKYERCRFIITSIEQRRETMLKISKAILDRQREYFMK-HK 315 Query: 361 YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAI 420 +KPM + +IA +EMH ST+SR KY+ P G ++ F++ T G ++++ I Sbjct: 316 QLKPMTMQNIADDIEMHVSTVSRAVKGKYIQYPGGTIGMRDIFNN-TQTFGDQDSTTEEI 374 Query: 421 RALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRK 474 + +++L+ E+ KPLSDSK+ SLL + + ++RRTVAKYR L I + QRK Sbjct: 375 KEEIRRLVKEEDKKKPLSDSKIVSLLEQNNMKISRRTVAKYRAQLGIAGTTQRK 428 >UniRef50_B2V793 RNA polymerase, sigma 54 subunit, RpoN n=5 Tax=Aquificales RepID=B2V793_SULSY Length = 439 Score = 389 bits (1001), Expect = e-107, Method: Composition-based stats. Identities = 144/479 (30%), Positives = 246/479 (51%), Gaps = 46/479 (9%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 MKQ L L+L +L +T L+ + ++ + EL QE+ LE NP LE EEI Sbjct: 1 MKQNLGLKLQHKLNLTLSLKHQLNIMVMPKQELLQEIIHELEENPFLE-----EEIHINN 55 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 + D + + + E ++ P+ + +L Sbjct: 56 DYQEKLTDLSVSYSEDE----------------------------EELNPLNRLTYKPSL 87 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 L Q++L F ++ IA I+D +DE GY E + E +DI+ VE + K Sbjct: 88 LKTLEIQIDL-EFDGKEKEIALDIIDNLDEKGY--ASQESLNEIASKYNVDIEAVEKIRK 144 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 ++ + +P G+ AK L + L+ + + A II + L+ + + ++ L++ + Sbjct: 145 KLMKLEPTGLGAKSLTEFLITEYREKFGRDSI---AEQIIQEDLNKIKDKEY--LLKKYQ 199 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGH---WTVELNSDSIPRL 297 + E+ L+E ++ I++L P P + E YV PD+ + + N + + +N +P+L Sbjct: 200 IDEEALEEIISNIKALRPYPLYGYEDFEAHYVEPDIFIYETNDKDQPFEIVINEQDLPKL 259 Query: 298 QINQHYASMCNNAR-NDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFE 356 + Y + N N+ +F+ LQ A LI+ +E R + L + +V QQ+ F Sbjct: 260 NLTNQYKKILNRKDINEETKKFLYEKLQKAIGLIRGIEQRRENLKNLVESLVNQQKDFLL 319 Query: 357 QGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEAS 416 G+E++KP+ L D++Q + +HESTISR+ + K+ +P G+ LK FFS+ V+ E G S Sbjct: 320 YGKEHLKPLTLKDVSQKIGLHESTISRIVSNKFAQTPIGVLPLKAFFSNKVSKESGN-IS 378 Query: 417 STAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 S ++ L++ LI E+P KPLSD+ + +LL ++GI +ARRTV KYRE L+IP S +RK+ Sbjct: 379 SDRVKYLIQNLIENEDPKKPLSDNDIVNLLKKEGIHIARRTVTKYREELNIPDSRKRKK 437 >UniRef50_Q01194 RNA polymerase sigma-54 factor n=7 Tax=Rhodobacter RepID=RP54_RHOSH Length = 434 Score = 388 bits (996), Expect = e-106, Method: Composition-based stats. Identities = 135/476 (28%), Positives = 224/476 (47%), Gaps = 48/476 (10%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M R + QLAMT ++Q+++R+LQ+S +L L NP LE Sbjct: 1 MDMMQFQRQTTQLAMTQRMQESLRILQMSNADLADYLTAQALENPCLEVRVPEGASVAPA 60 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 PS +D + +L Sbjct: 61 L-----------------------------------PSRGIQAGLDRDAFATVEGQPPSL 85 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 ++ Q++L F DR A + +A++ +G+L P+ E E++ +E +L+ Sbjct: 86 LAHVEAQIDLAFFDPGDRRTALAFAEALEPSGWLGQPV---SEVAAAAEVEEEEALVILE 142 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 R+Q +P G+ A+ L +CL +QL T L + DHL LLA L R Sbjct: 143 RLQALEPAGLFARSLAECLALQLEDLGLLTWELRT----MLDHLPLLAEGRIADLARRCD 198 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQIN 300 + + ++E + LI+SL P+PG++ PDV V + W VEL +PR++++ Sbjct: 199 CEPEHIRENLALIRSLSPKPGEAFAADRTPIQPPDVRVLRGPEGWEVELTRAQLPRIRVS 258 Query: 301 QHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 + + + ++ A+WL +++E R TLLR + C+V Q F +QG Sbjct: 259 E-----AGDTGDRQADAWLARARSQARWLERAVERRQATLLRTAVCLVRHQADFLDQGPR 313 Query: 361 YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGE-ASSTA 419 ++P+ + ++A +++H STISR T + + +PRG+ L+ FFS V+++G S A Sbjct: 314 ALRPLSMEEVALELDLHPSTISRATATRLIETPRGLIPLRAFFSRSVSSDGPEAPQSQDA 373 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 + ALV+++IA E+ KP SD + G ++ARRTV KYRE+L IP S RK+ Sbjct: 374 LMALVREIIAREDRTKPFSDDAIVKQAKLAGAVLARRTVTKYRETLGIPSSYDRKR 429 >UniRef50_B5J6Z7 RNA polymerase sigma-54 factor n=3 Tax=Bacteria RepID=B5J6Z7_9RHOB Length = 448 Score = 384 bits (986), Expect = e-105, Method: Composition-based stats. Identities = 148/473 (31%), Positives = 239/473 (50%), Gaps = 46/473 (9%) Query: 7 LRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSET 66 + +Q L TPQLQQAI+LL L+ +EL + E NP LE ID E + Sbjct: 10 ISQNQSLVFTPQLQQAIKLLLLNNIELSSYAESIAEENPFLE-IDLPEVRMPASQGANVA 68 Query: 67 LDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMW 126 ++ +P++ ++ L Sbjct: 69 QKNSEFDPISLLPDK----------------------------------AGESFGARLFA 94 Query: 127 QVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQRFD 186 QV+ T +RAI ++ +D TG+LT PL + +++ EE V AVL ++QR + Sbjct: 95 QVDDTLKDQAERAIGYALASHLDPTGWLTTPLSLLAQNLNVEE---KYVAAVLSKLQRAE 151 Query: 187 PVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVL 246 P G+ A+DL +CL +Q+ TT + II +L LL + R D L Sbjct: 152 PTGLFARDLSECLSLQI----PTTDLDHTSMGIIIANLALLERGLLNEMRRKVGCSADEL 207 Query: 247 KEAVNLIQSLDPRPGQSIQTGEPEYVI-PDVLVRKH-NGHWTVELNSDSIPRLQINQHYA 304 + + ++ L+P+PG ++ G+ + PD+L K NG W V+LN ++P +++++ Sbjct: 208 RYFLRRLRGLNPKPGLALSEGDQAPIRAPDLLTAKGPNGEWFVKLNGSTLPIIKVDEAAG 267 Query: 305 SMCNN-ARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMK 363 + + D ++R NL +A+WL +++ RN+T ++V+ IV Q F E G ++M+ Sbjct: 268 QRVRKFLKLEIDQIYVRENLGNARWLKRAIAQRNETSIKVAAEIVRIQLPFLEHGIKHMR 327 Query: 364 PMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVN-TEGGGEASSTAIRA 422 P+ L IA+AV +HESTISRVT+ + +P+G LK FFS+ + AS+ +R Sbjct: 328 PLKLKTIAEAVGLHESTISRVTSALMIQTPQGTLPLKTFFSNAIELNGSDEGASARMVRE 387 Query: 423 LVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 V+ LI E P KPLSD + L+ +G+ +ARRT+AKYR+ IP S QR++ Sbjct: 388 KVRTLIGQEVPIKPLSDEFIMQKLNSEGLSIARRTIAKYRKLDKIPSSCQRRR 440 >UniRef50_C9RQK6 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Fibrobacter succinogenes subsp. succinogenes S85 RepID=C9RQK6_FIBSS Length = 543 Score = 381 bits (980), Expect = e-104, Method: Composition-based stats. Identities = 147/546 (26%), Positives = 254/546 (46%), Gaps = 74/546 (13%) Query: 1 MKQGLQLR--LSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQ--------- 49 M G+Q +Q+ ++P L Q++++LQ ++ EL+ +++ +E NPLLE Sbjct: 1 MNLGMQANIGQTQEQTLSPALLQSVKMLQKTSQELETAIKEEVEVNPLLEVDDGDFDDQD 60 Query: 50 --IDTHEEIDTRETQDSETLDTADALEQKEMPEELPLDAS----------WDTIYTAGTP 97 +D E + D + + + + + +D+S WD+ GT Sbjct: 61 VSVDKDPEELDPRADSDDLPDDIEDMARGSLDDTADVDSSYLDGESSDVNWDSYLGDGTS 120 Query: 98 SG--------TSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTD------------ 137 + G D++ + ++LQ+ L Q+ L + Sbjct: 121 YDDAPFNDLNSGGKDPDEDWDRPIKDVGKSLQEQLEDQLRLWNGTRELQEQLQENGVTEE 180 Query: 138 --RAIATSIVDAVDETGYLT---VPLEDILESIGDEEIDIDEVEAVL------------- 179 R + +++++++ G+L E + ++ IDE+E VL Sbjct: 181 HFRKLVQYLINSINDDGFLCDVNRDNESEAMIVQSDDKYIDEIERVLRGELKLEDASLPV 240 Query: 180 ----KRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTL 235 +Q F P G+ A+D R+C LIQ A I+ + + L + + Sbjct: 241 REAVHVLQSFKPSGIGARDQRECFLIQAYAIPNFPSL---AIRILEEEYENLLQLRYAKI 297 Query: 236 MRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIP 295 + + D +K AV + L P PG + + D+ V + G++ V + Sbjct: 298 AKALNVSADEVKTAVASLSRLRPHPGFQLSHSYSHIINADLKVVEKKGNYEVVCFKTKMQ 357 Query: 296 R-LQINQHYASMCNN-ARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQA 353 + L+INQ Y ++ + + + D +++++ L A LIK++++R T+ V R IV++Q+ Sbjct: 358 KSLRINQTYKAILTDPSASKQDKEYVKAQLAKATDLIKAVDNRFSTIELVMRAIVKRQRG 417 Query: 354 FFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHV---NTE 410 FFE G ++KPM+L D+A V + ST+ R T QKY+ +P G++ELK FF+S V + Sbjct: 418 FFENGPAFLKPMILQDVADDVHLAVSTVQRATDQKYVETPYGMYELKQFFTSGVKQGSAP 477 Query: 411 GGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRE-SLSIPP 469 E S I +K LI E+ + PLSD ++ L +QGI VARRTVAKYRE L I P Sbjct: 478 DAEEVGSAQIIDAIKTLIDEEDKSSPLSDQDISDELLKQGIKVARRTVAKYREKELKILP 537 Query: 470 SNQRKQ 475 NQRK+ Sbjct: 538 KNQRKR 543 >UniRef50_C6JNV9 RNA polymerase sigma-54 factor n=2 Tax=Fusobacterium RepID=C6JNV9_FUSVA Length = 427 Score = 381 bits (979), Expect = e-104, Method: Composition-based stats. Identities = 124/476 (26%), Positives = 239/476 (50%), Gaps = 66/476 (13%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 + L+L+ +L++T +++ ++ +LQ+S+ L+ +++ NP+LE Sbjct: 16 LDFTLKLKQEMKLSLTQEMKISMNILQMSSSNLKDFIEKEALKNPMLEV----------- 64 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 T TPS + P +TL Sbjct: 65 --------------------------------TYSTPSSKYNSDEETTSPFDFIIEEKTL 92 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 D+L Q+ S ++I +++ +D+ GYL++ +I +++ +I +++ + Sbjct: 93 IDFLEEQLGYLKISPKIKSICEYVINNLDDRGYLSISKLEIKKAL---KISTAQLKEAMD 149 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 I +P G+ A++L++ L IQL D E+ +I D+L+ L + + + Sbjct: 150 IIYTLEPAGIGAENLKESLKIQLITKDIID---EKLFTLIDDYLEELGDRKYSLISEKLH 206 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTG-EPEYVIPDVLVRKHNGHWTVELNSDSIPRLQI 299 + + +++ +++I+SL+P P + G YV+P+ + + TV LN ++IP+++I Sbjct: 207 VSVEQIEDYLDIIKSLEPIPARGYFVGNRTNYVVPEAKIEIVDDELTVTLNEEAIPKIKI 266 Query: 300 NQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE 359 N Y S + + ++N+ A LIKS+E R TL RV ++ +Q+ FF +G+ Sbjct: 267 NSSYKSTNSLSD--------KNNMYTAINLIKSIEKRYITLERVLNQLIVKQKNFFFRGK 318 Query: 360 EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTA 419 ++++ + L DIA+ + +HESTISR K++ +P+GI +K F +N+E Sbjct: 319 DFLQTLTLKDIAKELNLHESTISRAIRDKFIETPQGIIAIKSLFI--LNSECLE------ 370 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 I+ +++LI +EN + PLSD K++ +G +ARRT+AKYRE L IP + +RK+ Sbjct: 371 IKKTIEELIKSENKSSPLSDEKISLYFKNKGCSIARRTIAKYREELGIPSTRERKR 426 >UniRef50_C1QAL1 RNA polymerase, sigma 54 subunit, RpoN/SigL n=1 Tax=Brachyspira murdochii DSM 12563 RepID=C1QAL1_9SPIR Length = 436 Score = 380 bits (977), Expect = e-104, Method: Composition-based stats. Identities = 128/477 (26%), Positives = 239/477 (50%), Gaps = 55/477 (11%) Query: 2 KQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRET 61 ++ + L + Q + + + S +EL++++++A+E NP LE + + Sbjct: 10 NTSIRTAIKNDLRLNYQTRLWLDTISSSAVELKEKIEKAMEDNPFLEYDIKDKYTSKSSS 69 Query: 62 QDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQ 121 D +++ A KE +L Sbjct: 70 SDIDSIIENTAANGKE-----------------------------------------SLF 88 Query: 122 DYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKR 181 +L Q+E++ S + +A I ++ GYL + ++ + + E+E ++ Sbjct: 89 SHLKSQIEISFKSKKEMELAEQICSFINHDGYLKITSGEMSNILN---ASVSEIEKIVSV 145 Query: 182 IQRFDPVGVAAKDLRDCLLIQLSQFDKTTP-----WLEEARLIISDHLDLLANHDFRTLM 236 I+ FDP GVAAKD+ +CL IQL K + A I+ ++LD L+ D+ + Sbjct: 146 IKTFDPYGVAAKDINECLSIQLKMKKKEDLKENGFLYDTAIDIVENYLDKLSKKDYDYIA 205 Query: 237 RVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPR 296 +++D + +A+ LIQ+L+P P + T +Y++P++ + K NG W V+ + IP Sbjct: 206 SSIGVEKDTVIKALKLIQTLEPYPAREYDTSAVKYIVPELFILKENGIWIVKTDETFIPP 265 Query: 297 LQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFE 356 L+I++ Y + + ++ F++ ++A+ LI + R +LL++ +++ Q FFE Sbjct: 266 LKISKKYIKLLDREKSKDSINFLKEKKKEAESLINAANERKKSLLKIGEALLKFQLDFFE 325 Query: 357 QGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEAS 416 G+E++KP+ L D++ V + EST+SR+ KYL++ G F +KYFFS +N G Sbjct: 326 YGKEFIKPLTLKDMSLEVNLSESTVSRIANGKYLNTVWGTFSIKYFFSRAIN----GGLG 381 Query: 417 STAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQR 473 S ++ ++K++I EN LSD K+ +L +GI ++RRT+AKYR+S++I S R Sbjct: 382 SRGVKEIIKRII--ENSQAKLSDEKIRLILKSEGIDISRRTIAKYRKSMNIFSSRNR 436 >UniRef50_Q5FPW5 RNA polymerase sigma-54 factor RpoN n=1 Tax=Gluconobacter oxydans RepID=Q5FPW5_GLUOX Length = 438 Score = 380 bits (977), Expect = e-104, Method: Composition-based stats. Identities = 152/474 (32%), Positives = 244/474 (51%), Gaps = 43/474 (9%) Query: 3 QGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQ 62 GL R SQ L MTPQL+QAI LLQ + +L Q L+Q E+NPLL Sbjct: 4 PGLIQRQSQSLVMTPQLRQAIALLQYTQTDLAQHLRQVCETNPLLILEPG---------- 53 Query: 63 DSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQD 122 +PE +P + + + + +D Sbjct: 54 -------------DTVPEAVPASEDFHDDDPDRFTTASDRPE--------AAAPPPSDRD 92 Query: 123 YLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRI 182 L+ Q+ ++ A ++D++DETG L V + D+ +G +D ++EA+ + + Sbjct: 93 ELILQIR-HSIPPEEQHAAFHLLDSLDETGRLPVSVTDLAAELG---MDAPKLEAIRQTL 148 Query: 183 QRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLK 242 +P G+ A+ L +CL QL ++ P ++ + D+LDLLA D+R L L Sbjct: 149 MHLEPAGLFARSLEECLAAQLRVRNRLDPAMQT----LLDNLDLLARRDWRRLREKCALD 204 Query: 243 EDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQH 302 +D L + + IQ+LDPRPG S+ P D++VR + + + LN+ +P ++++ Sbjct: 205 QDDLLDMLAEIQALDPRPGLSLPPPAPPIEP-DLIVRPNGTGFRLTLNTRLLPAVRLDDT 263 Query: 303 YASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYM 362 + + + + + + +A LI++L SR +LL V R IV+ Q AF G + Sbjct: 264 LRAQID--GHTEAGRMLLAYAGEATALIRALHSRKQSLLNVGRAIVQHQAAFLRDGPTAL 321 Query: 363 KPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRA 422 +P+ + +IA+ E+HESTISR+ + KY+ +PRG LK FFS+ + +E G S+ AI+ Sbjct: 322 RPLTMREIAERTELHESTISRIVSSKYIDTPRGTVPLKLFFSTALASEDGTTQSAHAIQH 381 Query: 423 LVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 ++ L+AAE + LSD LT LL ++G + RRTVAKYRE L I S+QRK+L Sbjct: 382 RLQALVAAEGDS-VLSDDALTGLLQKEGFSIQRRTVAKYREGLGIAKSSQRKRL 434 >UniRef50_C3WCT3 RNA polymerase sigma-54 factor rpoN n=1 Tax=Fusobacterium mortiferum ATCC 9817 RepID=C3WCT3_FUSMR Length = 413 Score = 378 bits (970), Expect = e-103, Method: Composition-based stats. Identities = 128/476 (26%), Positives = 233/476 (48%), Gaps = 64/476 (13%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M L+L+ +L +T +++ ++ +LQ+S+ +L++ L++ +NP +E + Sbjct: 1 MDFSLKLKQETKLILTQEMKTSMNILQMSSSQLKEYLEKEAVTNPAIEITYNNY------ 54 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 Y + PS + D+ P+ +TL Sbjct: 55 ------------------------------TYKSYNPSSS----EDNFSPLDLVSEEETL 80 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 DYL Q+ S + I IV+ +D GYL P +I + + I+ +++ + Sbjct: 81 FDYLEEQLGYLKISSKIKNICLFIVNNLDARGYLATPKLEIKKLLN---INNQQLKEAFE 137 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 I DP+GV A++L+DCL IQL + E +I ++L+ +A+ +F + Sbjct: 138 IIYTLDPIGVGAENLKDCLKIQLRSKNIID---ETLFSLIDNYLEEIASQNFSLIEEELN 194 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQ-TGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQI 299 + ++ + + ++LI++L P P + + Y++P+ + + T ++N + IP++ I Sbjct: 195 ITKEDILDYLDLIRTLSPIPARGYVVSTSNNYIVPEAKIEIKDNKLTFKINEELIPKINI 254 Query: 300 NQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE 359 N Y+ + +N + +A ++K LE R TL + ++ +Q+ FF +GE Sbjct: 255 NSSYSDNPSANKNS---------IANAINIMKCLEKRYQTLNGILELLIIKQKDFFFKGE 305 Query: 360 EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTA 419 ++ ++L DIA + +HESTISR KYL +P+GI +K F ++S+ Sbjct: 306 NFLHSLILKDIANELNLHESTISRAIKDKYLDTPQGIISMKSLFVI--------DSSTII 357 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 I+ L+++ I EN P SD KL+ LL E+G VARRTVAKYRE L + +RK+ Sbjct: 358 IKKLIEEFITEENKKNPFSDEKLSLLLKEKGYSVARRTVAKYREELGFGSTRERKK 413 >UniRef50_B4S818 RNA polymerase, sigma 54 subunit, RpoN n=10 Tax=Chlorobiaceae RepID=B4S818_PROA2 Length = 489 Score = 377 bits (968), Expect = e-103, Method: Composition-based stats. Identities = 142/490 (28%), Positives = 245/490 (50%), Gaps = 17/490 (3%) Query: 3 QGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQ 62 +L+ SQ+ ++ Q + +LLQL L L+Q + L+ NPLLE I+ E + Sbjct: 2 PDFKLQQSQRAQLSAQQILSSQLLQLPLLNLEQRIYDELQENPLLELIEEKNESVDETGE 61 Query: 63 DSETLDTA-------DALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGE 115 S D++++ E +E + + + + D E Q Sbjct: 62 QSGDDGDDGDGEGMFDSVDRFEARDEKRPEKNEQPKESQEGVLHFTVDTTPKE-NFIQAI 120 Query: 116 TTQTLQDYLMWQVEL-TPFSDTDRAIATSIVDAVDETGYLTVPLEDILESI---GDEEID 171 + ++ ++ + L T+ IA+ I+ +D+ GYL L+ + + + +++ Sbjct: 121 QQDSFEERMLRDLSLREEIGSTELLIASEILGNLDDDGYLQDGLDIVADGLLTNHGVDVE 180 Query: 172 IDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEA---RLIISDHLDLLA 228 +++ VL IQR DP G+A LR+ LL+QL + A + ++ + D Sbjct: 181 PRDIQRVLHIIQRMDPPGIAVASLRERLLVQLELNQAASGSGGTAIIAKKLLDSYFDDFL 240 Query: 229 NHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVE 288 N+ + +++ +++ + L+ A+ I +LDP P Q +Y++PD +V NG T Sbjct: 241 NNRYEKIIKRMQIRPEQLEAAIKEIAALDPHPFVVYQ-DTGDYIMPDFIVTYENGRLTAA 299 Query: 289 LNSDSIPRLQINQHYASMCNNAR-NDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCI 347 LN S +Q++ Y + N + GD QF+R L AK ++E R TLL V + Sbjct: 300 LNDRSNLSVQVSDAYRDVLKNRKIPRGDKQFVRQKLNRAKEFASAIEQRRHTLLSVIDAL 359 Query: 348 VEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHV 407 ++ Q FF G + P+ + D+A+ STISR KY+ + G FELKYFFS Sbjct: 360 MQFQYEFFVSGPSMLVPLGMKDVAEKSGFDLSTISRAVNGKYVQTRFGTFELKYFFSGGT 419 Query: 408 NTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSI 467 T+ G E S+ ++ ++++++AE+ KPLSD +L +L E+GI +ARRTVAKYRE + I Sbjct: 420 TTDEGEELSTKIVKQYLQEMVSAEDSKKPLSDDRLAQMLEEKGIRIARRTVAKYREQMQI 479 Query: 468 PPSNQRKQLV 477 P + RK++ Sbjct: 480 PVARLRKKIF 489 >UniRef50_C8PMB8 RNA polymerase sigma-54 factor n=1 Tax=Treponema vincentii ATCC 35580 RepID=C8PMB8_9SPIO Length = 499 Score = 377 bits (968), Expect = e-103, Method: Composition-based stats. Identities = 133/511 (26%), Positives = 235/511 (45%), Gaps = 54/511 (10%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M Q L RL Q+ M+ Q++ +L + TLEL++ + + L NP LE I + + E Sbjct: 4 MGQTLGQRLEQR--MSQSQIQSLDVLAMPTLELRERIAEELVENPALELIRSSGKPAVPE 61 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 + + + + + T S + D L Q+L Sbjct: 62 AERTPQKERNVPYYRDDR--------------TPSAVSLEASDAFQTFLENIPAPQRQSL 107 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILE-SIGDEEIDID------ 173 Q +L+ Q+ + + A I+ + G+ VPL ++ + + + D D Sbjct: 108 QSHLLEQLFVHKLDPLTTSFAERIIGNLTTDGFYVVPLNELFKTELSAKSADKDSALTRH 167 Query: 174 EVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKT----TPWLEEARLIISDHLDLLAN 229 ++ L ++R DP+G A +D + LL+Q P I+++H L Sbjct: 168 KISHALSIVRRLDPIGCATQDFKQSLLVQAKILFHDKIAIDPVYAYTIDILTNHFAYLEK 227 Query: 230 HDFRTLMRV--------TRLKEDVLKEAVNLIQSLDPRPGQSIQTGEP--EYVIPDVLVR 279 +L+R +L ++ ++ ++LI SL+P PG+++ EY+IP + Sbjct: 228 ARPYSLVRAVNGNADIPYKLTQENAEDILSLIASLNPFPGRALAADVTPDEYIIPTAFIE 287 Query: 280 KHNGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDT 339 ++ +TV +N+ IP L ++ + S+ ++ ++ +I+ +Q AK I SL R T Sbjct: 288 RNGQEFTVRINNLEIPLLTVSPEFQSLISHTKDAAAKTYIKEQMQKAKAFIGSLNQREKT 347 Query: 340 LLRVSRCIVEQQQAFFEQGEE-YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFE 398 ++ V IV Q+AFF G++ + P+ IA+ +++HEST+SR KY+ G FE Sbjct: 348 IVAVLGKIVAVQEAFFLTGDKRRLVPLTQQQIAKELDIHESTVSRTVAGKYVQCQWGTFE 407 Query: 399 LKYFFSSHVNTEGGGEASS--------------TAIRALVKKLI-AAENPAKPLSDSKLT 443 ++YFF++ V + +SS ++ +K+L+ LSD K++ Sbjct: 408 IQYFFTNSVAVQPPPGSSSQPNASAPAATPATREGVKDCIKELLTEHAAKDAKLSDQKIS 467 Query: 444 SLLSEQ-GIMVARRTVAKYRESLSIPPSNQR 473 LL + GI VARRTVAKYR+ L I S R Sbjct: 468 DLLQARFGISVARRTVAKYRKELDIGSSYSR 498 >UniRef50_Q3MKN6 RpoN (Fragment) n=2 Tax=Gammaproteobacteria RepID=Q3MKN6_THIRO Length = 368 Score = 376 bits (965), Expect = e-102, Method: Composition-based stats. Identities = 164/368 (44%), Positives = 227/368 (61%), Gaps = 17/368 (4%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTH------- 53 MKQ +QLRL Q L MTPQLQQAIRLLQLSTLELQ+E+Q+AL++N +LE+ D Sbjct: 1 MKQSIQLRLGQHLTMTPQLQQAIRLLQLSTLELQKEIQEALDTNLMLEEGDEADRFNVGE 60 Query: 54 ---------EEIDTRETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSG-D 103 E+I+T +T+D E EMP+ELP+D W ++ + PS + G D Sbjct: 61 QPQTGTIQSEDIETPRLAVEQTVDREIHAESNEMPDELPVDTLWTDVFDSYLPSTSHGSD 120 Query: 104 YIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILE 163 D P Q QTL D+L WQ+ L S+ D IA +++D++D GYL + ++++L Sbjct: 121 DGSDYDPFAQQSRPQTLLDHLAWQLNLCRLSERDNMIAQAVIDSIDADGYLRIDIDELLL 180 Query: 164 SIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDH 223 ++ EI +EVEAV+ RIQ FDP GV A++L +CLLIQLSQ TPW A I D Sbjct: 181 TVDHPEISAEEVEAVVHRIQSFDPPGVGARNLPECLLIQLSQLPAQTPWRNAAMAICRDG 240 Query: 224 LDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNG 283 + LA D +L+R + E+ + A+ LI+ L+PRPG I +YV+PD+ VRK G Sbjct: 241 FEYLAKRDVASLVRQLKESEEAVAGALALIRRLNPRPGSLIAGAPAQYVVPDIFVRKREG 300 Query: 284 HWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRV 343 W+VELN +S+P+L++N YA + A D ++S+LQ+A+W IKSL SRNDT+LRV Sbjct: 301 RWSVELNPESMPKLRVNAEYARLIRRADQSADGVTLKSHLQEARWFIKSLASRNDTVLRV 360 Query: 344 SRCIVEQQ 351 IVE Q Sbjct: 361 GAKIVEMQ 368 >UniRef50_D2RMY8 RNA polymerase, sigma 54 subunit, RpoN n=2 Tax=Acidaminococcus RepID=D2RMY8_ACIFE Length = 445 Score = 374 bits (960), Expect = e-102, Method: Composition-based stats. Identities = 133/473 (28%), Positives = 208/473 (43%), Gaps = 34/473 (7%) Query: 4 GLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQD 63 L L Q+ + L Q ++LLQL LEL+Q +++A+E+NPLLE E +ET Sbjct: 5 KLILAPQQKQQLNLHLVQQMKLLQLGALELEQYVREAVEANPLLEFPGEAEGPAWQETAQ 64 Query: 64 SETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDY 123 ++ E + +A G +TLQ Sbjct: 65 EVYRRKRTRDQEDEPLPDPVANA---------------------------GRQEKTLQQV 97 Query: 124 LMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQ 183 + Q+ S DR++A + +D G+ T +E+ + G + D V VL++IQ Sbjct: 98 VEEQLGCLRLSGVDRSLACYMAGTLDSRGWWTESVEETARAFG---VTEDRVLQVLQQIQ 154 Query: 184 RFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKE 243 + +P G+ A+DL CLL+QL K + R II + LDLLA + L R + Sbjct: 155 QLEPAGIGARDLSQCLLLQLENQGKEA---DLTRRIIREGLDLLARNQIPALARKFGCTQ 211 Query: 244 DVLKEAVNLIQSLDPRPGQSIQT-GEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQH 302 + A I LDP+PG G Y D V V + + +NQ Sbjct: 212 KEILAAKARICVLDPKPGARFAGAGPVVYQREDARVEDTGEGLKVTVYDTWGRKFVLNQE 271 Query: 303 YASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYM 362 Y N +++ L A+ L + L+ R TLL V + +V Q+ FF G + Sbjct: 272 YLDWAGEQGNGQVKAYLKEQLGKARQLQQLLKERQQTLLVVFQALVSHQEPFFRLGPGHR 331 Query: 363 KPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRA 422 +P+ LAD+A+ + ST+SR K + G F F ++ G + ++ Sbjct: 332 QPLKLADLAEETGLAVSTVSRALQHKVIGCRWGSFTAGSFLQGQASSHEQGAVTEERLQQ 391 Query: 423 LVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 L+++LI E+ PLSD + L +QG+ VARRTV KYR + I + RK+ Sbjct: 392 LIRELIEGEDKHHPLSDQAICRALEQQGVQVARRTVNKYRVKMGIGDKSARKE 444 >UniRef50_A9B5F2 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Herpetosiphon aurantiacus ATCC 23779 RepID=A9B5F2_HERA2 Length = 461 Score = 369 bits (947), Expect = e-100, Method: Composition-based stats. Identities = 137/483 (28%), Positives = 232/483 (48%), Gaps = 38/483 (7%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M + + +P L +L LST ELQQ +QQ LE NP LE +D ++ E Sbjct: 7 MSPEALAQQAMSTKASPALIALNNMLVLSTHELQQLIQQELEENPALENVD----LEPDE 62 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 T + L + E+ L + YTA D+ P+ T L Sbjct: 63 TCSRCGRPLIEMLCLYCVHEDQRLAEAERGDYTA-------AGEDDEFDPLMMVATPAQL 115 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 + L+ + + + D IA +V +D+ G+L DI ++ ID + V AVL Sbjct: 116 SEVLLRDLRAS-LPEQDYFIAEYLVGCLDDQGFLDANTGDIAATLT---IDEERVIAVLL 171 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 ++Q PVGV A+D+++CLL+QL + D+ +I++ + LA H + + + Sbjct: 172 KLQDIAPVGVGARDVQECLLLQLRRLDEEDVRHPYVERVITEFWNDLAEHRYGAIAQALN 231 Query: 241 LKEDVLKEAVNLIQ-SLDPRPG--QSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRL 297 + D + E I+ L P P + Y++PDV++R++ G E+ L Sbjct: 232 AEYDAVVEVREFIREHLRPYPLALSGEGSARTNYIMPDVIIRENEGKLEAEVLMSDRSFL 291 Query: 298 QINQHYASMCNNAR------NDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQ 351 +IN Y S+ R + D + + A+ + ++ R +T+ R+S ++E Q Sbjct: 292 RINPLYQSLVKRGREAEAEMSSEDRDHLSQYVARAQMFLTNIRQRRETIRRISEFLIETQ 351 Query: 352 QAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSP-RGIFELKYFFSSHVNTE 410 + F QG +++PM A++A + +HEST+SR T KY+ P R + +FF++ +N Sbjct: 352 EDFLRQGVRFLRPMTRAEVADGIGVHESTVSRATANKYVQLPNRSVIPFSHFFTASLN-- 409 Query: 411 GGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPS 470 ++ ++ +L+ E +PL+D +L LL+E+G VARRT+AKYR L+I PS Sbjct: 410 ---------VKDVLLELVQNE--VRPLTDQELVELLAERGFEVARRTIAKYRNQLNILPS 458 Query: 471 NQR 473 R Sbjct: 459 TLR 461 >UniRef50_B3W836 Sigma 54 transcription factor n=2 Tax=Lactobacillus casei RepID=B3W836_LACCB Length = 441 Score = 368 bits (945), Expect = e-100, Method: Composition-based stats. Identities = 127/479 (26%), Positives = 221/479 (46%), Gaps = 55/479 (11%) Query: 1 MKQGLQLRLSQ--QLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDT 58 M Q ++L Q +L +T ++Q+I++LQL ++L L+ ESNP +E Sbjct: 11 MDQSIRLNQRQINKLVLTQGMRQSIQMLQLDAVDLDAYLKDVAESNPFIEV--------- 61 Query: 59 RETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQ 118 E E+ A+++ + G +T+ Sbjct: 62 --------------RSHFERAEDSLSGATFEE--------------------MSAGSSTE 87 Query: 119 TLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAV 178 L D+L+ QV+L+ + R I +++ ++ GYL + I++ IG I +++ Sbjct: 88 NLFDHLLMQVQLSLAGNPLRQIVVYLINQLNNNGYLILEDRQIVDEIG---ISPEKLTEA 144 Query: 179 LKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRV 238 ++ +Q DP GV A++L++CL +Q + T + I+ +LL +HD + Sbjct: 145 MRLLQGLDPPGVGARNLQECLSLQAHR---DTGIPKGVIAILDQDFELLVSHDMTRICEK 201 Query: 239 TRLKEDVLKEAVNLIQSLDPRPGQSIQTGEP-EYVIPDVLV-RKHNGHWTVELNSDSIPR 296 L L A++ I+SL PG+ + +P Y+IPD + ++G + L P Sbjct: 202 NNLSTTELHNALDFIKSLSAAPGKVFEQPQPISYIIPDARLSVTNDGQLKLWLTKWGRPE 261 Query: 297 LQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFE 356 L + + + Q+++ ++ L L+ R +TLL IV Q AF Sbjct: 262 LVFAEKTYQDLKKSADSATQQYLKEKHEEYLSLQHGLQRREETLLATVNQIVVNQHAFLL 321 Query: 357 QGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGE-A 415 + + P++L D+A+A++++EST+SR K+L + GIF K FFS Sbjct: 322 H-QAALAPLLLRDVAKALQVNESTVSRTIKGKHLQTDLGIFAFKDFFSKRTQAVSSSAYH 380 Query: 416 SSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRK 474 S ++ + +LI +EN P SD+ L L E+G VARRTV KYR L +P ++ RK Sbjct: 381 SVDQLKFTMMQLIQSENKMCPASDNLLVKWLYEKGFKVARRTVTKYRNELGLPAASARK 439 >UniRef50_Q8ENP0 RNA polymerase sigma-54 factor n=1 Tax=Oceanobacillus iheyensis RepID=Q8ENP0_OCEIH Length = 430 Score = 365 bits (938), Expect = 2e-99, Method: Composition-based stats. Identities = 136/478 (28%), Positives = 242/478 (50%), Gaps = 59/478 (12%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 MKQ L + S Q M L Q+I +LQL+ +EL ++Q E NPL+E++ Sbjct: 1 MKQKLVINQSLQWKMNQSLYQSIEILQLTGMELYDYMKQVAEENPLIEEV---------- 50 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 P+D + + DY DE+ Q+L Sbjct: 51 ---------------------QPIDKELISQFRTT-------DYSIDEM----NTAEQSL 78 Query: 121 QDYLMWQVELTPFSDTDRAIATSI---VDAVDETGYLTVPLEDILESIGDEEIDIDEVEA 177 D L L D+++ I +D+++E GYL + +ED E+++ VE Sbjct: 79 YDQLKS--NLYVLELEDKSLLPVIVFGIDSLNEDGYLEITMEDWAYYC---EVELTTVER 133 Query: 178 VLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMR 237 L IQ +P G+ A++L +C+ +QL+Q + P++ ++++ + LLA + + Sbjct: 134 ALSYIQSLEPAGIGARNLTECIQLQLNQMNIDAPYISS---LMNEGITLLAEENSHQIAL 190 Query: 238 VTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRL 297 + E+ ++ + I+ P+PG+ + + E++IP+ + K + W + + S P + Sbjct: 191 NYGITEEAAQKLIESIKLCHPKPGKLLSPTKTEFIIPEASIYKDDTEWKISFFNWSSPAI 250 Query: 298 QINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQ 357 QIN Y+ + + + F++ ++ L ++++ R+ TL ++ R IVE+Q FFE+ Sbjct: 251 QINSDYS---KHDLDREAASFVKKKQKEVDMLQQAIDYRSSTLEKIIRIIVEKQLPFFER 307 Query: 358 GEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASS 417 G + +KP+ L++++ +++H STISR QKY+ + G+ LKYF V G +S Sbjct: 308 GPKMLKPLTLSELSAQLDLHISTISRAIRQKYVQTAHGVLPLKYFLQREVQKGAG--VAS 365 Query: 418 TAIRALVKKLIAAENPAKPLSDSKLTSLLSEQ-GIMVARRTVAKYRESLSIPPSNQRK 474 I+ L+K+L+ E+ +KPLSD K+ L+ E+ I +ARRT+ KYRE L I S +RK Sbjct: 366 IVIKQLLKELVDLEDKSKPLSDQKIKQLMEERYQIKIARRTIVKYREELQIASSVKRK 423 >UniRef50_C8WRI0 RNA polymerase, sigma 54 subunit, RpoN n=2 Tax=Alicyclobacillus acidocaldarius RepID=C8WRI0_ALIAD Length = 421 Score = 364 bits (935), Expect = 4e-99, Method: Composition-based stats. Identities = 134/474 (28%), Positives = 225/474 (47%), Gaps = 55/474 (11%) Query: 2 KQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRET 61 GL+L + Q+L +T +++ ++R+L LS+ +L Sbjct: 3 SLGLELSMRQELRLTAEMRLSLRVLALSSADLA--------------------------- 35 Query: 62 QDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQ 121 +EL A + + P +D P+ + + + L+ Sbjct: 36 ------------------DELERFAEEEPWFRYERPRPAIVSRAEDVDPLARVASREPLE 77 Query: 122 DYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKR 181 + L ++ L +A + D +DE GYL P++ I E +G E L Sbjct: 78 ERLKHELRLMDLPAPVLRVALYLADDLDERGYLAEPIDVIAERLG---ASPAEAREALAA 134 Query: 182 IQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRL 241 +Q DP G+ A+DL CLL+QL ++ P II HL +A + + Sbjct: 135 LQSCDPPGIGAEDLTSCLLLQLR--NEREPLKSLMASIIRFHLSDVAEGRLDDIASSLSV 192 Query: 242 KEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQ 301 ++EAV I+ L P P + ++PDVLVRK G WTVE+ + PRL++ Sbjct: 193 SLAQVEEAVRRIRRLTPAPAIAASNDPVAPLMPDVLVRKVAGEWTVEVTEWAAPRLELRA 252 Query: 302 HYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEY 361 Y + + + +F+ + L+ A WL +++E R TL V+ +V Q+ + E+G Sbjct: 253 EYRRLMQSGE-EEARRFVSARLKRAAWLTRAIERRRMTLQSVAEALVRWQEGYLERGAVA 311 Query: 362 MKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIR 421 ++P+ LADIA+ + +HEST+SR K L SP+G+ ++ FS V S A + Sbjct: 312 IRPLRLADIAEEIGVHESTVSRAVKDKILGSPQGLIPMERLFSVEVAP----GWSQEAAK 367 Query: 422 ALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 A + +++ AE+ A PLSD + +LL+ +G ++RR +AKYRE+L IP S QR++ Sbjct: 368 ARLAEIVRAEDKASPLSDQAIANLLASEGCRLSRRAIAKYREALRIPNSFQRRR 421 >UniRef50_Q1IR37 Sigma-54, RpoN n=1 Tax=Candidatus Koribacter versatilis Ellin345 RepID=Q1IR37_ACIBL Length = 577 Score = 360 bits (925), Expect = 6e-98, Method: Composition-based stats. Identities = 112/312 (35%), Positives = 183/312 (58%), Gaps = 10/312 (3%) Query: 173 DEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFD---------KTTPWLEEARLIISDH 223 D + + IQ DPVGVA +DLR+CLLIQL F+ +++ ++SDH Sbjct: 263 DALREAIHIIQNLDPVGVATQDLRECLLIQLRYFEGLPHKNGNGHIAQAIDDGIRMVSDH 322 Query: 224 LDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNG 283 + L N ++ + + + + A++ I++LDP+PG E + PDV K Sbjct: 323 MHELQNKQYKEISKALGRPIESITAALDFIRTLDPKPGLRYNKQETRLIEPDVAFVKQGD 382 Query: 284 HWTVELNSDSIPRLQINQHYASMCNNARNDGD-SQFIRSNLQDAKWLIKSLESRNDTLLR 342 + V +N + IP+L++N Y + N + D +++ + A LIK++E R T+L+ Sbjct: 383 EYIVVMNDEEIPQLRVNPGYKRLLNRDAAEKDVRNYVKERYKSAIQLIKNIEQRKQTILK 442 Query: 343 VSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYF 402 V I+ +Q+ F + G + +KPM++ ++A+ + +H ST+SR KY+H+ +G++EL+YF Sbjct: 443 VCYSIINRQRDFLDHGIDQLKPMMIKEVAEEIGVHPSTVSRAVANKYVHTSQGVYELRYF 502 Query: 403 FSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYR 462 FS VN GG S ++ VKKLI E+PA+PL+D ++T +L QGI V RRTVAKYR Sbjct: 503 FSESVNGPEGGATSLLILKRRVKKLIEEEDPARPLTDEQITRILQSQGIQVTRRTVAKYR 562 Query: 463 ESLSIPPSNQRK 474 E + IP ++QR+ Sbjct: 563 EDMRIPSTHQRR 574 Score = 122 bits (307), Expect = 3e-26, Method: Composition-based stats. Identities = 44/172 (25%), Positives = 82/172 (47%), Gaps = 10/172 (5%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTH----EEI 56 ++ L L++SQ+ +TP L Q + +L L+ +EL++ + + + NP+LE++D + ++I Sbjct: 4 LQPRLNLKVSQKQILTPGLVQMVSVLALNKMELKEMINEEMIENPVLEELDENVPLIDDI 63 Query: 57 DTRETQDSETLDTADALEQKEMPE------ELPLDASWDTIYTAGTPSGTSGDYIDDELP 110 +E Q A A E PE E+ + + G S + + ++ Sbjct: 64 SAKEEQRDRDSSLATAEEAPATPEAKDPFEEIDFGSFFQEYLDPGYRSSSEIEDVERPSF 123 Query: 111 VYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDIL 162 TL D+LMWQ+ D A A I+ +++ GYLT +++L Sbjct: 124 ENFLSKPTTLTDHLMWQLGSMHLKDDVLAAAELIIGNLNDEGYLTASEDELL 175 >UniRef50_B6BVF1 RNA polymerase sigma-54 factor n=1 Tax=beta proteobacterium KB13 RepID=B6BVF1_9PROT Length = 422 Score = 354 bits (908), Expect = 6e-96, Method: Composition-based stats. Identities = 128/478 (26%), Positives = 229/478 (47%), Gaps = 61/478 (12%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M L L L ++P ++Q++ LL+ + +E++ + L NP L+ D+ Sbjct: 1 MALSAHLALKNSLKLSPNIEQSVNLLKSNEIEIELLINDFLSKNPYLQLDDS-------- 52 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 + + + E + S D IY +L Sbjct: 53 -------EKINLNYSANVIENNEENISEDNIYGL------------------------SL 81 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIG-DEEIDIDEVEAVL 179 +DYL+ + D +A I+D +D+ GYL + + + D + +++ ++ Sbjct: 82 KDYLLNNLFDLGLDYEDELLARLIIDYIDDNGYLKEGYDFFITELALDSDTANKKIKNLI 141 Query: 180 KRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVT 239 ++ G+ A++L++CL QL QF + L+ + II +HL LAN +F+ + Sbjct: 142 LKLNTISSPGIGARNLQECLDFQLDQFIQNQIVLDS-KKIIENHLVDLANKNFKKIATNL 200 Query: 240 RLKEDVLKEAVNLIQSLDPRPGQSI-QTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQ 298 L+ D + + I +L+P+PG + + +++ PD++V+ + + V L ++ L+ Sbjct: 201 NLQTDHIIKCNEFIVTLNPKPGLAYLSSDTSQFITPDIIVKNNGDKFNVSL-KNNYDSLK 259 Query: 299 INQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQG 358 + ++ + ND + AKW IK+L R ++RV I + F Sbjct: 260 L----FNLKKDEIND------KDAYNQAKWFIKNLNYRKINIIRVVNAIFSHHKEFL--N 307 Query: 359 EEYMK-PMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASS 417 E +K P+ + IA +E+HEST+SR+ K++ +P GIFELKYFF + VN S+ Sbjct: 308 ENILKSPLNIKTIANQLEIHESTVSRIVNNKFIETPHGIFELKYFFINEVNN-----TSN 362 Query: 418 TAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 I +K +I EN KPLSDS++ L ++ I ++RRTVAKYRE L I +++RK+ Sbjct: 363 KTILDKIKAIIRDENKVKPLSDSEILLTLGQENITISRRTVAKYREQLGILSASKRKK 420 >UniRef50_C0CQW9 Putative uncharacterized protein n=1 Tax=Blautia hydrogenotrophica DSM 10507 RepID=C0CQW9_9FIRM Length = 454 Score = 352 bits (904), Expect = 1e-95, Method: Composition-based stats. Identities = 119/479 (24%), Positives = 226/479 (47%), Gaps = 33/479 (6%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M L Q+ ++ ++ +L + EL L + NP+LE Sbjct: 1 MNFHTFLSTEQRQTLSANQLHSLEILACTNQELDSFLTKEYLENPMLE------------ 48 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 ++ E K + + + + +S + ++P + L Sbjct: 49 --------SSVNKENKLLADVESIYEKNKSYRDYYLEEDSSVEKRRSDIPAKPDLQFKNL 100 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDI--LESIGDEEIDIDEVEAV 178 L++Q+ +S+ A ++D +D GY T+ L ++ ++ +E++ Sbjct: 101 ---LLYQLHQNDYSNRQWACMEYLIDCLDSDGYFTMELSELSHASAVSGLHFKTEELQTA 157 Query: 179 LKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRV 238 L ++ +P G+ ++ L +CL+ QL + + + L+I +HL+ L T+ R Sbjct: 158 LSCLKTLEPAGIFSQSLSECLIAQLKKKEIKD---DTLFLLIEEHLEELMKGHLSTISRK 214 Query: 239 TRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQ 298 +L +K + I L+PRP S + E Y++PD++V K N W + +N + + Sbjct: 215 LKLPTVQIKSYLYEISLLNPRPVMSAEDDEINYILPDIIVTKSNQLWDISINDSWMGKYS 274 Query: 299 INQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQG 358 +N +Y M + Q+ + L+ A++++ S+E R TL+++ +++ Q A+ E G Sbjct: 275 LNNYYIEMMQKTEDACLHQYFKEKLERARFILNSIEQRKATLIQIVSFLLDYQNAYLEGG 334 Query: 359 EEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNT-EGGGEASS 417 +KP+ +A A+ + ST+SR KYL + I +K FS+ V++ + + SS Sbjct: 335 -GSLKPLKQEQLADALGISVSTVSRAVRGKYLQYKKTIL-IKSLFSAPVSSCKKENQISS 392 Query: 418 TAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 +A++ + +LI E + LSD KL LL++ GI ++RR VAKYR L IP S +R+QL Sbjct: 393 SAVKEKLFQLIQQE--EQVLSDQKLAELLADSGIQISRRAVAKYRTELGIPDSRERRQL 449 >UniRef50_C5EQJ4 RNA polymerase n=1 Tax=Clostridiales bacterium 1_7_47FAA RepID=C5EQJ4_9FIRM Length = 458 Score = 351 bits (901), Expect = 3e-95, Method: Composition-based stats. Identities = 116/484 (23%), Positives = 212/484 (43%), Gaps = 37/484 (7%) Query: 1 MKQGL--QLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDT 58 M+ GL L Q+ ++ Q++ +L L ++ + L++ NP +EQ E Sbjct: 1 MENGLVMSQELKQKQTLSAYQYQSLHILHLGNAQVGELLKKEYLENPFIEQ---REGFSG 57 Query: 59 RETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSG-DYIDDELPVYQGETT 117 E Q E A+ E + +P + D G GTSG D+ D Sbjct: 58 EEYQWLEYY-KANVKESRPIPGNGSGPEAGDADGDNGKEYGTSGCDWRMD---------- 106 Query: 118 QTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEA 177 + Q+ + R + ++ +D+ G+L + + +I + + Sbjct: 107 ------IKEQLYDGRTPENRRRLLEQMILLLDDHGFLAFSEREGSRLL---KIPVRQYRV 157 Query: 178 VLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMR 237 + K++ +P G+ + + L QL + P + R + +HL+ + F + Sbjct: 158 LRKQLMELEPEGIGCVSMGEYFLFQLMKKGIHVP--DAFRDLCMNHLEDITEMTFVQIAH 215 Query: 238 VTRLKEDVLKEAVNLIQSLDPRPGQSIQTG-EPEYVIPDVLVRKHNGHWTVELNSDSIPR 296 + +K V ++ +L P P + G E VIPD+L+ G V +N + + Sbjct: 216 MIHASFQEVKRWVRVLGTLKPYPIRDSGEGCAVETVIPDILIVPRGGGLEVRVNDYYMRQ 275 Query: 297 LQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFE 356 ++ Y + N+ +++ L A+ + ++ RN T+ R+ ++ Q +FF Sbjct: 276 YCVSDFYRRTMKDEDNEELQEYMDRKLLRARQIYLAVSRRNRTICRMGEYLLRVQGSFFR 335 Query: 357 QGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGG---- 412 G ++ M A +E+HEST+ R+ + KY+ P+GI LKYFFS V+ G Sbjct: 336 GG--FLTGMTYKMFADELEVHESTVCRIVSNKYVSCPQGILPLKYFFSKGVDVVDGQGRV 393 Query: 413 -GEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQ-GIMVARRTVAKYRESLSIPPS 470 G +++R L+ LI E +P SD KL +L ++ G+ ++RRTV+ YRE I Sbjct: 394 TGTMGKSSVRELIAFLIEKEPGDRPYSDGKLADMLKKEYGLRISRRTVSNYREEAGIRSV 453 Query: 471 NQRK 474 +RK Sbjct: 454 YERK 457 >UniRef50_A8LQ77 RNA polymerase sigma-54 factor n=1 Tax=Dinoroseobacter shibae DFL 12 RepID=A8LQ77_DINSH Length = 438 Score = 344 bits (883), Expect = 5e-93, Method: Composition-based stats. Identities = 121/476 (25%), Positives = 203/476 (42%), Gaps = 56/476 (11%) Query: 2 KQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRET 61 ++GL LR Q+L +TP+++ + +L++S L++ L + E NP+L + T Sbjct: 4 REGLTLRQQQRLTLTPEMRTTLSVLRMSAAALEELLVRQAEENPILSLRRPGPPPAAQAT 63 Query: 62 QDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQ 121 LDT +L Sbjct: 64 AYEVALDTT--------------------------------------------VAEVSLG 79 Query: 122 DYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKR 181 D+L Q+ L + A ++ ++ ETGYL +I + +E V L Sbjct: 80 DHLRAQLGLMSLAPPVHQAALALSWSLTETGYLDSTPAEIAQECALDEAT---VLLGLAA 136 Query: 182 IQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRL 241 +Q +PVGV A+ L +CL +QL A ++ LDLL D R T + Sbjct: 137 LQGCEPVGVGARSLAECLRLQLVDKGIAPAVAARA----TEVLDLLVGSDVARAARRTGI 192 Query: 242 KEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNG-HWTVELNSDSIPRLQIN 300 + L + L+ L P PGQ P+ PDV V +G + + L ++ Sbjct: 193 PAEDLGAVIRLLPELSPYPGQRFSPT-PQVSAPDVAVHFPDGAGPEIRVLRGRQSDLALD 251 Query: 301 QHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 + AR + + +A+ L ++L R + L R+ +V+ Q FF +G Sbjct: 252 P---ELMAAARREAADTALARYGAEAEALHRALGYRANALERIVAFLVDYQSGFFREGGA 308 Query: 361 YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAI 420 M+P+ +A + +H +T+ R K L G+ L FFS+ + E G S+ + Sbjct: 309 AMRPLTREVLAARLGLHAATVGRAVADKTLAHAGGVIPLSAFFSARLGPETGAATSAYGV 368 Query: 421 RALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 ++ + L+AAE+ L+D ++ L ++G+ +ARRTVAKYR L+IP S RK+L Sbjct: 369 QSRIAALVAAESEDAVLTDGEIAQRLKKEGVDIARRTVAKYRGCLNIPSSYDRKRL 424 >UniRef50_UPI000196CE77 hypothetical protein CATMIT_02522 n=1 Tax=Catenibacterium mitsuokai DSM 15897 RepID=UPI000196CE77 Length = 414 Score = 342 bits (879), Expect = 1e-92, Method: Composition-based stats. Identities = 120/475 (25%), Positives = 230/475 (48%), Gaps = 66/475 (13%) Query: 4 GLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQD 63 L+L+ Q+ + + + ++LQ+ +L +++ NPL++ D E Sbjct: 2 KLELKQGQKHQIYQKQIEKNQILQMDVQQLLAHIEKISFENPLIDTDDMIE--------- 52 Query: 64 SETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDY 123 TS + ++ +T TL++ Sbjct: 53 -----------------------------------STSDIGKEFDIDSLSRKTEPTLKEV 77 Query: 124 LMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQ 183 + WQ+ + + + S+V+ +D+ GYL + + DI + +E + E + L + Sbjct: 78 IHWQLINKDIDNKE--LVESLVELLDDNGYLRLSINDICTYLKCDEKEYLEAKDTLSK-- 133 Query: 184 RFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKE 243 DP G+ A L++CLL+QL + K T + ++++ + L+ L+ + + + + + Sbjct: 134 -LDPPGLGADTLKECLLLQLERL-KETKDIHLTKILVDECLEDLSKSHYHAVSKKLGISQ 191 Query: 244 DVLKEAVNLIQSLDPRPGQSIQTG-EPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQH 302 + ++E + +I +LDPRP + + E Y +PD++++ V+LN + IN + Sbjct: 192 NKVRELLQIILTLDPRPASNYSSSLEVNYPVPDIIIKDG----IVQLNPMIYKDININTN 247 Query: 303 YASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFE-QGEEY 361 Y S+ N ++I S L+ WL + L R + + ++ + + QQ FF QG + Sbjct: 248 YLSL---DENKETKKYIESKLRQVSWLQQCLSQRKNLIYDIAVFLFDYQQDFFMNQGSCH 304 Query: 362 MKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIR 421 P++ D+A + +HESTISR KY++ +G L S + +G + S +I+ Sbjct: 305 --PLLQKDLAMLLGVHESTISRAIKDKYIYCDKGFILL-----SDLIPKGTEDNSVDSIK 357 Query: 422 ALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 +K++I E+ KPLSD K+T+LL ++GI ++RRTVAKYR L+IP ++ RK + Sbjct: 358 EKIKEVIDNEDKKKPLSDQKITNLLKDKGIEISRRTVAKYRSELNIPDASGRKHV 412 >UniRef50_C8S196 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Rhodobacter sp. SW2 RepID=C8S196_9RHOB Length = 441 Score = 337 bits (866), Expect = 4e-91, Method: Composition-based stats. Identities = 138/475 (29%), Positives = 236/475 (49%), Gaps = 56/475 (11%) Query: 2 KQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRET 61 + + L +Q+L + L +I+LLQ L + LQ+ NP L Sbjct: 4 RPRIVLAQTQRLQLNLGLSASIQLLQADASGLTRYLQEQAADNPHL-------------- 49 Query: 62 QDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQ 121 +L++ + LP W T + P +L Sbjct: 50 ----------SLQRPAPGDWLPR---WTTAFAQTA------------QPPEAASAAPSLM 84 Query: 122 DYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKR 181 ++M ++E +R IA + +A++ +G++ LE I +S G + E EAVL + Sbjct: 85 AHVMDRIEALTRPGRERQIAHLLAEALEPSGWVGRSLEAIADSAG---ASLPEAEAVLAK 141 Query: 182 IQR-FDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 +Q+ +PVG+ A++L +CL +Q D P ++ + HLDLLA+ F L R+ Sbjct: 142 LQKGIEPVGLFARNLAECLRLQAQDADCLDPVMQA----VLGHLDLLADGQFSRLARLCG 197 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQIN 300 + E + + LI+ DP+PG G PD+L + W V LN ++P L+++ Sbjct: 198 VTEAEITARLRLIRGFDPKPGAQFDHGAAPLREPDLLATRGPTGWQVALNRSALPMLELH 257 Query: 301 QHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 + + ++ A+ L + L++RN TLLRV+ ++ +Q+A E+G Sbjct: 258 --------APDHRPVPEAAKAQWAAAQALNRMLQNRNATLLRVAAEVLRRQEAALERGLS 309 Query: 361 YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAI 420 + P+ +A +A+A+ +HESTISR+ + +P G + L+ FS+ + E G S+ A+ Sbjct: 310 ALVPLTMAQVAEALGLHESTISRIVAGTAVDTPLGCWWLRQMFSTRLGNETDG-VSAAAL 368 Query: 421 RALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 RA + +L+A E+P KPL D L L++ G++VARRTVAKYRE L IPP+++R++ Sbjct: 369 RAALARLVAGEDPGKPLGDQALVEALAQDGMVVARRTVAKYREMLHIPPAHRRRR 423 >UniRef50_Q3IW74 Sigma54-2 (RNA polymerase sigma-54 factor) n=5 Tax=Rhodobacter sphaeroides RepID=Q3IW74_RHOS4 Length = 432 Score = 332 bits (853), Expect = 1e-89, Method: Composition-based stats. Identities = 128/470 (27%), Positives = 222/470 (47%), Gaps = 51/470 (10%) Query: 2 KQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRET 61 +Q + + +Q+L + L +IR+L L + LQ+ NP ++ Sbjct: 4 RQRISIAQTQRLQLNLGLTASIRVLNSDAEGLTRYLQEQAAENPHIQL------------ 51 Query: 62 QDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQ 121 E + D L + W ++ + S +L Sbjct: 52 ---EPATSTDWLPR------------WTSVLSRLAQGEGSAGGE------TVAAAGPSLM 90 Query: 122 DYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKR 181 ++M +++ +R IA + +A++ TG+L ++I + EVEAVL Sbjct: 91 AHVMARIDTLYPRGPERRIAILLAEALEPTGWLGTGPDEIARQA---RVPSAEVEAVLAG 147 Query: 182 IQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRL 241 +Q+ +P G+ A+ L +CL +Q + ++ L + DHLDL+A L R+ Sbjct: 148 LQKIEPAGLFARTLAECLRLQAIEAERLDSTLSC----LLDHLDLVAEGALGRLARLCNT 203 Query: 242 KEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQ 301 E + + L+++ DP+PG G PD++ K W V LN ++P +QI Sbjct: 204 DEAGVTARLRLLRTFDPKPGAQFDPGAAPVREPDLIATKGEAGWEVSLNRSAMPTVQI-- 261 Query: 302 HYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEY 361 + R+ A+ + + +E+RN TLLRV+R I+ +Q+A ++G Sbjct: 262 ------RKPDKRPTTPAARAAWTQAQAVGRMIENRNATLLRVAREILARQEAALDEGPSA 315 Query: 362 MKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIR 421 + + + ++A+A+ +HEST+SRV + +PRG + L+ FS + G S+ AIR Sbjct: 316 LVALTMTEVAEALGIHESTVSRVVAGTCVDTPRGTWWLRRMFSGRLAE---GGPSAAAIR 372 Query: 422 ALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSN 471 A + +L+A E+PA PLSD L L+ + + +ARRTVAKYRE L+IPP + Sbjct: 373 AAIARLVAQEDPAAPLSDGALVEALAAEDMQLARRTVAKYREMLNIPPGH 422 >UniRef50_B9KSN5 RNA polymerase, sigma 54 subunit, RpoN n=3 Tax=Rhodobacter sphaeroides RepID=B9KSN5_RHOSK Length = 424 Score = 332 bits (852), Expect = 2e-89, Method: Composition-based stats. Identities = 126/472 (26%), Positives = 216/472 (45%), Gaps = 72/472 (15%) Query: 4 GLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQD 63 +QLRL Q+LA L Q +L+ + + + + + NP L E+ Sbjct: 3 SMQLRLGQRLAQRAVLVQRAEILEATGADWAERIAAEAQRNPFLRVRQPATAAPIPES-- 60 Query: 64 SETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDY 123 L + Sbjct: 61 --------------------------------------------------AALPPDLHAW 70 Query: 124 LMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQ 183 L Q+ + DRA+A +++A++ +G+L PL + ++ VL R+Q Sbjct: 71 LGSQIRMAMADPEDRALAFRLLEALEPSGWLGQPLSRLAPG------TEEQAARVLHRLQ 124 Query: 184 RFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKE 243 + +P G+ A+DLR+CL++Q + P A + D LD LA+ + R L+E Sbjct: 125 QMEPAGIFARDLRECLMLQARDRGQLDP----AMAAVLDRLDCLASDGPAAVARAAGLEE 180 Query: 244 DVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHY 303 + + LI+ +DP+PG + G+ PD++ R+ W+VELN +P +++ Sbjct: 181 QTVLRCLELIRRMDPKPGAAFAPGDAPLREPDLIARRTASGWSVELNRSMLPEVRVTPL- 239 Query: 304 ASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMK 363 DG +R Q+A L K+ R TLL V +VE+Q+AF ++G + Sbjct: 240 --------PDGSPADVRQMHQEALSLAKATGLRGRTLLAVGALVVERQRAFLDEGPAALV 291 Query: 364 PMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRAL 423 + + + A A+ +H STISR T + +PRG+ ++ FS+ + EG G S+ A++AL Sbjct: 292 ALGIGEAADALALHPSTISRTVTGLLMATPRGLVAVRDLFSARL-AEGTGALSAPALQAL 350 Query: 424 VKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 +++ IAAE+ PL D ++ +L+ +GI VARRTVAK+R +PP+ R++ Sbjct: 351 IRETIAAESAQAPLEDGEIVEVLARRGIHVARRTVAKHRTLAGLPPAAVRRR 402 >UniRef50_B9Y8Z2 Putative uncharacterized protein n=1 Tax=Holdemania filiformis DSM 12042 RepID=B9Y8Z2_9FIRM Length = 426 Score = 331 bits (848), Expect = 5e-89, Method: Composition-based stats. Identities = 128/477 (26%), Positives = 207/477 (43%), Gaps = 69/477 (14%) Query: 1 MKQGLQL--RLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDT 58 MK L L + Q + P + +++ +L +S+ L L + + SNPLLE D Sbjct: 1 MKSTLALTPSIQPQHRLKPAMLESLNILHMSSDALAAYLNEQMLSNPLLEWSDQR----- 55 Query: 59 RETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQ 118 D +Y E Sbjct: 56 --------------------------TVRSDDLY---------------EQAGQFVAAEV 74 Query: 119 TLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAV 178 +L+ L Q + D+ IA +++ +D+ GYL L+ + G I+ + + Sbjct: 75 SLKQQLRQQAAVL-LDPADQVIAETLIGLLDDDGYLREELDAL---CGLMHINKARLNRI 130 Query: 179 LKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRV 238 L ++ P G+ A DLR+CLL+QL + P E AR + ++HL+ LA +L R Sbjct: 131 LSLLKTLKPAGIFAHDLRECLLLQLME---QHPENELARRL-TEHLEALARGGTTSLCRT 186 Query: 239 TRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQ 298 D L EA+ L++ DP+PG+S Q ++ +V V +G + + L + S L Sbjct: 187 LHCTADQLNEAIALLRRCDPKPGRS-QGAAAAPLVCEVQVEIEDGQFKITL-AHSFSELI 244 Query: 299 INQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQG 358 N + +++ +AK L+ +++ RN TL ++R I Q AFF +G Sbjct: 245 FNPM------PINDPTVQDYLKQKTAEAKNLLLAIQKRNQTLASITRAICLNQSAFFLRG 298 Query: 359 EEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASST 418 + + P+ IA + +H STISR K L ++ FFS+ V + S Sbjct: 299 -QPLIPLTRHQIADQLGLHPSTISRSLAGKGLEFNGQLYPFSVFFSAQVRN----DLSQD 353 Query: 419 AIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 + +K+LI E+ PLSD +L+ L G ++RRTV KYRE L IP S R+Q Sbjct: 354 QVLRQLKRLIHEEDAEAPLSDQQLSDRLKALGCPISRRTVVKYREKLRIPDSRVRRQ 410 >UniRef50_Q256I9 DNA-directed RNA polymerase sigma 54 n=5 Tax=Chlamydophila RepID=Q256I9_CHLFF Length = 422 Score = 330 bits (847), Expect = 6e-89, Method: Composition-based stats. Identities = 122/474 (25%), Positives = 209/474 (44%), Gaps = 64/474 (13%) Query: 7 LRLSQQLAM----TPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQ 62 + Q+L++ + ++QQ +++LQ EL + Q + NP + Sbjct: 2 FQQHQKLSLNYLPSLRMQQGLQMLQSPITELSSYVLQQIIHNPFFDLS------------ 49 Query: 63 DSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQD 122 +LE++E PL +S D Y+ ++L Sbjct: 50 ---------SLEEEEWSACSPL-SSVDASYS----------------------RPESLFS 77 Query: 123 YLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRI 182 +L+ QV+ T D IA I+ + + G L P ED+ + E+ +D + V + I Sbjct: 78 HLLTQVQQTFDHAEDLLIAQHIIGNLSDQGLLLSPPEDLSLQL---EVPLDSIHVVWQTI 134 Query: 183 QRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLK 242 Q F P+G+A+ L+D L+ L + A II +H LL N +F + + R Sbjct: 135 QHFHPLGIASPSLQDYWLLHLEGSSH-----QLAYKIIKEHYALLINCNFLRIAKKCRCT 189 Query: 243 EDVLKEAVN-LIQSLDPRPGQSIQT-GEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQIN 300 LK+A+ + ++ P + + + +PDV V K W ++++S +P +++N Sbjct: 190 PADLKQALKNALATIPWCPAEGYASLSSTQPALPDVYVTKKQQGWEIQISSRGLPPIKLN 249 Query: 301 QHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 + + + + AKWLIK+L R TL + I+ Q+ F Sbjct: 250 SEVFHIYEQLPREEKKN-LTQQILSAKWLIKNLRKREQTLFSIIEKILPHQEGFLLGKTS 308 Query: 361 YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAI 420 KP+ + +++ + HESTI R K L +P GI +K F + + S I Sbjct: 309 SPKPLSVKQLSEDLSYHESTIFRAIENKKLAAPIGIIPMKLLFPRAASDDS---HSKETI 365 Query: 421 RALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRK 474 + + I +E PLSDS ++ +S+ GI ARRTVAKYR L I P+++RK Sbjct: 366 LQWIHQWITSE--TTPLSDSDISERISKHGIQCARRTVAKYRAQLKILPAHKRK 417 >UniRef50_Q73JL4 RNA polymerase sigma-54 factor, putative n=1 Tax=Treponema denticola RepID=Q73JL4_TREDE Length = 463 Score = 327 bits (839), Expect = 5e-88, Method: Composition-based stats. Identities = 120/506 (23%), Positives = 223/506 (44%), Gaps = 79/506 (15%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 +KQ Q LSQ++ M Q+ A+ +L LS+ ELQ+E+ + ++ NP L Sbjct: 3 LKQRQQQILSQKMVMNQQMLNAVAMLNLSSEELQEEVIKEVKRNPAL------------- 49 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 + T S GD L + ++ +TL Sbjct: 50 --------------------------VFKTSSRVSAASAEEGDKHQSFLESIEDDSRKTL 83 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDI-LESIGDEEIDIDEVEAVL 179 Q +L+ Q + + A I+ +D+ G+ VPLE++ + +++I+ E++ L Sbjct: 84 QAHLIEQAGESITDEYVLDAAMLIIQNLDQNGFYWVPLEELFAGLLAEKKINHAEIKKAL 143 Query: 180 KRIQRFDPVGVAAKDLRDCLLIQL----------SQFDKTTPWLEEARLIISDHLD---- 225 ++RF+P+G A ++ L++Q D II +H + Sbjct: 144 NIVRRFEPIGCACSGFKESLIVQAGILCESPKTHEILDIYKTIYSLCVKIIKEHYEVLVF 203 Query: 226 --LLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQT--GEPEYVIPDVLVRKH 281 L + + + + +E LI +L+P+PG + + +++ P +++ Sbjct: 204 VSDLKLFIKKLAQKKIDIDLETAEELAGLIDALNPKPGLAYASKGDGEKFITPIAEIKRE 263 Query: 282 NGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLL 341 + +N + +P L+I+ Y N+ + + + L A + L RN T+L Sbjct: 264 GNEIKIIINDEEVPALEISPEYEK-IKNSGSKEEKKEASEFLNKAALFMNVLAYRNQTIL 322 Query: 342 RVSRCIVEQQQAFFEQGEE--------------YMKPMVLADIAQAVEMHESTISRVTTQ 387 +V +V Q+AFF Y+KP+ DIA+ V + ST+SRV+ Q Sbjct: 323 KVLTALVNFQEAFFLGRPCKPSSEGESDKMQAGYLKPLKQIDIAEIVGLSPSTVSRVSNQ 382 Query: 388 KYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLS 447 KY+ G+FE+K FS V+ G S + ++++I ++ K +D++++ +L Sbjct: 383 KYIRCEWGLFEIKDLFSPEVS----GGLSKDFVEKAIQEIIESDTEKK--TDTRISQILK 436 Query: 448 EQGIMVARRTVAKYRESLSIPPSNQR 473 E+GI +A RTV KYR+ + +P S R Sbjct: 437 ERGIDIAVRTVNKYRKEMGLPSSYHR 462 >UniRef50_C3XKI9 RNA polymerase sigma-54 factor n=2 Tax=Campylobacterales RepID=C3XKI9_9HELI Length = 442 Score = 321 bits (824), Expect = 3e-86, Method: Composition-based stats. Identities = 130/482 (26%), Positives = 210/482 (43%), Gaps = 53/482 (10%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 MK Q + + ++ L+ + +LQ +L++ L NP E + + + Sbjct: 1 MKLRAQTSTTLKAKLSSTLKSWLPILQSGMGDLEETLNGFGLENPYFEVKSGIVDTLSTQ 60 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 + ++ + G ++ + ++L Sbjct: 61 S------------------------IAYKKQHKEKMRGAKGGKSLEGDGIEQFCIQEESL 96 Query: 121 QDYLMWQVELTPFSDT-DRAIATSIVDAVDETGYLTVPLEDILESIGDE---EIDIDEVE 176 + L+ Q+E F + IA I++ +D GY I + + EI EVE Sbjct: 97 EVLLLRQIEPPLFPTRNSQEIAKKIIENLDNEGYFDGDCVVIAQECSKDLGVEIYASEVE 156 Query: 177 AVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLM 236 + R +P G+ A D+ + QL D + I+ + L Sbjct: 157 KIRLRFAYLEPPGIGALDVMESFRFQLDHLDVPSDVYGLCLEILEN------------LQ 204 Query: 237 RVTRLKEDVLK-EAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIP 295 TR K + L +A+ IQS P E VIPD+LV + + V++N P Sbjct: 205 EHTRFKNNPLYPQAMRAIQSFKNPPALDFFQKEVA-VIPDILVLEDKDNIQVQINDKYYP 263 Query: 296 RLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFF 355 + I +N FI++ +++A+ L+ +LE R TL ++ IVE Q FF Sbjct: 264 SILI----QKQEKTDKNSIQDAFIKAKIKEARDLVDALEMRKATLYKIGLMIVEYQYEFF 319 Query: 356 EQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEA 415 + GE +KPM L D+A+ STISR + KYL RGIF LK FF++ ++ E Sbjct: 320 KGGE--IKPMTLKDLAEEFGHAPSTISRAISNKYLECSRGIFPLKNFFATAID----EET 373 Query: 416 SSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQ-GIMVARRTVAKYRESLSIPPSNQRK 474 S+T I+ V LI EN KPLSDSK+ L +E+ + + RRT+AKYR L+I S++RK Sbjct: 374 SNTTIKDFVADLIRNENKQKPLSDSKILKLATERFKVTMVRRTIAKYRAQLNIASSSERK 433 Query: 475 QL 476 +L Sbjct: 434 KL 435 >UniRef50_D1B1S7 RNA polymerase sigma-54 factor, RpoN n=10 Tax=Campylobacterales RepID=D1B1S7_SULD5 Length = 423 Score = 321 bits (822), Expect = 5e-86, Method: Composition-based stats. Identities = 128/479 (26%), Positives = 211/479 (44%), Gaps = 64/479 (13%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 MK + + + + L+ + +LQ + L + L+ +E NP + + EI + Sbjct: 1 MKLRVSQTQTTKQKFSSTLRGWLPILQANLDTLVETLEPFVEENPFI-SVKAGSEIPEKP 59 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 + + + E L LD ++L Sbjct: 60 FEKKNIFRESAKTSVSDTIEALTLD-------------------------------KKSL 88 Query: 121 QDYLMWQVELTPF-SDTDRAIATSIVDAVDETGYLTVP-LEDILESIGDEEIDIDEVEAV 178 L QV F ++ + IA I++ ++ GY L +I ++ +E EVE + Sbjct: 89 FQTLYEQVNPPLFPTEKSQRIAYEIIENINAEGYFEADALVEIAHTLNVKET---EVEKI 145 Query: 179 LKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRV 238 +R +P+GV A+D+++ L QL E A +I + D++ + L Sbjct: 146 RQRFAYLEPLGVGAQDVKEAFLFQLQDLTLENTLYEMAEKLILN-FDVIESFGKEPLFH- 203 Query: 239 TRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQ 298 EA+N+I+ P E E V+PD+ + G V LN P + Sbjct: 204 ---------EALNIIKRFHNPPAIDFLEEEKE-VVPDIFIYTIEGAIEVRLNDTYYPEVI 253 Query: 299 INQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQG 358 I+ D + F+ L+DAK LI +LE R TL ++ I+E Q FF Sbjct: 254 IDTE--------GVDESNSFVSQKLKDAKDLIDALEMRKATLYKIGLMIIEYQYDFFFG- 304 Query: 359 EEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASST 418 + +KPM L D+A + + STISR KYL RG+ LK FF++ V + S++ Sbjct: 305 -KAIKPMKLKDLADDLGRNPSTISRAIAGKYLSCARGVIPLKQFFATAVE----EDISNS 359 Query: 419 AIRALVKKLIAAENPAKPLSDSKLTSLLSEQ-GIMVARRTVAKYRESLSIPPSNQRKQL 476 AI+ + +L+ EN KPLSD KL SL+ +Q + + RRT+ KYR+ +I S++RK+L Sbjct: 360 AIKEYMIELVKHENKQKPLSDIKLLSLIEKQFNVKMVRRTITKYRQQFNIASSSERKKL 418 >UniRef50_B9L984 RNA polymerase sigma-54 factor n=1 Tax=Nautilia profundicola AmH RepID=B9L984_NAUPA Length = 410 Score = 319 bits (819), Expect = 1e-85, Method: Composition-based stats. Identities = 119/475 (25%), Positives = 223/475 (46%), Gaps = 77/475 (16%) Query: 5 LQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDS 64 ++L+ ++ +L + +L+ EL +E+++ + NP +E ++ T + Sbjct: 1 MKLKTKITNKLSTKLLGFLPILKAGVDELFEEIKEISKENPYIEV--RNKRFVTVSNLKN 58 Query: 65 ETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYL 124 D +AL + +TL + L Sbjct: 59 ANADEIEAL----------------------------------------TLSEETLYESL 78 Query: 125 MWQVELTPF--SDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRI 182 + Q+E + + + IA I++ ++ G+ ++I + +G +D ++V+ V +R Sbjct: 79 LKQIEDSNLFPTKRSKDIALEIIEDINNEGFFEGDEKEIAKRLG---VDEEKVKRVRERF 135 Query: 183 QRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLK 242 +P GV AKDL++C++ QL D + A +I+ +L+ + + Sbjct: 136 MYLNPAGVGAKDLKECMIFQLQNIDMPEDVYKLASEMIT-YLENIDK----------FVN 184 Query: 243 EDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQH 302 E KEA+ +I+ L+ P E +IP+++V +G + +N + P + + Sbjct: 185 EPKYKEAMKIIKQLNVVPAMEYIKDEE--IIPEIIVLNIDGQLEIRINDEHYPEINV--- 239 Query: 303 YASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYM 362 + + F + ++A+ ++ +LE R TL +++ IVE Q FF+ G + Sbjct: 240 -------KDPENKNSFSKEKFKEARNIVDALEMRKATLKKIALMIVELQYEFFQGGV--I 290 Query: 363 KPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRA 422 KPM + D+A +E STISR + KYL RGI LK FFS ++ + SS I+ Sbjct: 291 KPMKIKDLADELEYAPSTISRAISNKYLLCDRGIIPLKNFFSIALD----EDTSSNQIKE 346 Query: 423 LVKKLIAAENPAKPLSDSKLTSLLSEQ-GIMVARRTVAKYRESLSIPPSNQRKQL 476 +K LI E+ KPLSD KLT +++++ + + RRT++KYR+ L IP S +RK++ Sbjct: 347 EIKNLIKNEDKNKPLSDDKLTEIINQKYNLNLVRRTISKYRDQLKIPTSRERKRI 401 >UniRef50_Q7WTR8 RpoN (Fragment) n=2 Tax=Pseudomonas RepID=Q7WTR8_PSEYM Length = 328 Score = 319 bits (819), Expect = 1e-85, Method: Composition-based stats. Identities = 151/326 (46%), Positives = 215/326 (65%), Gaps = 22/326 (6%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEE----- 55 MK L LR+ QQL MTPQLQQAIRLLQLSTL+LQQE+Q+ALESNP+LE+ + ++ Sbjct: 1 MKPSLVLRMGQQLTMTPQLQQAIRLLQLSTLDLQQEIQEALESNPMLERQEEGDDFDNSD 60 Query: 56 -----------IDTRETQDSETLDTADALEQKE----MPEELPLDASWDTIYTAGTPSGT 100 D +E E+ T D LE E +P ELP+D +W+ +Y S Sbjct: 61 PLADNIEQKPNPDVQEPTYQESAPTVDNLEDGEWSERIPNELPVDTAWEDVYQTSASSLP 120 Query: 101 SGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLED 160 S D + + + ++LQ +L+WQ+ + P SD DR +A +++D ++ GYL LE+ Sbjct: 121 SNDDDEWDF-TTRTSAGESLQSHLLWQLNVAPMSDKDRLVAVTLIDCINNQGYLDETLEE 179 Query: 161 ILESIGDE-EIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLI 219 ILES E +I++DE+EAVL RIQ+F+P G+ A++L +CLL+QL Q TPWL EA+ + Sbjct: 180 ILESFDPELDIELDEIEAVLHRIQQFEPAGIGARNLSECLLLQLRQLPAKTPWLTEAQRL 239 Query: 220 ISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVR 279 ++D++DLL + D+ LMR +LKED L++ + L+QSL+PRPG I++ E EYVIPDV+VR Sbjct: 240 VTDYIDLLGSRDYGQLMRRMKLKEDELRQVIELVQSLNPRPGSQIESTEAEYVIPDVIVR 299 Query: 280 KHNGHWTVELNSDSIPRLQINQHYAS 305 K N W VELN +S+PRL++N YA Sbjct: 300 KDNERWLVELNQESVPRLRVNPQYAE 325 >UniRef50_D0GPK2 RNA polymerase sigma-54 factor n=1 Tax=Leptotrichia goodfellowii F0264 RepID=D0GPK2_9FUSO Length = 453 Score = 318 bits (815), Expect = 3e-85, Method: Composition-based stats. Identities = 122/475 (25%), Positives = 237/475 (49%), Gaps = 51/475 (10%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 +KQ L +L + A++ + ++ +L++S EL + L++ E NPLLE + Sbjct: 26 IKQQLINKLVNKQAISQKQLYSLEILKMSEQELFEFLKKEKEENPLLEIENE-------- 77 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 ++ +++ S + + + + ++ L Sbjct: 78 ----------------------------ESFFSSFWKSEKNDKAFEVKD---ETVASKNL 106 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 + + Q+ FS + + I++++DE+G+L + +++I + +ID + + +L+ Sbjct: 107 IENIKLQINNQNFSYIENEVLIYILNSIDESGFLDLGIKEIRKKF---DIDNKKFKYILE 163 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 I+ +P G+ K+ +D QL + ++ ++I ++L+ L N + L + Sbjct: 164 LIKEAEPNGIGTKNTKDFFKYQLLKKRIKD---KKLIILIDNYLEKLTNQ--KELCKELD 218 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQIN 300 + E L E + +I+ L +P ++I + EY+ PD++V+K N W V LN ++IN Sbjct: 219 IFEGKLSEYIGIIKGLKLKPIENIN-EKIEYIFPDIIVKKINNEWKVMLNEGFYKNIKIN 277 Query: 301 QHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 + Y+++ + + +I ++ ++IK +E R TL ++ I+E+Q+ +FE+ E+ Sbjct: 278 REYSNLLEKSEDQEMINYINKKIKRIDFIIKCIEQRRQTLYKIGNVILEKQKKYFEKNED 337 Query: 361 YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAI 420 + PM DIA + +HESTISR KYL S RGI ++K FFS + + SS I Sbjct: 338 II-PMKQKDIALELNVHESTISRAIKNKYLESLRGIVKIKSFFSIGYDKKNIS-ISSLTI 395 Query: 421 RALVKKLIAAENPAKPLSDSKLTSLLSEQ-GIMVARRTVAKYRESLSIPPSNQRK 474 + + ++I+ E SD K+ ++E+ I ++RRTVAKYR+ L I N RK Sbjct: 396 KKYISEIISNEKNGVIYSDEKIRKFINEKYEINISRRTVAKYRKELKIYNKNVRK 450 >UniRef50_C8PAD9 DNA-directed RNA polymerase sigma subunit RpoN n=1 Tax=Lactobacillus iners DSM 13335 RepID=C8PAD9_9LACO Length = 426 Score = 317 bits (814), Expect = 4e-85, Method: Composition-based stats. Identities = 118/480 (24%), Positives = 210/480 (43%), Gaps = 70/480 (14%) Query: 2 KQGLQLRLSQQLA----MTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEID 57 K GL LRL + L ++P+L+Q + +L +T +L + L E+NP ++ T+ Sbjct: 4 KNGLSLRLKESLITRLFLSPKLKQDLDILSYNTEDLLKVLHDIAETNPFIDLKYTNANTT 63 Query: 58 TRETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETT 117 T L Q + Sbjct: 64 T--------------------------------------------------LDWVQDPSQ 73 Query: 118 QTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEA 177 +L +YL+ Q++L+ +S+ D+ + T ++ +D GYL + + I E DI + Sbjct: 74 DSLVEYLIKQIQLSAWSNNDKKLVTFLIYKLDNNGYLRFTCKQLANEIEYSEADIQNAKN 133 Query: 178 VLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHL-DLLANHDFRTLM 236 +L P+GV A DL +CLLIQ + P A I+ HL + LA+ + Sbjct: 134 LLH---ELSPLGVGAYDLNECLLIQAKKLLHFNPI---ALAILEKHLLERLAD---TSSW 184 Query: 237 RVTRLKEDVLKEAVNLIQSLDPRPGQSIQT-GEPEYVIPDVLVRKHNGHWTVELNSDSIP 295 K++ + EA+ ++ L+P PG +Y+IPD++ NGH V+ + ++P Sbjct: 185 NSLPWKKEKILEALKELRKLEPTPGAKFDNFTNIQYLIPDLIFEIDNGHVLVKDSKFNLP 244 Query: 296 RLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFF 355 + N+ + + + ++ + + L SLE R TL+R+ + + Q A+ Sbjct: 245 EVVFNEVEYTNLKGSCATNEVEYFNAQKKQFMDLQLSLERRQKTLIRLGEYLAKYQLAYL 304 Query: 356 EQ-GEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGE 414 + ++ +K + + ++AQ++ + STISR KY I LK F Sbjct: 305 KTMDKKQLKALNMNNVAQSLGLSVSTISRAVKDKYFECNNRIISLKIMFMKSFKN----N 360 Query: 415 ASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRK 474 ++ + +++LI E+ + PLSD + L QGI ++RR V KYR ++I S RK Sbjct: 361 ITAMKVTDTIERLINEEDKSHPLSDQDICDQLLLQGINISRRAVTKYRTKMNIQNSYWRK 420 >UniRef50_Q7P6F0 RNA polymerase sigma-54 factor rpoN n=9 Tax=Fusobacterium RepID=Q7P6F0_FUSNV Length = 443 Score = 317 bits (814), Expect = 4e-85, Method: Composition-based stats. Identities = 103/470 (21%), Positives = 207/470 (44%), Gaps = 73/470 (15%) Query: 7 LRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSET 66 +L+Q L ++ ++ +I +L++S ++L + +++ D+ + + Sbjct: 47 QKLTQSLKLSQMMKLSINILKMSVMDLNKFIEKEFSE-------------DSGISVELNY 93 Query: 67 LDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMW 126 + KE P D + L Sbjct: 94 SKKENFNGGKEAEMNYPTD-------------------------------EKNFFQILEE 122 Query: 127 QVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQRFD 186 Q+ + + I I++ +D+ GYL + +I + + E+ E+E I + Sbjct: 123 QLSYFKINKKIKEICIFIINNLDKKGYLELSKIEIKDIL---EVSNKELEEAFDIIHNLE 179 Query: 187 PVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVL 246 P G+ A L +CL IQL E+ L I ++L LLA+ + + + +++L Sbjct: 180 PYGIGAYSLEECLKIQLKAK---KIIEEKLSLFIDNYLYLLADKKYDLIKEKLNINDNIL 236 Query: 247 KEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASM 306 +++I+SL+P P + G+ +IPDVLV E+N SIP++ + Sbjct: 237 FSYIDIIKSLNPIPSRGYSVGKVRKIIPDVLVEIKKNEIFYEINRASIPQINV------- 289 Query: 307 CNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMV 366 ++ + ++ + + + +I +E R +T+ ++ + I+ +Q+ FF + + + Sbjct: 290 ----KDKIEDKYYK-KINE---IISCIEKRFETIDKIMKIIIREQKIFFTSQGKKINTLK 341 Query: 367 LADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKK 426 ++DIA + + ST+SR +KY+ + GI L+ F+ +++ + + + Sbjct: 342 ISDIADKLNLSPSTVSRAVKEKYIKTNFGIISLRKLFNL--------DSAVFLYQQKILE 393 Query: 427 LIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 I EN P+SD + +LL + GI +ARRTV KYRE L S++RK+ Sbjct: 394 YIENENKENPISDQDIVNLLEKDGIKIARRTVTKYREKLGYKSSHKRKKY 443 >UniRef50_C4PNB9 RNA polymerase sigma-54 factor n=8 Tax=Chlamydia RepID=C4PNB9_CHLTZ Length = 436 Score = 317 bits (812), Expect = 7e-85, Method: Composition-based stats. Identities = 111/479 (23%), Positives = 190/479 (39%), Gaps = 65/479 (13%) Query: 5 LQLRLSQQLAMTP--QLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQ 62 L + +A+ P LQQ + +LQ+ EL + Q + NP + ++ Sbjct: 2 LHQHQTASVALCPALHLQQGLDMLQMPVAELATFVSQQITINPCFDLDSLDSPPES---- 57 Query: 63 DSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQD 122 Q T+TL Sbjct: 58 ------------------------------------------FSFFPISEQHPFTETLSA 75 Query: 123 YLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRI 182 YL+ Q++ S +R IA IV + G + + + V +RI Sbjct: 76 YLLRQIDTNFASSQERTIAQYIVGNLSPEGLFLENPSLVAADLN---VSEHLFHKVWQRI 132 Query: 183 QRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR-L 241 Q+ P+GV A L+ + L +EA II +H LA DF T+ R Sbjct: 133 QQLHPLGVGAPSLQSYWVSLLQTSPH-----KEALAIIRNHFPRLARCDFTTIARKMHAT 187 Query: 242 KEDVLKEAVNLIQSLDPRPGQSIQTG--EPEYVIPDVLVRK-HNGHWTVELNSDSIPRLQ 298 ++L + S+ P P +PD + N W V +N D +P ++ Sbjct: 188 TTEILTFLRHAFASIPWCPAAGFSETLHPPAPALPDAYLSFSRNSSWDVSINKDCLPSIR 247 Query: 299 INQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQG 358 +N + + + + ++ AK L+++++ R +TLL + R ++ Q+ F + Sbjct: 248 LNNTVLDIY-PSLPREEKDHLSQQIRAAKQLLRNVKKREETLLAILRVLIPYQEEFLLKK 306 Query: 359 EEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASST 418 K + IA+ + +HE+T+ R K L +P G+ ++ F V + + S Sbjct: 307 RTSPKAFSVKQIARELSLHEATVCRAIDNKTLATPVGLLPMRSLFPQAVGS--CPDQSKA 364 Query: 419 AIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQLV 477 I + + I+ E PLSD+ ++ + E+GI ARRTVAKYR L+I P++QRK L Sbjct: 365 TILHWIHQWISTE--KHPLSDAAISQKIIEKGIPCARRTVAKYRSQLNILPAHQRKHLC 421 >UniRef50_Q30RF5 Sigma-54 (RpoN) n=2 Tax=Campylobacterales RepID=Q30RF5_SULDN Length = 422 Score = 315 bits (808), Expect = 2e-84, Method: Composition-based stats. Identities = 120/479 (25%), Positives = 206/479 (43%), Gaps = 71/479 (14%) Query: 6 QLRLSQQL----AMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRET 61 QLR +Q + ++ L+ + +L S +L + + +++NP++E E+ + Sbjct: 3 QLRQTQSVENRHKLSNTLRNWLPILHSSLSDLGEAMSPFIDANPIIEISSGFEDSFEK-- 60 Query: 62 QDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQ 121 +S E ++L Sbjct: 61 ------------------------------LIPKKIGNSSVANTRTEQIEALTFVKKSLY 90 Query: 122 DYLMWQVELTPF-SDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 D L Q+E F + + IA+ +V +DE GY E+ + + I I+E E V Sbjct: 91 DVLDEQIEAPLFPTPISQKIASFVVCNLDENGYYEGDSEEFCK---NNAITIEEFEKVRL 147 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 R +PVGV AK+L + L QL D + A +I D L + Sbjct: 148 RFAHVEPVGVCAKNLLESFLFQLDSSDISDKVYPLAIKVIKD------------LENIYD 195 Query: 241 LKEDV-LKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVR-KHNGHWTVELNSDSIPRLQ 298 + E + ++ + P + VIPD+++ N V+LN P + Sbjct: 196 YSNEAGFSEVMRVLTTFKNPPAIEYLEESAQ-VIPDLMIFFNDNDSIEVKLNDAFYPIIN 254 Query: 299 INQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQG 358 I+ Y + ++ +++AK L+ +L+ R TL +V IVE Q FF G Sbjct: 255 IDTSY---------SIEHDYVSQKIKEAKSLVDALDMRKATLYKVGLMIVEYQYEFFTGG 305 Query: 359 EEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASST 418 + P+ L +A + STISR KY+ RG++ +K FF++ ++ + S+ Sbjct: 306 --AIMPLTLKTLADEFGHNPSTISRAIANKYIACDRGVYAMKEFFTTAID----EDVSNA 359 Query: 419 AIRALVKKLIAAENPAKPLSDSKLTSLLSEQ-GIMVARRTVAKYRESLSIPPSNQRKQL 476 AI+ V +I +EN KPLSD KL L+ ++ + + RRT+AKYR+ L+I S++RK+L Sbjct: 360 AIKEFVIGVIKSENRKKPLSDMKLLELIQDKFKVQMVRRTIAKYRKQLNIAGSSERKKL 418 >UniRef50_UPI000196AFF4 hypothetical protein CATMIT_00324 n=1 Tax=Catenibacterium mitsuokai DSM 15897 RepID=UPI000196AFF4 Length = 408 Score = 312 bits (799), Expect = 2e-83, Method: Composition-based stats. Identities = 113/479 (23%), Positives = 214/479 (44%), Gaps = 74/479 (15%) Query: 1 MKQGLQ--LRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDT 58 MKQ +Q L Q L + +L +++ L + ++ + +QQ LE+NP LE Sbjct: 1 MKQKMQYIQTLKQTLKLNQKLLKSLDFLTDNIDDINKVVQQVLETNPFLELKSPK----- 55 Query: 59 RETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQ 118 D + + + Sbjct: 56 ---------------------------------------------NYDTQQFIESISNKR 70 Query: 119 TLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAV 178 +L+D L Q+ + + +++++D++G+L+ P++ + D +ID + ++A Sbjct: 71 SLKDDLYLQLSACTRPYNE-DLMDYLIESLDDSGFLSYPIDQ---YLTDLDIDREMLDAH 126 Query: 179 LKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRV 238 L ++ F+P GV A D D ++IQL +K + + D+ D++ ++ + + Sbjct: 127 LDILRSFEPNGVGAADAIDSIMIQLKNNNKIKSY-----TLFRDYQDVILTQNYSLIKQK 181 Query: 239 TRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQ 298 T LK++ + I+S +P P + + +Y+ PDVL+ + + + + P L Sbjct: 182 TGLKKEEIDHLFYEIRSCNPFPCNMYSSSQDDYISPDVLIEVEDSNIIIT--PINQPELI 239 Query: 299 INQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQG 358 +N N N ++S +A +LI++L RN T+L V+ +V+ Q +F Sbjct: 240 VNDLLYEKVKNDEN------MKSYFNEAHFLIENLTKRNQTVLFVANALVDIQSGYFLYD 293 Query: 359 EEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASST 418 +E + P L+ +A HESTISR KY ++ LK S + SS Sbjct: 294 DE-LYPCTLSQLANETGFHESTISRTLNNKYYSFNGEVYPLKQLLVSQTASGD----SSD 348 Query: 419 AIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQLV 477 +I+ + +L+ +E+ PLSD+++ L E + +RR + KYR+ L+IP S +RK L+ Sbjct: 349 SIKKAIVELVDSEDKEHPLSDNQILKKLEELELHCSRRVIVKYRQQLNIPSSTKRKILL 407 >UniRef50_A6DC70 RNA polymerase sigma-54 factor n=1 Tax=Caminibacter mediatlanticus TB-2 RepID=A6DC70_9PROT Length = 407 Score = 308 bits (789), Expect = 3e-82, Method: Composition-based stats. Identities = 125/476 (26%), Positives = 221/476 (46%), Gaps = 80/476 (16%) Query: 4 GLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQD 63 L+ +++ +L + +L + +L+ EL + +++ NP +E +++ T Sbjct: 2 KLKAKVTNKL--STKLISFLPILKAGLDELYEHIKEVSFENPFIEV--RNKKFITVSNLK 57 Query: 64 SETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDY 123 + D +AL + + + Sbjct: 58 NAITDKIEAL----------------------------------------STSESSFYED 77 Query: 124 LMWQVELTPF--SDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKR 181 L+ Q+E + F ++ R IA I + + G+ E+I S+G +D+++V+ + +R Sbjct: 78 LVSQIENSHFFPTEKSRFIALLIAEDITPDGFFDGNEEEIALSVG---VDVEKVKKIRER 134 Query: 182 IQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRL 241 + P GV AKD+++C L QL D EE L++ + ++ L N D Sbjct: 135 FKYLTPTGVGAKDIKECFLFQLDNLDID----EELYLLVKNMINDLENLD-------KFY 183 Query: 242 KEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQ 301 K +A+ +I+ P E ++V +NG+ + LN + P + IN+ Sbjct: 184 KHKRYNDAIKIIKDFKTTPALEYSISEEIIPE--IIVINNNGNLEIRLNEEFYPEIFINE 241 Query: 302 HYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEY 361 + D ++ + L++A+ L+ +LE R TL +++ IVE Q FF+ G Sbjct: 242 Y-----------VDDKYSKEKLKEARSLVDALEMRKSTLKKIALMIVELQYDFFKGGV-- 288 Query: 362 MKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIR 421 +KPM + D+A +E STISR KYL RGI LK FFS+ +N E S+ I+ Sbjct: 289 IKPMKIQDLADELEFAPSTISRAIANKYLLCDRGIIPLKNFFSTAIN----EEVSANQIK 344 Query: 422 ALVKKLIAAENPAKPLSDSKLTSLLSEQ-GIMVARRTVAKYRESLSIPPSNQRKQL 476 +K +I E+ KPLSD K+ ++E+ I + RRT+ KYRE+++IP S +RK+L Sbjct: 345 EEIKNIIKNEDKNKPLSDDKICEFINEKFNIKLVRRTITKYREAINIPSSRERKRL 400 >UniRef50_UPI0001906882 RNA polymerase factor sigma-54 n=2 Tax=Rhizobium etli RepID=UPI0001906882 Length = 340 Score = 305 bits (782), Expect = 2e-81, Method: Composition-based stats. Identities = 122/352 (34%), Positives = 185/352 (52%), Gaps = 20/352 (5%) Query: 1 MK--QGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEE--- 55 MK L R Q L +TPQL +IRLLQL+ EL Q ++Q +E NP L+ Sbjct: 1 MKSFTSLHQRQQQSLVITPQLIASIRLLQLAHTELNQFVEQEIEKNPFLDLASNDGGASG 60 Query: 56 IDTRETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGE 115 + D D ++ + L + W +I G S +D+ Sbjct: 61 VSPTAADDPNISAREDHVDGPARTDMPELSSPWKSIRDTGNLSPGERPSLDEF-----AA 115 Query: 116 TTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEV 175 +T+TL +++ Q+ LT F+ +R IA ++ D +D+TGYL V L+++ E + E V Sbjct: 116 STETLHEHVAHQIALTAFTPQERLIAGALADHLDDTGYLQVNLQELAERLNSPEAG---V 172 Query: 176 EAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTL 235 + VL+ +Q FDP G+ A+ L +CL IQL Q D+ P A + +L+LLA DFR L Sbjct: 173 KRVLEALQLFDPPGIFARSLGECLEIQLRQRDRFDP----AMAALVANLELLARRDFRAL 228 Query: 236 MRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKH-NGHWTVELNSDSI 294 R R+ ED L + +N I++LDP+PG Q+ E +IPDV V G W VELN + + Sbjct: 229 KRRCRVDEDDLLDMLNEIRALDPKPGNQFQSARSESIIPDVFVLPSPGGGWHVELNREIL 288 Query: 295 PRLQINQHYASMCNN--ARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVS 344 P++ INQ Y + A++ D F+ Q A WL++SL+ R T+L+V+ Sbjct: 289 PKVLINQTYFAQVTRLTAQSSKDQSFLNECFQSASWLVRSLDQRATTILKVA 340 >UniRef50_A8RDS7 Putative uncharacterized protein n=1 Tax=Eubacterium dolichum DSM 3991 RepID=A8RDS7_9FIRM Length = 406 Score = 304 bits (779), Expect = 6e-81, Method: Composition-based stats. Identities = 111/480 (23%), Positives = 212/480 (44%), Gaps = 83/480 (17%) Query: 1 MKQGLQLR--LSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDT 58 M+Q L L+ + Q+ +QA+++LQ++ +LQ +++ + NP L Sbjct: 1 MEQKLLLKPDIKQKSNFHSAREQALQILQMNQQDLQMYIREQADHNPFL----------- 49 Query: 59 RETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQ 118 + + D+ +Y+ Q Sbjct: 50 -------------------VMNTIGEDSDIFDVYSP----------------------KQ 68 Query: 119 TLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAV 178 +L D L Q+ + I ++ ++ GY + LE ++ + E+ Sbjct: 69 SLSDTLYDQLCYIEKPYKE-EIVDYLLSRLNSNGYFKISLEQLILGSCFSQ---KEIIET 124 Query: 179 LKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRV 238 + +QR +P+G +L++ L IQ ++ E I+ D+L+ LA H F + Sbjct: 125 IAVLQRLEPIGCFCFNLKESLQIQCEMHEEACS---ETGYILCDYLEDLAFHRFAQVEVK 181 Query: 239 TRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQ 298 T L + ++E IQ L+P+P + T + ++P++ V+ GH +E + I RLQ Sbjct: 182 TGLSLEEIEEGFAFIQGLNPKPASNYAT-QSAVILPEIRVKLVQGHLVLETVQE-IFRLQ 239 Query: 299 INQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQG 358 + ++++ ++A ++ S++ R T++++ +V++Q+AFF + Sbjct: 240 L---------EEDMGTHHEYLKRQRKEATLIMNSIQKRKMTIMQIMEFLVDKQKAFFLEK 290 Query: 359 EEYMKPM---VLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEA 415 KP+ L D+++A +H STISR K + +KY G Sbjct: 291 ----KPLCYCTLQDVSKACGLHVSTISRAIQNKSFEFQNNYYPIKYLLVHG----GDKAH 342 Query: 416 SSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 S I++ +K LI E+ +P SD +L LL ++GI ++RRTV+KYRE+ + ++QRKQ Sbjct: 343 HSQEIKSRIKALIDNEDKQRPYSDERLRKLLEKEGIRISRRTVSKYREACLLFNASQRKQ 402 >UniRef50_UPI0000D54D13 DNA-directed RNA polymerase subunit N n=1 Tax=Psychroflexus torquis ATCC 700755 RepID=UPI0000D54D13 Length = 413 Score = 299 bits (765), Expect = 2e-79, Method: Composition-based stats. Identities = 118/463 (25%), Positives = 209/463 (45%), Gaps = 58/463 (12%) Query: 4 GLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQD 63 + + Q+L +TP L+++I LLQLS EL ++QQ +E NP LE+I+ E Sbjct: 6 SQKFKQRQKLTLTPSLKKSIDLLQLSRYELINKIQQEIEENPFLEKIEDFENNTAP---- 61 Query: 64 SETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDY 123 D+ ++ E+ L+ Sbjct: 62 -------------------------------------------DKDFSFEIESKVDLKGS 78 Query: 124 LMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK-RI 182 L+ Q+ I+ I++ +DE G L LED+ E + E I E+E VL+ I Sbjct: 79 LLDQINDLNLDIKSLQISKLIINNIDEAGKLVEQLEDL-EELSSYEYSIREIETVLQDVI 137 Query: 183 QRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLE-EARLIISDHLDLLANHDFRTLMRVTRL 241 + P G+ +D ++C+ IQ+ E +I++D LD L + + Sbjct: 138 HKLHPHGIGYRDHKECIRIQIEYGKLKNELKEICLSIILNDSLDDL--NKIKNNFISNGG 195 Query: 242 KEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQ 301 +E + A+N I+ D PG + Q E +Y+ PD+ + K N + P+++I++ Sbjct: 196 EESAFENALNEIKKCDLSPGLNFQ--ESQYIYPDLKITKENNQTKISFIEKDFPKIKIDE 253 Query: 302 HYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEY 361 A + + + +AKWL+ S+ RNDT+L+V I+ +Q FFE Sbjct: 254 ALAKNVKKNLKIEKNNELSEKISEAKWLLSSINKRNDTVLKVGELILSKQIHFFENNPIK 313 Query: 362 MKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIR 421 ++ + +I++ + +H+ST+SR+ KY+ SP+GI LK S V+ +S + Sbjct: 314 IEALSNKEISEKLNIHQSTVSRILRNKYIESPKGIIPLKSLMVSSVS--KSRNVTSIQLM 371 Query: 422 ALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRES 464 L++ + E K ++ L+++G +ARRT+ KYR+ Sbjct: 372 KLIENITKKEKKPKSD--KQIAIELNKRGFNLARRTITKYRKM 412 >UniRef50_Q5LLX0 RNA polymerase sigma-54 factor n=1 Tax=Ruegeria pomeroyi RepID=Q5LLX0_SILPO Length = 427 Score = 290 bits (744), Expect = 5e-77, Method: Composition-based stats. Identities = 106/476 (22%), Positives = 195/476 (40%), Gaps = 58/476 (12%) Query: 3 QGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQ 62 Q +Q+LA+T ++ ++ LL + E + +++ N L + Sbjct: 5 QRQIQTQAQKLALTQAMRASLSLLSMDADEAAEAIRREQSRNSFLRTVPPPLPGGGGAAD 64 Query: 63 DSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQD 122 E E Sbjct: 65 QPEIAHMESGTED----------------------------------------------- 77 Query: 123 YLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRI 182 L+ QV L + +A +V ++DE G+L E+ + ++ + +L+ Sbjct: 78 -LLRQVALIRMTTRQNQLAQDLVHSLDERGFLPDSPEETASYLQCSPAELSALVPILQD- 135 Query: 183 QRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLK 242 +P GV A L D +QL ++ P +E RL+ LDL+A D + + + Sbjct: 136 -AVEPAGVFAWSLADSFRLQLQAKNRFDPLIE--RLLCR--LDLIARQDIDGICKACDVD 190 Query: 243 EDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLV-RKHNGHWTVELNSDSIPRLQINQ 301 + E + I+SL+P P P++++ +G T LN ++PRL + Sbjct: 191 REDAIEMLEDIRSLNPSPLFRQSHPIQASGEPELIIKTAPDGTCTASLNEAALPRLLTDD 250 Query: 302 HYASMCNNARNDGDSQ-FIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 S A D +Q + R + A ++++++ R +TLL + I ++Q F G Sbjct: 251 ALFSSTMAAETDAHAQSYYRDCYRGAANMVRAMQKRANTLLSAGQTIADRQHKFIRSGRL 310 Query: 361 YMK-PMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTA 419 K P+ + IAQ +++STISR + + GIF ++F + + ++ + + Sbjct: 311 RDKQPLTMTLIAQEAGLNKSTISRALSNCRIRLDSGIFPAEHFLARPL-SDDTPDRTRDQ 369 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 + ++ LI ENP P+SD L L + + ++RRTVAKYR+ L IP + +RK+ Sbjct: 370 VLQRLRLLIETENPRSPMSDQVLARQLGKARLSISRRTVAKYRQFLQIPGAYERKR 425 >UniRef50_C0XEY8 RNA polymerase factor sigma-54 n=2 Tax=Lactobacillus gasseri RepID=C0XEY8_9LACO Length = 413 Score = 290 bits (743), Expect = 7e-77, Method: Composition-based stats. Identities = 113/476 (23%), Positives = 198/476 (41%), Gaps = 70/476 (14%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 + Q + SQ+ ++ +L S +L L+ E NP L Sbjct: 2 INQFQKTTQSQKQIFKQYQLTSLSMLSDSYTDLAHYLKTQEEKNPYL------------- 48 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 + + D+I ++ Sbjct: 49 -------------------------------TVTSNRTKQNLDWITEDESGLTKTK---- 73 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 L+ L S+ + ++D +D G+L+ ++E ++ + + Sbjct: 74 ---LLHDFNLEVKSNKLKYFGAIVIDNLDGHGFLS-DYHHLIEQFPQQQ---KLINKAIN 126 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 +Q P G+AA+ + +CLL+QL + + + II +L+ LANH+FR + Sbjct: 127 IVQNIGPTGIAARSVSECLLLQLKHK---SNYPKNTDTIIKYYLEDLANHNFRKIYTNLS 183 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEPE-YVIPDVLVRKHNGHWTVELNSDSIPRLQI 299 + ++ L + + I+SL RPG I T +IP++ + + L D+ Q Sbjct: 184 ISKNDLFKVICFIKSL--RPGVEINTDINNKIIIPELFICYDHKKIFTHLIEDN----QF 237 Query: 300 NQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE 359 N + + + + +FI+ + A+ L K+ + R DTLL + + I EQQ+ FF G Sbjct: 238 NLEFKTPSYSTNDTETLKFIKKQKKQAQNLQKNYQRRQDTLLLIGQTIAEQQEIFFATGG 297 Query: 360 EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTA 419 + P+ + IA ++ STISR KY GIF L FSS +N S Sbjct: 298 KKFTPLNESQIALETHLNVSTISRTVRSKYFQCDFGIFPLNILFSSKINN-----FSQKN 352 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 I ++KK+I EN PL+D ++ + L + I V+RRT++KYR+ L I QR++ Sbjct: 353 ILNMLKKIILNENQKNPLTDDEIKNKLLKNNIAVSRRTISKYRKKLGIGNYYQRQK 408 >UniRef50_Q9ZLC8 RNA polymerase sigma-54 factor n=34 Tax=Campylobacterales RepID=RP54_HELPJ Length = 414 Score = 290 bits (742), Expect = 9e-77, Method: Composition-based stats. Identities = 119/475 (25%), Positives = 223/475 (46%), Gaps = 72/475 (15%) Query: 5 LQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDS 64 L+ LS + + L+ + +LQ +L++ L+Q NPL++ + + Sbjct: 4 LRANLSPKNKLNATLKGWLPILQSELEDLEEVLKQNALDNPLIKIENKRIKN-------- 55 Query: 65 ETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYL 124 ++ + S D++++ +++L + L Sbjct: 56 ---------------------------FSDRFNTKKSSDHLEN-----CATASKSLFETL 83 Query: 125 MWQVELTPF-SDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQ 183 Q+ F ++T + IA I+ ++ GY +E+ + +G ++ + E V KR Sbjct: 84 ESQIIPPLFPTETSQKIAMDIISGLNNEGYFEENIEERAKVLG---VESEVYEKVRKRFS 140 Query: 184 RFDPVGVAAKDLRDCLLIQLSQFDKTT-PWLEEARLIISDHLDLLANHDFRTLMRVTRLK 242 +P G+ AKD+++ L QL + EE R II L+L +H+F Sbjct: 141 YLNPAGIGAKDVKEGFLFQLDGRELDNNELYEETRKII---LNLEKHHEFSKDFY----- 192 Query: 243 EDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQH 302 ++A+ +++S P E E VIP++ + + + V LN +S P + + ++ Sbjct: 193 ---YEKALKILKSFKNPPAIEFLEKEIE-VIPELFILEVDNEMIVRLNDESYPTISLEEN 248 Query: 303 YASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYM 362 DS +++ L++AK LI +L R T+ ++ ++E Q FF+ E + Sbjct: 249 RFK---------DSDYLKEKLKEAKDLIDALNLRKATIYKIGLMLLEYQYDFFKGKE--L 297 Query: 363 KPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRA 422 +P+ L D+A STISR + KYL RG+F +K+FFS ++ E S+ I+ Sbjct: 298 RPLKLLDLANEFNHSVSTISRAISNKYLACERGVFPIKHFFSIALDN---SETSNAVIKD 354 Query: 423 LVKKLIAAENPAKPLSDSKLTSLLSEQ-GIMVARRTVAKYRESLSIPPSNQRKQL 476 + +LI E+ +PLSD+K+ L+ E+ + + RRT+ KYR+ L+I S++RK+L Sbjct: 355 YLLELIKNEDKKEPLSDAKILELIEEKFHLKMVRRTITKYRQLLNIASSSERKRL 409 >UniRef50_O83149 RNA polymerase sigma-54 factor n=2 Tax=Treponema pallidum RepID=RP54_TREPA Length = 475 Score = 289 bits (739), Expect = 2e-76, Method: Composition-based stats. Identities = 116/493 (23%), Positives = 207/493 (41%), Gaps = 67/493 (13%) Query: 16 TPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSETLDTADALEQ 75 +L + LLQLS +L+ E+ +A++ NPLLE + R T + L D E+ Sbjct: 13 NQRLVHGLCLLQLSRGDLKTEVLRAVQRNPLLEIRPSS----ARRTGKACYLSLGDRRER 68 Query: 76 KEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSD 135 + + + P Q + ++ L QV Sbjct: 69 MRARDRFQ--------------------QLLENQPDKQVD---NIRAVLREQVFYQKHEA 105 Query: 136 TDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDI-DEVEAVLKRIQRFDPVGVAAKD 194 +A + + +D+ G+ ++ G + +++ + IQR +P G A + Sbjct: 106 IVLDLACAFIQMLDDHGFFSISPAIFQNMCGSMPTALQEKIPQAIALIQRLEPQGCAVFN 165 Query: 195 LRDCLLIQLS-QFDKT-TPWLEEARLIISDHLDLLANHDFRTLMRVT------------- 239 ++ L +Q +F++ P +++ H +LL D RV+ Sbjct: 166 FKESLAVQARLRFERFSDPLYRCVINLLTHHSELLFCSDNMCDGRVSVHALTTQINSMGL 225 Query: 240 ---RLKEDVLKEAVNLIQSLDPRPGQSIQT----GEPEYVIPDVLVRKHNGHWTVELNSD 292 ++ + +K+ + LI+ L P PG+ + + PDVL+ K + ++N Sbjct: 226 CVQKVSSNDVKDILLLIKELHPFPGKCVSNAQRADTNMLLEPDVLITKTAHGFVTQINCT 285 Query: 293 SIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQ 352 IP + Y C +++ + +++ + DA L+ L R TLL +++ IV Q Sbjct: 286 GIPTVVFRNDY---CMHSKAAEKNHALKACMHDALSLVSMLSYRERTLLDIAKTIVHYQC 342 Query: 353 AFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHV-NTEG 411 FF+ G + P+ + D+A + ST+SR+ K+L F L+YFFS V +TE Sbjct: 343 GFFDHGPAKLTPLRMTDVAHRTGLSVSTVSRIVRDKWLQYGSQHFSLRYFFSPRVLSTEE 402 Query: 412 GGEASS------------TAIRALVKKLIAAENPAKP-LSDSKLTSLLSEQGIMVARRTV 458 + SS +++ + +LI + LSD ++ LL EQGI ARRTV Sbjct: 403 YRDRSSLGQNYPSSPHSKVSVKYRISRLIQEVRTQRISLSDRRIAQLLGEQGIKCARRTV 462 Query: 459 AKYRESLSIPPSN 471 KYR L S+ Sbjct: 463 NKYRSELRTCSSS 475 >UniRef50_D0D5Z1 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Citreicella sp. SE45 RepID=D0D5Z1_9RHOB Length = 419 Score = 284 bits (726), Expect = 7e-75, Method: Composition-based stats. Identities = 114/476 (23%), Positives = 195/476 (40%), Gaps = 62/476 (13%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M +L++SQ ++ I +LQLS EL + L Q +SNPLL Sbjct: 1 MSPSTRLQVSQNQVF--RMGHVISVLQLSGEELDEHLLQTAQSNPLL------------- 45 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 + + D + + +L Sbjct: 46 ------------------------------VVRRRRQTAIRAGSAHDLIDSTFADRPTSL 75 Query: 121 QDYLMWQV-ELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVL 179 D+++ ++ L + ++V+ ++ +G+L P+ I E++G + + VE L Sbjct: 76 YDHVLRELAGLAGRGAAMERLILALVEELEPSGWLGRPVPQIAETLG---LSVQLVETAL 132 Query: 180 KRIQR-FDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRV 238 +QR P G+ A+DLRDCL +QL ++A + HL++L L R Sbjct: 133 DLVQRRVSPAGIFARDLRDCLRLQLEDQG----LWDDAAGRVLAHLEVLGTGGAEALERA 188 Query: 239 TRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQ 298 T L + ++ ++ LDP+PG T DV + W P + Sbjct: 189 TGLDAATIATRLHRLRRLDPKPGSQFATDLTLMREADVRIEARGDGWV--------PIFR 240 Query: 299 INQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQG 358 + + S +R L +A+ L ++L+ R L ++ + ++E Q AFF G Sbjct: 241 TSFETVVAVPPGASGDSSPEMRRALGEARALKQALDLRQGALKQIVQVMIEVQGAFFRDG 300 Query: 359 EEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASST 418 E ++P+ A IA H ST+SRV + P GI + + S Sbjct: 301 PEALQPLTQAMIAAKTGFHLSTVSRVLNGLLIEGPNGIIPARTLCARRSALCSTDGPSKP 360 Query: 419 AIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRK 474 + A ++ L+ AE + PLSD +L+ L +G+ V+RR VA+YR L P+ QR+ Sbjct: 361 KVLARLRALLLAECASHPLSDVQLSDALRAEGLAVSRRVVARYRHELGFAPAAQRR 416 >UniRef50_B7C885 Putative uncharacterized protein n=1 Tax=Eubacterium biforme DSM 3989 RepID=B7C885_9FIRM Length = 406 Score = 274 bits (701), Expect = 6e-72, Method: Composition-based stats. Identities = 96/403 (23%), Positives = 179/403 (44%), Gaps = 31/403 (7%) Query: 74 EQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPF 133 + ++ +L + S + + TPS Y++ + +L+D L Q+ + Sbjct: 30 KDRQTLSDLLYNVSQNNPFLEYTPSQDIQQYLETGISN-----KPSLKDELYLQLHTSTK 84 Query: 134 SDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAK 193 + IA I++++D G+ +DI + D + + E L IQ F+P+GVAAK Sbjct: 85 KYNE-PIANYIIESLDSHGFFD---QDIHTVLSDLKCTKAQFEETLSFIQTFEPIGVAAK 140 Query: 194 DLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLI 253 + D L+IQL T A I+ ++ L DF T+ + + + + + + Sbjct: 141 NSIDSLMIQLK-----TKGYTVAYTILKNYSKELEEKDFYTISESLDIPYETVFDELAHM 195 Query: 254 QSLDPRPGQSIQTGEP-EYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARN 312 Q +P P T +P+ + + + L ++ + A Sbjct: 196 QECNPFPCSEYDTESTTNLALPEFTIEIDEDQLKII--PKEMGNLSLHCEEVKLSKEA-- 251 Query: 313 DGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQ 372 + L +AK+ I S+ RN T+L ++ ++ Q+ +F ++ +K L +IA+ Sbjct: 252 -------KKYLNEAKFYIDSINRRNKTILLLANILITHQKNYFLFQDD-LKECTLKEIAE 303 Query: 373 AVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAEN 432 ST+SR + KY ++ +K F S + +S +I+ ++ LI EN Sbjct: 304 ESGYSISTVSRTLSDKYYEFNDHMYPVKDLFIS----KTHKGSSKDSIQKAIQLLIEVEN 359 Query: 433 PAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 P PL D ++ L + +RRT++KYR+ L+IP S QRK+ Sbjct: 360 PENPLQDEEIVEELKNMELYASRRTISKYRKELNIPNSKQRKK 402 >UniRef50_B1CB68 Putative uncharacterized protein n=1 Tax=Anaerofustis stercorihominis DSM 17244 RepID=B1CB68_9FIRM Length = 243 Score = 273 bits (698), Expect = 1e-71, Method: Composition-based stats. Identities = 72/243 (29%), Positives = 140/243 (57%), Gaps = 1/243 (0%) Query: 233 RTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSD 292 + + + +++ + I+ L+P+P +I+ EP Y+ PD+L+ N W +ELN + Sbjct: 2 SKISKELNISRLEVRKYIYSIKCLNPKPLINIKMSEPVYINPDILLTYENNKWNIELNDN 61 Query: 293 SIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQ 352 I I+ +Y M + + ++ + + L ++++ SLE R +T+L +++ I+ +Q+ Sbjct: 62 WINNYYISDYYLKMIDTSEDENLKMYFKEKLSKCRFILNSLEQRRNTILNITKVIIRRQE 121 Query: 353 AFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGG 412 +F G + M L+++A ++M+ ST+SR KY+ SP GI ++ FSS+V+ Sbjct: 122 KYFR-GNGKIVSMTLSEVADEIDMNVSTVSRAIKNKYMSSPIGIINMRDLFSSYVSYGED 180 Query: 413 GEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQ 472 + ++ +K +I EN KP SD ++ + L+++ I ++RRTV+KYR+ L+IP S Sbjct: 181 IRLTPEDVKQKIKVIIEEENKKKPYSDDEIVNKLNDENINISRRTVSKYRKELNIPTSYN 240 Query: 473 RKQ 475 RK+ Sbjct: 241 RKE 243 >UniRef50_O66858 RNA polymerase sigma factor RpoN n=1 Tax=Aquifex aeolicus RepID=O66858_AQUAE Length = 398 Score = 271 bits (693), Expect = 5e-71, Method: Composition-based stats. Identities = 94/363 (25%), Positives = 175/363 (48%), Gaps = 30/363 (8%) Query: 112 YQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEID 171 YQ T + + L ++L ++ +A +++ ++E G+L+ +E+I + + Sbjct: 65 YQIPYTPSELEELQQNIKL-ELEGKEQELALELLNYLNEKGFLSKSVEEISDVL---RCS 120 Query: 172 IDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHD 231 ++E+E V +++ R +P+GV +KD+ + L +Q E I+ L L Sbjct: 121 VEELEKVRQKVLRLEPLGVCSKDVWEFLELQ------IEEIYPEEEEILKKALRDLKRGK 174 Query: 232 FRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNS 291 +L L P S + D ++ + NG + + L Sbjct: 175 KLKPEIKGKLS------------RLRLFPLSSSAEKVYTFAKVDAIIEEENGEFFIYLYE 222 Query: 292 DSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQ 351 D I + +N+ Y + +RN + ++ + + + K L+ R L +V IVE+Q Sbjct: 223 DFI-DIDLNEEYWELYKKSRN--LQKELKEAFERYESIRKVLDIRRRNLRKVLEKIVERQ 279 Query: 352 QAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEG 411 + F G+ +KP+ L +++ + +HEST+SR+ KY+ +P G + L+ FF E Sbjct: 280 KDFLT-GKGSLKPLTLREVSSEIGIHESTLSRIVNSKYVKTPVGTYSLRTFFVR----ES 334 Query: 412 GGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSN 471 + + L+K+++ E+ KP SD ++ ++L E+G VARRTVAKYRE L IP S Sbjct: 335 AEGLTQGELMKLIKEIVENEDKRKPYSDQEIANILKEKGFKVARRTVAKYREMLGIPSSR 394 Query: 472 QRK 474 +R+ Sbjct: 395 ERR 397 >UniRef50_Q7M8V1 RNA POLYMERASE SIGMA-54 FACTOR n=1 Tax=Wolinella succinogenes RepID=Q7M8V1_WOLSU Length = 404 Score = 268 bits (686), Expect = 3e-70, Method: Composition-based stats. Identities = 119/473 (25%), Positives = 199/473 (42%), Gaps = 84/473 (17%) Query: 6 QLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSE 65 LR+SQ+ A+ ++Q +L+ S EL+++L +A NP L Sbjct: 3 SLRISQKQALRLSVRQWCAVLEASGSELEKKLSEAALENPFL------------------ 44 Query: 66 TLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLM 125 P+ +SGD+I++ + LQ+ L+ Sbjct: 45 ------------------------KFRRKSLPTFSSGDFIEN------SPKERFLQESLL 74 Query: 126 WQVELTPF-SDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQR 184 Q++ + F ++ + IA I++ ++ GY I E G E EVE + KR ++ Sbjct: 75 DQIDSSFFPTEFSQKIAAKIIEELNVEGYFEGDESAIAEEFGTSEA---EVEKIRKRFRK 131 Query: 185 FDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKED 244 DP GV AKD + +L + D A I+ + + + Sbjct: 132 LDPCGVGAKDSLEAFEFRLLESDYDEDLSSLAYEIL---------RSPGQIHHLQG--QA 180 Query: 245 VLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYA 304 L EA++L + P GE + PD+LV + G + +E+ D Sbjct: 181 RLLEAIDLAKRFSAPPALEFMQGEA-FRRPDILVAEDEGVFRIEVWGDE----------F 229 Query: 305 SMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKP 364 + A + ++ ++A+ L R+ TL +++ IV+ Q+ FF+ GE ++P Sbjct: 230 ELGVEACGVKEKNSLK---KEARLLCDYFNMRHSTLRKIATLIVDLQRDFFQGGE--LRP 284 Query: 365 MVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALV 424 ++ A + + + T SR QK L RG F L+ FF S IRA + Sbjct: 285 FSVSQAALEIGISQPTFSRAIAQKSLCCSRGTFPLRKFFPYEAKN----GVSGEEIRAFI 340 Query: 425 KKLIAAENPAKPLSDSKLTSLLSEQ-GIMVARRTVAKYRESLSIPPSNQRKQL 476 K LIA E + SD +L+ L+ + G+ + RRT+ KYRE L IP N RK+L Sbjct: 341 KALIAQEQGGRIYSDEQLSELVKRKFGVHIVRRTIGKYREQLGIPSPNFRKKL 393 >UniRef50_A8UUG6 RNA polymerase sigma factor RpoN n=1 Tax=Hydrogenivirga sp. 128-5-R1-1 RepID=A8UUG6_9AQUI Length = 398 Score = 268 bits (686), Expect = 3e-70, Method: Composition-based stats. Identities = 107/452 (23%), Positives = 193/452 (42%), Gaps = 77/452 (17%) Query: 23 IRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSETLDTADALEQKEMPEEL 82 + +L EL+Q L++ ESNP +E++ + T E+K +PE Sbjct: 22 VEILLHPVQELEQLLKEEKESNPFIEEVYVSGRVHT-------------FYEEKRLPE-- 66 Query: 83 PLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIAT 142 P + + LQ + ++E IA Sbjct: 67 ---------------------------PTLKIHPLEALQRNVKAELEGLDLD-----IAQ 94 Query: 143 SIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQ 202 ++ DE G+ I G + + VE + + + R DP+GV +KDL++ + +Q Sbjct: 95 ELISQTDEKGFFRGDQTAIALKYG---VSKEYVEDIREFVMRLDPLGVCSKDLKEFVRLQ 151 Query: 203 LSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQ 262 + + P L E + +RLK ++ L P Sbjct: 152 IEELYPEEPELVEEFE---------KALRGENISEDSRLKLSHVR--------LSP---L 191 Query: 263 SIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIRSN 322 + P D ++ +G + + I ++ ++ Y M + + + +F++ Sbjct: 192 EEEISVPRVAKVDAVIELDDGELVGYVYEELI-EVRPSRSYMEMMSKVKGEA-REFLKEY 249 Query: 323 LQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTIS 382 L+ + K L R D L ++ I+E Q F +GE +K +++ D+A + + EST+S Sbjct: 250 LERYENFKKILAIRRDNLKKILNEIIEVQADFL-KGEGNLKSLLVKDVAYKLGVSESTVS 308 Query: 383 RVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKL 442 R+ + KY+ +P+G + ++FF E G S + +K+++A E+ KPLSD ++ Sbjct: 309 RLISSKYVKTPQGTYPFRFFFVR----ETAGGISQEELMKEIKEVVAREDKGKPLSDDEI 364 Query: 443 TSLLSEQGIMVARRTVAKYRESLSIPPSNQRK 474 +L +G VARRTVAKYRE L IP S +R+ Sbjct: 365 AKILQSKGYNVARRTVAKYRELLGIPSSRRRR 396 >UniRef50_C5CDZ9 Sigma-54 DNA-binding domain protein n=1 Tax=Kosmotoga olearia TBF 19.5.1 RepID=C5CDZ9_KOSOT Length = 387 Score = 266 bits (681), Expect = 1e-69, Method: Composition-based stats. Identities = 112/466 (24%), Positives = 201/466 (43%), Gaps = 88/466 (18%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 ++ L +L Q+L ++ ++Q ++LLQL++LEL EL++ ++ NPLLE E Sbjct: 3 LEHKLSQKLEQKLHLSLKVQHVLKLLQLNSLELMTELREIVDGNPLLEL----------E 52 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 +D + +D D E PEE ++ D+ Y + + + L Q + L Sbjct: 53 GEDYKLIDENDI----ETPEEENYESKSDSPYFPKHYNPDFDGWDFERLEGPQPSFEEML 108 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 +++ D + I ++D ++E G L +E+I + E DI +V L+ Sbjct: 109 RNF-----AFYILEDDEFKIFEILMDNMNEFGLLKRSIEEISREVAVNERDIRKVIKKLR 163 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 FD G+ A+ L + Sbjct: 164 D-SGFD--GLFAEKLEE------------------------------------------- 177 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEP-EYVIPDVLVRKHNGHWTVELNSDSIPRLQI 299 L E + L P G P Y+ P++ + + + V + +++ Sbjct: 178 --LKELGEGIVL-------PSSGYNDGNPIMYIEPELYIDFVDNRFIVTAKDYGL-AIRV 227 Query: 300 NQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE 359 ++ Y + N +++ F++ Q+A++ + +LE R TL+ + +V F Sbjct: 228 DEVYRELLKNEKDEAGK-FLKEKFQEAEFYVNALEKRRSTLITIGEELVRTNPDFLLGYC 286 Query: 360 EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTA 419 + ++P+ + DIA+ +++ STISR K++ +P G F L+YFF G E + Sbjct: 287 KTLRPLKMTDIAEKLDVVVSTISRAVKGKFVQTPIGTFPLRYFF--------GSEQTREQ 338 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESL 465 ++ KL+ ENP LSDS + L+E GI +ARRTV KYR L Sbjct: 339 AMEIIAKLLK-ENPK--LSDSAIAKKLNEIGIKIARRTVNKYRNVL 381 >UniRef50_B7J217 RNA polymerase sigma-54 factor n=19 Tax=Borrelia RepID=B7J217_BORBZ Length = 419 Score = 259 bits (662), Expect = 2e-67, Method: Composition-based stats. Identities = 103/465 (22%), Positives = 201/465 (43%), Gaps = 64/465 (13%) Query: 9 LSQQLAMTPQL----QQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDS 64 + Q+L ++ L Q I++L L+ EL + + + E+N LE Sbjct: 2 IKQKLKISQNLNSIQIQTIKILGLNQKELTKLILEESENNECLEID-------------- 47 Query: 65 ETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYL 124 K E L Y D + + + +T +L+++L Sbjct: 48 ---------SNKIFFETLKTYRFKKVFYKEDDMIKNQHD-----IALEKTQTNTSLKEHL 93 Query: 125 MWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQR 184 + Q+ + ++ + I +++ ++ G+ + D+ + E++ + ++ IQ+ Sbjct: 94 LLQLRIQRINEDEIKIGEILINNLNSKGFHIINPYDLFKKEEKEKV-----KKTIELIQK 148 Query: 185 FDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKED 244 FDP+G+ ++ + L++Q T ++ L + L +++ Sbjct: 149 FDPIGICVPNIIESLILQAKHHKLETNIIKILEK------AELLEKTQKKLKEELKIRSK 202 Query: 245 VLKEAVNLIQ-SLDPRPGQSIQTGEPE--YVIPDVLVRKHNGHWTVELNSDSIPRLQINQ 301 A+ +I+ L+P P + YV PD+L+ HN + +++ +I + Sbjct: 203 EFNTALEIIRQKLNPNPTLEFKDPNDTNFYVDPDILIINHNNKFKIKIKEVNIFK----- 257 Query: 302 HYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEY 361 + + N + AKWLI+SL R++ L ++ I Q+ F +G + Sbjct: 258 --KELKRTSENP-------QKQKKAKWLIESLRYRDEILAKIGIAIYTLQKEFLRRGFKS 308 Query: 362 MKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIR 421 ++PM L+ +++ + + +STISR KYL G +K FSS V E S +I+ Sbjct: 309 LRPMNLSILSEKISVSKSTISRAIKNKYLKCEWGTILIKELFSS-VGGAKTNEFSKLSIK 367 Query: 422 ALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLS 466 VKKL+ A K +SD +++ +L +GI ++RRTV KYR L Sbjct: 368 ITVKKLLEA---NKKMSDKEISVILKSKGISISRRTVNKYRNELK 409 >UniRef50_Q2EU28 RpoN (Fragment) n=40 Tax=Gammaproteobacteria RepID=Q2EU28_ECOLX Length = 161 Score = 258 bits (659), Expect = 4e-67, Method: Composition-based stats. Identities = 161/161 (100%), Positives = 161/161 (100%) Query: 310 ARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLAD 369 ARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLAD Sbjct: 1 ARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLAD 60 Query: 370 IAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIA 429 IAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIA Sbjct: 61 IAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIA 120 Query: 430 AENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPS 470 AENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPS Sbjct: 121 AENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPS 161 >UniRef50_UPI0001BC42F5 RNA polymerase factor sigma-54 n=2 Tax=Fusobacterium RepID=UPI0001BC42F5 Length = 384 Score = 256 bits (655), Expect = 1e-66, Method: Composition-based stats. Identities = 83/372 (22%), Positives = 165/372 (44%), Gaps = 35/372 (9%) Query: 104 YIDDELPVYQGETTQ-TLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDIL 162 Y E ++ T + +L Q+ R + ++ +G+L ++ Sbjct: 45 YSSTEKSFFENLTEEKDFYTFLEEQLLYINPPKNIRENLIFCIYNLNSSGFLEFSDIELC 104 Query: 163 ESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISD 222 + +G I + E++ + + P+GV A + R+C+ +QL + + +E L Sbjct: 105 KHLG---ISMKELKETYEYLYTLHPIGVGAHNFRECIRLQLQKKKEWNQKMEGILL---- 157 Query: 223 HLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHN 282 HL +A+ + L + + ++ + +N I++ +P P + + ++PD ++ N Sbjct: 158 HLQYIADGNSEKLRKKLGITKEEFQSFLNKIKNCNPIPARGYFIRKNLTIVPDFVLVLEN 217 Query: 283 GHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLR 342 W + N++ L+ + Y++ K L +E R DTL + Sbjct: 218 EVWIAKENTE----LR-DSLYSTQIIETP-------------SIKLLRLCIEKRMDTLKK 259 Query: 343 VSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYF 402 + +VE Q+ +F +GE ++ + +A + +H ST+SR KYL + +GI+ +K Sbjct: 260 IVDYVVEYQKEYF-KGENFLHTLHEKQVAHDLNLHLSTVSRAIQNKYLKTEKGIYSIKSL 318 Query: 403 FSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYR 462 F E I+ +++LI EN KP +D+++ L + + RRT+AKYR Sbjct: 319 FCY--------EEKREKIKMEIERLIKYENYQKPYTDTQIQEELKSKFGKIPRRTIAKYR 370 Query: 463 ESLSIPPSNQRK 474 + L S RK Sbjct: 371 QELGYVSSFYRK 382 >UniRef50_A1BC03 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Paracoccus denitrificans PD1222 RepID=A1BC03_PARDP Length = 396 Score = 246 bits (629), Expect = 1e-63, Method: Composition-based stats. Identities = 79/352 (22%), Positives = 150/352 (42%), Gaps = 32/352 (9%) Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 + L+ Q+ L P IA +V +D+ G L PL +I +G +E +L Sbjct: 75 RAELIAQIGLLPLPADQMRIAQELVHCLDDRGLLADPLAEIAGWLGTTPA---VLEGLLP 131 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 + R +P GV A+D+ +C +QL + PW++ + D LDL+A + + Sbjct: 132 HLHRLEPHGVFARDMSECFRLQLRAKNLLDPWMDR----LLDRLDLVAEGNLSAIAAFLG 187 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQIN 300 + + + I++L P P G P +EL + + L+ Sbjct: 188 TDHEDAGDMIADIRALTPAPLGIPAAGGPPP--------------ELELTAQGV--LKPG 231 Query: 301 QHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 A + + A+ L+ ++E+R TLLR+ ++E Q ++ G Sbjct: 232 PSLALALGDEGDGEARAM-------AQGLVAAVENRMQTLLRIGTALIEIQSSWLL-GHG 283 Query: 361 YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAI 420 +P+ + + ++ + +STISR + +P G L+ +++ + + Sbjct: 284 ARRPLTMTALGTSLGLSKSTISRAVAGVVIRTPAGPVHLRDLLKPPISSHNP-DLDREGV 342 Query: 421 RALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQ 472 + ++I +D++L L+ +GI ++RRTVAKYR L +P Q Sbjct: 343 LQTLSQIIGDWPEGYRCTDARLAEKLAARGIRLSRRTVAKYRLGLGVPRHRQ 394 >UniRef50_C4FUT1 Putative uncharacterized protein n=1 Tax=Catonella morbi ATCC 51271 RepID=C4FUT1_9FIRM Length = 434 Score = 246 bits (629), Expect = 1e-63, Method: Composition-based stats. Identities = 89/446 (19%), Positives = 179/446 (40%), Gaps = 47/446 (10%) Query: 21 QAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSETLDTADALEQKEMPE 80 Q ++L LS +L L+ + NP +E + E Sbjct: 35 QLWQMLGLSAAQLTYFLEDEILENPFIELDYPKTKPQQASVTLQEHSAII---------- 84 Query: 81 ELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAI 140 +D ++P E + L +L Q+ + + R Sbjct: 85 -----------------------GVDPQMP----EAPRNLPMFLFEQIMMYRHT-IIRDA 116 Query: 141 ATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLL 200 ++D ++ GYL +++ + +G E I + Q+ +P G+ A D+R+CL+ Sbjct: 117 MVRLIDLLNPQGYLPYSYQEVAKQLGIEPI---IALDAITLFQQLEPAGIGAYDMRECLM 173 Query: 201 IQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRP 260 +Q Q D P + A ++ ++ D L D++ ++ T L + V+ Q+L P Sbjct: 174 LQTEQ-DAHAPNV--AYYLLEEYFDQLKAEDYQAIVAATGLALADVLACVSYYQTLRTSP 230 Query: 261 GQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIR 320 Q E ++++ DV V + V N+ P+L N+ Y + F + Sbjct: 231 ADLFQVEEEDHLLDDVTVLQDQEGMKVRYNAHYYPKLIFNEPYYQEMLATQEPEVVAFSK 290 Query: 321 SNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHEST 380 L ++L R +L+V++ I Q +F Q + P++L +A+ + E Sbjct: 291 PQKLMYDRLARNLRVREQLILKVAQAIAAVQHDYFSQISDAKVPLLLKQVAEITGLPEPV 350 Query: 381 ISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDS 440 ++ + + K + + + + F + EG S+ I+ ++ +++ + LSD Sbjct: 351 VNLLVSNKNIGFGQYVLPMTDFITVA-TREGRDGFSAEKIKQVIHEILH--DAPADLSDE 407 Query: 441 KLTSLLSEQGIMVARRTVAKYRESLS 466 +L L E+ IM++ V YR++L Sbjct: 408 ELVERLEERKIMISPFMVRNYRQALG 433 >UniRef50_A7TBU8 Predicted protein n=1 Tax=Nematostella vectensis RepID=A7TBU8_NEMVE Length = 410 Score = 238 bits (609), Expect = 2e-61, Method: Composition-based stats. Identities = 72/234 (30%), Positives = 119/234 (50%), Gaps = 11/234 (4%) Query: 221 SDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGE--PEYVIPDVLV 278 + D ++ LM + E+ LKE + I L+P+PG S E ++PD + Sbjct: 175 ENSFDHFVKKHYKKLMEKFAISEEELKEVIQEISKLNPKPGSSYAGNNKVAEQIVPDFNI 234 Query: 279 RKHNGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQ--------FIRSNLQDAKWLI 330 + +G+ + LN+ + P L I++ Y +M + + FI+ L AKW I Sbjct: 235 KIIDGNLDLTLNARNAPELHISKEYNNMLKGYQESKEKSKSQKDAVLFIKQKLDAAKWFI 294 Query: 331 KSLESRNDTLLRVSRCIVEQQQAFFEQG-EEYMKPMVLADIAQAVEMHESTISRVTTQKY 389 ++ R TLL I+ Q +F G E +KPM+L DIA + M ST+SRV KY Sbjct: 295 DAIRQRQQTLLITMNAIMHYQYDYFLTGDERKLKPMILKDIADQIGMDISTVSRVANSKY 354 Query: 390 LHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLT 443 + +P G +K FFS + + G + S+ I+ +++ +I+ E+ KPL+D KL+ Sbjct: 355 VATPYGTKLIKDFFSESMKNDQGEDVSTKEIKKILETVISEEDKRKPLTDDKLS 408 >UniRef50_B9Y4S8 Putative uncharacterized protein n=1 Tax=Holdemania filiformis DSM 12042 RepID=B9Y4S8_9FIRM Length = 417 Score = 233 bits (595), Expect = 1e-59, Method: Composition-based stats. Identities = 84/368 (22%), Positives = 163/368 (44%), Gaps = 32/368 (8%) Query: 107 DELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIG 166 DE+ Q + L+ L+ Q+ + +A I++A+D+ G+ + Sbjct: 76 DEVLFAQAQPEFDLRADLLNQLHTGRWRFR-LDVAEYIIEALDDHGFYD-------PAQP 127 Query: 167 DEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDL 226 +E+ A L +Q+ +P G+ ++ D + QL ++ A I+ + + Sbjct: 128 APGFQPEEIAAALSGVQQLEPFGIGCRNSLDYIRRQLRFRNE-----RMALRILDEGAEE 182 Query: 227 LANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWT 286 L+ TL R RL L++ +N+I+S P + E YV DV + +G ++ Sbjct: 183 LSRGQISTLCRKLRLTATELQDQLNVIRSCQLYPC-QLGPVENTYVQADVRLTLEDGEFS 241 Query: 287 VELNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRC 346 + P++ ++ + S ++ L++A+ + ++ RN T+ V +C Sbjct: 242 II---PLSPQVLLDIPAGPL---------SPQLKQYLKEAQLTLDLIDQRNLTMQLVFQC 289 Query: 347 IVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSH 406 +V +Q+ Q + + L ++A+ +H ST+SR KY I Sbjct: 290 LVRRQRDHLLQ-DAPLAVCRLKEVAEETGLHLSTVSRACAHKYYEFNGRIRPFSDLLCKA 348 Query: 407 VNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLS 466 + + S I +K+ IA E+PA PL D +L +G++++RR +A R+ L+ Sbjct: 349 L-----HQISRDRIETQLKRWIAEEDPAIPLDDEQLALRFQNEGVVLSRRRIADVRKRLN 403 Query: 467 IPPSNQRK 474 IP S QR+ Sbjct: 404 IPNSYQRR 411 >UniRef50_C4L5I1 Sigma-54 DNA-binding domain protein n=1 Tax=Exiguobacterium sp. AT1b RepID=C4L5I1_EXISA Length = 381 Score = 230 bits (587), Expect = 9e-59, Method: Composition-based stats. Identities = 82/364 (22%), Positives = 149/364 (40%), Gaps = 46/364 (12%) Query: 114 GETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDID 173 + + ++ L Q+ S++++A+ +V +D G L E + E +G +D+ Sbjct: 57 ADAASSFEEKLFTQIHEGSGSESEKALRRQLVLLLDHRGLLPEANEVLAERLG---VDVT 113 Query: 174 EVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQ-FDKTTPWLEEARLIISDHLDLLANH-D 231 +VE + + +P G+ ++ R+C Q + P + D + + + Sbjct: 114 QVEQARQTLLFLEPTGIGSRTEREC---QYRHAIEHEDPR-------VVDVFEAIESGVS 163 Query: 232 FRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNS 291 + + + + L ++ +L RP + E +V P++ VR G S Sbjct: 164 PQQMTTALAISNEELARLERIVATLPKRP---LLYEETGHVFPELEVRYEEGTLVTTWLS 220 Query: 292 DSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQ 351 + ++ ++AKW + SL RN+TL + I +Q Sbjct: 221 PELDETRVGND---------------------REAKWWMTSLSMRNETLREIWSVIESRQ 259 Query: 352 QAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEG 411 + QGE + P+ +AQ + HEST+ R K+ + GI E ++FF + Sbjct: 260 TEWL-QGELVLHPLTRRTVAQLIGKHESTVGRAIQGKFAKTESGIMEWRHFFVRSTSR-- 316 Query: 412 GGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSN 471 S I+ + +LI E P SD L + L G V RRTV YRE L S Sbjct: 317 --GHSPFMIKRALAELIQRE--KAPQSDQALANELIRYGYQVTRRTVTNYREELGFGNSR 372 Query: 472 QRKQ 475 +R++ Sbjct: 373 ERER 376 >UniRef50_B4U9T0 Sigma-54 DNA-binding domain protein n=1 Tax=Hydrogenobaculum sp. Y04AAS1 RepID=B4U9T0_HYDS0 Length = 395 Score = 226 bits (576), Expect = 2e-57, Method: Composition-based stats. Identities = 86/398 (21%), Positives = 175/398 (43%), Gaps = 40/398 (10%) Query: 77 EMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDT 136 ++ +EL ++ + +I+ E + + +++L+ + Sbjct: 37 DLEQELKVEEELNPFLKLKVLKPPKKFFINKEDYTQNIAYSYSYKEHLIKAINE-ELEGI 95 Query: 137 DRAIATSIVDAVDETGYLT-VPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDL 195 ++ IA IV ++D +G+++ LEDI G +D D V+ + +P+G A + Sbjct: 96 EKEIAKEIVYSLDSSGFISLETLEDIKNHFG---VDWDIVDDARAFVMEIEPIGHGALNP 152 Query: 196 RDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQS 255 + + +Q+ + K +L L + KEA+ S Sbjct: 153 FEYMELQIRTYYKDKKEY-------IKYLKDLEERK------------KIPKEAMEFFSS 193 Query: 256 LDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARNDGD 315 L P I D+++ G ++ + ++I+Q ++ + + Sbjct: 194 LKKTPI-QIDKTNLLPSKVDIVIEIDQGEILYDIFDNY---VEISQE--NIEESLEDKEL 247 Query: 316 SQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVE 375 ++++ Q A+ ++++ R + +++ +VE+QQ FF + ++ +K ++L D+A Sbjct: 248 ERYLK---QRARRFVEAINLRRKFMKELTKIVVERQQDFFLK-DKPLKSLMLKDVAGEFG 303 Query: 376 MHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAK 435 + ST+SR+ KY+ +P+G+F+L+ FF E S I ++KKLI E Sbjct: 304 ISISTVSRLVNSKYVKTPKGVFKLRSFFVR----ESVSSKSQEEILNMIKKLIQNE--ET 357 Query: 436 PLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQR 473 +D + +L GI ++RRTVAKYR L I S +R Sbjct: 358 VYTDKDIEEILRNYGINISRRTVAKYRAKLGIGSSRKR 395 >UniRef50_B1YLE5 Sigma-54 DNA-binding domain protein n=1 Tax=Exiguobacterium sibiricum 255-15 RepID=B1YLE5_EXIS2 Length = 380 Score = 213 bits (544), Expect = 9e-54, Method: Composition-based stats. Identities = 95/422 (22%), Positives = 173/422 (40%), Gaps = 51/422 (12%) Query: 57 DTRETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPV---YQ 113 + R+ Q + +A L Q + EE + + +Y +G S +P Sbjct: 2 EQRQEQAQRLVMSAAQLYQLTVLEETQAELE-ERLYRIIRRAGRSEHNGRKMIPPDLEQV 60 Query: 114 GETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDID 173 + + + L+ Q+ L R +A ++ +D G L E + + EE Sbjct: 61 ADRIDSFEAELLQQIRLESVRQEIRYMAEQLIMYLDADGLLRTTDERLAVLLDSEE---P 117 Query: 174 EVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFR 233 + + +Q+ +P G+AA+ +C L+ + + + D L L++ Sbjct: 118 MIRQARQLLQQCEPTGIAARSEAECRLLHAIELEDDR---------LMDLLTALSDGQP- 167 Query: 234 TLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDS 293 + D E + Q ++ P + IP+ + + V++ S Sbjct: 168 -----LKAVLDDETERRQMKQKMERLPKTPVLPVSTTMTIPEADISWSDDQ--VQIQWSS 220 Query: 294 IPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQA 353 +P I+ + L +AK + + E R +TL + IVE+Q Sbjct: 221 LP---IDTSWTD-----------------LAEAKPFLSAYERRRNTLRAILDVIVERQIR 260 Query: 354 FFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGG 413 +F +GE +++P+ ++A+ H ST+ R K + + G EL+ FF S + Sbjct: 261 WF-KGELHLEPLTKKEVAKQTGYHPSTVGRAIVHKTIRTIHGTLELENFFVSKTQS---- 315 Query: 414 EASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQR 473 SS I+A + +LI PLSD ++ + L +GI VARRTVAKYR L + S+ Sbjct: 316 GTSSFLIKARIAQLIQE--ATSPLSDQQIVNRLDLEGIRVARRTVAKYRAGLYLTRSDMT 373 Query: 474 KQ 475 K+ Sbjct: 374 KR 375 >UniRef50_C1TNP1 DNA-directed RNA polymerase specialized sigma subunit, sigma24 n=1 Tax=Dethiosulfovibrio peptidovorans DSM 11002 RepID=C1TNP1_9BACT Length = 391 Score = 207 bits (527), Expect = 8e-52, Method: Composition-based stats. Identities = 98/476 (20%), Positives = 187/476 (39%), Gaps = 93/476 (19%) Query: 2 KQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRET 61 L ++ +L P L Q +RLL + EL L NPL E Sbjct: 7 SPRLTQQVRTELLHLPVLIQNLRLLTMPVQELVDTAIGELADNPLYEVNPP--------- 57 Query: 62 QDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQ 121 SW SG D ++ +L+ Sbjct: 58 ------------------------RSWQE-------SGILDDLSEE----------PSLE 76 Query: 122 DYLMWQV-ELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 + L+ Q+ + P + ++ +V +D GYLT E I + + E+ + ++ +L+ Sbjct: 77 ENLIRQMAQCRPLREERDSLPYELVRYLDHRGYLTDTQEAIADQL---ELTAERLDLLLE 133 Query: 181 RIQRF-DPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVT 239 R++ +P G+ A+DL CL +QL + K + I+ +DLL D + M Sbjct: 134 RVRDIVEPPGLFARDLIHCLSLQLIRSGKEES---DGAKILEMAVDLLGKGDPKDAMERL 190 Query: 240 RLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQI 299 A+ + LDP PG+ + VIP++ + V L ++++PR+ + Sbjct: 191 GWSRSRFDRAMEELSHLDPAPGRR---TTAQVVIPELELYPDPDRPAVVL-AENLPRIYM 246 Query: 300 NQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE 359 +D + L +I+S+ RN + L ++ + ++Q+ + E Sbjct: 247 TPL------TWEDDRVTSMKGRGLH----IIQSIARRNASKLSLAIEVAKKQKDYLMSRE 296 Query: 360 EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTA 419 PM + ++A+ + ST+ R+ + + +P G + FS + + + S Sbjct: 297 GAPYPMTMTEMAEKLNRSVSTVQRIASTTWAVTPVGTVPMDRLFSRPLKSR--PDMSVAQ 354 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 +R+ + E K +SDS+L+ + + V RRT+ +R QR++ Sbjct: 355 LRSRI-----EEASRKGMSDSELS-----RNLGVPRRTITWHR---------QRRR 391 >UniRef50_C6S982 RNA polymerase sigma-54 factor n=22 Tax=Neisseria RepID=C6S982_NEIML Length = 283 Score = 175 bits (443), Expect = 5e-42, Method: Composition-based stats. Identities = 83/272 (30%), Positives = 129/272 (47%), Gaps = 38/272 (13%) Query: 5 LQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDS 64 L ++L Q + +LQQ++R+LQ+S +EL++E++ L NPLLE+ DT E D Sbjct: 4 LGIKLKQTQQLNQRLQQSLRVLQMSGIELEREVENWLSDNPLLERKDTDEFSDAEF---- 59 Query: 65 ETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYL 124 + YTA GD +D L GE Q + YL Sbjct: 60 -------------------------SHYTAPARQ-IGGDEGEDMLSNIAGE--QDFKQYL 91 Query: 125 MWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDE-EIDIDEVEAVLKRIQ 183 QV P SD + A ++D +DE GYLT +EDIL+ E +D ++ L +Q Sbjct: 92 HAQVCEHPLSDQESACVHILIDFLDEQGYLTDSIEDILDHTPLEWMLDEAMLKQALTALQ 151 Query: 184 RFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR--- 240 +FDP GVAA DL + L++Q+ + + A I+ + LD + + +TL R+ + Sbjct: 152 KFDPAGVAAADLNESLILQIERLGECA-AKPAALHIVRNALDSIDGNRSQTLARIKKHLP 210 Query: 241 -LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEY 271 L+ A++LI SL+P P + P Sbjct: 211 QTDSGTLEAALDLIASLNPFPAAGFASSTPTP 242 Score = 91.5 bits (226), Expect = 7e-17, Method: Composition-based stats. Identities = 39/123 (31%), Positives = 57/123 (46%), Gaps = 19/123 (15%) Query: 356 EQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPR---GIFELKYFFSSHVNT-EG 411 GE KP L + A++ + S+ + H P+ G E + +N Sbjct: 173 RLGECAAKPAALHIVRNALDSIDGNRSQTLARIKKHLPQTDSGTLEAALDLIASLNPFPA 232 Query: 412 GGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSN 471 G ASST P SD L +LL+ +G+ V+RRT+AKYRESL IP ++ Sbjct: 233 AGFASSTP---------------TPYSDEALANLLAFRGMEVSRRTIAKYRESLEIPAAH 277 Query: 472 QRK 474 +RK Sbjct: 278 KRK 280 >UniRef50_UPI00006DCE7B hypothetical protein CdifQ_04003678 n=1 Tax=Clostridium difficile QCD-32g58 RepID=UPI00006DCE7B Length = 218 Score = 163 bits (414), Expect = 1e-38, Method: Composition-based stats. Identities = 62/245 (25%), Positives = 126/245 (51%), Gaps = 31/245 (12%) Query: 2 KQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRET 61 L+L SQ+L MT QL+Q++ +L +S LEL++E+++ E+NPL+E ++ EI+ E Sbjct: 4 NNSLELTQSQKLIMTTQLKQSLSILNMSKLELEEEIKREAENNPLVE-VEKSGEINWEEY 62 Query: 62 QDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQ 121 + +D + L++ E+ + + + + + + L Sbjct: 63 --IKDMDRSRRLDRTEISYNPDNEVNLENL----------------------VKYSSNLY 98 Query: 122 DYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKR 181 + L +Q+ L +D + + I+D++DE GYL + I++++ +ID + E L Sbjct: 99 EDLKFQISLYKLTDKELEVCEYIIDSLDEDGYLRTEEKVIVDTL---KIDEELFEKCLIS 155 Query: 182 IQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRL 241 +Q+ +P GV A+ L +CL+IQ++ LEE I++ L+L+AN+ ++ + + + Sbjct: 156 VQQLEPSGVGARSLSECLMIQMASLGIYNEILEE---IVTKDLNLIANNKYKEISKKYNM 212 Query: 242 KEDVL 246 + Sbjct: 213 SLQKM 217 >UniRef50_A7HM99 Sigma-54 DNA-binding domain protein n=1 Tax=Fervidobacterium nodosum Rt17-B1 RepID=A7HM99_FERNB Length = 264 Score = 141 bits (356), Expect = 5e-32, Method: Composition-based stats. Identities = 65/322 (20%), Positives = 120/322 (37%), Gaps = 73/322 (22%) Query: 154 LTVPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWL 213 L P+ + E G EI I E+E I DL L + + Sbjct: 2 LEAPIYLLFEKYGQREISI-EIEDSYYPIHE---------DLHQRLEMMIPFLGLEDEDE 51 Query: 214 EEARLIISDHLDLLANHDF--RTLMRVTRLKEDVLKEAVN--------LIQSLDPRPGQS 263 + A +I ++D + + + + + +E ++ I L Sbjct: 52 KIAEYVI-YNIDSKGKLRVSAQEVAQKFGVSVEKAREIIDTIYEAFSDEINQLS------ 104 Query: 264 IQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNL 323 E Y++PDV + Y + D Sbjct: 105 -SEDEENYILPDVAIM---------------------PDYVEVRKIEVKDPV-------- 134 Query: 324 QDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISR 383 ++K++E R +TL ++ + + + F +Y + + +A V +H ST+SR Sbjct: 135 -----VMKAIEMREETLRKICEIVRKINEPFLRGYRKYPHVVTMKYVANLVGLHVSTVSR 189 Query: 384 VTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLT 443 +KY+++P G+ L+ FF +N + + +K+L+ ++ L+D +L Sbjct: 190 AVNRKYVNTPIGVLPLRIFFGRLLNPK--------LVMNEIKELLKIDSK---LTDKQLV 238 Query: 444 SLLSEQGIMVARRTVAKYRESL 465 LL GI ++RRTV KYR L Sbjct: 239 ILLKSLGINISRRTVNKYRNLL 260 Score = 50.6 bits (120), Expect = 1e-04, Method: Composition-based stats. Identities = 25/152 (16%), Positives = 62/152 (40%), Gaps = 17/152 (11%) Query: 108 ELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGD 167 E+ + L L + D D IA ++ +D G L V +++ + G Sbjct: 21 EIEDSYYPIHEDLHQRLEMMIPFLGLEDEDEKIAEYVIYNIDSKGKLRVSAQEVAQKFG- 79 Query: 168 EEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDL- 226 + +++ ++ I A + QLS D+ L + I+ D++++ Sbjct: 80 --VSVEKAREIIDTIYE-------AFSDE---INQLSSEDEENYILPDV-AIMPDYVEVR 126 Query: 227 -LANHDFRTLMRVTRLKEDVLKEAVNLIQSLD 257 + D +M+ ++E+ L++ +++ ++ Sbjct: 127 KIEVKD-PVVMKAIEMREETLRKICEIVRKIN 157 >UniRef50_A8F4Z2 Sigma-54 DNA-binding domain protein n=1 Tax=Thermotoga lettingae TMO RepID=A8F4Z2_THELT Length = 318 Score = 129 bits (325), Expect = 2e-28, Method: Composition-based stats. Identities = 58/236 (24%), Positives = 104/236 (44%), Gaps = 39/236 (16%) Query: 233 RTLMRVTRLKEDVLKEAVNLIQS------LDPRPGQSIQTGEPEYVIPDVLVRKHNGHWT 286 + + + E ++K A++ I+ LD + YV PD+++ + + Sbjct: 103 QEICEKFGVSEQIVKRAIDAIRESGPEGILDGKVAGY--GDASIYVEPDIIIT-EDLSVS 159 Query: 287 VELNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRC 346 V IPR ++ L+ +L ++L R + LL + + Sbjct: 160 VRSFEMKIPR--------------------NATKTQLKIISFLNEALNHRKELLLFLGKT 199 Query: 347 IVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSH 406 ++++ F Y K + DIA + + ST+S+ + KY+ +P IFELK FF H Sbjct: 200 LLKENALFILGKSTYPKKTKMTDIANTMNISISTVSKAISGKYVKTPFRIFELKTFFGRH 259 Query: 407 VNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYR 462 V + + A + K+I K ++D ++T +L+ QGI V+RRTV YR Sbjct: 260 VAGD--------YLTAEIAKIILE--KGKSITDREITIILNSQGIEVSRRTVNNYR 305 Score = 51.0 bits (121), Expect = 1e-04, Method: Composition-based stats. Identities = 23/103 (22%), Positives = 40/103 (38%), Gaps = 7/103 (6%) Query: 92 YTAGTPSGTSGDYIDDELPVYQGET----TQTLQDYLMWQVELTPFSDTDRAIATSIVDA 147 Y + SG S D E ET ++L + +M + D +A I Sbjct: 32 YLQNSFSGVSLDVQIPEKNESFVETVVDYEKSLPEEIMENIIFANLDDETEKVAEYIAYN 91 Query: 148 VDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGV 190 +D G + V +++I E G + V+ + I+ P G+ Sbjct: 92 LDNKGKMLVSVQEICEKFG---VSEQIVKRAIDAIRESGPEGI 131 >UniRef50_D0R1X8 Putative uncharacterized protein n=1 Tax=Lactobacillus johnsonii FI9785 RepID=D0R1X8_LACJF Length = 203 Score = 119 bits (299), Expect = 2e-25, Method: Composition-based stats. Identities = 48/229 (20%), Positives = 93/229 (40%), Gaps = 55/229 (24%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M +Q +L +L ++ +L+Q +R+L + +L +Q+ + NP +E + +E+ Sbjct: 1 MSLKVQEKLVTRLFLSTKLKQNLRILSYNAHDLSIVIQEFAQENPFVELKNPSKELQ--- 57 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 L Q T+ L Sbjct: 58 -----------------------------------------------NLDWIQDNETENL 70 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 D+L+ QV ++ +S+ + + ++ +D GYL LE++ + + E+ A Sbjct: 71 IDHLLSQVRISDWSNKSKRVVIFLIYQLDNDGYLRKSLENLKSKVI---FSLQELNAGKD 127 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLAN 229 ++Q+ DP G+ AKDL +CLL+Q E L+ L++LA+ Sbjct: 128 KLQKLDPAGIGAKDLNECLLLQARDKKDFNSI--EISLLEKHELEVLAD 174 >UniRef50_B5Y8H8 DNA-directed RNA polymerase sigma-54 factor, putative n=1 Tax=Coprothermobacter proteolyticus DSM 5265 RepID=B5Y8H8_COPPD Length = 314 Score = 109 bits (273), Expect = 2e-22, Method: Composition-based stats. Identities = 66/368 (17%), Positives = 135/368 (36%), Gaps = 99/368 (26%) Query: 103 DYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDIL 162 + +++ + QGET D + QV++ F D + IA ++ ++D GYL + L D+ Sbjct: 33 ELVEENISSRQGETID--WDMVEAQVDML-FDDEELNIANELLGSLDHLGYLGIDLSDLA 89 Query: 163 ESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISD 222 + + E +D+V K ++ +P G+ + R+ Sbjct: 90 KQLKVNEEYVDQVRK--KLMREVEPFGLGSVSQRE------------------------- 122 Query: 223 HLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHN 282 F+ L++ L P + PD + + Sbjct: 123 ---------FKQLLKELNLDSRD-------------HPI-DLPEERLRVTTPDFALELVD 159 Query: 283 GHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSL-ESRNDTLL 341 G V +++ Y + N + + + + E R D ++ Sbjct: 160 GKLEV----------NVSEKYEYLIQNTQG----------------IPRMVAEYRKDLIM 193 Query: 342 RVSRCIVEQQQAFFEQGEEYM--KPM--VLADIAQAVEMHESTISRVTTQKYLHSPRGIF 397 R++ +V+ GE+ + KP L AQ + + +ST+SR+ K ++ Sbjct: 194 RLANFLVQH------CGEKILEHKPCFVTLDHAAQELGVSKSTVSRLVRSKAFTFGGRVY 247 Query: 398 ELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLS-EQGIMVARR 456 +++FF V + + ++ + A +D++++ LL +G +RR Sbjct: 248 PVEHFFGRSVK-----GVPQEELMLEIIDILKSMPTA---TDAQVSQLLRLRRGWKFSRR 299 Query: 457 TVAKYRES 464 TV KYR Sbjct: 300 TVNKYRHM 307 >UniRef50_D0R1X9 Putative uncharacterized protein n=2 Tax=Lactobacillus johnsonii RepID=D0R1X9_LACJF Length = 156 Score = 108 bits (271), Expect = 4e-22, Method: Composition-based stats. Identities = 35/156 (22%), Positives = 67/156 (42%), Gaps = 2/156 (1%) Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEP-EYVIPDVLVRKHNGHWTVELNSDSIPRLQI 299 + + A+ IQ+L+P P + GEP +Y+IP + +G + ++P + Sbjct: 1 MNMKKIITALKAIQTLNPAPASEYELGEPTQYLIPGLKFYFEDGKLLISSARSNLPEMIF 60 Query: 300 NQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQ-G 358 + D + +D L ++ R +TLL + + + +Q+ + Sbjct: 61 DDEKFVELQKDSEIKDKDYFIKQKKDFTDLHYAIRQREETLLNLGKFLGRRQEKYLSSLN 120 Query: 359 EEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPR 394 E+ + + L D A + + STISR KY+ PR Sbjct: 121 EQDLVSIKLEDAATELNLAISTISRAIKDKYVEVPR 156 >UniRef50_UPI0001912E87 hypothetical protein Salmonellaentericaenterica_06648 n=2 Tax=Salmonella enterica subsp. enterica serovar Typhi RepID=UPI0001912E87 Length = 123 Score = 106 bits (265), Expect = 2e-21, Method: Composition-based stats. Identities = 66/76 (86%), Positives = 71/76 (93%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALE+NPLLEQ D H+EIDT++ Sbjct: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALENNPLLEQTDLHDEIDTQQ 60 Query: 61 TQDSETLDTADALEQK 76 QD + LDTADALEQK Sbjct: 61 PQDDDPLDTADALEQK 76 >UniRef50_B1CB69 Putative uncharacterized protein n=1 Tax=Anaerofustis stercorihominis DSM 17244 RepID=B1CB69_9FIRM Length = 171 Score = 97.6 bits (242), Expect = 9e-19, Method: Composition-based stats. Identities = 44/195 (22%), Positives = 73/195 (37%), Gaps = 33/195 (16%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M + +SQ ++ ++ +L + +LEL + L + NPLLE + E Sbjct: 10 MDIKQEHNISQVQTLSQAQVMSLNILSMDSLELNEFLYKEYLENPLLE--------NKCE 61 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 TLD I PS D + + Sbjct: 62 NNRDITLD----------------------IKNMDIPSKRQHSKDDIKYLETPNTDEINI 99 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 + Y+++Q+ +S D I ++D +D GY L +I E DI++ VLK Sbjct: 100 KHYILYQLNYDDYSKNDLVIMEFLIDCLDNNGYFNYELTEISEISDYNIGDIEKCINVLK 159 Query: 181 RIQRFDPVGVAAKDL 195 +Q P G+ +KDL Sbjct: 160 NLQ---PYGIFSKDL 171 >UniRef50_B5SFM8 Putative rna polymerase sigma n (Sigma 54) factor protein (Fragment) n=1 Tax=Ralstonia solanacearum IPO1609 RepID=B5SFM8_RALSO Length = 161 Score = 88.8 bits (219), Expect = 4e-16, Method: Composition-based stats. Identities = 47/109 (43%), Positives = 58/109 (53%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 MKQ LQLRLSQ LA+TPQLQQ+IRLLQLST+ELQQE++QAL NPLLE+ + + R Sbjct: 1 MKQSLQLRLSQHLALTPQLQQSIRLLQLSTIELQQEVEQALTENPLLERENEWLDTSARI 60 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDEL 109 D E P A+ S +G D + Sbjct: 61 GADGSVSALQSNSATPPPTESPPPAANGSDHADTAEASYENGSDFDSDF 109 >UniRef50_C5V070 Putative uncharacterized protein n=1 Tax=Gallionella ferruginea ES-2 RepID=C5V070_9PROT Length = 422 Score = 76.4 bits (187), Expect = 2e-12, Method: Composition-based stats. Identities = 37/200 (18%), Positives = 77/200 (38%), Gaps = 32/200 (16%) Query: 291 SDSIPRLQINQHYASMCNNARN--DGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIV 348 + + ++ S+ + + + +R ++ + +RN + + ++ Sbjct: 102 DSYVREYRFDEEGVSLMMSRPDFPAELAGVLRR--------LRLINTRNRLTHALMQAVL 153 Query: 349 EQQQAFFEQGEE-YMKPMVLADIAQAVEMHEST---------ISRVTTQKYLHSPRG-IF 397 Q A+ G+ + PM A+I+ + + ES ISR+ + P G Sbjct: 154 VSQAAYLRSGQALALLPMTQAEISARLRL-ESNLSVVADPGRISRLVRVLSIALPNGETV 212 Query: 398 ELKYFFSSHVNTEGGGEASSTAIRALVKK---LIAAENPAKPLSDSKLTSLLS-EQGIMV 453 + F + + ++K + E +PL+D + ++L E G+ + Sbjct: 213 PMGGLF------PKPRQVHCHFVDHVIKMEKVWMLQEELREPLTDGAIVAILECEYGLRL 266 Query: 454 ARRTVAKYRESLSIPPSNQR 473 RRTVA R L+IP R Sbjct: 267 LRRTVANIRHDLAIPDYRSR 286 >UniRef50_D0R1Y0 Putative uncharacterized protein n=2 Tax=Lactobacillus johnsonii RepID=D0R1Y0_LACJF Length = 71 Score = 74.9 bits (183), Expect = 6e-12, Method: Composition-based stats. Identities = 24/63 (38%), Positives = 36/63 (57%) Query: 413 GEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQ 472 + + ++K I E+P KPLSD KL + E+ I ++RR ++KYR+ L I S Q Sbjct: 8 SNLTQNQLERMLKDFIKLEDPQKPLSDEKLVNKFKEKEISISRRIISKYRKKLGIKNSYQ 67 Query: 473 RKQ 475 R Q Sbjct: 68 RNQ 70 >UniRef50_C6I101 Putative uncharacterized protein n=2 Tax=Leptospirillum ferrodiazotrophum RepID=C6I101_9BACT Length = 387 Score = 65.6 bits (159), Expect = 4e-09, Method: Composition-based stats. Identities = 40/195 (20%), Positives = 78/195 (40%), Gaps = 20/195 (10%) Query: 291 SDSIPRLQIN-----QHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSR 345 + P + + + Y + D + I +L ++ + SRN + R Sbjct: 72 EEGHPEIFWHSPSFAREYRMDDAVIDHMRDHEEIGEDLGRIVRRLRLVNSRNRLTDHIVR 131 Query: 346 CIVEQQQAFFEQGEE-YMKPMVLADIAQAV--------EMHESTISRVTTQKYLHSPRGI 396 I+ Q + E G+ ++P+ +++ + + + ISR+ + L G Sbjct: 132 FILHVQAGYLETGDLLQLRPLSYVRLSEKLPFTPWFPNGIDSTRISRILRRFPLVFSDGT 191 Query: 397 F-ELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSE--QGIMV 453 EL + + I++ K LI + PLSDS++ + + I++ Sbjct: 192 IRELSEL-CPKIRATCCHFV-NDVIKSE-KILIQEGSIQGPLSDSEIARRVEDVFGTIII 248 Query: 454 ARRTVAKYRESLSIP 468 +RRTVA R +L IP Sbjct: 249 SRRTVAHIRRTLGIP 263 >UniRef50_Q92ZL5 Putative uncharacterized protein n=1 Tax=Sinorhizobium meliloti RepID=Q92ZL5_RHIME Length = 155 Score = 57.9 bits (139), Expect = 7e-07, Method: Composition-based stats. Identities = 13/29 (44%), Positives = 21/29 (72%) Query: 439 DSKLTSLLSEQGIMVARRTVAKYRESLSI 467 D + +L + G+ +ARRTVAKYR +++I Sbjct: 4 DDDIVDVLKKTGVDIARRTVAKYRGAMNI 32 >UniRef50_D0GPK3 Transcriptional regulatory protein LevR n=1 Tax=Leptotrichia goodfellowii F0264 RepID=D0GPK3_9FUSO Length = 964 Score = 57.9 bits (139), Expect = 9e-07, Method: Composition-based stats. Identities = 14/52 (26%), Positives = 26/52 (50%), Gaps = 5/52 (9%) Query: 422 ALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQR 473 +++++I E+ PL+D +++ L ++R V K R IP S R Sbjct: 5 EMIEEIIKKEDKKSPLTDEEISEKLG-----ISREIVTKIRNEKEIPNSRDR 51 >UniRef50_Q18CC4 Putative transcription antiterminator n=5 Tax=Clostridium difficile RepID=Q18CC4_CLOD6 Length = 982 Score = 57.9 bits (139), Expect = 9e-07, Method: Composition-based stats. Identities = 19/57 (33%), Positives = 28/57 (49%), Gaps = 5/57 (8%) Query: 421 RALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQLV 477 R +K LI E+ PL+D ++S L + R V R L I S QR+++V Sbjct: 2 RQRIKNLIENEDKKNPLTDEAISSRL-----NIRREDVTFLRNELKIEDSRQRRKVV 53 >UniRef50_UPI0001854675 RNA polymerase factor sigma-54 n=1 Tax=Helicobacter pylori HPKX_438_CA4C1 RepID=UPI0001854675 Length = 71 Score = 57.6 bits (138), Expect = 1e-06, Method: Composition-based stats. Identities = 20/73 (27%), Positives = 35/73 (47%), Gaps = 4/73 (5%) Query: 149 DETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDK 208 + GY +E+ + +G ++ + E V KR +P G+ A+D+++ L QL + Sbjct: 1 NNEGYFEENIEERAKILG---VESEVYEKVRKRFSYLNPAGIGARDVKEGFLFQLESREL 57 Query: 209 T-TPWLEEARLII 220 EE R II Sbjct: 58 DNNKLYEETRKII 70 >UniRef50_B0K7D9 PTS system transcriptional activator n=12 Tax=Clostridia RepID=B0K7D9_THEP3 Length = 979 Score = 54.5 bits (130), Expect = 1e-05, Method: Composition-based stats. Identities = 14/54 (25%), Positives = 29/54 (53%), Gaps = 5/54 (9%) Query: 422 ALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 + ++I E+ PL+D ++ S+L + R V ++R +IP S +R++ Sbjct: 3 DRIFEIIQKEDKKNPLTDDQIASIL-----NIKREDVTQFRLKNNIPDSRERRK 51 >UniRef50_A6LPX9 Sigma-54 factor, interaction domain-containing protein n=1 Tax=Clostridium beijerinckii NCIMB 8052 RepID=A6LPX9_CLOB8 Length = 974 Score = 54.1 bits (129), Expect = 1e-05, Method: Composition-based stats. Identities = 16/55 (29%), Positives = 27/55 (49%), Gaps = 5/55 (9%) Query: 421 RALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 + +LI +E+ P +D +L LS + R V + R L+IP S R++ Sbjct: 1 MQRLIELINSEDKKNPYTDQELAEFLS-----IPRLKVIQKRNELNIPDSRDRRK 50 >UniRef50_A6LQU8 Sigma-54 factor, interaction domain-containing protein n=9 Tax=Clostridium RepID=A6LQU8_CLOB8 Length = 960 Score = 52.9 bits (126), Expect = 2e-05, Method: Composition-based stats. Identities = 16/55 (29%), Positives = 27/55 (49%), Gaps = 5/55 (9%) Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRK 474 + + +I EN PL+D ++ L VAR ++ R+ L+I S QR+ Sbjct: 3 LENKLINIINTENKKNPLTDVQMAKFLG-----VARESITNLRKELNIANSRQRR 52 >UniRef50_A6LWC3 Sigma-54 factor, interaction domain-containing protein n=4 Tax=Clostridia RepID=A6LWC3_CLOB8 Length = 995 Score = 50.6 bits (120), Expect = 1e-04, Method: Composition-based stats. Identities = 16/56 (28%), Positives = 27/56 (48%), Gaps = 5/56 (8%) Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 + + LI E+ KPL+DS + L + R + ++R +I S QRK+ Sbjct: 2 LENKILDLIENEDKRKPLTDSDIAKL-----VNTTREYITQFRTEKNINNSRQRKE 52 >UniRef50_A8ESG9 Putative uncharacterized protein n=1 Tax=Arcobacter butzleri RM4018 RepID=A8ESG9_ARCB4 Length = 365 Score = 50.2 bits (119), Expect = 2e-04, Method: Composition-based stats. Identities = 26/161 (16%), Positives = 59/161 (36%), Gaps = 20/161 (12%) Query: 317 QFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE------EYMKPMVLADI 370 ++ + + + ++ +++TL + + Q+ F + G K + + Sbjct: 81 EYKKEIKNNYHLKLLNINIKHETLFNLITMLFSSQKLFLDTGHYPNINFLDRKVFIETYV 140 Query: 371 AQAVE-MHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIA 429 + + S +S++ + I++L + F S I+ L+ I Sbjct: 141 KEYNSYLDLSVLSKILNNTHYEQDGYIYKLSHLFPKKT------FIYSLYIKILLSTKID 194 Query: 430 AENPAKPLSDSKLTSLLSE-QGIMVARRTVAKYRESLSIPP 469 +N D ++ L E + ++RRTV R IP Sbjct: 195 LKN------DLEIAKQLFEIYNVKISRRTVCDIRNKYLIPN 229 >UniRef50_Q185K2 Putative sigma-54 interacting transcription antiterminator n=9 Tax=Clostridium difficile RepID=Q185K2_CLOD6 Length = 979 Score = 49.8 bits (118), Expect = 2e-04, Method: Composition-based stats. Identities = 14/55 (25%), Positives = 25/55 (45%), Gaps = 5/55 (9%) Query: 421 RALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 + + I E+ P +D +L +L VAR V R+ +I S +R++ Sbjct: 6 MDKILREIQREDKKNPYTDQELAEML-----NVARSEVISVRKKNNILDSRERRK 55 >UniRef50_B8D051 Transcriptional regulator, LacI family n=1 Tax=Halothermothrix orenii H 168 RepID=B8D051_HALOH Length = 338 Score = 47.5 bits (112), Expect = 0.001, Method: Composition-based stats. Identities = 11/25 (44%), Positives = 15/25 (60%) Query: 364 PMVLADIAQAVEMHESTISRVTTQK 388 P+ L DIA+ + EST+SR K Sbjct: 2 PLTLKDIAKIAGVAESTVSRAINNK 26 >UniRef50_B6FWC4 Putative uncharacterized protein n=2 Tax=Clostridium RepID=B6FWC4_9CLOT Length = 985 Score = 46.8 bits (110), Expect = 0.002, Method: Composition-based stats. Identities = 12/55 (21%), Positives = 27/55 (49%), Gaps = 5/55 (9%) Query: 421 RALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 + I E+ P +D +L+ +L ++R + ++R+ +IP S R++ Sbjct: 1 MKKILLEIQNEDKKNPYTDKELSEILG-----ISRGDIVQFRKINNIPNSRDRRK 50 >UniRef50_B4RR56 Putative RNA polymerase sigma-54 factor RpoN n=2 Tax=Neisseria RepID=B4RR56_NEIG2 Length = 78 Score = 45.6 bits (107), Expect = 0.004, Method: Composition-based stats. Identities = 11/35 (31%), Positives = 25/35 (71%) Query: 5 LQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQ 39 + ++L Q + +LQQ++R+LQ+ +EL++E++ Sbjct: 44 IGIKLKQTQQLDQRLQQSLRVLQMPGIELEREVEN 78 >UniRef50_B8IH39 Transcriptional regulator, Crp/Fnr family n=2 Tax=Methylobacterium RepID=B8IH39_METNO Length = 228 Score = 45.2 bits (106), Expect = 0.005, Method: Composition-based stats. Identities = 16/54 (29%), Positives = 25/54 (46%), Gaps = 5/54 (9%) Query: 336 RNDTLLRVSRCIVEQQQAFFEQGEE--YMKPMVLADIAQAVEMHESTISRVTTQ 387 R L RV+ + E ++ GE + PM DIA + + T+SR +Q Sbjct: 150 RRSALERVAAFLAEIER---RSGEAGWFDLPMTRRDIADYLGLTIETVSRAVSQ 200 >UniRef50_Q1WRA6 Transposase ISLasa15, IS3 family n=27 Tax=Firmicutes RepID=Q1WRA6_LACS1 Length = 275 Score = 44.5 bits (104), Expect = 0.010, Method: Composition-based stats. Identities = 16/47 (34%), Positives = 23/47 (48%), Gaps = 2/47 (4%) Query: 423 LVKKLIAA--ENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSI 467 +K LI E K+T+ L + GI ++ RTV KY + L I Sbjct: 29 KIKDLIMEIWEESQHLYGAPKITAKLRKMGIQISERTVGKYMKELKI 75 >UniRef50_B6H298 Pc13g04460 protein n=1 Tax=Penicillium chrysogenum Wisconsin 54-1255 RepID=B6H298_PENCW Length = 505 Score = 44.5 bits (104), Expect = 0.010, Method: Composition-based stats. Identities = 16/62 (25%), Positives = 31/62 (50%), Gaps = 4/62 (6%) Query: 406 HVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESL 465 V + +S+ A+ A +K L L+D ++ ++L ++G V+ RT+ + R L Sbjct: 64 GVKKKMENNSSNEALHARIKNLFFD----VGLTDQEIVTVLHDEGYDVSARTLRRLRHQL 119 Query: 466 SI 467 I Sbjct: 120 GI 121 >UniRef50_B1L9I7 Transcriptional regulator, LacI family n=4 Tax=Thermotoga RepID=B1L9I7_THESQ Length = 344 Score = 43.7 bits (102), Expect = 0.017, Method: Composition-based stats. Identities = 11/27 (40%), Positives = 15/27 (55%) Query: 362 MKPMVLADIAQAVEMHESTISRVTTQK 388 MK L DIA+ + ST+SR + K Sbjct: 1 MKKATLKDIAEYFGVSISTVSRALSGK 27 Searching..................................................done Results from round 3 Score E Sequences producing significant alignments: (bits) Value Sequences used in model and found again: UniRef50_P06223 RNA polymerase sigma-54 factor n=235 Tax=Gammapr... 594 e-168 UniRef50_C9XTZ3 RNA polymerase sigma-54 factor n=6 Tax=Enterobac... 591 e-167 UniRef50_P0A171 RNA polymerase sigma-54 factor n=83 Tax=Gammapro... 571 e-161 UniRef50_P08623 RNA polymerase sigma-54 factor n=31 Tax=Gammapro... 547 e-154 UniRef50_A0Z7G1 DNA-directed RNA polymerase subunit N n=1 Tax=ma... 541 e-152 UniRef50_Q1YU16 DNA-directed RNA polymerase subunit N n=1 Tax=ga... 540 e-152 UniRef50_P24695 RNA polymerase sigma-54 factor n=3 Tax=Acidithio... 530 e-149 UniRef50_P28615 RNA polymerase sigma-54 factor n=83 Tax=Betaprot... 527 e-148 UniRef50_Q2LSN3 RNA polymerase sigma-54 factor n=4 Tax=Deltaprot... 525 e-147 UniRef50_A0LCX7 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=M... 523 e-147 UniRef50_D0LNA6 RNA polymerase, sigma 54 subunit, RpoN n=2 Tax=D... 521 e-146 UniRef50_B3E461 RNA polymerase, sigma 54 subunit, RpoN n=4 Tax=D... 518 e-145 UniRef50_C8R228 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=D... 515 e-144 UniRef50_C8VY02 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=D... 515 e-144 UniRef50_Q6MPK9 RNA polymerase sigma-54 factor n=1 Tax=Bdellovib... 515 e-144 UniRef50_D2UEM7 Probable rna polymerase sigma-54 factor protein ... 515 e-144 UniRef50_A5CYP0 DNA-directed RNA polymerase specialized sigma su... 514 e-144 UniRef50_P77998 RNA polymerase sigma-54 factor n=20 Tax=Xanthomo... 513 e-144 UniRef50_Q5WZ64 RNA polymerase sigma-54 factor (Sigma-L) n=6 Tax... 512 e-144 UniRef50_Q1DDF1 RNA polymerase sigma-54 factor n=4 Tax=Cystobact... 508 e-142 UniRef50_B8DJR2 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=D... 507 e-142 UniRef50_P30333 RNA polymerase sigma-54 factor 2 n=48 Tax=Alphap... 507 e-142 UniRef50_B0K876 RNA polymerase, sigma 54 subunit, RpoN n=9 Tax=T... 506 e-142 UniRef50_C6WT04 RNA polymerase, sigma 54 subunit, RpoN n=3 Tax=B... 506 e-142 UniRef50_B5EEZ6 RNA polymerase, sigma 54 subunit, RpoN n=3 Tax=G... 505 e-141 UniRef50_Q0ATI6 RNA polymerase, sigma 54 subunit, RpoN n=2 Tax=A... 504 e-141 UniRef50_D1RJS1 RNA polymerase sigma-54 factor RpoN n=1 Tax=Legi... 504 e-141 UniRef50_A6TU36 RNA polymerase, sigma 54 subunit, RpoN n=2 Tax=A... 500 e-140 UniRef50_A3VRA5 DNA-directed RNA polymerase subunit N n=1 Tax=Pa... 497 e-139 UniRef50_C0G3T2 RNA polymerase sigma-54 factor n=7 Tax=Alphaprot... 496 e-138 UniRef50_Q0ADR2 RNA polymerase, sigma 54 subunit, RpoN n=3 Tax=B... 495 e-138 UniRef50_C0GFB1 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=D... 495 e-138 UniRef50_B2UH35 RNA polymerase, sigma 54 subunit, RpoN n=39 Tax=... 495 e-138 UniRef50_B3Q2R5 RNA polymerase sigma factor protein (Sigma-54) n... 493 e-138 UniRef50_Q03408 RNA polymerase sigma-54 factor n=8 Tax=Alphaprot... 492 e-137 UniRef50_A9HW09 RNA polymerase sigma-54 factor n=8 Tax=Betaprote... 490 e-137 UniRef50_C5V3W1 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=G... 490 e-137 UniRef50_P22881 RNA polymerase sigma-54 factor n=38 Tax=Rhizobia... 490 e-137 UniRef50_A0LK00 RNA polymerase, sigma 54 subunit, RpoN n=7 Tax=D... 489 e-136 UniRef50_Q6FED3 RNA polymerase sigma-54 factor n=4 Tax=Acinetoba... 488 e-136 UniRef50_A9IMC8 RNA polymerase sigma-54 factor n=3 Tax=Bordetell... 487 e-136 UniRef50_D0STY4 RNA polymerase sigma-54 factor n=1 Tax=Acinetoba... 486 e-136 UniRef50_Q2W084 DNA-directed RNA polymerase specialized sigma su... 484 e-135 UniRef50_Q0BUA8 RNA polymerase sigma-54 factor rpoN n=1 Tax=Gran... 484 e-135 UniRef50_B9XGP4 RNA polymerase, sigma 54 subunit, RpoN n=2 Tax=V... 483 e-135 UniRef50_A3EWH7 RNA polymerase, sigma 54 subunit, RpoN n=2 Tax=L... 483 e-135 UniRef50_Q31GC3 Sigma-54 (RpoN) n=2 Tax=Bacteria RepID=Q31GC3_THICR 483 e-135 UniRef50_C9R8T3 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=A... 483 e-135 UniRef50_UPI0001C42E0E RNA polymerase sigma factor (sigma54) n=1... 483 e-135 UniRef50_UPI00016A2E41 RNA polymerase factor sigma-54 n=1 Tax=Bu... 481 e-134 UniRef50_B2A6Z6 RNA polymerase, sigma 54 subunit, RpoN n=4 Tax=F... 480 e-134 UniRef50_C1A8U9 RNA polymerase sigma factor n=1 Tax=Gemmatimonas... 480 e-134 UniRef50_P33984 RNA polymerase sigma-54 factor n=12 Tax=Alphapro... 479 e-134 UniRef50_Q1Q3A8 Strongly similar to RNA polymerase subunit sigma... 477 e-133 UniRef50_A1K6F2 RNA polymerase sigma-54 factor n=9 Tax=Betaprote... 475 e-132 UniRef50_D0MG37 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=R... 474 e-132 UniRef50_A6CFS8 RNA polymerase subunit sigma-54 n=3 Tax=Planctom... 474 e-132 UniRef50_C0Z6M1 RNA polymerase sigma-54 factor n=1 Tax=Brevibaci... 472 e-131 UniRef50_D2L2L2 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=D... 472 e-131 UniRef50_B6FY84 Putative uncharacterized protein n=1 Tax=Clostri... 468 e-130 UniRef50_D2LIV1 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=R... 466 e-130 UniRef50_C1P7Z1 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=B... 466 e-129 UniRef50_Q3SF03 RNA polymease sigma-54 factor protein n=1 Tax=Th... 465 e-129 UniRef50_A8W0U1 SUF system FeS assembly protein, NifU family n=1... 464 e-129 UniRef50_A9GI22 RNA polymerase sigma-54 factor n=4 Tax=Myxococca... 464 e-129 UniRef50_C4XU56 RNA polymerase sigma factor n=13 Tax=Desulfovibr... 463 e-129 UniRef50_A6G445 Sigma-54 (RpoN) n=1 Tax=Plesiocystis pacifica SI... 462 e-128 UniRef50_A9BWZ4 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=D... 462 e-128 UniRef50_A5G033 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=A... 462 e-128 UniRef50_C1SGY5 RNA polymerase, sigma 54 subunit, RpoN/SigL n=1 ... 458 e-127 UniRef50_B0TGK6 RNA polymerase sigma-54 factor n=1 Tax=Heliobact... 458 e-127 UniRef50_A6NQ00 Putative uncharacterized protein n=1 Tax=Bactero... 458 e-127 UniRef50_B1ZUW1 RNA polymerase, sigma 54 subunit, RpoN n=3 Tax=V... 457 e-127 UniRef50_C6HU23 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=L... 457 e-127 UniRef50_Q4JMT6 Predicted DNA-directed RNA polymerase specialize... 456 e-127 UniRef50_A9BRF9 RNA polymerase, sigma 54 subunit, RpoN n=16 Tax=... 455 e-126 UniRef50_Q7UQ69 RNA polymerase subunit sigma-54 n=2 Tax=Planctom... 455 e-126 UniRef50_A4ISQ1 RNA polymerase sigma-54 factor RpoN n=3 Tax=Baci... 454 e-126 UniRef50_B3E042 DNA-directed RNA polymerase specialized sigma su... 453 e-126 UniRef50_C5D7M8 RNA polymerase, sigma 54 subunit, RpoN n=5 Tax=G... 453 e-126 UniRef50_C7ILW5 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=C... 451 e-125 UniRef50_C9XR96 RNA polymerase sigma-54 factor n=5 Tax=Clostridi... 451 e-125 UniRef50_Q01PW4 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=C... 451 e-125 UniRef50_D1N390 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=V... 450 e-125 UniRef50_A4GID2 DNA-directed RNA polymerase specialized sigma su... 450 e-125 UniRef50_D2R5L0 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=P... 450 e-125 UniRef50_C7IQW3 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=T... 449 e-125 UniRef50_C1F1M0 RNA polymerase sigma-54 factor n=1 Tax=Acidobact... 449 e-124 UniRef50_C5ELZ1 RNA polymerase n=3 Tax=Clostridiales RepID=C5ELZ... 447 e-124 UniRef50_A6CNF4 DNA-directed RNA polymerase subunit N n=1 Tax=Ba... 447 e-124 UniRef50_UPI0001C34EB5 RNA polymerase factor sigma-54 n=1 Tax=Cl... 447 e-124 UniRef50_C6W3I8 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=D... 446 e-124 UniRef50_A0RKT0 RNA polymerase sigma-54 factor n=75 Tax=Bacillus... 445 e-123 UniRef50_D1R8J1 Putative uncharacterized protein n=1 Tax=Parachl... 445 e-123 UniRef50_B5ZLK5 RNA polymerase, sigma 54 subunit, RpoN n=2 Tax=G... 444 e-123 UniRef50_P38944 Putative RNA polymerase sigma-54 factor n=34 Tax... 443 e-123 UniRef50_B6YQD2 RNA polymerase sigma-54 factor n=1 Tax=Candidatu... 442 e-122 UniRef50_Q0G1W5 DNA-directed RNA polymerase subunit N n=1 Tax=Fu... 438 e-121 UniRef50_B3QT08 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=C... 438 e-121 UniRef50_C7PK09 RNA polymerase, sigma 54 subunit, RpoN n=35 Tax=... 437 e-121 UniRef50_UPI00016C46F0 RNA polymerase subunit sigma-54 n=1 Tax=G... 435 e-120 UniRef50_C8N804 RNA polymerase sigma-54 factor n=1 Tax=Cardiobac... 433 e-120 UniRef50_B5YI16 RNA polymerase sigma-54 factor n=1 Tax=Thermodes... 433 e-120 UniRef50_C9KMQ5 RNA polymerase sigma-54 factor n=1 Tax=Mitsuokel... 433 e-119 UniRef50_B8CYG5 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=H... 432 e-119 UniRef50_B0PGS4 Putative uncharacterized protein n=1 Tax=Anaerot... 431 e-119 UniRef50_A5EVL1 RNA polymerase sigma-54 factor n=1 Tax=Dicheloba... 431 e-119 UniRef50_C9BP10 RNA polymerase sigma-54 subunit n=11 Tax=Enteroc... 431 e-119 UniRef50_Q2B706 DNA-directed RNA polymerase subunit N n=1 Tax=Ba... 431 e-119 UniRef50_P24219 RNA polymerase sigma-54 factor n=7 Tax=Bacillus ... 431 e-119 UniRef50_B0RT01 RNA polymerase sigma-54 factor n=10 Tax=Bacteria... 431 e-119 UniRef50_C7R9H7 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=K... 430 e-119 UniRef50_D2UDB4 Probable rna polymerase sigma-54 factor protein ... 429 e-119 UniRef50_A9H5R6 RNA polymerase sigma-54 factor 1 n=3 Tax=Glucona... 428 e-118 UniRef50_C8PV20 RNA polymerase sigma-54 factor n=1 Tax=Enhydroba... 428 e-118 UniRef50_B2RK26 RNA polymerase sigma-54 factor n=2 Tax=Porphyrom... 427 e-118 UniRef50_Q9K710 RNA polymerase sigma factor (Sigma54) n=1 Tax=Ba... 425 e-117 UniRef50_B4SIK0 RNA polymerase, sigma 54 subunit, RpoN n=3 Tax=S... 425 e-117 UniRef50_B8DD95 RNA polymerase sigma-54 factor n=20 Tax=Listeria... 423 e-117 UniRef50_C3J8N1 RNA polymerase sigma-54 factor n=2 Tax=Bacteria ... 423 e-117 UniRef50_Q2S3F8 RNA polymerase sigma-54 factor n=2 Tax=Sphingoba... 423 e-116 UniRef50_Q6M9X4 Putative RNA polymerase sigma-54 factor (Sigma-N... 421 e-116 UniRef50_A1TNE5 RNA polymerase, sigma 54 subunit, RpoN n=2 Tax=A... 421 e-116 UniRef50_B9JZG8 RNA polymerase sigma-54 factor n=1 Tax=Agrobacte... 420 e-116 UniRef50_D2LXG7 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=B... 419 e-115 UniRef50_C5TQ27 RNA polymerase sigma-54 factor n=8 Tax=Neisseria... 418 e-115 UniRef50_B0S8M7 DNA-directed RNA polymerase sigma-54 subunit n=6... 416 e-115 UniRef50_A6DS74 Putative uncharacterized protein n=1 Tax=Lentisp... 416 e-114 UniRef50_Q0EWW0 DNA-directed RNA polymerase subunit N n=1 Tax=Ma... 415 e-114 UniRef50_C6VM89 RNA polymerase factor sigma-54 n=5 Tax=Lactobaci... 411 e-113 UniRef50_Q5WDK1 DNA-directed RNA polymerase sigma-54 factor sigm... 410 e-113 UniRef50_A5WCB6 RNA polymerase, sigma 54 subunit, RpoN n=3 Tax=P... 410 e-113 UniRef50_Q3J1U1 Sigma-54 factor (RpoN2) n=4 Tax=Rhodobacter spha... 409 e-112 UniRef50_D1PTK8 DNA-directed RNA polymerase sigma subunit RpoN n... 407 e-112 UniRef50_A8UBI0 RNA polymerase sigma-54 factor n=28 Tax=Lactobac... 406 e-112 UniRef50_A6L093 RNA polymerase sigma-54 n=31 Tax=Bacteroidales R... 406 e-112 UniRef50_C9LBN7 RNA polymerase sigma-54 factor n=1 Tax=Blautia h... 406 e-112 UniRef50_Q11E47 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=C... 405 e-111 UniRef50_B0P364 Putative uncharacterized protein n=3 Tax=Clostri... 404 e-111 UniRef50_A7B1W8 Putative uncharacterized protein n=1 Tax=Ruminoc... 404 e-111 UniRef50_B1HSZ7 RNA polymerase sigma-54 factor n=2 Tax=Bacillace... 404 e-111 UniRef50_D1W3B9 RNA polymerase sigma-54 factor n=1 Tax=Prevotell... 403 e-111 UniRef50_A3V230 Sigma-54 factor (RpoN2) n=1 Tax=Loktanella vestf... 402 e-110 UniRef50_B3ESG5 Putative uncharacterized protein n=1 Tax=Candida... 400 e-110 UniRef50_B0VJD8 RNA polymerase sigma-54 factor n=1 Tax=Candidatu... 399 e-109 UniRef50_C2ME31 RNA polymerase sigma-54 factor n=1 Tax=Porphyrom... 399 e-109 UniRef50_A4SER6 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=C... 398 e-109 UniRef50_B2UL79 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=A... 398 e-109 UniRef50_D1CE57 RNA polymerase, sigma 54 subunit, RpoN n=2 Tax=B... 396 e-109 UniRef50_C4GJ01 Putative uncharacterized protein n=1 Tax=Kingell... 396 e-109 UniRef50_C8WN98 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=E... 396 e-108 UniRef50_Q01194 RNA polymerase sigma-54 factor n=7 Tax=Rhodobact... 395 e-108 UniRef50_UPI000169A703 RNA polymerase sigma-54 factor n=5 Tax=En... 394 e-108 UniRef50_C9LEP5 RNA polymerase sigma-54 factor n=1 Tax=Prevotell... 391 e-107 UniRef50_C0QWG2 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=B... 391 e-107 UniRef50_B0NX39 Putative uncharacterized protein n=1 Tax=Clostri... 387 e-106 UniRef50_C2ECN0 RNA polymerase factor sigma-54 n=1 Tax=Lactobaci... 383 e-105 UniRef50_C9RQK6 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=F... 382 e-104 UniRef50_B2V793 RNA polymerase, sigma 54 subunit, RpoN n=5 Tax=A... 381 e-104 UniRef50_C6JNV9 RNA polymerase sigma-54 factor n=2 Tax=Fusobacte... 379 e-104 UniRef50_C1QAL1 RNA polymerase, sigma 54 subunit, RpoN/SigL n=1 ... 378 e-103 UniRef50_B5J6Z7 RNA polymerase sigma-54 factor n=3 Tax=Bacteria ... 377 e-103 UniRef50_Q5FPW5 RNA polymerase sigma-54 factor RpoN n=1 Tax=Gluc... 376 e-102 UniRef50_B4S818 RNA polymerase, sigma 54 subunit, RpoN n=10 Tax=... 375 e-102 UniRef50_C8PMB8 RNA polymerase sigma-54 factor n=1 Tax=Treponema... 373 e-102 UniRef50_C3WCT3 RNA polymerase sigma-54 factor rpoN n=1 Tax=Fuso... 372 e-101 UniRef50_D2RMY8 RNA polymerase, sigma 54 subunit, RpoN n=2 Tax=A... 371 e-101 UniRef50_A9B5F2 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=H... 369 e-100 UniRef50_Q3MKN6 RpoN (Fragment) n=2 Tax=Gammaproteobacteria RepI... 367 e-100 UniRef50_B3W836 Sigma 54 transcription factor n=2 Tax=Lactobacil... 366 1e-99 UniRef50_C8WRI0 RNA polymerase, sigma 54 subunit, RpoN n=2 Tax=A... 361 3e-98 UniRef50_Q8ENP0 RNA polymerase sigma-54 factor n=1 Tax=Oceanobac... 354 3e-96 UniRef50_Q1IR37 Sigma-54, RpoN n=1 Tax=Candidatus Koribacter ver... 351 3e-95 UniRef50_C0CQW9 Putative uncharacterized protein n=1 Tax=Blautia... 351 4e-95 UniRef50_C5EQJ4 RNA polymerase n=1 Tax=Clostridiales bacterium 1... 348 3e-94 UniRef50_A8LQ77 RNA polymerase sigma-54 factor n=1 Tax=Dinoroseo... 344 5e-93 UniRef50_UPI000196CE77 hypothetical protein CATMIT_02522 n=1 Tax... 342 2e-92 UniRef50_B6BVF1 RNA polymerase sigma-54 factor n=1 Tax=beta prot... 339 2e-91 UniRef50_C8S196 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=R... 338 3e-91 UniRef50_Q3IW74 Sigma54-2 (RNA polymerase sigma-54 factor) n=5 T... 338 3e-91 UniRef50_B9KSN5 RNA polymerase, sigma 54 subunit, RpoN n=3 Tax=R... 332 2e-89 UniRef50_D1B1S7 RNA polymerase sigma-54 factor, RpoN n=10 Tax=Ca... 329 1e-88 UniRef50_Q73JL4 RNA polymerase sigma-54 factor, putative n=1 Tax... 329 2e-88 UniRef50_C3XKI9 RNA polymerase sigma-54 factor n=2 Tax=Campyloba... 327 7e-88 UniRef50_B9Y8Z2 Putative uncharacterized protein n=1 Tax=Holdema... 324 6e-87 UniRef50_B9L984 RNA polymerase sigma-54 factor n=1 Tax=Nautilia ... 321 3e-86 UniRef50_Q256I9 DNA-directed RNA polymerase sigma 54 n=5 Tax=Chl... 321 4e-86 UniRef50_Q7P6F0 RNA polymerase sigma-54 factor rpoN n=9 Tax=Fuso... 319 1e-85 UniRef50_D0GPK2 RNA polymerase sigma-54 factor n=1 Tax=Leptotric... 319 1e-85 UniRef50_Q30RF5 Sigma-54 (RpoN) n=2 Tax=Campylobacterales RepID=... 318 4e-85 UniRef50_Q7WTR8 RpoN (Fragment) n=2 Tax=Pseudomonas RepID=Q7WTR8... 316 1e-84 UniRef50_C4PNB9 RNA polymerase sigma-54 factor n=8 Tax=Chlamydia... 315 3e-84 UniRef50_C8PAD9 DNA-directed RNA polymerase sigma subunit RpoN n... 313 1e-83 UniRef50_A6DC70 RNA polymerase sigma-54 factor n=1 Tax=Caminibac... 309 1e-82 UniRef50_UPI0001906882 RNA polymerase factor sigma-54 n=2 Tax=Rh... 309 2e-82 UniRef50_UPI000196AFF4 hypothetical protein CATMIT_00324 n=1 Tax... 306 9e-82 UniRef50_UPI0000D54D13 DNA-directed RNA polymerase subunit N n=1... 306 1e-81 UniRef50_Q9ZLC8 RNA polymerase sigma-54 factor n=34 Tax=Campylob... 296 9e-79 UniRef50_A8RDS7 Putative uncharacterized protein n=1 Tax=Eubacte... 294 3e-78 UniRef50_Q5LLX0 RNA polymerase sigma-54 factor n=1 Tax=Ruegeria ... 289 1e-76 UniRef50_O83149 RNA polymerase sigma-54 factor n=2 Tax=Treponema... 289 2e-76 UniRef50_D0D5Z1 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=C... 289 2e-76 UniRef50_C0XEY8 RNA polymerase factor sigma-54 n=2 Tax=Lactobaci... 285 3e-75 UniRef50_B7C885 Putative uncharacterized protein n=1 Tax=Eubacte... 275 3e-72 UniRef50_O66858 RNA polymerase sigma factor RpoN n=1 Tax=Aquifex... 267 5e-70 UniRef50_Q7M8V1 RNA POLYMERASE SIGMA-54 FACTOR n=1 Tax=Wolinella... 266 1e-69 UniRef50_B1CB68 Putative uncharacterized protein n=1 Tax=Anaerof... 265 2e-69 UniRef50_UPI0001BC42F5 RNA polymerase factor sigma-54 n=2 Tax=Fu... 264 5e-69 UniRef50_B7J217 RNA polymerase sigma-54 factor n=19 Tax=Borrelia... 261 4e-68 UniRef50_A8UUG6 RNA polymerase sigma factor RpoN n=1 Tax=Hydroge... 258 4e-67 UniRef50_C4FUT1 Putative uncharacterized protein n=1 Tax=Catonel... 257 5e-67 UniRef50_A1BC03 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=P... 243 1e-62 UniRef50_Q2EU28 RpoN (Fragment) n=40 Tax=Gammaproteobacteria Rep... 238 4e-61 UniRef50_B9Y4S8 Putative uncharacterized protein n=1 Tax=Holdema... 236 1e-60 UniRef50_C5CDZ9 Sigma-54 DNA-binding domain protein n=1 Tax=Kosm... 234 6e-60 UniRef50_A7TBU8 Predicted protein n=1 Tax=Nematostella vectensis... 232 3e-59 UniRef50_B4U9T0 Sigma-54 DNA-binding domain protein n=1 Tax=Hydr... 225 4e-57 UniRef50_C4L5I1 Sigma-54 DNA-binding domain protein n=1 Tax=Exig... 219 2e-55 UniRef50_C1TNP1 DNA-directed RNA polymerase specialized sigma su... 215 2e-54 UniRef50_B1YLE5 Sigma-54 DNA-binding domain protein n=1 Tax=Exig... 207 7e-52 UniRef50_C6S982 RNA polymerase sigma-54 factor n=22 Tax=Neisseri... 180 9e-44 UniRef50_UPI00006DCE7B hypothetical protein CdifQ_04003678 n=1 T... 171 4e-41 UniRef50_A7HM99 Sigma-54 DNA-binding domain protein n=1 Tax=Ferv... 160 1e-37 UniRef50_A8F4Z2 Sigma-54 DNA-binding domain protein n=1 Tax=Ther... 133 1e-29 UniRef50_B5Y8H8 DNA-directed RNA polymerase sigma-54 factor, put... 130 1e-28 UniRef50_D0R1X8 Putative uncharacterized protein n=1 Tax=Lactoba... 122 3e-26 UniRef50_D0R1X9 Putative uncharacterized protein n=2 Tax=Lactoba... 114 1e-23 UniRef50_B1CB69 Putative uncharacterized protein n=1 Tax=Anaerof... 108 7e-22 UniRef50_UPI0001912E87 hypothetical protein Salmonellaentericaen... 102 4e-20 UniRef50_C6I101 Putative uncharacterized protein n=2 Tax=Leptosp... 100 3e-19 UniRef50_C5V070 Putative uncharacterized protein n=1 Tax=Gallion... 97 1e-18 UniRef50_B5SFM8 Putative rna polymerase sigma n (Sigma 54) facto... 94 9e-18 UniRef50_A8ESG9 Putative uncharacterized protein n=1 Tax=Arcobac... 87 1e-15 UniRef50_D0R1Y0 Putative uncharacterized protein n=2 Tax=Lactoba... 70 2e-10 UniRef50_B0K7D9 PTS system transcriptional activator n=12 Tax=Cl... 64 8e-09 UniRef50_Q18CC4 Putative transcription antiterminator n=5 Tax=Cl... 64 8e-09 UniRef50_A6LPX9 Sigma-54 factor, interaction domain-containing p... 62 6e-08 UniRef50_D0GPK3 Transcriptional regulatory protein LevR n=1 Tax=... 61 8e-08 UniRef50_A6LQU8 Sigma-54 factor, interaction domain-containing p... 60 2e-07 UniRef50_A6LWC3 Sigma-54 factor, interaction domain-containing p... 60 2e-07 UniRef50_UPI0001854675 RNA polymerase factor sigma-54 n=1 Tax=He... 59 3e-07 UniRef50_Q185K2 Putative sigma-54 interacting transcription anti... 58 1e-06 UniRef50_B6FWC4 Putative uncharacterized protein n=2 Tax=Clostri... 57 1e-06 UniRef50_Q92ZL5 Putative uncharacterized protein n=1 Tax=Sinorhi... 54 1e-05 Sequences not found previously or not previously below threshold: UniRef50_B4RR56 Putative RNA polymerase sigma-54 factor RpoN n=2... 46 0.003 UniRef50_B3N145 GF15945 n=1 Tax=Drosophila ananassae RepID=B3N14... 46 0.004 UniRef50_Q16925 Transposase n=3 Tax=Anopheles albimanus RepID=Q1... 43 0.018 UniRef50_B1ZRE2 Glycosyl hydrolase family 88 n=1 Tax=Opitutus te... 43 0.019 UniRef50_B8D051 Transcriptional regulator, LacI family n=1 Tax=H... 43 0.023 UniRef50_UPI0001854ADA RNA polymerase factor sigma-54 n=1 Tax=He... 42 0.044 CONVERGED! >UniRef50_P06223 RNA polymerase sigma-54 factor n=235 Tax=Gammaproteobacteria RepID=RP54_KLEOX Length = 477 Score = 594 bits (1532), Expect = e-168, Method: Composition-based stats. Identities = 424/477 (88%), Positives = 454/477 (95%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQAL+SNPLLEQ D H+E++T+E Sbjct: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALDSNPLLEQTDLHDEVETKE 60 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 +D E+LDT DALEQKEMPEELPLDASWD IYTAGTPSG DY DDELPVYQGETTQ+L Sbjct: 61 AEDRESLDTVDALEQKEMPEELPLDASWDEIYTAGTPSGNGVDYQDDELPVYQGETTQSL 120 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 QDYLMWQVELTPF+DTDRAIATSIVDAVD+TGYLT+ +EDI+ESIGD+EI ++EVEAVLK Sbjct: 121 QDYLMWQVELTPFTDTDRAIATSIVDAVDDTGYLTISVEDIVESIGDDEIGLEEVEAVLK 180 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 RIQRFDPVGVAAKDLRDCLL+QLSQF K TPW+EEARLIISDHLDLLANHDFR+LMRVTR Sbjct: 181 RIQRFDPVGVAAKDLRDCLLVQLSQFAKETPWIEEARLIISDHLDLLANHDFRSLMRVTR 240 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQIN 300 LKE+VLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRK N W VELNSDS+PRL+IN Sbjct: 241 LKEEVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKVNDRWVVELNSDSLPRLKIN 300 Query: 301 QHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 Q YA+M N+ RND D QFIRSNLQ+A+WLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE Sbjct: 301 QQYAAMGNSTRNDADGQFIRSNLQEARWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 Query: 361 YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAI 420 +MKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAI Sbjct: 361 FMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAI 420 Query: 421 RALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQLV 477 RALVKKLIAAENPAKPLSDSKLT++LS+QGIMVARRTVAKYRESLSIPPSNQRKQLV Sbjct: 421 RALVKKLIAAENPAKPLSDSKLTTMLSDQGIMVARRTVAKYRESLSIPPSNQRKQLV 477 >UniRef50_C9XTZ3 RNA polymerase sigma-54 factor n=6 Tax=Enterobacteriaceae RepID=C9XTZ3_CROTZ Length = 479 Score = 591 bits (1523), Expect = e-167, Method: Composition-based stats. Identities = 425/479 (88%), Positives = 455/479 (94%), Gaps = 2/479 (0%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQ D H+EI T+E Sbjct: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQTDIHDEIATQE 60 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 TQDSE LDTA+ALEQKEMP+ELPLDASWD IYTAGTPSGT DYIDDELPVYQGETTQ+L Sbjct: 61 TQDSEGLDTAEALEQKEMPDELPLDASWDEIYTAGTPSGTGTDYIDDELPVYQGETTQSL 120 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEE--IDIDEVEAV 178 QDYLMWQV+LTPF+DTDRAIAT+IVDAVD+TGYLTV ++DIL+ +GD + I +E+EAV Sbjct: 121 QDYLMWQVQLTPFTDTDRAIATAIVDAVDDTGYLTVTVQDILDGMGDNDDDIGPEEIEAV 180 Query: 179 LKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRV 238 LKR+QRFDPVGVAA+DLRDCLLIQLSQF TP+L +AR I+SDHLDLLANHDFR+LMRV Sbjct: 181 LKRVQRFDPVGVAARDLRDCLLIQLSQFSAETPFLAQARQIVSDHLDLLANHDFRSLMRV 240 Query: 239 TRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQ 298 TRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNG WTVELN+DSIPRL+ Sbjct: 241 TRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGRWTVELNADSIPRLK 300 Query: 299 INQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQG 358 INQ YA+M +ARN+ DSQFIRSNLQ+AKWLIKSLESRNDTLLRVSRCIVEQQQAFF+QG Sbjct: 301 INQQYAAMSGSARNESDSQFIRSNLQEAKWLIKSLESRNDTLLRVSRCIVEQQQAFFDQG 360 Query: 359 EEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASST 418 EEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASST Sbjct: 361 EEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASST 420 Query: 419 AIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQLV 477 AIRALVKKLIAAENPAKPLSDSKLTS+LSEQGIMVARRTVAKYRESLSIPPSNQRKQLV Sbjct: 421 AIRALVKKLIAAENPAKPLSDSKLTSMLSEQGIMVARRTVAKYRESLSIPPSNQRKQLV 479 >UniRef50_P0A171 RNA polymerase sigma-54 factor n=83 Tax=Gammaproteobacteria RepID=RP54_PSEPK Length = 497 Score = 571 bits (1471), Expect = e-161, Method: Composition-based stats. Identities = 263/498 (52%), Positives = 356/498 (71%), Gaps = 22/498 (4%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEE----- 55 MK L L++ QQL MTPQLQQAIRLLQLSTL+LQQE+Q+ALESNP+LE+ + E+ Sbjct: 1 MKPSLVLKMGQQLTMTPQLQQAIRLLQLSTLDLQQEIQEALESNPMLERQEDGEDFDNSD 60 Query: 56 -----------IDTRETQDSETLDTADALEQKE----MPEELPLDASWDTIYTAGTPSGT 100 + ++ E+ +AD LE E +P ELP+D +W+ IY S Sbjct: 61 PMADNAENKPAAEVQDNSFQESTVSADNLEDGEWSERIPNELPVDTAWEDIYQTSASSLP 120 Query: 101 SGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLED 160 S D + + + ++LQ +L+WQ+ L P SDTDR IA +++D+++ GYL LE+ Sbjct: 121 SNDDDEWD-FTTRTSAGESLQSHLLWQLNLAPMSDTDRLIAVTLIDSINGQGYLEDTLEE 179 Query: 161 ILESIGDE-EIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLI 219 I E +I++DEVEAVL RIQ+F+P GV A++L +CLL+QL Q TTPW+ EA+ + Sbjct: 180 ICAGFDPELDIELDEVEAVLHRIQQFEPAGVGARNLGECLLLQLRQLPATTPWMTEAKRL 239 Query: 220 ISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVR 279 ++D +DLL + D+ LMR ++KED L++ + L+QSL+PRPG I++ EPEYV+PDV+VR Sbjct: 240 VTDFIDLLGSRDYSQLMRRMKIKEDELRQVIELVQSLNPRPGSQIESSEPEYVVPDVIVR 299 Query: 280 KHNGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDT 339 K + W VELN ++IPRL++N YA A D+ F+R+ LQ+A+W IKSL+SRN+T Sbjct: 300 KDSDRWLVELNQEAIPRLRVNPQYAGFVRRADTSADNTFMRNQLQEARWFIKSLQSRNET 359 Query: 340 LLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFEL 399 L++V+ IVE Q+ F + G+E MKP+VL DIA+AV MHESTISRVTTQKY+H+PRGI+EL Sbjct: 360 LMKVATQIVEHQRGFLDHGDEAMKPLVLHDIAEAVGMHESTISRVTTQKYMHTPRGIYEL 419 Query: 400 KYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVA 459 KYFFSSHV+T GGE SSTAIRA++KKL+AAEN KPLSDSK+ LL QGI VARRTVA Sbjct: 420 KYFFSSHVSTSEGGECSSTAIRAIIKKLVAAENQKKPLSDSKIAGLLEAQGIQVARRTVA 479 Query: 460 KYRESLSIPPSNQRKQLV 477 KYRESL I PS++RK+L+ Sbjct: 480 KYRESLGIAPSSERKRLM 497 >UniRef50_P08623 RNA polymerase sigma-54 factor n=31 Tax=Gammaproteobacteria RepID=RP54_AZOVI Length = 502 Score = 547 bits (1409), Expect = e-154, Method: Composition-based stats. Identities = 272/503 (54%), Positives = 358/503 (71%), Gaps = 27/503 (5%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 MK L L++ QQL MTPQLQQAIRLLQLSTL+LQQE+Q+AL+SNP+LE+ + E+ D+ + Sbjct: 1 MKPSLVLKMGQQLTMTPQLQQAIRLLQLSTLDLQQEIQEALDSNPMLERQEDAEDYDSPD 60 Query: 61 -------------------------TQDSETLDTADALEQKEMPEELPLDASWDTIYTAG 95 + + + +P ELP+D +W+ IY Sbjct: 61 MLGEHGDQSTLDTTPGSYQEGYESGAASEDGGTLEEGDWHERIPSELPVDTAWEDIYQTS 120 Query: 96 TPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLT 155 + S D + + + T ++LQ +L+WQ+ LTP SDTDR IA +++D+++ GYL Sbjct: 121 ASNLPSTDEDEWD-FTTRTSTGESLQSHLLWQLNLTPMSDTDRLIAVTLIDSINSDGYLE 179 Query: 156 VPLEDILESIGDE-EIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLE 214 LE+IL S+ E +++DEVE VL+RIQ+F+P G+AA+DL + LL+QL Q TPWLE Sbjct: 180 AALEEILASLDPELGVELDEVEMVLRRIQQFEPAGIAARDLSESLLLQLRQLPPDTPWLE 239 Query: 215 EARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIP 274 EA+ + D+LDLL N DF LMR +LKE+ L+ + LIQSL+PRPG I++ EPEYV+P Sbjct: 240 EAKRLAKDYLDLLGNRDFTQLMRRMKLKEEELRPVIELIQSLNPRPGAQIESSEPEYVVP 299 Query: 275 DVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLE 334 DV+VRKHN W VELN +++PRL+IN HYA A D+ F+R+ LQ+A+W IKSL+ Sbjct: 300 DVIVRKHNDRWLVELNQEAVPRLRINPHYAGFIRRADASADNTFMRNQLQEARWFIKSLQ 359 Query: 335 SRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPR 394 SRN+TL++VS IVE Q+ F + GEE MKP+VL DIA+AV MHESTISRVTTQKY+H+PR Sbjct: 360 SRNETLMKVSTQIVEHQRGFLDYGEEAMKPLVLHDIAEAVGMHESTISRVTTQKYMHTPR 419 Query: 395 GIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVA 454 GI+ELKYFFSSHV+T GGE SSTAIRA++KKLIAAENP KPLSDSK+ LL EQGI VA Sbjct: 420 GIYELKYFFSSHVSTAEGGECSSTAIRAIIKKLIAAENPKKPLSDSKIAGLLEEQGIQVA 479 Query: 455 RRTVAKYRESLSIPPSNQRKQLV 477 RRTVAKYRESLSI PS++RK+L+ Sbjct: 480 RRTVAKYRESLSIAPSSERKRLM 502 >UniRef50_A0Z7G1 DNA-directed RNA polymerase subunit N n=1 Tax=marine gamma proteobacterium HTCC2080 RepID=A0Z7G1_9GAMM Length = 475 Score = 541 bits (1395), Expect = e-152, Method: Composition-based stats. Identities = 245/477 (51%), Positives = 330/477 (69%), Gaps = 2/477 (0%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 MKQ LQL++ Q LA+TPQLQQAI+LLQLSTL+LQQ +++ LESNPLLE+ + + + + Sbjct: 1 MKQSLQLKMGQSLALTPQLQQAIKLLQLSTLDLQQAIEETLESNPLLEREEDGDSHEETQ 60 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 + S+ +D + + +ELP+D W+ + + P +S D + E +TL Sbjct: 61 SSQSD-VDFTTPVAEPNSADELPVDTRWEDLMPSSAPPPSSPDGEMGQFADRDAE-PETL 118 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 D L WQ+ LT FS TD IAT+ +DAVD G LT E+IL+++ D EI++DEV AVL Sbjct: 119 HDQLHWQLNLTRFSVTDHMIATAFIDAVDANGRLTQTPEEILDALRDPEIELDEVLAVLH 178 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 R+Q F+P G+ A DLR+CLL+QL Q D+ P A I + HL+ +A D R L R R Sbjct: 179 RLQHFEPTGIFASDLRECLLLQLRQMDEEVPHRNTAGAIANRHLESIATADPRQLSRRLR 238 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQIN 300 + + A+NLI+SLDP PG S+ EY+IPDV V + NGHW VELN D P+L+IN Sbjct: 239 TTPEDVIGALNLIRSLDPTPGTSVGESTTEYIIPDVFVLRKNGHWRVELNPDIAPKLRIN 298 Query: 301 QHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 Y+ + + D ++R NLQ+AK+ + SL +RN+TLL+V+ IVE Q+ F E GEE Sbjct: 299 ALYSELVGQTGSASDKSYVRENLQEAKFFMTSLHNRNETLLKVASKIVEHQREFLELGEE 358 Query: 361 YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAI 420 MKP++LADIAQ + MHEST+SR TT+KY+H+PRGI+ELK+FFSSHV T GGE SSTAI Sbjct: 359 AMKPLILADIAQQIGMHESTVSRATTRKYMHTPRGIYELKFFFSSHVATIEGGERSSTAI 418 Query: 421 RALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQLV 477 +AL+KKL+ EN KPLSD+KL LL EQGI+VARRTVAKYRE L+IPPSN+R++L+ Sbjct: 419 KALIKKLVQGENTKKPLSDNKLGVLLEEQGIIVARRTVAKYREQLNIPPSNERRRLL 475 >UniRef50_Q1YU16 DNA-directed RNA polymerase subunit N n=1 Tax=gamma proteobacterium HTCC2207 RepID=Q1YU16_9GAMM Length = 490 Score = 540 bits (1392), Expect = e-152, Method: Composition-based stats. Identities = 235/492 (47%), Positives = 338/492 (68%), Gaps = 18/492 (3%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M+QGLQL++SQQL MTPQLQQAIRLLQLSTL+L+QE+ + L SNPLLE + E ++ Sbjct: 1 MRQGLQLKISQQLTMTPQLQQAIRLLQLSTLDLRQEMIEQLYSNPLLEMDEDIPESPGQD 60 Query: 61 TQ------------DSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDE 108 + + + E+P+++P+DA+WD +Y+ T + +S + Sbjct: 61 ADPTTSESNQVAEAERNSEQNPEYEWNDEIPKDVPVDANWDDVYSPPTTAASSSGGEVNL 120 Query: 109 LPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDE 168 V+Q T++ Q +L WQ+ LTPFSD DR IA++ +D++D +G++ L DI I + Sbjct: 121 EQVFQV--TESFQGHLEWQLNLTPFSDRDREIASAFIDSIDSSGFIAAELSDITAHIHYD 178 Query: 169 EID----IDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHL 224 +I+ DE+ AVL R+Q+FDP GV A+ + +CL IQL+Q T +L+ A+ ++ L Sbjct: 179 DIEDQLHEDELVAVLHRLQQFDPPGVFARSISECLTIQLNQLSPETQYLQSAKHLVDGFL 238 Query: 225 DLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGH 284 +A+ D L + T L+ + L+ A+ L++ L+PRPG+S+ + + EY++PD V K G Sbjct: 239 QDIASVDSARLAKKTGLEINELQGALQLVRGLNPRPGESLSSNDVEYIVPDAYVEKIKGR 298 Query: 285 WTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVS 344 W V+LN ++PRL+IN Y+S+ + + +QF++ NL +A+W ++S+ESRN+TL+RV+ Sbjct: 299 WRVKLNDSNMPRLRINDSYSSLIKRSDSSDQNQFLKDNLAEARWFLRSIESRNETLMRVA 358 Query: 345 RCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFS 404 IVE Q+ F + G MKPMVL+DIA +E+HESTISRVTT KYL +P+GIFELKYFFS Sbjct: 359 MTIVELQRGFLDHGPVAMKPMVLSDIASKLELHESTISRVTTSKYLATPQGIFELKYFFS 418 Query: 405 SHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRES 464 SHV+T GGGE SSTA+ A++K+LI AE P KPLSDSKLTS+L +QGI VARRTVAKYRES Sbjct: 419 SHVSTAGGGECSSTAVCAILKELIGAEQPEKPLSDSKLTSMLEQQGIQVARRTVAKYRES 478 Query: 465 LSIPPSNQRKQL 476 L IP S+QRK+ Sbjct: 479 LGIPSSSQRKRF 490 >UniRef50_P24695 RNA polymerase sigma-54 factor n=3 Tax=Acidithiobacillus ferrooxidans RepID=RP54_THIFE Length = 475 Score = 530 bits (1366), Expect = e-149, Method: Composition-based stats. Identities = 231/480 (48%), Positives = 322/480 (67%), Gaps = 9/480 (1%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 MKQGL+L+L Q LAMTPQLQQAIRLLQLST++LQQE+Q LESNPLL++ E Sbjct: 1 MKQGLELKLGQHLAMTPQLQQAIRLLQLSTVDLQQEVQGMLESNPLLDEETGDEGGGGPI 60 Query: 61 TQDSETLDTA---DALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETT 117 + E D + +P+ELP+D+ WD I+ GT +G D + T Sbjct: 61 PETVELPSEERQLDLAAENILPDELPVDSQWDDIFDMGTSGSGNGSDEDLPDFESRNSRT 120 Query: 118 QTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEA 177 Q+LQDYL WQ ++T F+ +R +A I+DA+DE GYL LED+ ++ + D + A Sbjct: 121 QSLQDYLRWQADMTHFTADERNMAELIIDAIDERGYLADSLEDLAATMN---VQEDALLA 177 Query: 178 VLKRIQRFDPVGVAAKDLRDCLLIQLSQF-DKTTPWLEEARLIISDHLDLLANHDFRTLM 236 VL R+Q FDP GV A++L +CLL+QL Q +K + A+ I+ DHL L HD+ L Sbjct: 178 VLLRVQDFDPPGVGARNLSECLLLQLKQMVEKDDAHVLLAQRIVKDHLQALGRHDYPRLC 237 Query: 237 RVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPR 296 V + E L+ A+ LI +L+P+PG+ + T EYVIPDV+VR +LN +++P+ Sbjct: 238 TVLGVDEAALRAAMALISALNPKPGEDVGTESTEYVIPDVIVRWAGSRLRTDLNPEAMPK 297 Query: 297 LQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFE 356 L+IN+HYA M D ++I+ L +A+W IKSL+SR DT+L+V+R IVE+Q+ FF Sbjct: 298 LRINRHYADM--AGGKDAAHKYIQDQLNEARWFIKSLQSRQDTILKVARAIVERQKDFFA 355 Query: 357 QGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEAS 416 G E M+PMVL IA AVEMHEST+SRVT QKY+ +PRG++E KYFFSSHV T+ GG AS Sbjct: 356 NGPESMRPMVLRHIADAVEMHESTVSRVTNQKYMITPRGLYEFKYFFSSHVGTDSGGSAS 415 Query: 417 STAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 +TAIRAL+ K+ AE+ PLSD+++ +L++QGI +ARRTVAKYRE+ ++PP++QR++L Sbjct: 416 ATAIRALLIKMTQAEDAQHPLSDAEIARVLADQGIQIARRTVAKYREAANVPPASQRRRL 475 >UniRef50_P28615 RNA polymerase sigma-54 factor n=83 Tax=Betaproteobacteria RepID=RP54_RALEH Length = 493 Score = 527 bits (1359), Expect = e-148, Method: Composition-based stats. Identities = 222/495 (44%), Positives = 306/495 (61%), Gaps = 21/495 (4%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 MK LQLRLSQ LA+TPQLQQ+IRLLQLSTLELQQE++QAL NPLLE+ + E R Sbjct: 1 MKPSLQLRLSQHLALTPQLQQSIRLLQLSTLELQQEVEQALTENPLLERENDWIESPLRV 60 Query: 61 TQDSE------------------TLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSG 102 D A + + D + ++ + Sbjct: 61 AADGSVNLQSAPAPAPAEPQGNGEARADGAADDDSYGDSGNGDDYGSSDWSLDDFARRPQ 120 Query: 103 DYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDIL 162 D++ P+ E TL++YLM Q+ S D+ +A +++++D+ GYL+ LE+I Sbjct: 121 GDEDEKTPMQLREAEPTLREYLMEQLTPLKISARDKGLAIFLIESLDDDGYLSASLEEIC 180 Query: 163 -ESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIIS 221 E + E +I+EV A+L +Q FDP GV A++ +CL +QL + P E A I++ Sbjct: 181 TELPEELEFEIEEVHAILTLLQSFDPPGVGARNAAECLALQLRRLTH--PQRELALNIVT 238 Query: 222 DHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKH 281 +HL+LLA D+ L + ++ E LK A LI+SL P PG + E ++V+PDV VRK Sbjct: 239 NHLELLAVRDYTRLKKALQVDEAALKSAHELIRSLAPYPGHAYSRPEADFVVPDVFVRKG 298 Query: 282 NGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLL 341 G W +LN D +PRL+IN YA + A+ + + ++ LQ+A+WLIK+++ R D +L Sbjct: 299 GGGWIAQLNPDVMPRLRINDMYAQILRGAKGESGTAGLQQKLQEARWLIKNIQQRFDKIL 358 Query: 342 RVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKY 401 RVS+ IVE+Q+ FF GE M+P+VL +IA + +HESTISRVTT KY+ +P G FELKY Sbjct: 359 RVSQAIVERQKNFFSHGEIAMRPLVLREIADTLGLHESTISRVTTNKYMATPMGTFELKY 418 Query: 402 FFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKY 461 FF SHV+TE GG ASSTAIRAL+K+LI AE+P PLSDS++ LL EQG +VARRTVAKY Sbjct: 419 FFGSHVSTETGGAASSTAIRALIKQLIGAEDPRNPLSDSRIAELLGEQGFVVARRTVAKY 478 Query: 462 RESLSIPPSNQRKQL 476 RE+L IP N RK L Sbjct: 479 REALKIPAVNLRKSL 493 >UniRef50_Q2LSN3 RNA polymerase sigma-54 factor n=4 Tax=Deltaproteobacteria RepID=Q2LSN3_SYNAS Length = 487 Score = 525 bits (1352), Expect = e-147, Method: Composition-based stats. Identities = 187/490 (38%), Positives = 288/490 (58%), Gaps = 20/490 (4%) Query: 2 KQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRET 61 + L+LSQQL MTPQLQQAI+LLQLS +E+ + Q +E NPLLE E +T Sbjct: 4 ELKQNLKLSQQLIMTPQLQQAIKLLQLSRMEMIDVINQEMEENPLLEDAPADEYDETERN 63 Query: 62 --------QDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQ 113 + E L + E+ + + W++ GT+ D D E P + Sbjct: 64 HGSEEGKTPEREELRGIERTEEITGEGDGKEEFDWNSYLEDYGTFGTTYDRSDGEAPNWD 123 Query: 114 GETTQ--TLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEID 171 T+ TL D+LMWQ++L+ ++ + + I+ +D GYL +E+I G E + Sbjct: 124 NVLTEKSTLTDHLMWQLKLSRLTEQEMRVGEQIIGNLDANGYLAASIEEIA---GLENVS 180 Query: 172 IDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHD 231 +VE VLK+IQ FDP G+AA++L++CLLIQ+ + II DH+ L + Sbjct: 181 EKDVETVLKKIQEFDPPGIAARNLQECLLIQVKMLGIQN---QLVEAIIQDHMKDLEIKN 237 Query: 232 FRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNS 291 + + R ++ D + +AV +I ++DPRPG + + +IPDV V K + + LN Sbjct: 238 YNHISRKNKVPVDDVFQAVMIISNMDPRPGSVYNEEKIQAIIPDVYVFKSGDDYKIVLND 297 Query: 292 DSIPRLQINQHYASMCNN----ARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCI 347 D +PRL+I+ Y + N + ++ ++IR +Q A WLIKS++ R T+ +V+ I Sbjct: 298 DGLPRLRISNFYKEIMGNVKGDSNSESGRKYIRERVQSATWLIKSIQQRQRTIYKVAESI 357 Query: 348 VEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHV 407 V Q+ FF++G Y+KP+VL DIA VEMHESTISRV T KY+++PRGIFELKYFFSS + Sbjct: 358 VRHQREFFDRGINYLKPLVLRDIAYDVEMHESTISRVVTNKYMYTPRGIFELKYFFSSSI 417 Query: 408 NTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSI 467 + G +S +++ ++++I AE+P P SD ++ S+L +GI +ARRTVAKYRE ++I Sbjct: 418 QRKSGEAIASKSVKEEIRRVIGAEDPLHPYSDQEIVSILESKGIKIARRTVAKYREMMNI 477 Query: 468 PPSNQRKQLV 477 PS++R++ Sbjct: 478 LPSSRRRRYF 487 >UniRef50_A0LCX7 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Magnetococcus sp. MC-1 RepID=A0LCX7_MAGSM Length = 510 Score = 523 bits (1348), Expect = e-147, Method: Composition-based stats. Identities = 213/512 (41%), Positives = 304/512 (59%), Gaps = 43/512 (8%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 + L+LR+ QL MTPQLQ AIRLLQ+S+++LQ+ LQ+ LE NPLLE+ D + + Sbjct: 3 LGMELKLRMGMQLVMTPQLQMAIRLLQMSSMDLQEYLQEELEKNPLLEREDENGNAVDGD 62 Query: 61 TQ--------------------------------DSETLDTADALEQKEMPEELPLDASW 88 T D +D E + E+LPLDA W Sbjct: 63 TAPLGEDGAAVDGAGLDGENYMEFMGNNSSTGEMDGFQIDEPQTPEVTHLSEDLPLDAEW 122 Query: 89 DTIYTAGTPSGTSGDYIDDELPVYQGETT----QTLQDYLMWQVELTPFSDTDRAIATSI 144 +Y+ + S + + E T TL D+L+WQ+ L+ + +RA+ ++ Sbjct: 123 SDVYSDAGSNFESHNNSLNTSEAPPLENTLVRNDTLSDHLIWQLGLSARDEHERALGMAL 182 Query: 145 VDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLS 204 VDA+DE GYLT PLE E+ G +D++E L IQ F+P GV A++L +CLL+QL Sbjct: 183 VDAIDENGYLTAPLESFQETTG---ASLDDLEDALLLIQSFEPSGVGARNLAECLLLQLK 239 Query: 205 QFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSI 264 + HLD LA DFR L RV +L E+ L AV +I LDP+PG + Sbjct: 240 A----DRMAVAPYTSLLAHLDDLARRDFRKLSRVLKLSEEDLASAVAVIHGLDPKPGLAY 295 Query: 265 QTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQ 324 + + YV+PDV VRK NG W VE+N ++ PRL+IN+HY + + D +F+ + + Sbjct: 296 GSDQTSYVVPDVYVRKQNGKWVVEINPETQPRLRINRHYQDQISRYASADDKRFMTESAR 355 Query: 325 DAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRV 384 +A+WLIKSLE R+ T+ RV+ IV Q+ F ++G EY+KP++L D+A + +HEST SRV Sbjct: 356 NAQWLIKSLEQRSSTIYRVAESIVRFQEDFLDKGPEYLKPLILKDVADDIGVHESTTSRV 415 Query: 385 TTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTS 444 T+ KY+H+PRGIFELKYFFSS + ++ G SS A++ ++KL+ +E +P SD KL Sbjct: 416 TSNKYMHTPRGIFELKYFFSSSLTSQSGESHSSEAVKFKIRKLVESEPLRRPFSDEKLAK 475 Query: 445 LLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 +L EQGI VARRTVAKYRE+L+IP S++RKQL Sbjct: 476 MLKEQGINVARRTVAKYREALNIPSSSRRKQL 507 >UniRef50_D0LNA6 RNA polymerase, sigma 54 subunit, RpoN n=2 Tax=Deltaproteobacteria RepID=D0LNA6_HALO1 Length = 494 Score = 521 bits (1343), Expect = e-146, Method: Composition-based stats. Identities = 178/500 (35%), Positives = 287/500 (57%), Gaps = 31/500 (6%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDT-------- 52 M+ +L+LSQQL MTPQLQQAI+LLQLS +EL +++ + NP+LE+ Sbjct: 3 MEMRQELKLSQQLVMTPQLQQAIKLLQLSRMELVDLVREEMLENPVLEEDSEMSPDAQSR 62 Query: 53 ----HEEIDTRETQDSETLDTADALEQKEMPEELPLDA------SWDTIYTAGTPSGT-- 100 E TR+ +++ + A K+ E+ D W++ + + Sbjct: 63 ELVGDAEQVTRQVEEAGHTELPVAESNKDTASEVKADDSAVGEIDWESYLDDYSSGPSVS 122 Query: 101 --SGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVP- 157 D D +++L ++L+WQ++++ +T A+ I+ +D +GY P Sbjct: 123 NFRPDNDDLPSHEATLTRSESLSEHLLWQLKMSAMDETHMAVGEVIIGNIDASGYFKEPP 182 Query: 158 LEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEAR 217 LED+ E+ +DE E VL +IQ FDPVGV A+ L +CLLIQ + E Sbjct: 183 LEDLASEC---EVSVDEAEEVLMKIQTFDPVGVGARSLAECLLIQAMHDGQDD---ELVV 236 Query: 218 LIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVL 277 II HL L +++ + R + + + EA +I DPRPG+ + +P Y+ PDV Sbjct: 237 KIIKSHLPNLERKNYQAIARDLKQPLEEVYEAAKVIMEFDPRPGRQYSSEDPHYITPDVY 296 Query: 278 VRKHNGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRN 337 + K + V N D +P+L+I+ Y S ++N +I+ L+ A+WLI+S++ R Sbjct: 297 IHKVGDRYFVVPNDDGLPKLKISSFYRSAL--SKNGNAKDYIQDKLRSAQWLIRSIQQRQ 354 Query: 338 DTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIF 397 T+++VS I++ Q+ FF++G +++P++L D+A+ + MHESTISRVTT KY+H+P+GIF Sbjct: 355 RTIIKVSESILKFQREFFDRGIAHLRPLILRDVAEDIGMHESTISRVTTSKYVHTPQGIF 414 Query: 398 ELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRT 457 ELK+FF+S ++ G + +S A+++ +KK+I E+P KPLSD K+ + L GI +ARRT Sbjct: 415 ELKFFFNSGISRTDGDDLASQAVKSKIKKIIGDEDPKKPLSDQKIAAQLKSGGIAIARRT 474 Query: 458 VAKYRESLSIPPSNQRKQLV 477 VAKYRE + I S++RKQ+ Sbjct: 475 VAKYREQMGILSSSKRKQVF 494 >UniRef50_B3E461 RNA polymerase, sigma 54 subunit, RpoN n=4 Tax=Deltaproteobacteria RepID=B3E461_GEOLS Length = 482 Score = 518 bits (1334), Expect = e-145, Method: Composition-based stats. Identities = 166/486 (34%), Positives = 278/486 (57%), Gaps = 15/486 (3%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M+ QL+++QQL MTPQLQQAI+LLQ++ +ELQ ++Q LE NP+LE+ EE+ E Sbjct: 3 MEMRQQLKMTQQLVMTPQLQQAIKLLQMTRIELQDVVRQELEENPILEESSELEEVREGE 62 Query: 61 T------QDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGT--SGDYIDDELPVY 112 T + A+ +E+ WD+ + SGD D Sbjct: 63 TLLEVVEAELPDEALANTDSFQEVEAGEETLRDWDSYLDGYNYTSGEQSGDDDDKLSFEN 122 Query: 113 QGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDI 172 TL D+L WQ+++ +SD ++ + ++ +D+ GY + D+ ++ Sbjct: 123 LLTRKGTLFDHLHWQLQMGKYSDEEQRVGEEVIGNIDDDGYFCSTIADVAVVC---DVPE 179 Query: 173 DEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDF 232 VE +L+RIQ FDP GV A+ L++CLLIQ +E I+ +L + + ++ Sbjct: 180 PVVETMLERIQEFDPSGVGARSLQECLLIQARSLGMEGSVVE---AILLRYLPEVESRNY 236 Query: 233 RTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSD 292 + + R +++ + + A+ +I DPRPG+ + E Y+ PD+ V K + V LN + Sbjct: 237 KQIARSLKVELEHVLAAIRVIAGFDPRPGRLYSSDEVHYISPDIFVHKVGDDYVVLLNEE 296 Query: 293 SIPRLQINQHYASM-CNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQ 351 +P L+++ Y + + +++ ++ A+WLIKS++ R T+ RV++ IV+ Q Sbjct: 297 GLPNLRLSPFYLEAKAGGSMDAKAEEYVGDKMRAAQWLIKSIQQRQRTIFRVAKSIVKFQ 356 Query: 352 QAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEG 411 + F E+G E ++P+VL D+A+ + MHESTISRVTT KY+ +P+G+FELKYFF+S ++T Sbjct: 357 REFLERGVEGLRPLVLRDVAEDIGMHESTISRVTTNKYMQTPQGLFELKYFFNSGLSTSD 416 Query: 412 GGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSN 471 G SS +++ +K +I E+P+KPLSD K+ +LS+ + +ARRTV KYRE + I S+ Sbjct: 417 GESVSSESVKNRIKDIIDKEDPSKPLSDQKIAEMLSDATVNIARRTVTKYREMMRIGSSS 476 Query: 472 QRKQLV 477 +R++ Sbjct: 477 ERRRHF 482 >UniRef50_C8R228 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Desulfurivibrio alkaliphilus AHT2 RepID=C8R228_9DELT Length = 498 Score = 515 bits (1327), Expect = e-144, Method: Composition-based stats. Identities = 182/501 (36%), Positives = 270/501 (53%), Gaps = 32/501 (6%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 ++ L+LSQQL MTPQLQQAI+LLQLS LEL + +QQ LE NP+LE+ E Sbjct: 3 LELRQSLKLSQQLVMTPQLQQAIKLLQLSRLELMETVQQELEVNPVLEEGLDLYEDGGNP 62 Query: 61 TQD---------SETLDTADALEQKEMPEELPLDA-------SWDTIY--------TAGT 96 D + + + E E+ +D+ W G Sbjct: 63 ADDPLPDSALAGNNGPEEELGRSEPEQTAEISMDSSSALGEIDWGNYLNEYAGDQSDGGY 122 Query: 97 PSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTV 156 D + +LQ +L WQ+ L+ SD ++ I I+ +DE G+L V Sbjct: 123 SGAAGRDDDAPPSRLEIMSVRPSLQSHLQWQLNLSHISDREKEIGEFIIGNLDENGFLLV 182 Query: 157 PLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEA 216 E+I + E + +L R+Q DP GV A+DLR CLL+QL++ + A Sbjct: 183 SPEEI---CSQTDCTPAEADHLLSRVQEMDPAGVGAQDLRHCLLLQLARLEAADSL---A 236 Query: 217 RLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDV 276 I+ DHL LL ++ L + T + AV +I L+PRPG+ +P Y++PDV Sbjct: 237 ARIVRDHLSLLETRNYPGLAKATGASTAEVSAAVEVITGLNPRPGRLYSDADPVYIVPDV 296 Query: 277 LVRKHNGHWTVELNSDSIPRLQINQHYASMCNN--ARNDGDSQFIRSNLQDAKWLIKSLE 334 V K + + LN + +PRL+I+ +Y + + +++ L+ A WLIKS++ Sbjct: 297 YVYKLGEEYVIMLNDEGLPRLRISNYYRDILDKDSTAPGATKDYVQDKLRSAMWLIKSIQ 356 Query: 335 SRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPR 394 R T+ RV +++ Q+ FFE G +KPMVL D+A+ + MHESTISRVTT KY+H+P+ Sbjct: 357 QRQRTIYRVVESLLKFQRDFFEHGVNKLKPMVLRDVAEDIGMHESTISRVTTNKYVHTPQ 416 Query: 395 GIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVA 454 G FELKYFF+S ++TE G +S +I+ +K ++ E+ KPLSDS + ++ S GI +A Sbjct: 417 GTFELKYFFNSTISTEAGDGMASESIKQRLKSIVQHEDRKKPLSDSAIAAVFSRDGIRLA 476 Query: 455 RRTVAKYRESLSIPPSNQRKQ 475 RRTVAKYRE L I PS R++ Sbjct: 477 RRTVAKYREQLGILPSKLRRR 497 >UniRef50_C8VY02 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Desulfotomaculum acetoxidans DSM 771 RepID=C8VY02_DESAS Length = 472 Score = 515 bits (1327), Expect = e-144, Method: Composition-based stats. Identities = 167/482 (34%), Positives = 280/482 (58%), Gaps = 18/482 (3%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLE-QIDTHEEIDTR 59 M GL + +Q+L MTP+L+QAI +LQLS+LEL + Q L+ NP+LE + D + I+ Sbjct: 3 MGYGLHVEQTQKLIMTPELRQAITVLQLSSLELSMYIDQQLQENPMLEVREDDLDRIEEN 62 Query: 60 ETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDEL---PVYQGET 116 E + + + L ++E D W+ + + + ++ Sbjct: 63 EGAEGDASGGEEELSRQE------CDVDWEEYFHDSDLDLGRREKLAEQSGSGYENFLTQ 116 Query: 117 TQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVE 176 L +YLM Q+ L+ D +AI I+ VD GYL V +++I E + E+ +VE Sbjct: 117 APNLTEYLMMQLNLSRCGDYLKAIGEYIIGNVDHNGYLHVSVKEIAEQL---EVSQSKVE 173 Query: 177 AVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLM 236 L IQ FDP+GV A L++CLLIQ+ + + +I +L +A + Sbjct: 174 QALSVIQSFDPLGVGASSLQECLLIQVRYLNIKN---KLVAELIEKYLPDIAKGRLNQIA 230 Query: 237 RVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGE-PEYVIPDVLVRKHNGHWTVELNSDSIP 295 + + ++EA ++I++LDP+PG++ Y++PDV+V + G + + +N S+P Sbjct: 231 QQLGVAVTEVQEAADIIKTLDPKPGRNFSATNDVRYIVPDVIVERVEGEYIILVNDSSVP 290 Query: 296 RLQINQHYASMCNNAR-NDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAF 354 RL IN Y S+ + + +F+ S L A WL+KS+E R TL +V+ C+V+ Q+ F Sbjct: 291 RLTINTAYRSVLTQDKFDLQTRRFVESKLNSAAWLLKSIEQRRLTLYKVASCLVDLQKDF 350 Query: 355 FEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGE 414 E G +++KP+ L +A+ V +HEST+SR T+ KY+ +P+G+FE+K+FFS+ + + GGG Sbjct: 351 MEYGVKHLKPLNLKTVAEIVGLHESTVSRATSNKYIQTPQGVFEMKFFFSTGLTSAGGGM 410 Query: 415 ASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRK 474 S+ +I+ +++LIA+E+ KPL+D K++ + +E+GI ++RRTVAKYR+ L+IPP QRK Sbjct: 411 TSAESIKKTLRELIASEDARKPLNDQKISDIFAERGIKISRRTVAKYRDELNIPPLKQRK 470 Query: 475 QL 476 + Sbjct: 471 RY 472 >UniRef50_Q6MPK9 RNA polymerase sigma-54 factor n=1 Tax=Bdellovibrio bacteriovorus RepID=Q6MPK9_BDEBA Length = 478 Score = 515 bits (1326), Expect = e-144, Method: Composition-based stats. Identities = 183/484 (37%), Positives = 288/484 (59%), Gaps = 13/484 (2%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTH--EEIDT 58 M + LSQ L +TPQLQQAI+LLQ+S +EL+ ++ LE NP+LE+ ++ EE Sbjct: 1 MALRQTMNLSQSLVITPQLQQAIKLLQMSRMELESAVRSELEENPILEEAESALKEEDLQ 60 Query: 59 RETQDSETLDTADALEQKEMPEELPLDA-SWDTIYTAGTPSGTSG--DYIDDELPVYQGE 115 R + + ++ ++ +Q+ + + D W++ A SG + Sbjct: 61 RTKEAANEVEHSETPDQQNIQDPQKQDEFEWESYIEANQKPPQSGMAGSEEIMNYENVIT 120 Query: 116 TTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEV 175 +QTL D+L WQV++ FS+ + A +++ A+D+ GY+ VPLE I E E++D+ + Sbjct: 121 ASQTLHDHLYWQVKMNGFSEEEERAADALIGAIDDDGYIKVPLEQIAEE---EKVDLALL 177 Query: 176 EAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTL 235 E L I FDP GV A+DL++CLLIQ ++ T + +I +H+ L ++ + Sbjct: 178 EDTLTLIHEFDPPGVGARDLQECLLIQAKHMEEDT---HDLVTLIKNHVKDLEKKNYEAI 234 Query: 236 MRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIP 295 + + + E +I ++DP+PG++ + + YV PDV V K + V LN D +P Sbjct: 235 AKALNRDVEDIVEICKIIYAMDPKPGRAFVSSDTHYVTPDVYVYKVGDDYVVSLNEDGLP 294 Query: 296 RLQINQHYASMCNNAR--NDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQA 353 RL+I+ Y +M + D +I+ L+ A WLIKS+ R T+ +V+ IV+ Q+ Sbjct: 295 RLKISNFYKNMLKGGKTTGDKTQDYIQEKLRSAVWLIKSIHQRQRTIYKVTESIVKHQRE 354 Query: 354 FFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGG 413 FFE+G E++KPMVL DIA + MHEST+SRVTT KY+H+P+GI+ELKYFF+S +++ G Sbjct: 355 FFEKGSEHLKPMVLRDIANDIGMHESTVSRVTTAKYVHTPQGIYELKYFFNSGISSSDGD 414 Query: 414 EASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQR 473 +S +++ +K L+A E+P PLSD K+ LL +GI +ARRTVAKYR+ L I PS+QR Sbjct: 415 SLASESVKIKIKDLVAKEDPKNPLSDQKIVDLLKVEGIQIARRTVAKYRDVLKILPSSQR 474 Query: 474 KQLV 477 K+ Sbjct: 475 KKYF 478 >UniRef50_D2UEM7 Probable rna polymerase sigma-54 factor protein n=1 Tax=Xanthomonas albilineans RepID=D2UEM7_XANAL Length = 485 Score = 515 bits (1326), Expect = e-144, Method: Composition-based stats. Identities = 200/485 (41%), Positives = 295/485 (60%), Gaps = 10/485 (2%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTH----EEI 56 MK LQ L Q L MTPQL+QAI+LLQ+S+ EL+ EL A+ESNPLLE + E Sbjct: 1 MKARLQTSLGQHLVMTPQLRQAIKLLQMSSAELEVELAAAVESNPLLEWSEDAALTFEHT 60 Query: 57 DTRETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSG---DYIDDELPVYQ 113 D++E + + E P D+ D T SG SG D D + Sbjct: 61 DSQEASGAAADGDTLTPVADDHAEASPADSGEDWTTTDPAWSGGSGGAFDDDDTSSLAER 120 Query: 114 GETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESI-GDEEIDI 172 +TL +L+WQ+ L+P S DR+I +++DA+D GYL PL I E++ + Sbjct: 121 VAEPETLIGHLLWQLHLSPLSARDRSIGVALIDALDGDGYLREPLTAIAETLRPNIAAGE 180 Query: 173 DEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDF 232 DE+ VL +IQRFDP G+AA+ L +CL +QL ++TP LE A I++ L+ L Sbjct: 181 DEILTVLHQIQRFDPTGIAARSLEECLTLQLGMLPESTPGLELAHTIVNGSLEKLPRSGI 240 Query: 233 RTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQT-GEPEYVIPDVLVRKHNGHWTVELNS 291 L + + AV L++SLDPRPG+ I G YV+PD +V + G W L++ Sbjct: 241 AGLAHALKRPVADVDTAVALLRSLDPRPGKQIGELGSDTYVVPDCVVWRQRGVWHAALSA 300 Query: 292 DSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQ 351 + P++ I++ Y + D+ ++R LQ+A+WL+KS+E+R +TLL+V+RC++ QQ Sbjct: 301 HAQPKVTIHRGYERLIRQCGES-DAGYLRGQLQEARWLLKSVEARGETLLKVTRCLLRQQ 359 Query: 352 QAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEG 411 F E GE+ ++P+ L +IA + +HESTISR +KY+ +PRG L+ FF+S ++T+ Sbjct: 360 AGFLEFGEQALRPLTLREIAGELGLHESTISRAIARKYVRTPRGTIPLRAFFASGIDTDS 419 Query: 412 GGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSN 471 GGEASSTAI+A++++LI ENP KPLSD+KL LL G+ VARRTVAKYRE+++IP S+ Sbjct: 420 GGEASSTAIQAMIRRLIETENPRKPLSDAKLADLLKNTGVPVARRTVAKYREAMNIPASH 479 Query: 472 QRKQL 476 +R ++ Sbjct: 480 ERVRI 484 >UniRef50_A5CYP0 DNA-directed RNA polymerase specialized sigma subunit, sigma54 homolog n=9 Tax=Clostridia RepID=A5CYP0_PELTS Length = 471 Score = 514 bits (1324), Expect = e-144, Method: Composition-based stats. Identities = 157/484 (32%), Positives = 266/484 (54%), Gaps = 23/484 (4%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M GL + +Q+L MTP+L+QAI +LQLS+LEL ++Q L+ NP+LE D + Sbjct: 3 MGYGLNMEQTQKLIMTPELRQAITVLQLSSLELSMYIEQQLQENPMLELTDDDYGREE-- 60 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGT-----SGDYIDDELPVYQGE 115 + +E + D W+ + + Sbjct: 61 -------EFEPTVEPEPDGGGPEYDLDWEEYLQESSDDPGIFRQERWQDQQEYSYENFLY 113 Query: 116 TTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEV 175 TL ++L Q+ L+P D+ I ++ +DE GYL VPL+++ + + V Sbjct: 114 QMPTLTEHLTTQLNLSPCRGKDKLIGEYLIGNIDENGYLRVPLKEVAACLN---VSTSRV 170 Query: 176 EAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTL 235 VLK IQ FDP GV A+ L +CLLIQ+ Q L +I +HL LA + Sbjct: 171 FKVLKVIQGFDPPGVGARSLEECLLIQVGQLGIKNEILN---KLIKEHLSDLAKGKLNRI 227 Query: 236 MRVTRLKEDVLKEAVNLIQSLDPRPGQSIQT-GEPEYVIPDVLVRKHNGHWTVELNSDSI 294 + + +++A +++++LDP+PG++ + Y++PD+++ K G + + +N +I Sbjct: 228 AQSLGVTVQEVQKAADVLRTLDPKPGRNFSNLNDTRYIVPDIVLEKVEGEYVILINDVAI 287 Query: 295 PRLQINQHYASMCNNA--RNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQ 352 PRL IN Y S+ ++ + G +F+ S L A WLI+S+E R TL +V++C+V+ Q+ Sbjct: 288 PRLTINSTYRSVLSSNTNCDSGTRRFVESKLNAAAWLIRSIEQRRLTLYKVAKCLVDLQR 347 Query: 353 AFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGG 412 F + G +Y+KP+ L +A+ V +HEST+SR T+ KY+ +P+G+FE+KYFF + +N G Sbjct: 348 DFLDYGVKYLKPLNLKKVAEMVGLHESTVSRATSNKYIQTPQGVFEMKYFFCTGLNNTAG 407 Query: 413 GEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQ 472 S+ I+ ++++++A E+ PL+D K++ L ++GI ++RRTVAKYR+ L I + Sbjct: 408 NMVSAECIKKMLQEIVAGEDARSPLNDQKISELFRQRGIKISRRTVAKYRDELGIAAIRK 467 Query: 473 RKQL 476 RK+ Sbjct: 468 RKRY 471 >UniRef50_P77998 RNA polymerase sigma-54 factor n=20 Tax=Xanthomonadaceae RepID=RP54_XANEU Length = 479 Score = 513 bits (1321), Expect = e-144, Method: Composition-based stats. Identities = 203/480 (42%), Positives = 300/480 (62%), Gaps = 4/480 (0%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 MK LQ L QQL MTPQL+QAI+LLQ+ST EL+ E+ +A+E+NPLLE D + Sbjct: 1 MKARLQTSLGQQLVMTPQLRQAIKLLQMSTTELEVEIAEAVETNPLLEWADEAAHAASDI 60 Query: 61 TQDSETLDTADALEQKE-MPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQT 119 DS + + +++E P E D S D + G+ SG S D + + ++T Sbjct: 61 AVDSSPSASTEQPQREEVAPAERDEDWSQDELQWTGSGSGGSFDDDESGDAAERVAESET 120 Query: 120 LQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIG-DEEIDIDEVEAV 178 L D+L+WQ+ L+P S DR I ++DA+DE GYL PL ILE++ +D +V V Sbjct: 121 LADHLLWQLHLSPLSPRDRQIGAMLIDALDEDGYLREPLSAILETLALGAAVDEADVLTV 180 Query: 179 LKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRV 238 L +IQRFDPVGV A+ L +CL +QL D TP E A I++ L+ L L Sbjct: 181 LHQIQRFDPVGVGARTLGECLALQLGVLDADTPGRELALQIVAGPLERLPRSGVAGLAHE 240 Query: 239 TRLKEDVLKEAVNLIQSLDPRPGQSIQT-GEPEYVIPDVLVRKHNGHWTVELNSDSIPRL 297 + +++AV L++SLDPRPG+ I + YV+PD ++ + G W L + P++ Sbjct: 241 LKRSTADVEQAVQLVRSLDPRPGKQIGDLSQDTYVVPDCVIWRQRGVWRAALAGRAQPKV 300 Query: 298 QINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQ 357 I++ Y ++ + D+ ++R LQ+A+WL+KSLE+R +TLLRV RC++E Q F E Sbjct: 301 TIHRGYENLIRSCGES-DAGYLRGQLQEARWLLKSLEARGETLLRVVRCLLEHQAGFLEF 359 Query: 358 GEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASS 417 G + ++P+ L +IA + +HESTISR +KY+ +PRG L+ FF+S ++T+ GGEASS Sbjct: 360 GAQALRPLTLREIAGELGLHESTISRAIARKYVRTPRGTIALRAFFASGIDTDSGGEASS 419 Query: 418 TAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQLV 477 TAI+A++++LI AENP KPLSD+KL LL G+ VARRTVAKYRE+++I S++R ++ Sbjct: 420 TAIQAMIRRLIDAENPRKPLSDAKLADLLKTSGVPVARRTVAKYREAMNISASHERVRIA 479 >UniRef50_Q5WZ64 RNA polymerase sigma-54 factor (Sigma-L) n=6 Tax=Legionella RepID=Q5WZ64_LEGPL Length = 464 Score = 512 bits (1320), Expect = e-144, Method: Composition-based stats. Identities = 231/476 (48%), Positives = 322/476 (67%), Gaps = 18/476 (3%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 MK LQ+ + Q L +TPQLQQAIRLLQLST +LQQE+Q +ESNPLLE E+ D + Sbjct: 1 MKPTLQIGIGQHLTLTPQLQQAIRLLQLSTFDLQQEIQLVVESNPLLEATPVEEKEDAQI 60 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 + + + D W +Y + + +D TT L Sbjct: 61 NTNQNHDEYS--------------DFQWSQLYN--NLNKRNNFEENDYNFDNLHCTTTNL 104 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEI--DIDEVEAV 178 QD+L WQ++LTP SD DR IAT+I+DA+++ G+LT+P+ +I S+ ++ DI+E+EAV Sbjct: 105 QDHLNWQLDLTPMSDIDRVIATTIIDAINDDGFLTIPVAEIHASLNSDDFPLDIEEIEAV 164 Query: 179 LKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRV 238 R+Q FDPVG A+ +L + L++QL Q L A+ +I + ++LL H++R LM+ Sbjct: 165 RHRLQLFDPVGCASVNLAETLVLQLEQLPLEPKLLATAKKVILEDIELLGQHNYRQLMKN 224 Query: 239 TRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQ 298 ++ E + E + +I L+P+PG I EYVIPD+ V+K + W V LN D +PRL Sbjct: 225 HQISEKTIHEILQVIHKLNPKPGSLIHQDNIEYVIPDLTVKKIDNQWKVFLNQDILPRLS 284 Query: 299 INQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQG 358 IN YA++ A N D+QF++ NLQ+A+W +KS++SR +TLL+V+ CI+E Q F E G Sbjct: 285 INSQYAALIQRANNSLDNQFLKHNLQEARWFLKSIQSRQETLLKVATCIMEYQHGFLEFG 344 Query: 359 EEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASST 418 EE MKP++L D+A A++MHEST+SRVTTQK++++PRG+FELKYFFSSHVNT+ GGE SST Sbjct: 345 EEAMKPLILNDVASALDMHESTVSRVTTQKFINTPRGVFELKYFFSSHVNTDNGGECSST 404 Query: 419 AIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRK 474 AIRA++KKLI+AEN KPLSDSK+ L+ EQGI VARRTVAKYRE++ IPPSN+RK Sbjct: 405 AIRAVIKKLISAENRKKPLSDSKIAQLIGEQGIKVARRTVAKYREAMGIPPSNERK 460 >UniRef50_Q1DDF1 RNA polymerase sigma-54 factor n=4 Tax=Cystobacterineae RepID=Q1DDF1_MYXXD Length = 505 Score = 508 bits (1308), Expect = e-142, Method: Composition-based stats. Identities = 178/504 (35%), Positives = 280/504 (55%), Gaps = 30/504 (5%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M+ L+L+QQL MTPQLQQAI+LLQLS +EL +++++ +E NPLLEQ D D + Sbjct: 3 MELKQSLKLAQQLVMTPQLQQAIKLLQLSRMELLEQVREEMEQNPLLEQPDEQAPGDVGD 62 Query: 61 TQDSETLDTADALE----------------QKEMPEELPLDASWDTI-----YTAGTPSG 99 + E AD +E + + E P + W+ + T + Sbjct: 63 KEPGEASLEADNMEVPRDVDLPAATSDTATEFKADGEGPPEIDWEQYLNSYQFNEPTTAS 122 Query: 100 TSGDYIDDELPVYQGE--TTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVP 157 G+ D++P ++ L D++ Q+ +D +R IA I+ +D+ GYL +P Sbjct: 123 NKGNVATDDMPSFEANLVKKADLVDHIQEQLGTLRLNDAERRIAMLILGNLDDDGYLKLP 182 Query: 158 LED---ILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLE 214 D ++ + ++ + E L+RIQ DP G A+DL++CLLIQL P Sbjct: 183 EVDGDPLIRLANEADVPMHVAERTLRRIQMLDPRGCGARDLQECLLIQLQ--GIREPHAP 240 Query: 215 EARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIP 274 LII H+ L + + + + ++ + + AV L+ LDP+PG++ + +Y+ P Sbjct: 241 LLGLIIKRHMKYLESKNLPAIAKDLKVTLEEVVGAVRLLPKLDPKPGRNFSGDDAQYISP 300 Query: 275 DVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNA--RNDGDSQFIRSNLQDAKWLIKS 332 DV V K +TV LN D + +L+I+ Y + FI+ L+ A WLI+S Sbjct: 301 DVFVYKMGDDYTVVLNDDGLSKLRISGTYRNALKTGAVGPGQTKDFIQDKLRSAMWLIRS 360 Query: 333 LESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHS 392 + R T+ +V+ IV+ Q+ F ++G Y+KP++L D+A+ + MHEST+SRVTT KY+H+ Sbjct: 361 IHQRQRTIYKVTESIVKFQRDFLDKGIAYLKPLILRDVAEDIGMHESTVSRVTTSKYVHT 420 Query: 393 PRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIM 452 P+GIFELKYFF+S + G + +S A++ +K+L+A E+ P SD K+ LL QG Sbjct: 421 PQGIFELKYFFNSSIARVSGEDTASEAVKHHIKQLVAQEDARNPYSDQKIVELLRSQGTE 480 Query: 453 VARRTVAKYRESLSIPPSNQRKQL 476 +ARRTVAKYRE L I PS++RK+ Sbjct: 481 IARRTVAKYREVLGILPSSKRKRY 504 >UniRef50_B8DJR2 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Desulfovibrio vulgaris str. 'Miyazaki F' RepID=B8DJR2_DESVM Length = 477 Score = 507 bits (1306), Expect = e-142, Method: Composition-based stats. Identities = 185/484 (38%), Positives = 282/484 (58%), Gaps = 16/484 (3%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 ++ QL+L+QQL MTPQLQQAIRLLQLS LEL + +QQ + NP LE+ Sbjct: 3 LELRQQLKLTQQLVMTPQLQQAIRLLQLSRLELVETVQQEMLENPFLEEAQDEGPQVETP 62 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETT--- 117 AD +E+ DA W+ + + E+P Sbjct: 63 DPREAATAAADVAYDREIAR----DADWEDYLGDFASTSRQSTVRETEMPEEMTSFEARY 118 Query: 118 ---QTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDE 174 +L+ +LMWQ+ L+ ++ + I I+ + +GYL ++DI E G + E Sbjct: 119 AAKPSLEGHLMWQLRLSSLTERQKDIGEVIIGNIASSGYLHATVDDIAEMAG---VTPGE 175 Query: 175 VEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRT 234 VE+VL +QRFDPVGV+A+ ++CLL+Q+ T + ++ DHL+ L ++ Sbjct: 176 VESVLHAVQRFDPVGVSARTAQECLLVQIEMLGYTRD--KVLVELVRDHLEDLEKRRYKP 233 Query: 235 LMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSI 294 L+R RL + LKE ++LIQ+LDP PG S G+P++V PDV V K++ + + LN D + Sbjct: 234 LLRKFRLTMEDLKEYLDLIQTLDPMPGASYGGGDPQFVSPDVYVYKYDDDFIIMLNEDGL 293 Query: 295 PRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAF 354 P LQ++ Y A + G+ ++ + ++ A WLIKSL R TL +V IV+ Q+ F Sbjct: 294 PHLQLSTMYERSAAAAASAGEREYFQEKMRSASWLIKSLYQRQRTLYKVVESIVKYQRGF 353 Query: 355 FEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGE 414 FE G +KP++L DIA + MHEST+SR+TT KY+ +P GI ELK+FF+S + + G + Sbjct: 354 FEDGVSRLKPLILKDIADDIGMHESTVSRITTSKYVATPHGIMELKFFFNSALELDDGSQ 413 Query: 415 ASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQ-GIMVARRTVAKYRESLSIPPSNQR 473 S +++AL+KKLIA E+P +PLSD ++ +L +Q + +ARRTVAKYR ++ IP S++R Sbjct: 414 VGSESVKALIKKLIADEDPREPLSDERIGEILKDQLKVNIARRTVAKYRTAMDIPSSSKR 473 Query: 474 KQLV 477 K+L Sbjct: 474 KELF 477 >UniRef50_P30333 RNA polymerase sigma-54 factor 2 n=48 Tax=Alphaproteobacteria RepID=RP55_BRAJA Length = 537 Score = 507 bits (1305), Expect = e-142, Method: Composition-based stats. Identities = 182/518 (35%), Positives = 271/518 (52%), Gaps = 50/518 (9%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 + Q L+ R SQ L MTPQL QAI+LLQLS L+L +++ LE NPLLE+ + Sbjct: 3 LTQRLEFRQSQSLVMTPQLMQAIKLLQLSNLDLTTFVEEELERNPLLERANDEASGGEAP 62 Query: 61 TQDSETLDTADALEQKE-----------------------MPEELPLDASWDTIYTA--- 94 + + D+ + E LD D +++ Sbjct: 63 AEAGQFSDSDGGHNDEPGGGPGEAFEPGQEEWMSKDLGTRAEIEQTLDTGLDNVFSEEPA 122 Query: 95 --------------GTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAI 140 T G +D TL D+L Q+ + + R I Sbjct: 123 EAAARNAQDAAPTTYTEWGGGASGDEDYNLEAFVAAEVTLGDHLAEQLSVAFTAPAQRMI 182 Query: 141 ATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLL 200 ++D VDE GYL L E +G EVE VL +Q+FDP GV A++L +CL Sbjct: 183 GQYLIDLVDEAGYLPPDLGQAAERLG---ASQQEVEDVLAVLQKFDPPGVCARNLSECLA 239 Query: 201 IQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRP 260 IQL + D+ P A + +HLDLLA D L +V + ++ + + + I+ L+P+P Sbjct: 240 IQLRELDRYDP----AMQALVEHLDLLAKRDIAGLRKVCGVDDEDIADMIGEIRRLNPKP 295 Query: 261 GQSIQTGEPEYVIPDVLVRKH-NGHWTVELNSDSIPRLQINQ-HYASMCNNARNDGDSQF 318 G + ++PDV VR +G W VELNSD++PR+ +NQ +Y+ + DGD + Sbjct: 296 GMKFGAARLQTMVPDVYVRPGPDGGWHVELNSDTLPRVLVNQTYYSELSKKIGKDGDKSY 355 Query: 319 IRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHE 378 LQ+A WL+++L+ R T+L+V+ IV QQ FF G +++P+ L +A A++MHE Sbjct: 356 FTDALQNATWLVRALDQRARTILKVATEIVRQQDGFFTHGVAHLRPLNLKAVADAIQMHE 415 Query: 379 STISRVTTQKYLHSPRGIFELKYFFSSHVNT-EGGGEASSTAIRALVKKLIAAENPAKPL 437 ST+SRVT KY+ + RG FELKYFF++ + + +GG S+ A+R +K+LI +E PA L Sbjct: 416 STVSRVTANKYMATNRGTFELKYFFTASIASADGGEAHSAEAVRHHIKQLIDSEAPAAIL 475 Query: 438 SDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 SD + L GI +ARRTVAKYRE++ IP S QR++ Sbjct: 476 SDDTIVERLRASGIDIARRTVAKYREAMRIPSSVQRRR 513 >UniRef50_B0K876 RNA polymerase, sigma 54 subunit, RpoN n=9 Tax=Thermoanaerobacterales RepID=B0K876_THEP3 Length = 454 Score = 506 bits (1304), Expect = e-142, Method: Composition-based stats. Identities = 170/477 (35%), Positives = 276/477 (57%), Gaps = 26/477 (5%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M+ L+L+ +Q+L MTP+L+QAI +LQL++LEL ++Q LE+NPLLE+ + EE Sbjct: 3 MEFDLKLQQTQKLIMTPELKQAIEILQLNSLELNALIEQELETNPLLEKEEVIEEDIYES 62 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 +E E++ ++ + + Y T +L Sbjct: 63 NDFTELAKYIRETEERMYYDDSDDEEIEEVNY------------------ENFVSTKPSL 104 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 D+L++Q+ +TP S + I I+ ++ +GYL ++DI E + E +EV L Sbjct: 105 TDHLLFQLHITPVSPKIQKICEYIIFSLSPSGYLREDIKDIAEIL---ECTEEEVLEGLS 161 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 +Q FDP G+AA++L++CL +QL + + ++ HL+ +A + L ++ Sbjct: 162 IVQSFDPPGIAARNLQECLKLQLLA---QDSYKGIVKELVDYHLEEIAEGKYSYLAKLYN 218 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTG-EPEYVIPDVLVRKHNGHWTVELNSDSIPRLQI 299 + +++AV+ I+ L+P+PG S + + Y++PDV V K G + V +N P+L+I Sbjct: 219 ISLKEVQQAVDFIKKLNPKPGSSFSSTADVRYIVPDVEVIKREGEYFVIVNDSVTPKLKI 278 Query: 300 NQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE 359 N +Y S+ N+ ++ ++I S LQ A WLIKSLESR +TL +V + IVE Q+ F ++G Sbjct: 279 NNYYHSILNSH-DEEAKKYINSKLQSAMWLIKSLESRKETLYKVVKAIVELQRDFLDKGI 337 Query: 360 EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTA 419 Y+KPM IA V +HEST+SR KY+ +PRG+FELK+FF S ++ + G E S+ Sbjct: 338 NYLKPMTQKQIADIVGIHESTVSRAINGKYVATPRGLFELKFFFQSGISNKNGNEFSAET 397 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 I+ L+KKLI E+P PLSD K+ +L E+ I ++RRTVAKYRE +IP + +R++ Sbjct: 398 IKNLIKKLIEEEDPTNPLSDQKIADILKEKNINISRRTVAKYREECNIPSTIKRRRY 454 >UniRef50_C6WT04 RNA polymerase, sigma 54 subunit, RpoN n=3 Tax=Betaproteobacteria RepID=C6WT04_METML Length = 525 Score = 506 bits (1303), Expect = e-142, Method: Composition-based stats. Identities = 217/526 (41%), Positives = 313/526 (59%), Gaps = 51/526 (9%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEI---- 56 MKQGLQL+ SQ L++TPQLQQAIRLLQLSTLEL QE+ +++NPLLE+ D E+ Sbjct: 1 MKQGLQLKFSQNLSLTPQLQQAIRLLQLSTLELNQEIDVLMQTNPLLERGDDTEDEYGNA 60 Query: 57 ---------------------DTRETQDSETLDTADALEQKEMPE--------------- 80 E D+E ++A E Sbjct: 61 VEPVADGADLSATSPESAEAKPEFENFDAEYAESASEFNGAESANASVADVSDTADFDVP 120 Query: 81 --------ELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTP 132 + +D + DD Q +L+++L+ Q++L P Sbjct: 121 STDYADTFSAEFNDEFDEFSNGSRWDENTMPADDDSDFKPQETLQTSLREHLLSQLKLMP 180 Query: 133 FSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDE-EIDIDEVEAVLKRIQRFDPVGVA 191 S+ D+++A +VD++++ GYL LE+I E + +E EID E++ L+ +Q DP GV Sbjct: 181 LSERDQSLALMLVDSINDDGYLEQSLEEIAELMPEELEIDAIELQTALRHVQHLDPPGVG 240 Query: 192 AKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVN 251 A+ L +CLL+QL+ K+TP L A L+ HL +LA+ DF L + E LK+ Sbjct: 241 ARSLSECLLLQLAVLPKSTPHLAMADLVAKHHLQVLASRDFVKLRKELGCDEATLKQVQQ 300 Query: 252 LIQSLDPRPGQSIQT-GEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNA 310 LI SL+PRPG + G Y+ +V+V+K G W LN IP+L+INQ YA + Sbjct: 301 LITSLNPRPGSAFSHIGSEHYIQHEVIVKKVKGIWIASLNDSVIPKLKINQLYAGILKRN 360 Query: 311 RNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADI 370 R+ SQ+++S +Q+AKW+IK+++ R T+LRVS+ IV++Q+ F E GE M+P+VL +I Sbjct: 361 RDSS-SQYLQSQMQEAKWMIKNIQQRFSTILRVSQAIVDRQRNFLEYGEVAMRPLVLREI 419 Query: 371 AQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAA 430 A +++HESTISRVTT KY+ +PRGIFELKYFF S V T+ GG S+TAIRAL+K+L+ Sbjct: 420 ADELDLHESTISRVTTNKYMLTPRGIFELKYFFGSSVATDAGGTCSATAIRALIKQLVDQ 479 Query: 431 ENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 ENP KP SD+++T LL++QGI+VARRT+AKYRES++I P++ RK L Sbjct: 480 ENPRKPYSDNQITDLLAKQGIVVARRTIAKYRESMNIAPASLRKSL 525 >UniRef50_B5EEZ6 RNA polymerase, sigma 54 subunit, RpoN n=3 Tax=Geobacter RepID=B5EEZ6_GEOBB Length = 515 Score = 505 bits (1302), Expect = e-141, Method: Composition-based stats. Identities = 183/516 (35%), Positives = 292/516 (56%), Gaps = 42/516 (8%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 ++ Q+++SQQL MTPQLQQAI+LLQLS LELQ ++Q LE NP+L+++ EEI E Sbjct: 3 IEMRQQMKMSQQLVMTPQLQQAIKLLQLSRLELQDVVRQELEENPILDEVIEQEEIREPE 62 Query: 61 TQDSETLDTADALEQKEMPE----ELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQG-- 114 + + + E E +A WD+ S Y D++ P ++ Sbjct: 63 QIELREKEAEPEAAASDFQEVRAGEETREADWDSYIDGYNYSSGEQYYDDEDRPSFENLL 122 Query: 115 ETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILES---------- 164 TL D+LMWQ+ LT ++ + + I+ +DE GYL LED+ + Sbjct: 123 TKKSTLFDHLMWQLSLTRLTEREIVVGAEIIGNIDEEGYLRASLEDVASACVQVAPFQEE 182 Query: 165 ------IGDEEIDID---------------EVEAVLKRIQRFDPVGVAAKDLRDCLLIQL 203 +G + + + V++VLKRI FDPVGV A+DLR+CLLIQ+ Sbjct: 183 MLEWSGLGSDACEEEIADAAGGFSTAVLVPLVDSVLKRIHEFDPVGVGARDLRECLLIQV 242 Query: 204 SQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQS 263 +E ++ DHL L +H ++ +V ++ + + A +I LDP+PG+ Sbjct: 243 GSLGMGGSLVE---SLLRDHLKDLESHKYKQAAKVLGVEVNDILAATRIIAELDPKPGRV 299 Query: 264 IQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNAR--NDGDSQFIRS 321 + + +Y+ D+ V K + V LN + +P L+IN YA ++R + +I Sbjct: 300 FGSDDVQYISADIFVHKVGEEYVVMLNDEGMPNLRINPIYAPDAKSSRPVDKVAEDYIGE 359 Query: 322 NLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTI 381 ++ A WLIKS++ R T+ +V++ IV+ Q+ F ++G E+++P+VL DIA+ + MHESTI Sbjct: 360 KMRSALWLIKSIQQRQRTIFKVAKSIVKFQREFLDRGIEHLRPLVLRDIAEDIGMHESTI 419 Query: 382 SRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSK 441 SRVTT KY+ +P+G+FELKYFF+S ++T G +S ++++ +K+L+ E+ +P SD + Sbjct: 420 SRVTTNKYMQTPQGLFELKYFFNSGISTGEGDFIASESVKSKIKELVDNEDSKRPYSDQR 479 Query: 442 LTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQLV 477 L LLS+ I++ARRTV KYRE L I S++RK+ Sbjct: 480 LAELLSDHNIVIARRTVTKYREMLRIGSSSERKKHF 515 >UniRef50_Q0ATI6 RNA polymerase, sigma 54 subunit, RpoN n=2 Tax=Alphaproteobacteria RepID=Q0ATI6_MARMM Length = 504 Score = 504 bits (1299), Expect = e-141, Method: Composition-based stats. Identities = 185/504 (36%), Positives = 281/504 (55%), Gaps = 34/504 (6%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDT-R 59 + Q L +R Q L MTPQLQQAI+LLQLS +EL + ++ LE NPLLE+ D+ E ++ R Sbjct: 4 LMQKLDMRQGQSLVMTPQLQQAIKLLQLSNIELAEFVEGELERNPLLERDDSGESAESQR 63 Query: 60 ETQDSETLDTADALEQKEMPEELPLDAS---WDTIYTA--------------------GT 96 E E + A + + + D D + T Sbjct: 64 EEGQGEPRELELAAPSADANDSIDADVDMMHGDDSKSDLSGVDGVESGAAMGAGSVSGHT 123 Query: 97 PSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTV 156 G+ G +D + +L D+L Q+ + DR I ++D D+ GY+ Sbjct: 124 SGGSRGPASEDYDAIANSSRDISLADHLHEQLSMATGDPVDRLIGAHLIDLADDDGYMRS 183 Query: 157 PLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEA 216 L++I +G ++ VEAVL Q FDP GV A+DL +CL +QL D+ P A Sbjct: 184 DLDEISAQLG---VERARVEAVLDLTQTFDPAGVMARDLPECLALQLKDKDRLDP----A 236 Query: 217 RLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDV 276 + D+L+ LA HD+ L + + + L E ++ I++L P+PG + + V PDV Sbjct: 237 MATLLDNLERLAKHDYVALKSLCGVDSEDLDEMISEIRALTPKPGHAFGSDSTRAVEPDV 296 Query: 277 LVRKH-NGHWTVELNSDSIPRLQINQHYASMCNN-ARNDGDSQFIRSNLQDAKWLIKSLE 334 +R+ +G W VELNS+++PR+ +N Y + + A+++ D FI Q+A WL+KSL+ Sbjct: 297 FIRQSPDGSWQVELNSETLPRVLVNNSYFNEISAVAKSETDKTFITECSQNASWLVKSLD 356 Query: 335 SRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPR 394 R T+L+V+ IV QQ F G Y++P+ L +A A+ MHEST+SRVT+ KY+ + R Sbjct: 357 QRARTILKVASEIVRQQDMFLAHGVAYLRPLNLKTVADAIGMHESTVSRVTSNKYVATAR 416 Query: 395 GIFELKYFFSSHVNTEGGGE-ASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMV 453 G+FELKYFF+S + + GGGE S+ A+R +K +I E+ LSD L L ++GI + Sbjct: 417 GMFELKYFFTSAIPSAGGGEAHSAEAVRHRIKLMIGQESADGVLSDDSLVEQLRDEGIEI 476 Query: 454 ARRTVAKYRESLSIPPSNQRKQLV 477 ARRTVAKYRE+L+IP S QR++++ Sbjct: 477 ARRTVAKYREALNIPSSVQRRRML 500 >UniRef50_D1RJS1 RNA polymerase sigma-54 factor RpoN n=1 Tax=Legionella longbeachae D-4968 RepID=D1RJS1_LEGLO Length = 465 Score = 504 bits (1298), Expect = e-141, Method: Composition-based stats. Identities = 236/476 (49%), Positives = 322/476 (67%), Gaps = 17/476 (3%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 MK LQL +SQ L +TPQLQQAIR+LQLST++LQQE+Q LESNPLLE ++ + Sbjct: 1 MKPSLQLSISQHLTLTPQLQQAIRILQLSTIDLQQEIQLVLESNPLLEATPNEDKEEI-- 58 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 A+++ E D W +Y + + D D TT L Sbjct: 59 -----------AIDETRQQENDQSDFQWSELYQSSDKRTSFDDV--DYNFDNLHCTTTNL 105 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEE--IDIDEVEAV 178 +D+L WQ+ L+P SD DRAIAT+I+DA++ G+L++ + ++ S+ EE +D+DE+EAV Sbjct: 106 KDHLKWQLNLSPMSDIDRAIATAIIDAMNSDGFLSMGITELHASLTSEEHPLDLDEIEAV 165 Query: 179 LKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRV 238 R+Q FDPVG A +L + LLIQL Q + T L A+ II+ ++LL H++R LM+ Sbjct: 166 RHRLQLFDPVGCACINLAETLLIQLEQLPQDTEHLALAKKIITKDIELLGQHNYRQLMKN 225 Query: 239 TRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQ 298 ++ E + + +IQ L+P+PG I EY+IPD+ V+K N W V LN +P L Sbjct: 226 HQITEKTIDSVLKIIQKLNPKPGNLIHEDITEYIIPDLTVKKINNQWQVHLNQSVLPHLS 285 Query: 299 INQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQG 358 IN YAS+ A N D+ F+++NLQ+A+W +KS++SR +TLL+V+ CI++ QQ F E G Sbjct: 286 INNQYASLIQRADNSADNLFLKNNLQEARWFLKSIQSRQETLLKVATCIMQYQQGFLEYG 345 Query: 359 EEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASST 418 EE MKP++L DIA A+EMHESTISRVTTQK++H+PRG+FELKYFFSSH++T G E SST Sbjct: 346 EEAMKPLILNDIAIALEMHESTISRVTTQKFIHTPRGVFELKYFFSSHISTNVGEECSST 405 Query: 419 AIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRK 474 AIRA++KKLIAAEN KPLSDSK+T LL +QGI VARRTVAKYRE++ I PSN+RK Sbjct: 406 AIRAVIKKLIAAENRKKPLSDSKITQLLEKQGIQVARRTVAKYREAMGIAPSNERK 461 >UniRef50_A6TU36 RNA polymerase, sigma 54 subunit, RpoN n=2 Tax=Alkaliphilus RepID=A6TU36_ALKMQ Length = 462 Score = 500 bits (1289), Expect = e-140, Method: Composition-based stats. Identities = 169/482 (35%), Positives = 269/482 (55%), Gaps = 28/482 (5%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M LQL SQ+L MTPQL+QAI++LQ T+EL Q +Q +E NP+LE + E Sbjct: 3 MGYNLQLEQSQKLIMTPQLKQAIQILQFPTIELDQYIQDQIEKNPVLELSNEKEP----- 57 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTS----GDYIDDELPVYQGET 116 E + E+ + W G S ++ + Sbjct: 58 -----------GRELDKGIEDKKKEVDWKEYIKDMQNHGYSKGYAHSDENEFNYENIISS 106 Query: 117 TQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVE 176 LQ++L++Q +T I I+ +DE GYLT+ +E+I + + + I+ VE Sbjct: 107 DVNLQEHLLFQFHVTLLDREYNEIGEYIICNLDENGYLTLSIEEIAKDL---RVGINLVE 163 Query: 177 AVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLM 236 VL IQ F+P GVAA++L +CL +QL+ + I+ +L+L+A++ + + Sbjct: 164 DVLHIIQTFEPPGVAARNLTECLTLQLNSLAIED---QRVYDIVEKYLELMASNKYPVIA 220 Query: 237 RVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPR 296 + ++ + ++E + I++L+P+PG+ T E YVIPDV+V+K + + + +N S PR Sbjct: 221 KKMKISVNKVQEICDFIRTLEPKPGREFATNESSYVIPDVVVKKIDDEYVIIVNDYSAPR 280 Query: 297 LQINQHYASMC-NNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFF 355 L I Q Y + N N +F+ A WLIKS+E R +T+ RV I+ +Q++FF Sbjct: 281 LTIRQDYQKLMTNECENSETVKFLNDKFNAAAWLIKSIEQRRNTIYRVVESIMSKQRSFF 340 Query: 356 EQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSS-HVNTEGGGE 414 E G+++++PM L +IA+ +++HEST+SR T KY+ +P GIFELKYFF+S G Sbjct: 341 EHGKKHLRPMTLKEIAEEIDVHESTVSRATNGKYVETPIGIFELKYFFTSGVGGDVGVEG 400 Query: 415 ASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRK 474 SS I+A + ++I ENP KPLSD K+ L+ + + ++RRTVAKYR+ L IP S++RK Sbjct: 401 TSSKTIKAFISEIIQKENPKKPLSDDKIVKELATRAMHLSRRTVAKYRDDLRIPSSSKRK 460 Query: 475 QL 476 + Sbjct: 461 RY 462 >UniRef50_A3VRA5 DNA-directed RNA polymerase subunit N n=1 Tax=Parvularcula bermudensis HTCC2503 RepID=A3VRA5_9PROT Length = 481 Score = 497 bits (1279), Expect = e-139, Method: Composition-based stats. Identities = 180/483 (37%), Positives = 275/483 (56%), Gaps = 17/483 (3%) Query: 2 KQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHE----EID 57 L++R QQL MTPQLQQAI+LLQL+ LEL + +++ LE NP LE+ + + + + Sbjct: 4 SPKLEIRQGQQLIMTPQLQQAIKLLQLTNLELAEFVEEQLEENPFLERDERADIGDADRE 63 Query: 58 TRETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETT 117 ++D E D E ++ P +A SG SG + V E Sbjct: 64 PSASRDEEMARATDHFEAPTQADDTPGEAGAGDW---SGVSGRSGIADGEFDAVQNAEVQ 120 Query: 118 QTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEA 177 L D+L Q+ L+ + + ++D +D+ GYL E I +G ID VE Sbjct: 121 IGLHDHLTHQLHLSTTDEVTLLVGAHLIDLIDDGGYLREETEVIALRLG---IDRPFVEK 177 Query: 178 VLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMR 237 L IQ FDP GV A+ L++CL +QL + + D+LDLLA H L R Sbjct: 178 TLSLIQTFDPSGVGARSLQECLRLQLRDLGELDERISLFI----DNLDLLAAHKLPALRR 233 Query: 238 VTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRK-HNGHWTVELNSDSIPR 296 R+ E+ LK + I+ LDP+PG + + VIPDV V + +G W VELN++++P+ Sbjct: 234 AVRINEEELKALIATIRKLDPKPGLAFGGEAVQLVIPDVHVTEASDGGWKVELNAETLPK 293 Query: 297 LQINQHYASMCNNARN-DGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFF 355 + N+ Y S ++A N F+ ++ A WL+KSL+ R T+LRV+ IV+ Q F Sbjct: 294 VIANERYFSRLSSADNGAETRSFLNEHMATANWLVKSLDQRARTILRVATEIVKYQDEFL 353 Query: 356 EQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGG-E 414 +G Y++P+ L IA+ +EMHEST+SRVT+ KY+ +PRG FE+KYFF+ ++++ G Sbjct: 354 VRGIRYLRPLNLKTIAEKIEMHESTVSRVTSNKYISTPRGTFEMKYFFTPSISSKDGDVA 413 Query: 415 ASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRK 474 S+ ++R +++LI AE+P PLSD +L +LL+ + +ARRTVAKYRE+L +P S +R+ Sbjct: 414 YSAESVRHRIRELIEAEDPTNPLSDDRLVTLLAGEDFDIARRTVAKYREALGLPSSVKRR 473 Query: 475 QLV 477 +L Sbjct: 474 RLA 476 >UniRef50_C0G3T2 RNA polymerase sigma-54 factor n=7 Tax=Alphaproteobacteria RepID=C0G3T2_9RHIZ Length = 521 Score = 496 bits (1277), Expect = e-138, Method: Composition-based stats. Identities = 174/496 (35%), Positives = 275/496 (55%), Gaps = 28/496 (5%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTH------E 54 + L +R SQ L MTPQL Q+I+LLQ++ +EL Q L +E NPLL++I+ Sbjct: 24 LSPKLDIRQSQSLVMTPQLMQSIKLLQMTHIELDQFLDMEIEKNPLLDRIEADSDDLAGG 83 Query: 55 EIDTRETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDD------- 107 E + +E+ D D + + L A++D P Sbjct: 84 EPASGADDPTESADNDDWFQTEGAGAAENLSATFDNSLENIFPDDLGSSQEQWKLSAGEG 143 Query: 108 ------ELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDI 161 +L DY+ Q+ L DR IAT++ DA+DE+GYL + + + Sbjct: 144 AFSGNGYDIDQVTAGRLSLSDYVAEQIVLGFSKAADRFIATALADALDESGYLRIDIVGL 203 Query: 162 LESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIIS 221 ++G I+ E+ +L +Q FDP G+ A+DLR+CL IQL D+ P +E Sbjct: 204 AHNLG---IETAEIGRILGVLQGFDPPGLFARDLRECLAIQLRLKDRFDPAMEALIA--- 257 Query: 222 DHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLV-RK 280 +LDLLA DF TL ++ + + L + + I++LDP+PG + + ++PDVLV Sbjct: 258 -NLDLLARRDFATLQKICGVDQADLIDMLAEIRALDPKPGARFEVSVADTIVPDVLVFSA 316 Query: 281 HNGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTL 340 +G W +ELN ++PRL +N Y + + + + F+ +Q A WL++SL+ R T+ Sbjct: 317 RDGGWAIELNPATMPRLIVNNEYYAEVSGSVKTEEKAFLTDCMQTAGWLVRSLDQRARTI 376 Query: 341 LRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELK 400 L+V++ IV QQ F G ++KP+ L +A AV MHESTISRVT K++ +PRG+FEL+ Sbjct: 377 LKVAQEIVRQQDGFLRHGVAHLKPLNLRMVADAVGMHESTISRVTANKFMATPRGVFELR 436 Query: 401 YFFSSHV-NTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVA 459 YFF++ + ++EGG SS ++R ++++I AE P + LSD + L + G+ +ARRTVA Sbjct: 437 YFFTASLASSEGGEAHSSESVRHRIRQMIEAEKPDEVLSDDAIVDALKKDGVDIARRTVA 496 Query: 460 KYRESLSIPPSNQRKQ 475 KYRE+++I S QR++ Sbjct: 497 KYREAMNIASSVQRRR 512 >UniRef50_Q0ADR2 RNA polymerase, sigma 54 subunit, RpoN n=3 Tax=Betaproteobacteria RepID=Q0ADR2_NITEC Length = 487 Score = 495 bits (1276), Expect = e-138, Method: Composition-based stats. Identities = 197/486 (40%), Positives = 298/486 (61%), Gaps = 13/486 (2%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDT------HE 54 MK LQL+LS L +TPQL+Q+I+LLQLS LEL QE+ + ++ NPLLE + Sbjct: 1 MKPTLQLKLSTGLTLTPQLKQSIQLLQLSALELNQEISRIVQENPLLELDEDIDQEKLET 60 Query: 55 EIDTRETQDSETLDTADALEQKEMPEELPLDASW--DTIYTAGT---PSGTSGDYIDDEL 109 E S+ TA+A E ++ E + W D++Y+ + D D+ Sbjct: 61 EGQDSSLVSSDLSTTAEANESHDIRENTEISNDWLDDSLYSDQGAFLDTRRQDDEEYDQD 120 Query: 110 PVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDE- 168 +L+++L+ Q+ L + + I +VD++D+ GY T LE++ + + E Sbjct: 121 YSRLVSKPASLREHLLMQISLRQRCERKKKITALLVDSLDDNGYFTQDLEELAKLLPVEL 180 Query: 169 EIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLA 228 EIDI ++++ L IQ+ DP GV A++LR+CL IQLS TP EA ++++HL+ +A Sbjct: 181 EIDITDLKSALAYIQQLDPPGVGARNLRECLSIQLSALPDATPLRTEALKLVNEHLESVA 240 Query: 229 NHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVE 288 +F L +V E L+ LI L+P+PG YVIPDV+V K W + Sbjct: 241 AKNFPLLRKVLGCDETCLQSVYQLITQLNPKPGDDFNATTARYVIPDVIVTKSAKGWVAQ 300 Query: 289 LNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIV 348 LNSDS+PR+++N YA + RN+ + L++A+WLI++++ R T+LR S+ I+ Sbjct: 301 LNSDSVPRVRVNHLYADILKQNRNEAIRP-LMEQLKEARWLIRNIDQRMVTILRASQAII 359 Query: 349 EQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVN 408 + QQAF E GE ++P+V+ +IA+ + +HESTISR+TTQKY+ +P GIFELKYFF SH+ Sbjct: 360 DCQQAFLEHGETAVRPLVMREIAEVLGLHESTISRITTQKYMRTPHGIFELKYFFGSHIP 419 Query: 409 TEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIP 468 E G S+ AIR L+K+LI E+ KPL+DS+++ +L++QGI+VARRTVAKYRE + IP Sbjct: 420 AETGEAHSAIAIRGLIKQLIQNEDRKKPLNDSQVSQILAQQGIVVARRTVAKYREFMHIP 479 Query: 469 PSNQRK 474 P+N RK Sbjct: 480 PTNLRK 485 >UniRef50_C0GFB1 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Dethiobacter alkaliphilus AHT 1 RepID=C0GFB1_9FIRM Length = 464 Score = 495 bits (1275), Expect = e-138, Method: Composition-based stats. Identities = 183/477 (38%), Positives = 286/477 (59%), Gaps = 16/477 (3%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M L+L +Q+L MTP+LQQAI LLQ S LELQ +Q L NP+LE ++ + + Sbjct: 3 MSYHLKLEQTQKLVMTPELQQAITLLQYSALELQTYVQNQLLENPVLEIDESEDTEKKTD 62 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 E + D+++ +E ++ ++ S T D Y TL Sbjct: 63 ESVEEPVQEKDSIDWEEYLKDEGME---------PMTSFTIRQNEDAPGFDYYLSNEPTL 113 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 Q++L++Q+ L + T++ I I+ +D+ GYL +++ IG + E+ VL+ Sbjct: 114 QEHLLFQLGLCSLTPTEKHIGEFIIGNLDQHGYLKGDFKELAMLIG---AEPREILGVLE 170 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 IQ+FDPVGV A+DL++CLL+Q+ + + P A+ I+ HL +A++ + + R Sbjct: 171 VIQKFDPVGVGARDLQECLLLQIQEHNSPHPL---AKPIVRTHLADVADNKIKKIASELR 227 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQT-GEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQI 299 ++ AV+ I++LDP+PG+ G+ YV+PDV+V K +G + V +N +IPRL + Sbjct: 228 AGATDVQAAVDFIRTLDPKPGRLAGDVGDVRYVVPDVVVEKVDGEYVVIVNEQNIPRLAV 287 Query: 300 NQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE 359 N +Y S+ S FI++ L A WL+KS+E R T+ RV+ CI Q+ FF+QG Sbjct: 288 NPYYRSLLGKDSESVTSTFIKTRLDSALWLLKSIEQRRITVYRVTECITRIQRDFFDQGI 347 Query: 360 EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTA 419 ++++PM L IA + +HEST+SR T+ K++ +PRG+F LK+FF+S V+ G SS + Sbjct: 348 KHLRPMTLRQIADEIGVHESTVSRATSNKFVQTPRGLFPLKFFFASGVDDYHGTAVSSES 407 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 I+ +K+LI AEN +PLSD KL LLS++GI+V+RRTVAKYRE +SIP SN+RK+L Sbjct: 408 IKCHLKELIEAENVQRPLSDQKLMELLSKRGIVVSRRTVAKYREEMSIPSSNKRKRL 464 >UniRef50_B2UH35 RNA polymerase, sigma 54 subunit, RpoN n=39 Tax=Burkholderiaceae RepID=B2UH35_RALPJ Length = 500 Score = 495 bits (1274), Expect = e-138, Method: Composition-based stats. Identities = 177/499 (35%), Positives = 263/499 (52%), Gaps = 25/499 (5%) Query: 2 KQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRET 61 K L++R Q LA+TP+LQQ+++LLQLS E QE+Q+AL SNP LE+++ T Sbjct: 3 KAALEMRAKQHLALTPRLQQSVKLLQLSATEFAQEMQEALASNPFLEEVEQEAGAQPDAT 62 Query: 62 QDSETLDTAD-------------------ALEQKEMPEELPLDASWDTIYTAGTPSGTSG 102 + ++ AD + P D T + G Sbjct: 63 RANDLPGPADLDGSGTDHTPSEALPLETTTSAIETDPALATADEFPADFGTYYSHGGAHH 122 Query: 103 DYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDIL 162 +D T +L+++L ++ S D + ++++A+D+ GYL L +++ Sbjct: 123 GDGEDSDIGEWVHATPSLREHLHQELRSYRLSQRDCLLGQTVIEALDDDGYLRQLLSELI 182 Query: 163 ESIGDEEI-DIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTP----WLEEAR 217 E E++ L +Q DP GVAA+DL +CL +Q+ T E A Sbjct: 183 PLAPVEPPPTEKEMQIALALVQSLDPPGVAARDLSECLRLQIEARPADTEAEERIQEVAH 242 Query: 218 LIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVL 277 I+ HL LA +F + R ED L++A LI+ LDPRPG Y++PDV+ Sbjct: 243 DIVRSHLPRLAKREFTQMRRALGCTEDELRDACALIRMLDPRPGLRFSQAHAGYIVPDVI 302 Query: 278 VRKHNGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRN 337 V K G W N P +IN+ YA + R + LQ+A+WLI++ + R Sbjct: 303 VAKIRGKWIAVTNPAVAPCARINKVYAELFAQTRGYH-RTPLAHQLQEARWLIRNAQQRF 361 Query: 338 DTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIF 397 T+ RV+ IV Q+ F E GE MKP+VL D+A+ + +HESTISR T KY+ +PRGIF Sbjct: 362 ATIQRVAEAIVAHQKHFLEYGEVAMKPLVLRDVAEELGLHESTISRATGNKYMATPRGIF 421 Query: 398 ELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRT 457 E KYFFS + T+ GG S+ ++RAL+K++I AE+ PLSD L +L+EQG++VARRT Sbjct: 422 EFKYFFSRQLATDTGGACSAASVRALLKEMIEAEDADAPLSDVSLAKMLAEQGVIVARRT 481 Query: 458 VAKYRESLSIPPSNQRKQL 476 VAKYR + I P+ R+Q+ Sbjct: 482 VAKYRGLMRIAPAEMRRQV 500 >UniRef50_B3Q2R5 RNA polymerase sigma factor protein (Sigma-54) n=7 Tax=Rhizobiales RepID=B3Q2R5_RHIE6 Length = 483 Score = 493 bits (1270), Expect = e-138, Method: Composition-based stats. Identities = 185/484 (38%), Positives = 275/484 (56%), Gaps = 21/484 (4%) Query: 1 MK--QGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEID- 57 MK L R Q L +TPQL +IRLLQL+ EL Q ++Q +E NP L+ Sbjct: 1 MKSFTSLHQRQQQSLVITPQLIASIRLLQLAHTELNQFVEQEIEKNPFLDLASNDGGASG 60 Query: 58 --TRETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGE 115 D D ++ + L + W +I G S +D+ Sbjct: 61 VSPTAADDPNISAREDHVDGPARTDMPELSSPWKSIRDTGNLSPGERPSLDE-----FAA 115 Query: 116 TTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEV 175 +T+TL +++ Q+ LT F+ +R IA ++ D +D+TGYL V L ++ E + E V Sbjct: 116 STETLHEHVAHQIALTAFTPQERLIAGALADHLDDTGYLQVNLLELAERLNSPEAG---V 172 Query: 176 EAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTL 235 + VL+ +Q FDP G+ A+ L +CL IQL Q D+ P A + +L+LLA DFR L Sbjct: 173 KRVLEALQLFDPPGIFARSLGECLEIQLRQRDRFDP----AMAALVANLELLARRDFRAL 228 Query: 236 MRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKH-NGHWTVELNSDSI 294 R R+ ED L + +N I++LDP+PG Q+ E +IPDV V G W VELN + + Sbjct: 229 KRRCRVDEDDLLDMLNEIRALDPKPGNQFQSARSESIIPDVFVLPSPGGGWHVELNREIL 288 Query: 295 PRLQINQHYASMCNN--ARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQ 352 P++ INQ Y + A++ D F+ Q A WL++SL+ R T+L+V+ IV Q Sbjct: 289 PKVLINQTYFAQVTRLTAQSSKDQSFLNECFQSASWLVRSLDQRATTILKVATEIVRHQD 348 Query: 353 AFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHV-NTEG 411 F E G +++P+ L IA A++MHEST+SRVT+ KY+ +PRG+FELKYFF+ + +++G Sbjct: 349 VFLEDGIAHLRPLNLKTIADAIDMHESTVSRVTSNKYILTPRGVFELKYFFTVAIPSSQG 408 Query: 412 GGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSN 471 G S+ A+R ++ LIAAE LSD + + L E G+ +ARRTVAKYRE+++IP S Sbjct: 409 GDAHSAEAVRHQIRALIAAETLHDVLSDDGIVAKLKETGVDIARRTVAKYREAMNIPSSA 468 Query: 472 QRKQ 475 QR++ Sbjct: 469 QRRR 472 >UniRef50_Q03408 RNA polymerase sigma-54 factor n=8 Tax=Alphaproteobacteria RepID=RP54_CAUCR Length = 497 Score = 492 bits (1268), Expect = e-137, Method: Composition-based stats. Identities = 186/498 (37%), Positives = 286/498 (57%), Gaps = 28/498 (5%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQID-THEEIDTR 59 + L+LR Q L +TPQLQQAI+LLQLS +EL ++ LE NPLL++ + HE Sbjct: 3 LSHRLELRQGQGLVITPQLQQAIKLLQLSNIELDAFVEAELERNPLLQRDEGDHEPAVEV 62 Query: 60 ETQDSETLDTADALEQKEMPEELPL----------------DASWDTIYTAGTPSGTSGD 103 E + +L DA+ EL DA + +G G Sbjct: 63 EAERDASLTQVDAVADTTAGRELDTPVDDVSPGERATGEGTDAEHAGGQIDWSRAGGGGS 122 Query: 104 YIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILE 163 + DE + TL +L Q+ S AIA ++DAVDE GYL + + ++ + Sbjct: 123 FESDEGYERALTDSPTLAAHLRTQLVQAALSPAHNAIAEILIDAVDEGGYLRLDIVELAD 182 Query: 164 SIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDH 223 +G + VE L +Q F+PVGV A+D+R+CL +QL ++ P A + DH Sbjct: 183 RLG---CALALVEETLSVLQGFEPVGVFARDVRECLALQLKDLNRYDP----AMAAMLDH 235 Query: 224 LDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKH-N 282 L+LLA D L R+ + ++ L+E + I+SL+PRPG + + E ++PDV+VR+ Sbjct: 236 LELLAKRDMAGLRRICGVDDEDLREMIGEIRSLNPRPGAAYHSEPAETLVPDVMVREGLG 295 Query: 283 GHWTVELNSDSIPRLQINQHY-ASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLL 341 G W VELN+D++PR+ ++Q Y A + AR+D + F+ + A WL+KSL+ R T+L Sbjct: 296 GMWHVELNTDTLPRVLVDQRYHARVSKGARSDQEKTFVADCMASANWLVKSLDQRAKTIL 355 Query: 342 RVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKY 401 +V+ IV QQ F G E+++P+ L +A A+ MHEST+SRVT+ KY+ +PRG+FELK+ Sbjct: 356 KVASEIVRQQDGFLAFGVEHLRPLNLKTVADAIGMHESTVSRVTSNKYIATPRGVFELKF 415 Query: 402 FFSSHV-NTEGGGEASSTAIRALVKKLIAAEN-PAKPLSDSKLTSLLSEQGIMVARRTVA 459 FF+S + ++EGG S+ ++R +K L+ AE A SD ++ +L G+ +ARRTVA Sbjct: 416 FFTSAIQSSEGGEAHSAASVRHKIKGLVDAEKCEADVHSDDRIVEILKAAGVDIARRTVA 475 Query: 460 KYRESLSIPPSNQRKQLV 477 KYRE++ IP S +R++L+ Sbjct: 476 KYREAMRIPSSVERRRLM 493 >UniRef50_A9HW09 RNA polymerase sigma-54 factor n=8 Tax=Betaproteobacteria RepID=A9HW09_BORPD Length = 479 Score = 490 bits (1263), Expect = e-137, Method: Composition-based stats. Identities = 202/482 (41%), Positives = 295/482 (61%), Gaps = 25/482 (5%) Query: 2 KQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRET 61 + L+LR Q L +TPQLQQ+IRLLQLSTL+LQ E+ QAL NP+LE+ D E + Sbjct: 9 RPALELRTGQHLTLTPQLQQSIRLLQLSTLDLQAEISQALADNPMLERNDERSEAEVDAP 68 Query: 62 QDSE-TLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 + E +D A E + +E+P G G Y DD + TL Sbjct: 69 TEREADIDAEPAREAETRIDEMP---------------GAGGVYPDDRPDGPDTARSDTL 113 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDE-EIDIDEVEAVL 179 +++L+ Q+ LT D A+ + ++D +DE GYL PLE+ILE + E E D+DE+ A L Sbjct: 114 REHLLAQLGLTRAGRRDAALVSLLIDELDENGYLASPLEEILEWLPPEAEADLDELRAAL 173 Query: 180 KRIQRFDPVGVAAKDLRDCLLIQLSQFDK-------TTPWLEEARLIISDHLDLLANHDF 232 +Q FDP G+ A+D+ +CL++QL D L AR + +DHL LLA + Sbjct: 174 CLLQSFDPPGIGARDMAECLVLQLRNPDPSRLPEAADPTVLACARRLCADHLPLLAGGNA 233 Query: 233 RTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSD 292 L + + + A LI+ LDPRPG++ +Y +PDV+VRK W LNS Sbjct: 234 ARLRDALQCDDATARAAHALIRRLDPRPGRAWTVPAADYAVPDVIVRKTRQGWQAVLNSA 293 Query: 293 SIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQ 352 ++PRLQ+N YA + N R + + + LQ A+W+I+++E R DT+LRV++ IV Q Sbjct: 294 AVPRLQVNTLYAQLLGNQR-EASHAGLHAQLQQARWMIRNVEQRFDTILRVAQAIVAHQS 352 Query: 353 AFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGG 412 AFF +G M+P++L DIA + +HESTISR TTQKY+ +P G ELK+FF S V T+ G Sbjct: 353 AFFSEGPAAMRPLILKDIAGELGLHESTISRATTQKYMLTPFGTLELKHFFGSGVATDAG 412 Query: 413 GEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQ 472 AS+TA++A++++++A E+ AKPLSD+++T L++QGI++ARRTVAKYRE+L I P++ Sbjct: 413 DVASATAVQAVIRQMVAGEDRAKPLSDNQITQRLADQGIVIARRTVAKYREALRIAPASL 472 Query: 473 RK 474 RK Sbjct: 473 RK 474 >UniRef50_C5V3W1 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Gallionella ferruginea ES-2 RepID=C5V3W1_9PROT Length = 465 Score = 490 bits (1261), Expect = e-137, Method: Composition-based stats. Identities = 198/477 (41%), Positives = 294/477 (61%), Gaps = 13/477 (2%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 MK LQLR+SQQL +TPQLQQ+IRLLQLSTL++QQE+ + L+ NP+LE D Sbjct: 1 MKASLQLRMSQQLTLTPQLQQSIRLLQLSTLDMQQEIDRMLDENPMLELGDESVYHALSG 60 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 E D E + E + T G + + Q ++ Sbjct: 61 EPVREDHAQVDNAESERGEAEPFE-----------WNAETRGADDESDAYPEQAALQASM 109 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDE-EIDIDEVEAVL 179 ++YL Q+ ++ DR + ++DA+DE GY+ L ++ + E E+ +D++E L Sbjct: 110 REYLHSQLSVSQLDSRDRLVIGMLIDALDENGYMLQDLAELAGLLPAELELTLDDLETAL 169 Query: 180 KRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVT 239 ++Q D G+ A+ L +CL +QL + TP + A +++ +LDLLA HDF + ++ Sbjct: 170 VQLQYLDRPGLGARTLSECLALQLKALPEQTPGRDLAMSLVNGNLDLLAAHDFSKIKKLL 229 Query: 240 RLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQI 299 R + L+ A LI SL+P+PG +YV+PDV+V +H G W LN+D++PRL++ Sbjct: 230 RCSDASLRVAQELIVSLNPKPGCEFDRSVADYVVPDVIVEQHKGKWRARLNADAMPRLRV 289 Query: 300 NQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE 359 NQ YA++ R+D + S LQ+A WLIKSL R DT+LRV++ IV++Q AF E G+ Sbjct: 290 NQMYANILQQ-RDDKSGAPLVSQLQEASWLIKSLRQRFDTILRVAQAIVDRQGAFLEHGD 348 Query: 360 EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTA 419 M+P+VL +IA +EMHEST+SR TTQK++ +PRGI+E KYFF S + TE GG SS A Sbjct: 349 IAMRPLVLREIADVLEMHESTVSRGTTQKFMRTPRGIYEFKYFFGSGLVTESGGVCSSAA 408 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 IR L+K+L+ E+ +KPL+D +++ +L++QGI+VARRT+AKYRE+L I P N RK L Sbjct: 409 IRELIKQLVGGEDTSKPLTDGRMSEILAQQGIVVARRTIAKYREALHILPVNLRKSL 465 >UniRef50_P22881 RNA polymerase sigma-54 factor n=38 Tax=Rhizobiales RepID=RP54_RHISN Length = 519 Score = 490 bits (1261), Expect = e-137, Method: Composition-based stats. Identities = 178/513 (34%), Positives = 277/513 (53%), Gaps = 45/513 (8%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHE-EIDTR 59 + L LR SQ L MTPQL Q+I+LLQ++ LEL Q + Q +E NPLLE E + Sbjct: 3 LSASLHLRQSQSLVMTPQLMQSIQLLQMTHLELGQFIAQEVEKNPLLEFQSADEAGFGSD 62 Query: 60 ETQDSETLDTADALEQKEMPEE----------------LPLDASWDTIYTA--------- 94 + ET TA+A +E + LDA + ++ Sbjct: 63 RPERDETGLTAEAGGAEESVDHGDLYDSATTSPGERLSTELDADFANVFQDDTAPQRADA 122 Query: 95 --------GTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVD 146 P + + +TL++ L+ QV + DR IA ++D Sbjct: 123 PELLGQWKSMPGAGGSNDGEGYDLDDFVAGRKTLRETLIEQVAFAFAAPADRLIAQHLID 182 Query: 147 AVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQF 206 +DE GYL + + +G +V VL +Q+FDP GV A+ L +CL IQL Sbjct: 183 QLDEAGYLHAEIAETAARLG---ASAADVTRVLLVLQQFDPPGVFARTLSECLAIQLRLR 239 Query: 207 DKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQT 266 ++ P +E +L+LLA DF +L ++ + E+ L E + I+ LDP+PG S +T Sbjct: 240 NRLDPAMEALVA----NLELLARRDFASLKKICGVDEEDLIEMLAEIRKLDPKPGTSFET 295 Query: 267 GEPEYVIPDVLVRKH-NGHWTVELNSDSIPRLQINQHYASMCNNA--RNDGDSQFIRSNL 323 E +IPDV+VR +G W VELN D++PR+ +N Y + + +N + F+ + Sbjct: 296 SVTEAIIPDVVVRSAPDGGWLVELNPDALPRVLVNHDYFAEISRHSQKNSAEQAFLSECM 355 Query: 324 QDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISR 383 Q+A WL +SL+ R T+L+V+ IV QQ AF G ++++P+ L +A A++MHEST+SR Sbjct: 356 QNANWLTRSLDQRARTILKVASEIVRQQDAFLVHGVDHLRPLNLRIVADAIKMHESTVSR 415 Query: 384 VTTQKYLHSPRGIFELKYFFSSHV-NTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKL 442 VT+ KY+ +PRG+FELKYFF+ + + E G S+ ++R ++ +I+ E+ LSD + Sbjct: 416 VTSNKYILTPRGLFELKYFFTVSIGSAENGDAHSAESVRHRIRTMISQESADAVLSDDDI 475 Query: 443 TSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 +L G+ +ARRTVAKYRE+++IP S QR++ Sbjct: 476 VDILKRAGVDIARRTVAKYREAMNIPSSVQRRR 508 >UniRef50_A0LK00 RNA polymerase, sigma 54 subunit, RpoN n=7 Tax=Deltaproteobacteria RepID=A0LK00_SYNFM Length = 488 Score = 489 bits (1259), Expect = e-136, Method: Composition-based stats. Identities = 181/486 (37%), Positives = 276/486 (56%), Gaps = 17/486 (3%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 ++ QL+LSQQL MTPQLQQAI+LLQLS LEL + + Q LE+NP+LE+ Sbjct: 4 LELKQQLKLSQQLIMTPQLQQAIKLLQLSRLELLETIHQELETNPVLEESQEESGEAEEP 63 Query: 61 TQDSETLDTADAL-----EQKEMPEELPLDASWDTIYTAGTPSG----TSGDYIDDELPV 111 + A + ++ E+ E++ D W+ + + + Sbjct: 64 GAAEAAAEVAAEVAAEPYQEVEILEKVREDFDWEGYLDEYNTGTPVLVETDPNKEWQSYD 123 Query: 112 YQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEID 171 + +LQD+L+WQ+ L+ SD +R +A I+ ++ GYL L++I ++ Sbjct: 124 QRLTVPTSLQDHLVWQIRLSDMSDEEREVAGLIIGNLNRDGYLDASLDEIAAM---GKVS 180 Query: 172 IDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHD 231 D VE VL +Q DPVGVAA+D R+CLLIQ + + I+ +L L N + Sbjct: 181 TDMVERVLAVVQLLDPVGVAARDPRECLLIQARSLELED---DLVVRIVEHYLHFLENRN 237 Query: 232 FRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNS 291 + L+R + +K AV++I SLDPRPG EY+ PD+ V K +G + V LN Sbjct: 238 YPALIRALKRPAPEVKAAVDVILSLDPRPGSRFAEESTEYISPDIYVMKVDGEFVVLLNE 297 Query: 292 DSIPRLQINQHYASMCNNARN--DGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVE 349 D +P+L+++ +Y ++I+ L+ A WLIKS+ R TL +V+ IV+ Sbjct: 298 DGMPKLKVSSYYRHALTEDAELPSEAKEYIQGKLRSAAWLIKSIHQRQRTLFKVAHSIVK 357 Query: 350 QQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNT 409 Q FFE+G +++PMVL D+A+ V MHESTISRVT KY+H+P GIFELKYFF+S +N+ Sbjct: 358 LQADFFEKGVSHLRPMVLRDVAEDVGMHESTISRVTASKYMHTPHGIFELKYFFNSSINS 417 Query: 410 EGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPP 469 G +S +++ ++++I E+ A+P SD ++ L + I +ARRTVAKYRE L + P Sbjct: 418 VLGEAVASESVKERIRQIIREEDLARPFSDQEIVEKLEGENISIARRTVAKYREMLGVLP 477 Query: 470 SNQRKQ 475 SN+RK+ Sbjct: 478 SNKRKR 483 >UniRef50_Q6FED3 RNA polymerase sigma-54 factor n=4 Tax=Acinetobacter RepID=Q6FED3_ACIAD Length = 482 Score = 488 bits (1256), Expect = e-136, Method: Composition-based stats. Identities = 225/486 (46%), Positives = 326/486 (67%), Gaps = 13/486 (2%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDT-R 59 MK + L+++ L++TPQLQQAIRLLQLS+LEL+QE+Q L+SNPLLE+I+ ++ Sbjct: 1 MKLSVGLKVANSLSLTPQLQQAIRLLQLSSLELEQEIQIQLDSNPLLEKIEDEGTAESLT 60 Query: 60 ETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQT 119 ++ E+ D L +P +LP+D WD +YT + + S +Y + E + T Sbjct: 61 HLENKESRDLTQDLNADHLPNDLPVDTDWDDVYTHQSTALASPEYEERED---NRQAEHT 117 Query: 120 LQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLED--------ILESIGDEEID 171 L+++++ QV L FS DR IA +VD +DE G+L +E+ + E+ +EEI+ Sbjct: 118 LKEHILAQVNLLHFSTVDRLIAYCVVDCLDEKGFLDAEIEEIIEAAQYLLSEAGLEEEIE 177 Query: 172 IDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHD 231 DEV VLK IQR DPVGV +K+L +CL +QL D TP EA ++ + +LL ++D Sbjct: 178 ADEVMVVLKHIQRLDPVGVGSKNLAECLKVQLDVLDVFTPLRNEALSLLK-YYELLVSND 236 Query: 232 FRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNS 291 L++ T L +KEA+ L+++L P PG + + +Y +PDV+V K + W V+LN Sbjct: 237 LNKLLKSTNLTMLQVKEAIELLKTLKPYPGLDFEAQDSDYQVPDVVVTKKDQSWQVQLNP 296 Query: 292 DSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQ 351 D +P+L+IN Y++M A + ++R+ + +AK IKS++ R+ TLL+V+ CIVE Q Sbjct: 297 DIMPKLRINSFYSNMIRRADQSDGNMYLRNQMLEAKNFIKSIDERHKTLLKVATCIVEHQ 356 Query: 352 QAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEG 411 + FFE G E MKP+VL D+A+ VE+HEST+SRVTT KY+ +PRG+FELKYFFSSHV T Sbjct: 357 RNFFEIGPEGMKPLVLRDVAEEVELHESTVSRVTTNKYMLTPRGLFELKYFFSSHVGTTS 416 Query: 412 GGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSN 471 GGE SSTAIRA +KK+I+AENP KPLSD+ + ++L ++GI VARRTVAKYRESL IP S+ Sbjct: 417 GGECSSTAIRARIKKMISAENPRKPLSDNIIANMLKDEGIDVARRTVAKYRESLHIPSSS 476 Query: 472 QRKQLV 477 +RK L+ Sbjct: 477 ERKVLI 482 >UniRef50_A9IMC8 RNA polymerase sigma-54 factor n=3 Tax=Bordetella RepID=A9IMC8_BORPD Length = 489 Score = 487 bits (1254), Expect = e-136, Method: Composition-based stats. Identities = 177/472 (37%), Positives = 266/472 (56%), Gaps = 3/472 (0%) Query: 6 QLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSE 65 +LRL QQ A+TP+LQQ+++LLQ+S LE QE++QAL NP L + D + D Sbjct: 20 ELRLHQQTALTPRLQQSVKLLQMSALEFNQEVRQALVENPFL-EEDEEAAASAPQAPDGA 78 Query: 66 TLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLM 125 D A D Y+ PS + + +LQ+ L Sbjct: 79 GADAPVAQAAAATSSGALGDEHGPAAYSGDYPSARRANDGAPMDMGLWVGASVSLQERLD 138 Query: 126 WQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILE-SIGDEEIDIDEVEAVLKRIQR 184 ++ S DR +A IV A+DE GYL PL ++ E + D E A L+ +Q+ Sbjct: 139 QELRTYRLSPRDRLLAQYIVQALDEDGYLRQPLLELAEPGVFGTPPDESEWRAALRLVQQ 198 Query: 185 FDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKED 244 D G+AA+DL++CL +QL D P + AR I+ HLD+LA HD+ L E Sbjct: 199 LDAPGLAARDLQECLALQLQALDGQRPEVALARRIVDQHLDILARHDYEALQNALGCDES 258 Query: 245 VLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYA 304 L++A + ++SLDPRPG+ P Y++PDV+VRK +G W V N ++P+ ++++ YA Sbjct: 259 SLRQACDTVRSLDPRPGRRYDEAPPAYIVPDVIVRKESGQWRVYCNRGAVPQPRLHRVYA 318 Query: 305 SMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKP 364 + R D + LQ+A+WL++++E R T+ RV+ IV Q FFE G ++P Sbjct: 319 DLFRTTRYR-DRGPMAQELQEARWLVRNVEQRYSTIQRVAEAIVRLQHMFFEYGPVALRP 377 Query: 365 MVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALV 424 ++L +++ +++HEST+SR T KY+ +P GI E KYFFS + T+ GG S+ A+RAL+ Sbjct: 378 LMLREVSAELDIHESTVSRATANKYMATPMGILEFKYFFSRELATDTGGSCSAGAVRALI 437 Query: 425 KKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 +LI E+P PLSD L S L+ GI+VARRTV+KYR + PP++ R+Q Sbjct: 438 AELIDNEDPRMPLSDVALASKLAADGIVVARRTVSKYRAQIKRPPADLRRQY 489 >UniRef50_D0STY4 RNA polymerase sigma-54 factor n=1 Tax=Acinetobacter lwoffii SH145 RepID=D0STY4_ACILW Length = 483 Score = 486 bits (1251), Expect = e-136, Method: Composition-based stats. Identities = 225/487 (46%), Positives = 325/487 (66%), Gaps = 14/487 (2%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHE--EIDT 58 M+ + ++++ L++TPQLQQAIRLLQLS+LEL+QE+Q L+SNPLLE+++ E + Sbjct: 1 MRLSVGIKIANSLSLTPQLQQAIRLLQLSSLELEQEVQLQLDSNPLLEKVEEQITLESLS 60 Query: 59 RETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQ 118 ++E D + L +P++LP+D WD +YT S + ++ + E + Q Sbjct: 61 TIESNNENHDLTNELNADHLPDDLPVDTDWDDVYTHQPTSLGAAEFEERED---NRQGHQ 117 Query: 119 TLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESI--------GDEEI 170 +LQ+Y++ Q+ L FS D+ IA IVD++D+ G+L L +I S+ +EEI Sbjct: 118 SLQEYMLEQINLLNFSQVDKLIAYCIVDSLDDKGFLDAELSEITASVQHLLSSMGSEEEI 177 Query: 171 DIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANH 230 + DEV VLK IQR DPVGV ++ L +CLL+QL +T +A ++ H +LL + Sbjct: 178 EDDEVAVVLKHIQRLDPVGVGSRSLAECLLVQLDNLPTSTSCRNDAIKLLQ-HYELLITN 236 Query: 231 DFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELN 290 + L++ T L + L+ AV+L+++L P PG + E +Y +PDV+V K N W V LN Sbjct: 237 ELPKLIKQTGLNPEQLRCAVDLLKTLKPHPGLEFENKESDYQVPDVVVMKKNNCWQVNLN 296 Query: 291 SDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQ 350 SD +P+L++N YA M A D+Q++R+ + +AK IKS++ R+ TLL+V+ CIVE Sbjct: 297 SDVLPKLRVNSFYAKMIRRADQSDDNQYLRNQMLEAKNFIKSIDERHKTLLKVATCIVEH 356 Query: 351 QQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTE 410 Q+ F E G E MKP+VL DIA+ VE+HEST+SRVTT KY+ +PRG+FELKYFFSSHV T Sbjct: 357 QKMFLEIGAEGMKPLVLRDIAEEVELHESTVSRVTTNKYMLTPRGLFELKYFFSSHVGTT 416 Query: 411 GGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPS 470 GGEASSTAIRA +KKLI+ EN KPLSD+ + ++L ++GI VARRTVAKYRESL IP S Sbjct: 417 SGGEASSTAIRAKIKKLISEENARKPLSDNAIANMLKDEGIDVARRTVAKYRESLHIPSS 476 Query: 471 NQRKQLV 477 ++RK L+ Sbjct: 477 SERKVLI 483 >UniRef50_Q2W084 DNA-directed RNA polymerase specialized sigma subunit n=14 Tax=Alphaproteobacteria RepID=Q2W084_MAGSA Length = 503 Score = 484 bits (1246), Expect = e-135, Method: Composition-based stats. Identities = 186/503 (36%), Positives = 280/503 (55%), Gaps = 36/503 (7%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 + L +R +Q L MTPQLQQAI+LLQLS EL + Q LE NPLLE+ + + E Sbjct: 3 IGPRLDIRQTQSLVMTPQLQQAIKLLQLSNFELTAFIDQELERNPLLEREEGERGPEPTE 62 Query: 61 TQDSETLDTADALEQKEMP---------EELPLDASWDTIYTAGTPSGTSGDYI------ 105 + T E P E +D +D + + S D Sbjct: 63 PKVDSTDLAVLDSAPAEAPLLDGMNGGSAEDGMDVDYDNTFNNDSASDAVQDESLGQWGN 122 Query: 106 ----------DDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLT 155 + +L+D+L QV + DR IA +++ +DE GYL Sbjct: 123 VGGGGGGFDDGESNLEQMVAGEISLRDHLAAQVSMDIPDAGDRLIALHLIEMLDEAGYLI 182 Query: 156 VPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEE 215 L+++ E +G + V VLKR+Q FDPVGV A+ L++CL +QL++ ++ P Sbjct: 183 GDLDELAERLG---CPTERVLVVLKRVQGFDPVGVFARSLKECLGLQLAEKNRLDP---- 235 Query: 216 ARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPD 275 A + D+L+LLA D LM+ + + + E + I++LDP+P + + V PD Sbjct: 236 AMQALLDNLELLARRDLPGLMKACGVDAEDMAEMIGEIKALDPKPALAFDHIVAQPVTPD 295 Query: 276 VLVRK-HNGHWTVELNSDSIPRLQIN-QHYASMCNNARNDGDSQFIRSNLQDAKWLIKSL 333 VL+R+ +G W VELNSD++PR+ +N ++Y+ + AR+ D +I Q A WL+KSL Sbjct: 296 VLMRRTQDGAWVVELNSDTLPRVLVNTRYYSKIAGAARSKDDKTYISERFQSANWLVKSL 355 Query: 334 ESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSP 393 R T+L+V+ IV QQ AFF G ++++P+VL DIA A+ MHEST+SRVT+ KY+ +P Sbjct: 356 HQRATTILKVATEIVRQQDAFFRLGVQHLRPLVLRDIATAISMHESTVSRVTSNKYMATP 415 Query: 394 RGIFELKYFFSSHVNTEGGGE-ASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIM 452 RGI+ELKYFF+ + + GG+ S+ ++R +K LI AE + LSD + L +GI Sbjct: 416 RGIYELKYFFTQAIGSADGGDAHSAESVRHRIKALIDAEGKS-VLSDDSIVDALKAEGID 474 Query: 453 VARRTVAKYRESLSIPPSNQRKQ 475 +ARRTVAKYRE+++I S QR++ Sbjct: 475 IARRTVAKYREAMNIGSSVQRRR 497 >UniRef50_Q0BUA8 RNA polymerase sigma-54 factor rpoN n=1 Tax=Granulibacter bethesdensis CGDNIH1 RepID=Q0BUA8_GRABC Length = 537 Score = 484 bits (1246), Expect = e-135, Method: Composition-based stats. Identities = 185/516 (35%), Positives = 279/516 (54%), Gaps = 48/516 (9%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 + L LR SQ L MTPQL+QAI+LLQ + +E+ +++ LE NPLLE+ ++ E I R Sbjct: 23 IGPRLDLRQSQSLVMTPQLRQAIKLLQFNNMEVAAFIEEELERNPLLERDESTELIQERP 82 Query: 61 TQDS-----ETLDTADALEQKE-MPEELPLDASWDTIYTAGTPSGT------------SG 102 D + LD+ADA + E PLD ++Y + + S Sbjct: 83 APDQTGPEPDFLDSADAASSDHMISEAGPLDVDPGSLYDEPGETASFLSSQPTGNHANSF 142 Query: 103 DYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDIL 162 D ++ + E +L++ L Q+ L S DR I ++ +D G LT+P I Sbjct: 143 DNSPFDVISQRLEYRPSLREQLAEQLRLCFASPQDRLIGAHLIAQLDAAGRLTMPPAAIA 202 Query: 163 ESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISD 222 +++ + +E + ++ FDP G+ DL++CL QL F++ P A I+ + Sbjct: 203 KALN---CPLPHLENIRTAMRYFDPPGLFCLDLKECLTTQLQAFNRYDP----AMAILLE 255 Query: 223 HLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHN 282 HLDLLA + R LM + + + L ++ I+ +P+PG + P+ +IPDVL+ + Sbjct: 256 HLDLLAQRNHRRLMSLCGVDAEDLAGMIDDIKRCNPKPGAGFDSDLPQTIIPDVLMSRRP 315 Query: 283 ----------------------GHWTVELNSDSIPRLQINQH-YASMCNNARNDGDSQFI 319 G W +ELN +++PR+ +N + + D FI Sbjct: 316 ATAHNEDDDPLSSPLLLDVAIAGEWLIELNPETMPRVLVNMGGLTRFARRSMSRDDRSFI 375 Query: 320 RSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHES 379 + L A WL+KSL+ R+ T+LRVS IV QQQAFF G ++KP++L DIA+AV+MHES Sbjct: 376 KEKLNTAHWLVKSLQQRSQTILRVSAEIVRQQQAFFRHGVSHLKPLILRDIAEAVDMHES 435 Query: 380 TISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSD 439 TISRVT KY+ +PRG ELKYFF++ ++ G S+ AIR ++ LI E + LSD Sbjct: 436 TISRVTANKYIATPRGTLELKYFFTTAISGADGENFSAEAIRHRIRTLIDQEPASDVLSD 495 Query: 440 SKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 L + L ++GI +ARRTVAKYRE+L IP S QRK+ Sbjct: 496 DALVTHLKQEGIDIARRTVAKYREALRIPSSVQRKR 531 >UniRef50_B9XGP4 RNA polymerase, sigma 54 subunit, RpoN n=2 Tax=Verrucomicrobia RepID=B9XGP4_9BACT Length = 498 Score = 483 bits (1244), Expect = e-135, Method: Composition-based stats. Identities = 169/504 (33%), Positives = 274/504 (54%), Gaps = 34/504 (6%) Query: 1 MKQGLQL--RLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQI-----DTH 53 M QGLQL RL+Q L ++PQ+QQ++ LLQ TLEL+ ++ L+ NP+LE++ D Sbjct: 1 MAQGLQLAQRLTQSLVLSPQMQQSLALLQAPTLELKALVETELQQNPVLEEVAAPETDQS 60 Query: 54 EEIDTRETQDSETLDTADALEQ------------------KEMPEELPLDASWDTIY-TA 94 E T + + E +D + E + LD W Y + Sbjct: 61 ERAKTDDGEQVEAVDPTEPPADVTFDPATEKADPQTEEFLAEFEKLSQLDQEWRDHYAST 120 Query: 95 GTPSGTSGDYIDDELPVYQ-GETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGY 153 P+ S D + ++ +LQ+ L+ QV + + R I ++ +D+ GY Sbjct: 121 NAPTRQSADEEEKRQFMFDSLVAGTSLQEVLLEQVRESGLPEDLRPIGEMLIGNIDDYGY 180 Query: 154 LTVPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWL 213 L ++++ I ++E VLK IQ FDP GV A+DLR+CLL+QL + Sbjct: 181 LKANIDELS---FSTNIPAVKIEEVLKVIQTFDPPGVGARDLRECLLLQLERAGDQESIE 237 Query: 214 EEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVI 273 II D++D L + R L+ D ++EA+ I L+PRPG++ +Y++ Sbjct: 238 ---YKIIRDYMDALGKRRIPEIARGLGLEVDEVQEAIASIGRLEPRPGRAFLADNHQYIL 294 Query: 274 PDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARND-GDSQFIRSNLQDAKWLIKS 332 P+V V K + V N++ IP L+I+ Y + + N +IR ++ K+LIKS Sbjct: 295 PEVFVNKVGDDFVVTTNNEQIPHLRISNTYKDLMAQSGNSSEVINYIREKIRAGKFLIKS 354 Query: 333 LESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHS 392 L R T+L ++ IV++Q+ F E+G +KPM + +A+AV +HE+T+SR + KY+ + Sbjct: 355 LHQRQQTILNIAIEIVKRQREFMEKGVSLLKPMTMVQVAEAVGVHETTVSRAVSSKYMQT 414 Query: 393 PRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIM 452 P+GIFE+KYFF++ + T G S+T+++ ++ ++ E+ KPLSD ++ +L E+GI+ Sbjct: 415 PQGIFEMKYFFTAGIQTASGEGLSNTSVKDMIAEMFKKEDTTKPLSDQEIVKMLQEKGIV 474 Query: 453 VARRTVAKYRESLSIPPSNQRKQL 476 +ARRTVAKYR L+I PSN RK Sbjct: 475 IARRTVAKYRSELNILPSNLRKVY 498 >UniRef50_A3EWH7 RNA polymerase, sigma 54 subunit, RpoN n=2 Tax=Leptospirillum sp. Group II RepID=A3EWH7_9BACT Length = 486 Score = 483 bits (1244), Expect = e-135, Method: Composition-based stats. Identities = 164/487 (33%), Positives = 257/487 (52%), Gaps = 18/487 (3%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 ++Q L+++L Q++ MTPQLQQAI LL L+ L+L++E+ Q ++NPLLE + + D+ Sbjct: 2 IRQRLEIKLGQKMVMTPQLQQAIHLLMLAKLDLREEILQETQTNPLLELEEEGDWEDSVP 61 Query: 61 TQDSETLDTADALEQKEMPEELPLD----------ASWDTIYTAGTPSGTSGDYIDDELP 110 + L + EE D D D D Sbjct: 62 ESSIDHLPADSENRETVPEEETNPDPLMSWDYSLHEDMDDSGLYQEERSIREDPESDFSY 121 Query: 111 VYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEI 170 TL+D+L+WQ+ S ++ +A ++ ++E GYL V E+I ES+ Sbjct: 122 EKVLAAPTTLEDHLIWQISFREMSPVEKELAHFLIGNINEDGYLAVSEEEIPESL---RT 178 Query: 171 DIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANH 230 D + VL IQ DP GV A++LR+CL+IQ ++ LD Sbjct: 179 DPEMFPRVLSWIQECDPPGVGARNLRECLMIQARMLHLEKTV---VWSVLESQLDEFMEM 235 Query: 231 DFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHN-GHWTVEL 289 ++ + R + + ++EA +I+ L+P+PG+ + PDV G V L Sbjct: 236 KYKGIARALSVSVEDIQEAGKIIRKLEPKPGRPYFRDMAMPISPDVRFYDAGHGEIRVGL 295 Query: 290 NSDSIPRLQINQHYASMCNN-ARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIV 348 N + +PRL+I Y S+ + D ++I L+ A W +KS+E R T+LRV+ I+ Sbjct: 296 NEEGVPRLRIQSAYKSLLKTMEKKDKTREYIEEKLRSAMWFMKSIEQRKKTILRVAEAIL 355 Query: 349 EQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVN 408 Q+ FF +G +KP+VL IAQ + +HESTISRVT QKY +P GI ELK+FFS + Sbjct: 356 RHQEDFFRRGPLGLKPLVLKTIAQDLGLHESTISRVTNQKYAETPFGIVELKFFFSGGLP 415 Query: 409 TEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIP 468 ++ G E SS ++R ++ ++ E+ + PL+D ++ + L ++GI++ARRTVAKYR L IP Sbjct: 416 SQSGSEHSSVSVREKIRDMVHGESKSAPLTDQEIMNRLGKEGIVIARRTVAKYRMELDIP 475 Query: 469 PSNQRKQ 475 P N+RKQ Sbjct: 476 PVNKRKQ 482 >UniRef50_Q31GC3 Sigma-54 (RpoN) n=2 Tax=Bacteria RepID=Q31GC3_THICR Length = 500 Score = 483 bits (1243), Expect = e-135, Method: Composition-based stats. Identities = 203/495 (41%), Positives = 307/495 (62%), Gaps = 20/495 (4%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDT-------- 52 + GLQ+ + QQL +TPQLQQ+I++LQ S LE+QQ + LE+N +LE + Sbjct: 3 LMPGLQINIGQQLKLTPQLQQSIKILQYSALEVQQTISTTLETNFMLELDEDGSDDTEEF 62 Query: 53 ----HEEIDTRETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGT--SGDYID 106 E + + SET D + ++L D W+ +Y S + S + D Sbjct: 63 DAADSEYEEEPLNESSETETELDIEASDTLSDDLQADYEWEEVYIDSPISNSIKSNNNDD 122 Query: 107 DELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIG 166 P TL + L WQ ++ + D+ IA+ I+D +D+ GYL PLEDI+ S+ Sbjct: 123 YTAPENYTSAEVTLSEKLYWQADIYSWPDSQDVIASYIIDDIDDEGYLKTPLEDIMASLQ 182 Query: 167 DEE----IDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISD 222 E + + ++E VL IQ+F+P GV A+DL + L++QL + P++ A II + Sbjct: 183 KNEPDLIVSLADIEQVLSVIQQFEPTGVGARDLSEGLILQLKALPQ-NPYVVTAIKIIEE 241 Query: 223 HLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHN 282 + DLL+ D++ + ++ L ++ L E +++IQ+L PRPG+ + + E VIPD+ + + Sbjct: 242 NFDLLSVRDYKRIKKIYLLNDEELMEVIHVIQALSPRPGREYSSTQGEIVIPDLKLYRSK 301 Query: 283 GHWTVELNSDSIPRLQINQHYASMCNNAR-NDGDSQFIRSNLQDAKWLIKSLESRNDTLL 341 + VELN D+ PRL IN Y M + + DS+ I+ L +AK LIKS++SR +TLL Sbjct: 302 DGFIVELNQDAFPRLTINSAYIDMAGSLGTDSSDSKQIKEQLIEAKGLIKSIQSRGETLL 361 Query: 342 RVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKY 401 RV + I+E+Q FFE+GE+ M+PMVL D+A+A+E+HESTISR T QKY+ +PRG FELKY Sbjct: 362 RVGKYIIEKQARFFEEGEQAMQPMVLRDVAEALELHESTISRATNQKYMQTPRGTFELKY 421 Query: 402 FFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKY 461 FFS+ V+ G + S+ AI++ +K+LI E+P KPLSD+KL +LL E+ I VARRT+AKY Sbjct: 422 FFSTGVSQYGSDDQSAIAIKSHIKQLIEGEDPNKPLSDNKLMALLEEKEINVARRTIAKY 481 Query: 462 RESLSIPPSNQRKQL 476 RE+L IP S++RK+L Sbjct: 482 REALHIPSSSERKKL 496 >UniRef50_C9R8T3 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Ammonifex degensii KC4 RepID=C9R8T3_AMMDK Length = 453 Score = 483 bits (1243), Expect = e-135, Method: Composition-based stats. Identities = 170/474 (35%), Positives = 261/474 (55%), Gaps = 27/474 (5%) Query: 2 KQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRET 61 K ++L +Q+LA P+LQQA+ +LQ ST EL Q +QQ L N Sbjct: 4 KADIRLETAQKLAFRPELQQAVAVLQFSTQELWQYVQQQLTEN----------------- 46 Query: 62 QDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQ 121 L+ + E E PEE + SW + G S +L Sbjct: 47 ---PLLELKEEGEGGEPPEEEASEDSWVDYLCDASDLGLSQQEPASSPEPVPVAPGPSLY 103 Query: 122 DYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKR 181 ++L+ Q+ P + T+RA+A + +D+ GYL +PL + +G I + V LK Sbjct: 104 EHLLQQLAFLPLNSTERAVAEFLAGNLDQDGYLRLPLAEAASLLG---ISEEAVARGLKV 160 Query: 182 IQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRL 241 +Q +P GV A+DLR+CLL+QL + AR ++ +HL+ LA ++ L+R + Sbjct: 161 LQSLEPPGVGARDLRECLLLQLERSHPED---HLARKLVGEHLEELAEGEWAKLVRKLGV 217 Query: 242 KEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQ 301 ++ L AV I+ L+PRPG + + EYV+PD++V++ G + V LN PRL IN Sbjct: 218 SQEELDRAVERIRQLNPRPGSNFGSNWVEYVVPDIVVQEVEGDYEVLLNESVYPRLVINS 277 Query: 302 HYASMCNNAR-NDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 Y + + + F++ L+ A WLIK+LE R TL RV+ +VE+Q++FF+QG Sbjct: 278 TYRDLLRHPQLGPEAKTFLQQRLKQALWLIKNLEQRRLTLYRVAVALVEKQRSFFDQGLS 337 Query: 361 YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAI 420 +KP+ L +IA+ + +HEST+SR KYL RGIF L++FF+S V++ G E ++ A+ Sbjct: 338 GLKPLTLREIAEEIGVHESTVSRAIANKYLQCSRGIFPLRFFFASGVSSSRGQEVAAQAV 397 Query: 421 RALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRK 474 + L+K+LI E+PA PLSD + L QGI ++RRTVAKYR + IP + +RK Sbjct: 398 KWLIKQLIDKEDPAAPLSDQAIARELKRQGIELSRRTVAKYRMEMGIPNAAKRK 451 >UniRef50_UPI0001C42E0E RNA polymerase sigma factor (sigma54) n=1 Tax=Bacillus pseudofirmus OF4 RepID=UPI0001C42E0E Length = 446 Score = 483 bits (1243), Expect = e-135, Method: Composition-based stats. Identities = 160/478 (33%), Positives = 253/478 (52%), Gaps = 35/478 (7%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M+ GL + + L MT QL+QAI LLQ ST +L + + NPL++ D E Sbjct: 1 MQFGLFQQQTTTLIMTQQLRQAINLLQYSTTDLSAFIHEQALENPLIDLQDQASMQAGSE 60 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELP-VYQGETTQT 119 + I SG++ D+ P Y ++ Sbjct: 61 SSY---------------------------IGAPAPRSGSTRKSEDEASPIDYALVDHKS 93 Query: 120 LQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVL 179 L ++L+ Q S+ + ++ E GY P E++ + I +E E VL Sbjct: 94 LSEHLVSQAGEIALSEELERQLHYFIFSLREDGYFCRPFEEVCSDLA---ISTEEGEDVL 150 Query: 180 KRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVT 239 + +Q F+P GV A+ L +CLL+QL P A +I+S H++ LA+ ++TL Sbjct: 151 RILQSFEPAGVGARSLSECLLLQLKHLSNKAPL---AEIIVSRHMEDLASKKWKTLATEL 207 Query: 240 RLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQI 299 + +++ +LIQ+LDPRPG Y+IPD+ + NG V+L DS+P +++ Sbjct: 208 DVTMSDIQDVYDLIQTLDPRPGTQYSGEPTNYLIPDLSITWKNGELVVQLIDDSLPPIRL 267 Query: 300 NQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE 359 N+ Y + + + + +++ + Q +WL+KS+E R T+ +V+ IV Q+ FFE Sbjct: 268 NRDYEQLLHRSNHAEATEYAKQKYQQIQWLLKSIEQRQQTIKKVAEAIVRHQRDFFESKS 327 Query: 360 EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTA 419 +KP+ L DIA+ ++MHEST+SR TT KY +PRG++ELK FF+S V G SS + Sbjct: 328 GVLKPLTLKDIAEEIDMHESTVSRATTHKYAQTPRGLYELKAFFTSSVKNGFGESTSSQS 387 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLS-EQGIMVARRTVAKYRESLSIPPSNQRKQL 476 I+ L+K+LIA E+ KPLSD K+ + L E+GI V+RR +AKYR+ L IP S++RK+ Sbjct: 388 IKELIKELIAGESKQKPLSDQKIVTWLESEKGITVSRRAIAKYRDELGIPSSSKRKRY 445 >UniRef50_UPI00016A2E41 RNA polymerase factor sigma-54 n=1 Tax=Burkholderia ubonensis Bu RepID=UPI00016A2E41 Length = 479 Score = 481 bits (1239), Expect = e-134, Method: Composition-based stats. Identities = 175/477 (36%), Positives = 265/477 (55%), Gaps = 3/477 (0%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M L L++ Q LA+TP+LQQ++RLLQ+S+LE QQEL+ AL+ NP LE + T ++ E Sbjct: 1 MSVTLALQMRQHLALTPRLQQSLRLLQMSSLEFQQELRLALDRNPFLEDVRTDDDDGAAE 60 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELP-VYQGETTQT 119 + A E + P D + + Sbjct: 61 PSSAAEAADASTPETGALDGAHPPANEIAYTAEPAARGPGRADDDASDAAAGEWSAAEPS 120 Query: 120 LQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESI-GDEEIDIDEVEAV 178 L YL + L P + DRA A I+DA+D+ GYL L +++ + ++ ++ Sbjct: 121 LHAYLHDALRLYPLNRRDRAAARLIIDALDDDGYLRQALPELVLAADPALLLNERDLAVA 180 Query: 179 LKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRV 238 L+ +Q D G+AA+ L +CLL+QL TP L +A+ I DHL+ LA+ + L R Sbjct: 181 LRLVQALDRPGIAARTLAECLLLQLDALPAGTPALAQAKAIARDHLERLAHRETAELQRR 240 Query: 239 TRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQ 298 L A L++ LDPRPG + +YV+PDV+VR+ G W V +N +PR + Sbjct: 241 LGCDAPTLHAACALVRGLDPRPGDHYGSTRGDYVVPDVIVREVRGEWIVTINPAVLPRAR 300 Query: 299 INQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQG 358 ++Q YA + A + DS + LQ+A+WLI++ + R DT+ RV CIV +Q+ FF G Sbjct: 301 LHQRYAELFARASGERDSP-LGQQLQEARWLIRNAQKRFDTIQRVGACIVARQRDFFRYG 359 Query: 359 EEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASST 418 E +KP+VL DIA +++HEST+SR T KY+ +P G FE K+FF + G G S+ Sbjct: 360 EIALKPLVLRDIADELDLHESTVSRATGNKYMATPYGTFEFKHFFPRRLEAAGNGACSAA 419 Query: 419 AIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 A + L++ +IAAE A+PLSD L L+ +GI++ARRTV KYR+++ IPP+ R++ Sbjct: 420 AAKVLIRDMIAAEQHAEPLSDVALAQRLAGRGILLARRTVTKYRQAMKIPPAGLRRR 476 >UniRef50_B2A6Z6 RNA polymerase, sigma 54 subunit, RpoN n=4 Tax=Firmicutes RepID=B2A6Z6_NATTJ Length = 479 Score = 480 bits (1236), Expect = e-134, Method: Composition-based stats. Identities = 151/486 (31%), Positives = 269/486 (55%), Gaps = 17/486 (3%) Query: 1 MKQG--LQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDT 58 MK G L L QQL +TP+L++AI+LLQLS++EL +++ L NP+LE T E Sbjct: 1 MKLGFDLNLEQKQQLVITPELRKAIKLLQLSSIELDNYIEKELVENPMLEISSTEESESG 60 Query: 59 RETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGD------YIDDELPVY 112 + ++++ + ++ E+ D W + + G + + Sbjct: 61 DDNGKEDSVEKLENSQESAQSED-RFDIDWQKYFEDSSDVGKYNNLPKENYDEGKDGFET 119 Query: 113 QGETTQTLQDYLMWQVEL-TPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEID 171 +T +L ++L +Q+ L + + + +A ++ +D GYL L++I E + +++ Sbjct: 120 FTPSTISLTEHLYFQLSLYSDQEEHIKPLAEFLIGNLDANGYLNGTLQEIAEFL---DVE 176 Query: 172 IDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHD 231 E+E L+ +Q DP GV A+ L++CLL+Q+ + + A +I + L +A + Sbjct: 177 EKELEKALELVQSLDPPGVGARSLKECLLLQVET---DSHSPDSAYELIENFLSEIAENR 233 Query: 232 FRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGE-PEYVIPDVLVRKHNGHWTVELN 290 + + +L ++E V+ I+SL P+P P Y+ PD+++++ + + LN Sbjct: 234 LDKIAKELKLPIKEVQEIVDYIRSLTPKPASPFSEEGLPSYITPDIVIKRVEDEYEIILN 293 Query: 291 SDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQ 350 PRL+IN Y + + G ++F+ S L A WLIKS+E R TL + + +VE Sbjct: 294 DSMSPRLKINSKYRQLLKTEKGSGVAKFLNSRLDSAMWLIKSIEQRRITLYNIMQKLVEM 353 Query: 351 QQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTE 410 Q+ F + G Y+KP+ L ++A +++HEST+SR T KY+ +P+G++ L++FFSS ++ Sbjct: 354 QRPFLDNGVRYLKPLTLKEVADEIDVHESTVSRATANKYVQTPQGVYPLRFFFSSKLDNN 413 Query: 411 GGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPS 470 SST+I+ +K+L+ E+ KPLSD K+ +L E I ++RRTVAKYR+ L++P S Sbjct: 414 QDDYNSSTSIKQKIKELVEEEDKKKPLSDQKIAEILQESSINISRRTVAKYRKELNLPSS 473 Query: 471 NQRKQL 476 ++RK+ Sbjct: 474 SKRKRY 479 >UniRef50_C1A8U9 RNA polymerase sigma factor n=1 Tax=Gemmatimonas aurantiaca T-27 RepID=C1A8U9_GEMAT Length = 497 Score = 480 bits (1235), Expect = e-134, Method: Composition-based stats. Identities = 156/500 (31%), Positives = 273/500 (54%), Gaps = 27/500 (5%) Query: 1 MKQGLQLR--LSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDT 58 M+ GLQ L Q+L + P+L QA+ LL + L+LQQ L+Q L +NP LE ++ +E + Sbjct: 1 MRTGLQQTTGLRQELKVNPRLYQAMDLLYMPLLDLQQHLKQELLTNPFLELVEPEDEEED 60 Query: 59 RET----QDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQG 114 + + + +A + E + + W+ + G +G + + + Sbjct: 61 SSDADDVPEPQDMAEPEAPAEPEPEKSGDDEVDWEAVLLDGFETGGQREEHEQQEWHEPV 120 Query: 115 E-TTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGD------ 167 + L D+L Q+ L S +A V +++ GYL LE+I + Sbjct: 121 TVAGRDLADHLTEQLSLLALSPRQAFMAEEFVGNINDDGYLACTLEEIRDGANQVLRREA 180 Query: 168 ---------EEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARL 218 E +E+EA+L IQ DP GV A++LR+CLL+QL + A Sbjct: 181 EERDIDGEVPEFSEEEIEALLLIIQELDPPGVGARNLRECLLLQLRADGQADSL---AGR 237 Query: 219 IISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLV 278 ++++ + L + + + + ++ A + I LDP+PG G Y+IPD++V Sbjct: 238 LVAEAFEELIARRWGEVAKRFGISPQAVQAAADEIAKLDPKPGLRFSAGSDNYIIPDLVV 297 Query: 279 RKHNGHWTVELNSDSIPRLQINQHYASMCNNAR--NDGDSQFIRSNLQDAKWLIKSLESR 336 K +G++ + LN ++PRL+I++ Y + + + + FI + L A W+I+++E R Sbjct: 298 EKIDGYYHIFLNDGNLPRLKISRIYTDIARDKKRFDTESKDFIATKLNSANWMIQAIEQR 357 Query: 337 NDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGI 396 T+L+V IV++Q+ FFE+G + ++P+ L ++A+AV MHEST+SRVT +K++ +PRG+ Sbjct: 358 RQTMLKVMHYIVDRQREFFERGVQGLRPLTLREVAEAVGMHESTVSRVTNEKFVQTPRGV 417 Query: 397 FELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARR 456 LK+FFSS ++T G + S+ I+ ++KL++ E+P PL+D + +L E G+ +ARR Sbjct: 418 LPLKFFFSSGLSTSDGDDVSARGIKDQIEKLVSGEDPRNPLTDQAIVEILQETGVQIARR 477 Query: 457 TVAKYRESLSIPPSNQRKQL 476 TVAKYR+ L + P+ RK++ Sbjct: 478 TVAKYRDQLGVLPARMRKRV 497 >UniRef50_P33984 RNA polymerase sigma-54 factor n=12 Tax=Alphaproteobacteria RepID=RP54_AZOC5 Length = 514 Score = 479 bits (1234), Expect = e-134, Method: Composition-based stats. Identities = 184/506 (36%), Positives = 270/506 (53%), Gaps = 38/506 (7%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M ++ R SQ L MTPQL QAI+LLQLS LEL ++ LE NPLLE+ E + Sbjct: 3 MSPKMEFRQSQSLVMTPQLMQAIKLLQLSNLELVAYVEAELERNPLLERASEPESPEHDP 62 Query: 61 TQDSETLDTADALEQKEMPE-------------ELPLDASWDTIYTAGTPSGT------- 100 E T + E LD ++ P+ Sbjct: 63 PNPQEEAPTPPDSGAPVSGDWMESDMGSSREAIETRLDTDLGNVFPDDAPAERIGAGSGS 122 Query: 101 --------SGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETG 152 GD +D P TL D+L Q+ + R I +++ +DETG Sbjct: 123 GSSIEWGSGGDRGEDYNPEAFLAAETTLADHLEAQLSVAEPDPARRLIGLNLIGLIDETG 182 Query: 153 YLTVPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPW 212 Y + L+ + E +G D+V VL+ IQ F+P GV A+ L +CL +QL D+ P Sbjct: 183 YFSGDLDAVAEQLG---ATHDQVADVLRVIQSFEPSGVGARSLSECLALQLRDKDRCDP- 238 Query: 213 LEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYV 272 A + D+L+LLA HD L R+ + + L + + I+ LDP+PG + G + Sbjct: 239 ---AMQALLDNLELLARHDRNALKRICGVDAEDLADMIGEIRRLDPKPGLAYGGGVVHPL 295 Query: 273 IPDVLVRK-HNGHWTVELNSDSIPRLQINQHY-ASMCNNARNDGDSQFIRSNLQDAKWLI 330 +PDV VR+ +G W VELNS+++PR+ +NQ Y A++ AR+ + F+ LQ A WL Sbjct: 296 VPDVFVREGSDGSWIVELNSETLPRVLVNQTYHATVAKAARSAEEKTFLADCLQSASWLT 355 Query: 331 KSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYL 390 +SL+ R T+L+V+ IV QQ AF G +++P+ L +A A+ MHEST+SRVT+ KY+ Sbjct: 356 RSLDQRARTILKVASEIVRQQDAFLVHGVRHLRPLNLRTVADAIGMHESTVSRVTSNKYI 415 Query: 391 HSPRGIFELK-YFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQ 449 +PRG+ E+K +F SS ++ GG ++ A+R +K LI AE+ LSD L L + Sbjct: 416 STPRGVLEMKFFFSSSIASSGGGEAHAAEAVRHRIKSLIEAESADDVLSDDTLVQKLKDD 475 Query: 450 GIMVARRTVAKYRESLSIPPSNQRKQ 475 GI +ARRTVAKYRES++IP S QR++ Sbjct: 476 GIDIARRTVAKYRESMNIPSSVQRRR 501 >UniRef50_Q1Q3A8 Strongly similar to RNA polymerase subunit sigma-54 n=1 Tax=Candidatus Kuenenia stuttgartiensis RepID=Q1Q3A8_9BACT Length = 485 Score = 477 bits (1227), Expect = e-133, Method: Composition-based stats. Identities = 141/487 (28%), Positives = 257/487 (52%), Gaps = 15/487 (3%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M+ L +L Q++ ++PQ+ Q+I +LQL L L + +QQ L NP+LE++ + D+ Sbjct: 3 MQSSLLPQLQQKMKLSPQIIQSIEILQLPLLALAERIQQELLDNPVLEEVVEQPKEDSPV 62 Query: 61 TQDSETLDTA------DALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPV--- 111 ++DS D ++ E+ + W+ Y+ T ++ D+ Sbjct: 63 SEDSSIAGENAAQTEWDDAKKAEVDRHNEMAEDWNEYYSKTTIRKSALSDERDQKQEALE 122 Query: 112 YQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEID 171 +L DYL+ Q+ L + +I+ +VD +GYL+ LE+I+ S ++ + Sbjct: 123 NTATKPMSLHDYLLGQLSLMEVPEHLYEACENIIYSVDTSGYLSGSLEEIVSSF-EKPVS 181 Query: 172 IDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHD 231 + + E L+ +Q +P G+ A++L++CLL+QL D P + ++ ++L + + Sbjct: 182 LADAEKALEIVQTLEPPGIGARNLQECLLLQL---DNRDPNYHITKDLLQNYLLEIESRK 238 Query: 232 FRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNS 291 + + + T + +K+ V I++L+P+PG YV+P+V V + +G + V L Sbjct: 239 YPAIAKKTGYSLETIKKQVEFIRTLNPKPGSVFNDETIPYVVPEVKVEQIDGEYEVFLID 298 Query: 292 -DSIPRLQINQHYASMCNNAR-NDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVE 349 +IP L I+ Y + + + Q+I+ ++ AKWL+ ++E R TL +V+ IV Sbjct: 299 NANIPHLHISSFYRKSLSESNIDSSTRQYIQKKIESAKWLVDAIEQRRSTLYKVACKIVS 358 Query: 350 QQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNT 409 Q+ F ++G ++ + + D+A V +H ST+SR KY+ +P+G+FE+K+FF+ Sbjct: 359 MQKGFLDEGVHRLRTLKMQDVADIVGVHVSTVSRAIAHKYIQTPQGVFEMKFFFTGGFQN 418 Query: 410 EGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPP 469 G S +IR + +++A E+ + PLSD ++ L G+ +ARRTV KYR L IP Sbjct: 419 ADGNMESWESIRQKLIEIVAKEDKSNPLSDEEVADKLGASGVDIARRTVTKYRRILKIPS 478 Query: 470 SNQRKQL 476 S QRK Sbjct: 479 SRQRKAY 485 >UniRef50_A1K6F2 RNA polymerase sigma-54 factor n=9 Tax=Betaproteobacteria RepID=A1K6F2_AZOSB Length = 488 Score = 475 bits (1222), Expect = e-132, Method: Composition-based stats. Identities = 192/477 (40%), Positives = 282/477 (59%), Gaps = 5/477 (1%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M G++LRL Q LA+TPQ+QQA+RLLQLS+ E QE++QA+ SNP LE+ Sbjct: 1 MSLGMELRLRQHLAITPQIQQALRLLQLSSQEFTQEVEQAVTSNPFLEEDPDAPPPGPAA 60 Query: 61 TQDSET--LDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQ 118 + E + + DA SG G ++ E Sbjct: 61 AMPLAPAASSSEPRAETVDGGDGEGSDAPVSPALHEIGRSGGGGGGDEEHDWTEWTEAPI 120 Query: 119 TLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESI-GDEEIDIDEVEA 177 +L+D L Q+ L+P SD DR +A ++D + + GYL PLE++ + I +EE+D+ E+ A Sbjct: 121 SLRDNLRNQLLLSPMSDRDRTLAHMVIDELTDAGYLETPLEELADLISPEEEVDVHELSA 180 Query: 178 VLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMR 237 LK +Q+ DP G+AA+ L++CLL+QL +TP L A ++ H +LLA +F L + Sbjct: 181 ALKLVQQLDPPGIAARSLQECLLLQLQALPASTPNLSLALELVGQHFELLARREFTRLQQ 240 Query: 238 VTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRL 297 + E+ L A LI++LDPRPG+ YV+PD++V G W LN P++ Sbjct: 241 LLSCNENALHGARALIRTLDPRPGRCFAPDNTRYVVPDIIVTNQRGRWVATLNPAVQPQV 300 Query: 298 QINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQ 357 +IN+ YA + + G S LQ+A+WL++++E R +T+ RV+ IV +Q+ FF Sbjct: 301 RINRAYAEIAASRSGCGAS--FSRLLQEARWLLRNVEQRFNTIQRVADAIVARQRVFFSY 358 Query: 358 GEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASS 417 GE MKPM L DIA + +HEST+ RVT KY+ +PRG+FE KYFFS + T+ GG S+ Sbjct: 359 GEAAMKPMALKDIATELGLHESTVCRVTNGKYMATPRGLFEFKYFFSRQLATDDGGSCSA 418 Query: 418 TAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRK 474 TAIRAL+K+LIAAE+P PLSD++L +L+EQG+ +ARRTV KYR + +P R+ Sbjct: 419 TAIRALLKELIAAEDPQTPLSDAQLARMLAEQGLRLARRTVTKYRTLMRVPSVELRR 475 >UniRef50_D0MG37 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Rhodothermus marinus DSM 4252 RepID=D0MG37_RHOM4 Length = 522 Score = 474 bits (1220), Expect = e-132, Method: Composition-based stats. Identities = 170/508 (33%), Positives = 273/508 (53%), Gaps = 33/508 (6%) Query: 3 QGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNP----------------L 46 L+ Q ++PQ Q I+LLQL TL L+Q ++ LESNP Sbjct: 2 LKLKQEQKLQQKLSPQQIQYIKLLQLPTLALEQRIKAELESNPLLEEGPEEEEETPLEEA 61 Query: 47 LEQIDTHEEIDTRETQDSETLDTADALEQKEMPEELPLDASWDTIYT-AGTPSGTSGDYI 105 L++ E + +T + E+ EE+ + ++ + G + Sbjct: 62 LDETPETAEAEATSETTETEAETVEEEASTEIEEEIDWEELFNNVDDLYGYKARVDRTDE 121 Query: 106 DDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESI 165 D+E ++ ++L Q+ L ++T+R IA I+ ++DE GYL PLE I++ + Sbjct: 122 DEERRELPLPARPSMIEHLREQLVLLDLNETERLIAEQIIGSIDEDGYLRRPLESIVDDL 181 Query: 166 GDEE---IDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISD 222 + ++VE VLK+IQR DPVG+AA+DLR+CL++QL + TP E A ++ + Sbjct: 182 MFTHGVSVTEEDVERVLKQIQRLDPVGIAARDLRECLIVQLEAMPEDTPGREVALRMLRE 241 Query: 223 HLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPE-YVIPDVLVRKH 281 A F L R + E LKEA +LIQ L+P+PG+ + Y++PD V Sbjct: 242 AFKDFAMKHFEALQRKLGVSEAELKEAYDLIQHLNPKPGEGGDVAPQQNYIVPDFTVTYQ 301 Query: 282 NGHWTVELNSDSIPRLQINQHYASMCNNAR------------NDGDSQFIRSNLQDAKWL 329 +G + + LNS + P+L+I++ Y M ++ F+++ L+ A+W Sbjct: 302 DGEFIITLNSRNAPQLRISRRYRQMLEQMAAEKKKGKRTNGLDEQTRAFLKNKLESARWF 361 Query: 330 IKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKY 389 I S+ R T+L+V + IVE Q+ FF+ GE ++KPM+L D+A + M ST+SRV KY Sbjct: 362 INSINQRRQTMLKVMKAIVELQEDFFKYGEGHLKPMILKDVADRIGMDISTVSRVVNGKY 421 Query: 390 LHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQ 449 + + G++ LKYFFS + TE G E S+ ++AL++++I E+ PLSD K+ LL++Q Sbjct: 422 VQTDFGVYPLKYFFSEGLATESGEEVSNREVKALIQRMIEQEDKRNPLSDQKIAELLAKQ 481 Query: 450 GIMVARRTVAKYRESLSIPPSNQRKQLV 477 G +ARRTV KYRE L IP + R+++V Sbjct: 482 GFKIARRTVTKYREQLGIPVARLRREIV 509 >UniRef50_A6CFS8 RNA polymerase subunit sigma-54 n=3 Tax=Planctomyces RepID=A6CFS8_9PLAN Length = 496 Score = 474 bits (1220), Expect = e-132, Method: Composition-based stats. Identities = 150/498 (30%), Positives = 256/498 (51%), Gaps = 26/498 (5%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 + Q++L QQ+ + P++ Q++ +LQL L++ + Q L N LE+I +E E Sbjct: 3 LNISQQMKLGQQMKLAPRMIQSMEILQLPLQALEERIDQELAENVCLERISDNENTPETE 62 Query: 61 TQ----------------DSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDY 104 ++ + E + ++ + + L + W +S Sbjct: 63 SEQMREQANSDSNSHEIDEKEMVAGSEQNNESDFERLLEMAEQWPEDNVTSATKPSSNRV 122 Query: 105 IDDELPVYQG-----ETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLE 159 +D E QT+ +YL+ Q S + ++ +D G L L Sbjct: 123 SEDIERNNDAVANITERQQTINEYLIEQFHYFSCSPEVKEFGEYLIQNLDHNGRLQSSLP 182 Query: 160 DILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLI 219 +I++ G +I +E E L IQ+ DP GV A+DL++CLL+QL P+ + + Sbjct: 183 EIVQVYGQ-KITQEEAETALSLIQKCDPPGVGARDLQECLLLQLK---PDAPYRDVLVTL 238 Query: 220 ISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVR 279 I+ HLD L + + R T D++K A++ ++ LDP PG+ ++ V PDV V+ Sbjct: 239 ITAHLDDLGQNRLPVIQRKTGYSIDMIKNAMSYLRYLDPFPGRGFESEPVLKVTPDVFVK 298 Query: 280 KH-NGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRND 338 +G + VEL ++ P L+I++ YA M N +D ++I+ + AKWLI+++E R+ Sbjct: 299 LDKDGKYVVELENEYTPPLRISRGYAQMLRNKADDQTKEYIKKKIDAAKWLIEAIEQRHS 358 Query: 339 TLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFE 398 TL RV++ IV+ Q F + G E++ P+ + IA V +H +T+SR K++ +PRG++ Sbjct: 359 TLKRVAQAIVDFQTEFLDNGPEFIVPLKMQQIADVVGVHVTTVSRAVDDKWIQTPRGLYP 418 Query: 399 LKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTV 458 LK FF T G + + IR +K++I E+ KPLSD L LS++G +ARRTV Sbjct: 419 LKRFFGGGTKTSDGEDVAWGIIRLKLKEIIDGEDKNKPLSDDALVDALSKEGYNLARRTV 478 Query: 459 AKYRESLSIPPSNQRKQL 476 KYR++++IP S QR++ Sbjct: 479 TKYRKAMNIPSSRQRREY 496 >UniRef50_C0Z6M1 RNA polymerase sigma-54 factor n=1 Tax=Brevibacillus brevis NBRC 100599 RepID=C0Z6M1_BREBN Length = 455 Score = 472 bits (1216), Expect = e-131, Method: Composition-based stats. Identities = 170/478 (35%), Positives = 260/478 (54%), Gaps = 25/478 (5%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M GL + +L MTP+L+QAI +LQ S ++L LQ NP+ + E + Sbjct: 1 MGLGLFQEQTLKLVMTPELRQAITILQYSAIDLISYLQDQANENPVFDLEVAGEVASAKA 60 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 + + +D + + + E G+S + Y + +TL Sbjct: 61 EKPAPEIDWKEIVGNRATGE-----------------YGSSKNESTYNPLDYVQQGAETL 103 Query: 121 QDYLMWQVELTP-FSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVL 179 ++L Q+ FS + IA ++ +DE GYL + LE+ E +G E + E+E VL Sbjct: 104 YEHLERQLGYVKGFSSLQKQIALFLIGNLDEKGYLEITLEEASERLGAEML---EIEDVL 160 Query: 180 KRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVT 239 +Q FDPVGVA++ L L Q + E+ ++ +HL LA++ ++ + Sbjct: 161 SVLQHFDPVGVASRSLE---ECLLLQLEHLALDDEKIVQVVRNHLQDLADNRYQRIADKI 217 Query: 240 RLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQI 299 ++ +LI++L+PRPG + + E YVIPDV V K + V +N + PRL+I Sbjct: 218 GCTPQEVQTIADLIRTLNPRPGAAFSSVETRYVIPDVTVEKVGNDYVVLVNDVAAPRLKI 277 Query: 300 NQHYASMCNNARN-DGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQG 358 N Y M + ++ D QFI L A WL KSLE R TL+RV++ I++ Q+ FF++G Sbjct: 278 NSFYEKMLSQQKSQDEAKQFIHDKLNAAMWLAKSLEQRRLTLMRVTQAILDMQREFFDRG 337 Query: 359 EEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASST 418 Y+KPM +IA+ V +HESTISR T+ KY+ +PRGIFELKYFF+S ++T G SS Sbjct: 338 IHYLKPMTQKEIAERVGLHESTISRATSNKYVQTPRGIFELKYFFTSALSTSSGEATSSE 397 Query: 419 AIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 +++ +K LI E+ PLSD KL +L +GI ++RRTVAKYRE + IP S +RK+ Sbjct: 398 SVKRRIKALIEQEDRKAPLSDQKLGEMLLTEGIEISRRTVAKYREEMLIPSSAKRKRF 455 >UniRef50_D2L2L2 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Desulfovibrio sp. FW1012B RepID=D2L2L2_9DELT Length = 478 Score = 472 bits (1214), Expect = e-131, Method: Composition-based stats. Identities = 180/484 (37%), Positives = 284/484 (58%), Gaps = 15/484 (3%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 ++ QL+LSQQL MTPQLQQAI+LLQLS LEL + +QQ L L + E+ Sbjct: 3 LELRQQLKLSQQLVMTPQLQQAIKLLQLSRLELLESVQQELLE-NPLLEESIEEDRQPER 61 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVY------QG 114 T + L M +EL +A WD +G + E+P + Sbjct: 62 TMAEDNLGPTGNSSDAAMEKELLKNAEWDDYLGDFASTGRQSQSRESEMPEEGMAFDARL 121 Query: 115 ETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDE 174 + +L+ +L WQ+ L+ F+ + I SIV +++ +GYL LE++ + G + E Sbjct: 122 ASKPSLEGHLGWQMRLSNFTAKELEIGESIVGSLNSSGYLRASLEELAQMAG---ASVPE 178 Query: 175 VEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRT 234 VE VL R+QRFDPVGVAA+ +CLL Q+ + L ++ DHL+ L ++ Sbjct: 179 VETVLHRLQRFDPVGVAARTPSECLLTQIEVYGYEDTIL---IELVRDHLEDLEKKRYKP 235 Query: 235 LMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSI 294 L + + + LKE + LIQ+L+P PG S +G+P +V PD V K+ G + + LN + + Sbjct: 236 LAKKFHITMEKLKEYLELIQTLNPMPGASYGSGDPIFVSPDAFVYKYGGEFVIILNEEGM 295 Query: 295 PRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAF 354 PRL +N Y + N +ND D +++ ++ A WL+KSL R TL +V IV+ Q+ F Sbjct: 296 PRLNVNTTYMAEI-NPKNDKDKDYLQDKMRSAMWLMKSLYQRQRTLYKVLESIVKFQREF 354 Query: 355 FEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGE 414 FE+G ++P++L D+A + MHEST+SR+T+ KY+ +P GIFELK+FF+S ++ + GG Sbjct: 355 FEEGVTRLRPLILKDVADDISMHESTVSRITSNKYVATPHGIFELKFFFNSSLDLDDGGT 414 Query: 415 ASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQ-GIMVARRTVAKYRESLSIPPSNQR 473 S +++A++K++I+ EN KP+SD + +L ++ I +ARRTVAKYR ++ I S++R Sbjct: 415 VGSESVKAMIKRIISGENAKKPISDEAIADMLKDELQINIARRTVAKYRTAMGIESSSKR 474 Query: 474 KQLV 477 K++ Sbjct: 475 KEIF 478 >UniRef50_B6FY84 Putative uncharacterized protein n=1 Tax=Clostridium hiranonis DSM 13275 RepID=B6FY84_9CLOT Length = 451 Score = 468 bits (1206), Expect = e-130, Method: Composition-based stats. Identities = 154/477 (32%), Positives = 272/477 (57%), Gaps = 31/477 (6%) Query: 2 KQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRET 61 K L+L SQ+L +T QL+Q++ +L +S LE+++E+++ ESNPLLE E ID Sbjct: 4 KNTLELNQSQKLILTTQLKQSLAILNMSRLEVEEEIRKESESNPLLEAEKNEEGIDW--- 60 Query: 62 QDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQ 121 + + +++ ++ + P + +T L Sbjct: 61 --EKYIKHMESINIRQDKNDAPY------------------SSENAVDFENMIRSTSNLY 100 Query: 122 DYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKR 181 DYL+ +++ + ++ I I+D++DE GYL + ++I +++ +D L Sbjct: 101 DYLIDELKYFKLTFEEKRICKYIIDSLDEDGYLRINDKEIYDAL---RVDASLFRRCLDI 157 Query: 182 IQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRL 241 +Q+ DP G+ A+++ +CL++QL + + +E II + L+L+ + + + + ++ Sbjct: 158 VQQLDPPGIGARNISECLILQLERMGISNNIVE---NIIMNDLELIGRNKLKDIAKKYKI 214 Query: 242 KEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQ 301 + KEA+ +I+ LDP+PG++ + YV PDV+V K +G + V N + ++IN Sbjct: 215 SIEKCKEAIEIIRHLDPKPGRACSNDKCVYVQPDVIVDKIDGKYIVHTNEKDVYNIKIND 274 Query: 302 HYASMCNNAR-NDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 Y +M + + +FI+ L A LIK++ESR T+LR++ I+++QQ F ++GE+ Sbjct: 275 FYRNMMTDKDSDKEAKEFIKDRLNSAATLIKNIESRKSTILRIAEAIIDEQQEFIQKGEK 334 Query: 361 YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGE-ASSTA 419 Y+KPM + DIA +E+HEST+SR KY+ +P G++E K+FF++ + T+ + ASS Sbjct: 335 YIKPMKMKDIADKLEIHESTVSRGVNGKYMLTPFGLYEFKFFFNAALETDNSSDGASSAG 394 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 I+ +K +I EN KPLSD ++ +L E+G+ VARRTVAKYRE L IP S++RK+ Sbjct: 395 IKRDIKDIIDGENKKKPLSDDAISKMLKEKGVSVARRTVAKYREELGIPSSSRRKEF 451 >UniRef50_D2LIV1 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Rhodomicrobium vannielii ATCC 17100 RepID=D2LIV1_RHOVA Length = 503 Score = 466 bits (1200), Expect = e-130, Method: Composition-based stats. Identities = 181/503 (35%), Positives = 279/503 (55%), Gaps = 34/503 (6%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDT-- 58 ++ L+ R +Q++ +TPQL+QAI+LLQ S +ELQ ++ + NPLLE + + Sbjct: 2 LQLRLEQRQTQKIVITPQLRQAIKLLQFSAIELQSYIENEIRDNPLLEAEERADGDAPLP 61 Query: 59 ----------RETQDSETLDTADALEQKEMPEELPLDASWDTIYTAG-----------TP 97 D D DA E + D Y + Sbjct: 62 EVIRADGASVGADADVPAFDARDASPAVETVTDWEPATPGDRAYEGAPAAASPEAEWLST 121 Query: 98 SGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVP 157 +G +G DD P ++L D+L Q +L DR IA ++D VD GY+ P Sbjct: 122 NGKAGSPSDDYDPFATLSMAESLTDHLNEQAQLAFPDAQDRFIARYLIDLVDADGYIRSP 181 Query: 158 LEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEAR 217 LED + ++++E VL +Q FDPVGV A+DL +CL IQL + D+ P++E Sbjct: 182 LEDAAALLSSP---LEDIERVLGVMQTFDPVGVCARDLAECLAIQLREKDRCDPYMERLL 238 Query: 218 LIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVL 277 +LDL+A D + L RV + D L+E + +++L+P+PG + + GE E ++PDV+ Sbjct: 239 A----NLDLIAACDMQKLRRVCGVDADDLREMMQELRALNPKPGAAFEHGEVETLVPDVI 294 Query: 278 VRKH-NGHWTVELNSDSIPRLQINQ-HYASMCNNARNDGDSQFIRSNLQDAKWLIKSLES 335 VR+ +G W ELN + P L +++ +YAS+ N R+D + ++ A WL+KSLE Sbjct: 295 VRRGPDGEWRAELNPSAAPSLAVDRAYYASLKNRCRSDSERTYLADRQSSANWLVKSLEQ 354 Query: 336 RNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRG 395 R T+L+V+ +VE+Q AFF+ G ++KP+ L IA + MHEST+SRVT+ K + +PRG Sbjct: 355 RLSTILKVATAMVEEQSAFFDHGVRHLKPLNLRQIAAKIGMHESTVSRVTSNKAIQTPRG 414 Query: 396 IFELKYFFS--SHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMV 453 IFE+KYFF+ + SS A+R +K+ I E+P + LSD ++ ++L GI + Sbjct: 415 IFEMKYFFTSSIPSASASSEAHSSEAVRDRIKEFILNESPEEVLSDDRIVTMLKADGIDI 474 Query: 454 ARRTVAKYRESLSIPPSNQRKQL 476 ARRTVAKYR++L IP S R++L Sbjct: 475 ARRTVAKYRDALRIPSSAARRRL 497 >UniRef50_C1P7Z1 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Bacillus coagulans 36D1 RepID=C1P7Z1_BACCO Length = 444 Score = 466 bits (1199), Expect = e-129, Method: Composition-based stats. Identities = 144/479 (30%), Positives = 252/479 (52%), Gaps = 41/479 (8%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 ++ GL + S +LAMT +L+QAI +LQ S+ EL L++ NPL+E + ++ Sbjct: 3 LQVGLWQKQSMKLAMTQELKQAIEVLQFSSQELASFLEEKAAENPLIELSSANIKLV--- 59 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 D+ ++ + D T+TL Sbjct: 60 ----------------------------DSRFSGLSRVKGQKKSQDKNWIEQIPAQTETL 91 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 D+L+ Q+++ S+ +D GYL + +++ + I ++ E L Sbjct: 92 PDFLISQLDMKALSNKILKAVQLYARHLDANGYLAISVQEAAKMAA---ISEEDAEKALG 148 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 +Q DP G+ A+ L++CLLIQ+ + A +IS H A +R + + Sbjct: 149 ILQSLDPAGIGARSLQECLLIQIKR---DPDAPGHAEELISRHFLDFAEKKWRGIAKKLD 205 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQIN 300 + ++ + +Q+L+PRPG P+Y++PD+LV+ H G + L + +P+L++N Sbjct: 206 ISLQEIQRVSDYVQTLNPRPGSGFMADRPQYIVPDLLVKNHAGKLELYLVENQVPKLRLN 265 Query: 301 QHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 + YASM N A + G +++++ Q+ W+ KS+ESR TLL+V ++E+Q+ FF G+ Sbjct: 266 ESYASM-NPAGDAGVTRYLKEKTQEYYWIRKSIESRKKTLLKVGAALLEKQRDFFLYGKG 324 Query: 361 YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHV---NTEGGGEASS 417 ++KP+ + +I+ + MHEST+SR +KY+ +P G F LK FF++ + + G ASS Sbjct: 325 HLKPLTMKEISDDIGMHESTVSRAVREKYMETPFGTFPLKTFFTTALPVRSAGGEEAASS 384 Query: 418 TAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 ++ + LI+ E+ KPLSD + ++L+E+G ++RRTVAKYRE L IP S++RK+ Sbjct: 385 AEVKNEISALISGEDKRKPLSDQAIVTVLNEKGFEISRRTVAKYREQLGIPSSSKRKRY 443 >UniRef50_Q3SF03 RNA polymease sigma-54 factor protein n=1 Tax=Thiobacillus denitrificans ATCC 25259 RepID=Q3SF03_THIDA Length = 476 Score = 465 bits (1198), Expect = e-129, Method: Composition-based stats. Identities = 162/474 (34%), Positives = 259/474 (54%), Gaps = 4/474 (0%) Query: 2 KQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRET 61 + L L Q +TP+LQQA+RLLQLST + ELQ+ + SNP LE D + Sbjct: 3 RPALALEPRQTQTLTPRLQQAVRLLQLSTFDFALELQELVSSNPFLELEDGEFADEDAAA 62 Query: 62 QDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQ 121 D+ T E + +++ G + + + + TL+ Sbjct: 63 PDTATTAADTPPAADGAQAEDYAETAYEERLGDGGEAPGRYSEANADAIDFAC-APVTLR 121 Query: 122 DYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEE-IDIDEVEAVLK 180 ++ Q+ + + +A I +A+D+ GYL V L+ + G E +D E+ A L Sbjct: 122 QHVHSQLNMLDLPPREHFLAWIIAEALDDDGYLRVELDALRAMAGLEPRVDAREMLAALT 181 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 R+Q DP G+AA+D+ +CL +QL + +P E A I+ D L LL D + + + Sbjct: 182 RVQSLDPAGLAARDVPECLTLQLRRRPP-SPQRELALRIVRDELKLLQQRDLQRIAQRVG 240 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQIN 300 ++ I+ L+PRPG + PDV+VRK G WT LNS ++PR+ +N Sbjct: 241 STPAEVEAVCAYIRRLEPRPGACFGHHVAAAIRPDVIVRKIRGQWTALLNSSAVPRVSLN 300 Query: 301 QHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 + YA + R + +L++A+W ++++E R T+LRV++ +V++QQ FFE G Sbjct: 301 RTYAELFQRHREPHHGD-LAGHLREARWAVQNMEQRFSTILRVAQALVDRQQHFFEHGTL 359 Query: 361 YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAI 420 M+P+ L DIA + +HEST+SR T K++ +P G+FELKYFFS +NTE G + S+TAI Sbjct: 360 AMQPLGLKDIADELGLHESTVSRATCNKFMVTPLGVFELKYFFSRALNTEQGSQCSTTAI 419 Query: 421 RALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRK 474 R ++K+I +E+ P SD+ + +L +QG+ VARRTV KYR+ ++IP + R+ Sbjct: 420 REAIRKMILSEDARSPHSDADIARILMQQGLRVARRTVTKYRQMMAIPNVDMRR 473 >UniRef50_A8W0U1 SUF system FeS assembly protein, NifU family n=1 Tax=Bacillus selenitireducens MLS10 RepID=A8W0U1_9BACI Length = 444 Score = 464 bits (1195), Expect = e-129, Method: Composition-based stats. Identities = 157/477 (32%), Positives = 251/477 (52%), Gaps = 33/477 (6%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M G+ + S +L MT +L+QAI +LQ S +L L + NPL+E D + R Sbjct: 1 MDYGMYQQQSMKLVMTTELRQAITILQFSAQDLTDYLHEQQLENPLIEISDPPMTEEARR 60 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 + PSG SGD L + E + L Sbjct: 61 RTAEVDMPEP-----------------------GRMPSGKSGDSDVTALDFLR-EPEEGL 96 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 +D+L+ Q+ ++ + R I + ++DE GYL ++ +G+E D V L Sbjct: 97 RDHLLHQIRMSEAPEAIRHIMNYLALSLDENGYLEHEIDVYAGELGEEPGD---VAKALG 153 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 +Q+ DP GV A++L +CLLIQL+ + P A I+ DHLD LAN F+ + + Sbjct: 154 ELQQLDPPGVGARNLTECLLIQLNGHEARDPL---AEAIVRDHLDQLANKQFQKIAKALD 210 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQIN 300 + + ++ + +++L+P+PG + EY+ PDV V K V+L +PR+ +N Sbjct: 211 VGVEDVEVVSDFLKTLNPKPGAVFHSTPAEYITPDVHVIKTGNELVVKLADGHLPRMTMN 270 Query: 301 QHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 + Y + + + +++ + W+ +S++ R +T+L V++ IV Q+ FF +G + Sbjct: 271 REYEQLL-QSGGSEVASYMKQKQEQFHWIKRSIQQRQETILNVTKAIVRHQEDFFLRGAD 329 Query: 361 YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAI 420 Y+KP+ L IA+ +E+HEST+SR T +KY +P+G+FELKYFF S EG S+ + Sbjct: 330 YLKPLNLKTIAEEIEVHESTVSRATVKKYAQTPKGLFELKYFFRSGFTGEGDD--SADKV 387 Query: 421 RALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQLV 477 + +K+LI E KP SD K+ LL +GI V+RRTVAKYRE LSIP S++RK+ Sbjct: 388 KLYLKRLIDEEEKKKPYSDQKIADLLEVKGIQVSRRTVAKYREELSIPSSSKRKRYT 444 >UniRef50_A9GI22 RNA polymerase sigma-54 factor n=4 Tax=Myxococcales RepID=A9GI22_SORC5 Length = 506 Score = 464 bits (1194), Expect = e-129, Method: Composition-based stats. Identities = 176/510 (34%), Positives = 275/510 (53%), Gaps = 39/510 (7%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M+ LQ +LSQQL MTPQL QAIRLLQLS LEL E+++ L+ NP+L T + + Sbjct: 3 MEMKLQFKLSQQLVMTPQLVQAIRLLQLSRLELVDEIRKELDGNPVLADDMTDPKARDGD 62 Query: 61 TQDSETLDTADALEQK-EMPEELPLDAS--------------WDTIYTAG----TPSGTS 101 D + EQ+ E E D W+ Sbjct: 63 KGDQRGRNADLPTEQRLENGERFDRDTDIAARETEKRVKEVDWEQFLENRQLQQAMPAHR 122 Query: 102 GDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTV----- 156 G + + L+D+L+WQ++++ F + +R A ++ +DE GYL + Sbjct: 123 GGFEELPPIDQNLTKPSNLRDHLLWQLQMSDFVENERQFALLVIGNLDEKGYLDLKGGER 182 Query: 157 ------PLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTT 210 P +++ + E+ ++ E VL IQRFDPVGVAA+DL +CL +Q Sbjct: 183 PDGTKGPDLSLVDLAREAELHPEDAEEVLSMIQRFDPVGVAARDLSECLRVQAEVLGFDD 242 Query: 211 PWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQT--GE 268 + II DHL + +F + + ++ + + +AV IQ L+ P ++ + Sbjct: 243 IEM----AIIKDHLHNVERRNFPAIAKALKIPLEDVYDAVQEIQKLESVPARNFAEVDEK 298 Query: 269 PEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKW 328 + PDV V K + V N + RL IN++ A R+ +FI L+ A+W Sbjct: 299 TIAITPDVYVIKDGTQFVVTDNDKGLQRLYINENLAQRM--LRDPKAKEFISEKLRSAQW 356 Query: 329 LIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQK 388 LI+++E R T+++V+ CIVE+Q+ F E+G Y+KPM+L D+A++V MHESTISRVT+ K Sbjct: 357 LIRAIEQRRRTIIKVTECIVEKQREFLERGVGYLKPMILRDVAESVGMHESTISRVTSNK 416 Query: 389 YLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSE 448 Y+H+P+G+FELKYFF+S ++ + +S +++ +KK+I AE+ + P SD + +L E Sbjct: 417 YVHTPQGLFELKYFFNSSIHRVADEDIASESVKQAIKKIIVAEDKSNPYSDQAIVKILEE 476 Query: 449 -QGIMVARRTVAKYRESLSIPPSNQRKQLV 477 GI +ARRTVAKYRE L I S++RK++ Sbjct: 477 TDGIKIARRTVAKYREMLGILSSSKRKKMF 506 >UniRef50_C4XU56 RNA polymerase sigma factor n=13 Tax=Desulfovibrionales RepID=C4XU56_DESMR Length = 476 Score = 463 bits (1191), Expect = e-129, Method: Composition-based stats. Identities = 180/484 (37%), Positives = 277/484 (57%), Gaps = 17/484 (3%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 ++ QL+LSQQL MTPQLQQAI+LLQLS LEL + +QQ L ++ E D + Sbjct: 3 LELRQQLKLSQQLVMTPQLQQAIKLLQLSRLELLESVQQELLE---NPLLEESVEEDRQP 59 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVY------QG 114 + + M +EL +A WD + D E+P + Sbjct: 60 ERVMVEDNNGPTGADAAMEKELLKNAEWDDYLGDFASTSKQSLSRDLEVPEEGMAFDARL 119 Query: 115 ETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDE 174 + +L +L WQ+ L+ F+ + I +IV +++ +GYL +E+I G D Sbjct: 120 ASKPSLDGHLGWQMHLSNFTAKEVEIGETIVGSLNSSGYLRATVEEIA---GMANADPAH 176 Query: 175 VEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRT 234 VE VL R+QRFDPVGVAA+ +CLLIQ+ + P L ++ +HL+ L ++ Sbjct: 177 VEKVLHRLQRFDPVGVAARTPSECLLIQIEVYGYDDPIL---IELVREHLEDLEKKRYKP 233 Query: 235 LMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSI 294 L + L + LKE + LIQ+LDP PG S +G+P YV PD V K+ + + LN + + Sbjct: 234 LAKKFHLTMEKLKEYLELIQTLDPMPGASYGSGDPIYVSPDAFVYKYGEDFVILLNEEGM 293 Query: 295 PRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAF 354 PRL +N Y + RND D +++ ++ A WL+KSL R TL +V IV+ Q+ F Sbjct: 294 PRLGLNMSYTD-GSLPRNDKDKDYLQDKMRSAMWLMKSLYQRQRTLYKVLESIVKFQRGF 352 Query: 355 FEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGE 414 FE G ++P++L D+A + MHEST+SR+T+ KY+ +P GIFELK+FF+S + + GG Sbjct: 353 FEDGVTKLRPLILKDVADDISMHESTVSRITSNKYVATPHGIFELKFFFNSALELDDGGT 412 Query: 415 ASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQ-GIMVARRTVAKYRESLSIPPSNQR 473 S +++A++K++I+ EN KP+SD + +L ++ I +ARRTVAKYR ++ I S++R Sbjct: 413 VGSESVKAMIKRIISGENDKKPISDEAIADMLKDELQINIARRTVAKYRTAMGIESSSKR 472 Query: 474 KQLV 477 K + Sbjct: 473 KAVF 476 >UniRef50_A6G445 Sigma-54 (RpoN) n=1 Tax=Plesiocystis pacifica SIR-1 RepID=A6G445_9DELT Length = 518 Score = 462 bits (1190), Expect = e-128, Method: Composition-based stats. Identities = 173/520 (33%), Positives = 279/520 (53%), Gaps = 51/520 (9%) Query: 3 QGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALE---------------SNPLL 47 +LR+SQQL MTPQLQQAI+LLQLS +ELQ ++ L P+ Sbjct: 5 MRQELRMSQQLVMTPQLQQAIKLLQLSRVELQDLVRNELLENPLLEESREMGTTNEEPVS 64 Query: 48 EQIDTHEEIDTRETQDSETLDTADALEQKEMPEELPLDASWDTIYTA---GTPSGTSGDY 104 + ++ D + + P + W++ P SG Sbjct: 65 AVEMQDGVDLQGDIGEARAADAPQQEVKADAPNT--DNFDWESYLQHHTLSGPMPGSGVR 122 Query: 105 IDDELPVYQG--ETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDIL 162 DD+LP + +TL ++LMWQ+ L+ +S + IA IV ++ +G+L + + I Sbjct: 123 GDDDLPGLEQTMADEETLVEHLMWQIRLSNWSPLEEDIAEYIVRSITASGHLGLSVPQIA 182 Query: 163 ESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISD 222 + + E+ VE +L+++Q+ DP+ +A+++L + L IQ + II+ Sbjct: 183 QRL---EVSTLRVEQMLRKVQQLDPLALASRNLAEVLWIQARH-PEHPIGDPLVLTIIAK 238 Query: 223 HLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHN 282 HL L ++ + R T + + EA +I L+PRP + + +YV PDV V K Sbjct: 239 HLPNLEKRAYQAVARDTGEPLEEVYEATKVIMGLEPRPARQFVSESAQYVTPDVYVHKIG 298 Query: 283 GHWTVELNSDSIPRLQINQHYASMC-------------------------NNARNDGDSQ 317 + V LN D +P+L+I+ +Y S G Sbjct: 299 EEYVVTLNDDGLPKLKISNYYRSAMLADSSKQGGKGKGAKQAKQGKGAKPAKGDQAGAKD 358 Query: 318 FIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMH 377 +I L+ A+WLI+S++ R T+L+V++ I+ Q+ FFE+G ++++P++L D+A+ +EMH Sbjct: 359 YITERLRSAQWLIRSIQQRQRTILKVTKSILGFQREFFEKGPQHLRPLILKDVAEDIEMH 418 Query: 378 ESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPL 437 EST+SRVTT KY+H+P+GI+ELKYFF++ ++ GGGE +S A++ +KKLI E+ KP Sbjct: 419 ESTVSRVTTNKYVHTPQGIYELKYFFNAGISRRGGGELASEAVKEKIKKLIEGEDSRKPY 478 Query: 438 SDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQLV 477 SD KL LL E+GI +ARRTVAKYRE L++ S++R++L Sbjct: 479 SDQKLVELLREEGIDIARRTVAKYREQLNLLSSSKRRKLF 518 >UniRef50_A9BWZ4 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Delftia acidovorans SPH-1 RepID=A9BWZ4_DELAS Length = 520 Score = 462 bits (1190), Expect = e-128, Method: Composition-based stats. Identities = 161/518 (31%), Positives = 267/518 (51%), Gaps = 46/518 (8%) Query: 2 KQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEID---- 57 L+ + Q ++P+LQ A+R+LQ+S+L+ ++ LE NP LE + + Sbjct: 3 SMHLRADIRQSQTLSPRLQLAVRMLQMSSLDFAAVVRSKLEDNPFLEDPQDAQYGEYEQG 62 Query: 58 -------------------TRETQDSETLDTAD--------------------ALEQKEM 78 E + D + Sbjct: 63 LLDGKELGEEGREGGMGRLAPEAGLAPDTGMDDGIGMGIGMDMDRDLPGMQHPPDPADHL 122 Query: 79 PEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDR 138 P A ++ A +G + + TL +L Q+ + + D Sbjct: 123 PGPATEPADDRDLWLADMHTGARQGVDGEGTAMDLAACETTLAMHLHGQLNVMAMTPRDL 182 Query: 139 AIATSIVDAVDETGYLTVPLEDILESIGDEEI-DIDEVEAVLKRIQRFDPVGVAAKDLRD 197 +A +IV+++D+ GYL L+++ + D E+ L+ +Q DP GVAA+ + + Sbjct: 183 CMARAIVESLDDDGYLRTDLQELAGLLALSPAPDAQEMLIALRLVQSLDPAGVAARSVGE 242 Query: 198 CLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLD 257 CLL+Q Q + A+ ++ DH+D LA D L R ++ + +A++ I+ L+ Sbjct: 243 CLLLQCPQIG-DARLRQLAQAMVQDHMDALAARDVPRLARALQVPPAQITQALDCIRRLN 301 Query: 258 PRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQ 317 PRPG + + +Y++PDV+VR+ W V LN +PR+++N+ Y + R G +Q Sbjct: 302 PRPGWNFGSSHVDYIVPDVIVRRGQNGWNVHLNPAVVPRVRLNRVYEQLFQRHRRSGQNQ 361 Query: 318 FIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMH 377 + +LQDA+W ++++E R T+L V++ IV +QQ F E G MKP+VL +IA+ V +H Sbjct: 362 -LADHLQDARWTVRNVEQRFSTILDVAQAIVRKQQLFLEFGAMAMKPLVLREIAEEVGVH 420 Query: 378 ESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPL 437 EST+SRVT KY+ +P G+FELK+FFS + + G S+TAIR L+ +IAAE+ A+PL Sbjct: 421 ESTVSRVTNNKYMATPTGVFELKHFFSRPMLSASGNACSATAIRELIGDIIAAESDARPL 480 Query: 438 SDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 SD ++ LS QG++VARRTV KYR+ L I P+++R++ Sbjct: 481 SDVEIARQLSAQGLVVARRTVTKYRQLLRIEPADRRRR 518 >UniRef50_A5G033 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Acidiphilium cryptum JF-5 RepID=A5G033_ACICJ Length = 490 Score = 462 bits (1190), Expect = e-128, Method: Composition-based stats. Identities = 169/487 (34%), Positives = 268/487 (55%), Gaps = 19/487 (3%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 + L LR +Q L MTPQL+QAI+LLQ + E+ Q ++ L NPLLE+++ + Sbjct: 3 IGPRLDLRHTQSLVMTPQLRQAIQLLQFTNAEVSQFIEDELLKNPLLERVEPEADAALPV 62 Query: 61 TQDSE--------TLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSG---DYIDDEL 109 ++ + ++ PLD + +Y AG +G D+ Sbjct: 63 PRNDAASTEKPTGDIGAEHVVDPDPSGASTPLDVDFSNVYDAGGVGDGTGSGLSPERDDW 122 Query: 110 PVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEE 169 + L++ L Q L R IA +++ A+D G L P E I E + Sbjct: 123 IGQIADRPPGLRESLDQQARLAFADPVRRRIAFALIMALDPAGRLADPPEQIAERLA--- 179 Query: 170 IDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLAN 229 + D +EAV + + RFDP G+ A+DL +CL +QL + ++ P A + +L+LLA Sbjct: 180 VAPDMLEAVRQTMMRFDPTGMFARDLAECLAVQLDERNRLDP----AMRALLANLELLAR 235 Query: 230 HDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKH-NGHWTVE 288 D R+LM + + + L++ + I+ L+P+PG +IPDVL+R +G + +E Sbjct: 236 RDLRSLMEICGVDAEDLRDMIAEIRRLNPKPGAIFDVTPMTPLIPDVLMRPGPDGDYFLE 295 Query: 289 LNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIV 348 LN +++PR+ I + + + + QF+ +Q A WL+++LESR +T+LRV+ IV Sbjct: 296 LNPETMPRVLIRRGFHAQIVARASRETRQFLSERVQSANWLVRALESRAETILRVAGEIV 355 Query: 349 EQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVN 408 Q AFF G +++P+ L +IA A+E+HEST+SRVT+ K + +PRGIFE+K+FF++ + Sbjct: 356 RHQDAFFRHGIGFLRPLTLREIAAALEIHESTVSRVTSNKVIATPRGIFEMKFFFTTALA 415 Query: 409 TEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIP 468 G S+ A+R + LI E + LSD L LL ++GI +ARRTVAKYRE+L IP Sbjct: 416 GANGESHSAEAVRHRISTLIEGEAANRILSDDALARLLQKEGIDIARRTVAKYREALRIP 475 Query: 469 PSNQRKQ 475 S QRK+ Sbjct: 476 GSAQRKR 482 >UniRef50_C1SGY5 RNA polymerase, sigma 54 subunit, RpoN/SigL n=1 Tax=Denitrovibrio acetiphilus DSM 12809 RepID=C1SGY5_9BACT Length = 476 Score = 458 bits (1180), Expect = e-127, Method: Composition-based stats. Identities = 147/476 (30%), Positives = 260/476 (54%), Gaps = 9/476 (1%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 + + +LSQ+L +TPQ++Q++ +LQ+ EL QEL L NP+LE+I+ + + E Sbjct: 6 LNLEISGKLSQKLHITPQMKQSLAILQMPLTELLQELNTCLAENPVLEEIEQEPDEEKTE 65 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 ++ + A Q E E++ W+ +Y + + + L Sbjct: 66 KKEEKEEKDAKDDVQNEDLEKI----DWEELYRDSGEVSYTPSDDEGYDLEKFVSGQENL 121 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 +LM+Q+++T S I+ ++ + GY + ++ E G +D D V L+ Sbjct: 122 YGHLMYQLKVTGSSQDILTAGQYIIGSLTDEGYFDLEFSEVAEETG---VDEDTVAKALE 178 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 IQ FDP G+ A++LR+C+ IQL QF+ +++ ++ +H L + + + Sbjct: 179 LIQTFDPAGIGARNLRECIAIQLCQFEVEQVYIDFIAELLENHEKDLIAYRYDEIKNSLS 238 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQIN 300 +++D + LI+ DP+PG + V PDV + K + + + LN D +P L++N Sbjct: 239 IEDDTFDHMLFLIRKTDPKPGMNYAKDSNHSVTPDVYIVKKDDGYDIILNEDGMPALRMN 298 Query: 301 QHYASMCNNAR-NDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE 359 +Y S+ N + ++I +++A WLIKSL R + +V + + E Q F E G Sbjct: 299 SYYLSLLRNKELDGDTKEYIEEKIKNAIWLIKSLNKRQKAIYKVVKVLTEVQADFLEMGV 358 Query: 360 EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTA 419 +++KP+ L DIA +HEST+SRVT+ KY + +G+FELK FF ++T+ G + S+ Sbjct: 359 DFLKPLKLKDIADETGLHESTVSRVTSGKYAMTEQGLFELKSFFVKGLDTDDG-DMSTQK 417 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 ++++++ ++ +E+ KP SD K+ LL+ GI +ARRTVAKYR+ L+IP +QRK+ Sbjct: 418 VKSMIRSIVDSEDADKPYSDQKIVELLNGDGIKIARRTVAKYRDELNIPTKSQRKR 473 >UniRef50_B0TGK6 RNA polymerase sigma-54 factor n=1 Tax=Heliobacterium modesticaldum Ice1 RepID=B0TGK6_HELMI Length = 433 Score = 458 bits (1180), Expect = e-127, Method: Composition-based stats. Identities = 166/477 (34%), Positives = 246/477 (51%), Gaps = 52/477 (10%) Query: 3 QGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQ 62 G Q+ SQ+L MTP+L+QA+ +LQ++TLEL + + L NPLLE D E + E + Sbjct: 5 LGQQIEQSQRLVMTPELRQALAILQMNTLELSLFIGRELVQNPLLESPDPPREREMAERR 64 Query: 63 DSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQD 122 +S A TLQ+ Sbjct: 65 ESPFGREIQAE-------------------------------------------GPTLQE 81 Query: 123 YLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRI 182 +L Q+ L R++ I+ +D+ GYL +I + G + + V VL I Sbjct: 82 HLELQLGLALSDGLRRSVGRYIIGNIDDKGYLRSDPAEIAAATG---VGEEIVGEVLATI 138 Query: 183 QRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLK 242 Q FDP GV A+DL +CL IQL + K TP LE I+ DHL +A + + ++ Sbjct: 139 QSFDPPGVGARDLAECLRIQLCRQGKLTPHLE---RILEDHLPDVAAGRLHRIAQRLKVT 195 Query: 243 EDVLKEAVNLIQSLDPRPGQSIQ-TGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQ 301 ++ V+ ++ L P+PG G+ ++PDV++ + +G + V +N +PRL IN+ Sbjct: 196 VGEVQAMVDRLKELAPKPGTPFGREGDNRPILPDVIIEQIDGEYLVLVNDGLLPRLTINR 255 Query: 302 HYASMCNNARND-GDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 Y + N ++ L A LI+++E R TL +V IVE+Q+ F EQG Sbjct: 256 TYRHILNEEGAPGEAKAYVEERLHSALSLIRAIEQRRLTLHKVVSAIVERQRPFLEQGLA 315 Query: 361 YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGE-ASSTA 419 +KPM L D+A +HEST+SR KY +PRGIFELK+FF S V T G E A++ A Sbjct: 316 GLKPMTLRDVALKTGVHESTVSRSVAGKYAQTPRGIFELKFFFGSGVRTATGEEKATAGA 375 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 I+ L+++LI E+ PLSD ++ L EQGI ++RRTVAKYRE L IPP+ QR++ Sbjct: 376 IKPLIRQLIDGEDKHHPLSDQQIAESLHEQGIPLSRRTVAKYREELGIPPTAQRRRY 432 >UniRef50_A6NQ00 Putative uncharacterized protein n=1 Tax=Bacteroides capillosus ATCC 29799 RepID=A6NQ00_9BACE Length = 459 Score = 458 bits (1179), Expect = e-127, Method: Composition-based stats. Identities = 140/479 (29%), Positives = 243/479 (50%), Gaps = 27/479 (5%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M+ + LR +Q ++PQ+ Q++ +LQ+ + EL + +++ ++NP+LE + ++ D + Sbjct: 1 MELSMNLRQTQ--TLSPQMVQSMEILQMGSQELLEFIEETTQANPVLEVDEKYDRQDEFD 58 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 + E E + SW D + L Sbjct: 59 LMRRKL----------EWLESTDVQNSW------YHRQDAEEDADPMANYGGVENGEEDL 102 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 Y++ Q+ + A A +V+++++ G+L + + + G + +E L+ Sbjct: 103 YRYVLSQLGMLSLERDVMAAAVFVVESLNQNGWLDDDVPALAAAFGCGQ---SVMERALE 159 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 +Q +P GVAA++L +CL +QL + + A I+ HLD LA F + + Sbjct: 160 AVQSLEPAGVAARNLSECLRLQLLRRGEGN---ALALEIVEHHLDALARSRFGLIAKELG 216 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQT-GEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQI 299 + ++EA LI++L+P+PG Y+ PD++V H+ V N P L + Sbjct: 217 ASAEEVREACALIKTLNPKPGTGFAAREHLTYINPDIIVVSFPDHFEVLANDYFFPSLHM 276 Query: 300 NQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE 359 + +Y + + + ++ ++ AKW+++S+E R TLL ++CI+ Q+ FF QG Sbjct: 277 SGYYQQLMKDTDDQEVKDYLTDKVRQAKWVVRSIEQRRSTLLSCAQCILALQEPFFRQGP 336 Query: 360 EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHV--NTEGGGEASS 417 ++ PM LAD+AQ +E+HEST+SR KYL G++ L YFFS + + +G AS Sbjct: 337 GHLSPMSLADVAQRLEVHESTVSRAIRDKYLQCSMGVYPLSYFFSRGLGGSGDGEEGASP 396 Query: 418 TAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 A + L++KLI E+ A P SD KL L+ EQG ++RRTVAKYR+ L IP + R+Q Sbjct: 397 EAAKILLRKLIEEEDKAHPHSDQKLRELMGEQGCTISRRTVAKYRDELGIPSTTGRRQY 455 >UniRef50_B1ZUW1 RNA polymerase, sigma 54 subunit, RpoN n=3 Tax=Verrucomicrobia RepID=B1ZUW1_OPITP Length = 498 Score = 457 bits (1177), Expect = e-127, Method: Composition-based stats. Identities = 155/494 (31%), Positives = 253/494 (51%), Gaps = 28/494 (5%) Query: 5 LQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDS 64 L+ R +Q L + PQL+Q++++LQ++ L+L+ +Q+ L++NP LE++ E + + Sbjct: 10 LRQRQTQSLVLAPQLRQSLKILQVAALDLRSVIQEELQANPTLEELPMEGESVEKPAETD 69 Query: 65 ETLDTADALEQKEMP---------EELP----------LDASWDTIYTA--GTPSGTSGD 103 DT+ E +++ +EL +D W + G T+ D Sbjct: 70 APNDTSTPGEHEDVAPPGDDSPTRDELDFTKQFEILGKIDEDWRDHFANVGGAQPFTAED 129 Query: 104 YIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILE 163 + + +LQ++LM QV L + ++ +D+ GYL DI Sbjct: 130 AEKRQHFFDSLVSETSLQEHLMQQVVLNDLAPPVHEALHQLIGNLDDRGYLAQSPSDIAL 189 Query: 164 SIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDH 223 + E LK +Q FDP G+ ++ L DCLL QL + A ++ DH Sbjct: 190 QANLPYATVTE---ALKLLQSFDPPGIGSQTLADCLLAQLHAKGRGDTL---AARMLRDH 243 Query: 224 LDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNG 283 +LL+ L R + D ++ A+ I LDP PG+ V+PDV+V K Sbjct: 244 FELLSRRRIPELSRKLGVAADDVQAAIEEIGKLDPAPGRRFAEDSNRVVVPDVVVEKEGD 303 Query: 284 HWTVELNSDSIPRLQINQHYASMCNNAR-NDGDSQFIRSNLQDAKWLIKSLESRNDTLLR 342 W + LNSD IPRL+++ Y + + + ++R ++ K+LI S+E R T+ R Sbjct: 304 EWKIHLNSDYIPRLRLSSTYRELIAKGTLSKEERDYLRERMRSGKFLIDSIEQRQRTIER 363 Query: 343 VSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYF 402 ++R I+ Q FFE G ++P+ + IA V +HE+T+SR KY+ +P G+FE KYF Sbjct: 364 ITREIINAQLPFFEHGVSQLRPLTMTQIADVVGVHETTVSRAIANKYMKTPHGVFEFKYF 423 Query: 403 FSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYR 462 F++ E G S+T+++ ++ LIA E+ + PLSD ++ + L E+GI +ARRTVAKYR Sbjct: 424 FTTGYQAESGDSVSNTSVKEMLADLIALEDKSAPLSDQEIVAKLQEKGITLARRTVAKYR 483 Query: 463 ESLSIPPSNQRKQL 476 E L I PSN R+ Sbjct: 484 EELGILPSNLRRDY 497 >UniRef50_C6HU23 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Leptospirillum ferrodiazotrophum RepID=C6HU23_9BACT Length = 496 Score = 457 bits (1176), Expect = e-127, Method: Composition-based stats. Identities = 170/492 (34%), Positives = 259/492 (52%), Gaps = 24/492 (4%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 MK L LRL+Q++ MTPQLQQAI LL L+ L+L QE+Q+A+ NP+LE ++ +E D Sbjct: 1 MKPQLDLRLTQKMVMTPQLQQAINLLMLNRLDLAQEMQEAVLENPVLEIVEGEDEGDWTP 60 Query: 61 TQDSET-LDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYID------------- 106 + E T D +E PE D D + S D Sbjct: 61 GDEGEAPAQTMDDRMGREDPEAGEDDRMVDPLSNWDYSVDESLDNEAFQREERTLRESDA 120 Query: 107 -DELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESI 165 + TL D+L WQ+ T S +R A+ +V +DE GYL + E + + Sbjct: 121 GEFSYEKVLSQPTTLADHLEWQLSFTDLSPEEREAASYLVGNIDEDGYLALEGEGLPSDL 180 Query: 166 GDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLD 225 D+D + L+ IQ DP GV A+ L++CL IQ + I+ D Sbjct: 181 -FPGCDMDRI---LRTIQTLDPPGVGARTLKECLQIQARLLGQEEALPG---RILDRAFD 233 Query: 226 LLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHN-GH 284 D + + R TR + + A+ +++L+P+PG+ P V+PD+ + + G Sbjct: 234 EFLAMDVKAMARKTRATPEEVGTALGFLRALEPKPGRPYYRESPSIVVPDLRFYEDDNGE 293 Query: 285 WTVELNSDSIPRLQINQHYASMCNNA-RNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRV 343 V ++ +PRL+I Y +M A + D ++ ++ A+W +KS+E R T+LRV Sbjct: 294 MRVAISEQGLPRLRIQPSYRAMLREAPKKDELRDYLEEKMRAAQWFLKSIEQRKKTILRV 353 Query: 344 SRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFF 403 ++ Q FF +G ++P+VL IAQ + +HESTISRVT QKY +P GI ELK FF Sbjct: 354 GESLLVHQADFFREGPRGLRPLVLRTIAQELGLHESTISRVTNQKYAETPFGIVELKSFF 413 Query: 404 SSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRE 463 S V + GGG S+T++R ++ ++ +E+P PL+D ++ L E GI++ARRT+AKYR Sbjct: 414 SGGVPSVGGGSHSATSVRERIRLMVRSESPESPLTDQEIMKKLEEAGIVIARRTIAKYRA 473 Query: 464 SLSIPPSNQRKQ 475 L IPP +QRK+ Sbjct: 474 ELDIPPVSQRKR 485 >UniRef50_Q4JMT6 Predicted DNA-directed RNA polymerase specialized sigma subunit, sigma54 homolog n=1 Tax=uncultured bacterium BAC17H8 RepID=Q4JMT6_9BACT Length = 499 Score = 456 bits (1174), Expect = e-127, Method: Composition-based stats. Identities = 161/486 (33%), Positives = 252/486 (51%), Gaps = 28/486 (5%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLE------------ 48 M LQ++ Q L MTPQLQQAI+LLQ++ L++ LQ NP LE Sbjct: 3 MMPSLQVKQKQALVMTPQLQQAIKLLQMTNLDICNYLQDQALENPFLEVENGPSHETASD 62 Query: 49 -----QIDTHEEIDTRETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGD 103 Q + ++ T D + A + +L + + G D Sbjct: 63 LGNGRQDEAPSDMPETRTLDKDMAGGAALADDPTANADLENRFGSQGLDFGHSQRGRPSD 122 Query: 104 YIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILE 163 D L + ++L + ++ Q++LT F R IA ++ +A++ TG+L L DI E Sbjct: 123 LDWDALANLAEQGPESLVECVLRQIDLTIFDPHQRVIAYALSEALEPTGWLGRELSDIAE 182 Query: 164 SIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDH 223 + G D +VE VL +QR +P GV A++L +CL IQ + L+ ++ D+ Sbjct: 183 ACG---ADERDVEEVLALVQRLEPEGVFARNLAECLRIQAREKG----VLDAVMTVVLDN 235 Query: 224 LDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNG 283 L +LAN D L R + + + LI+ +P+PG++ ++ PDV+V + Sbjct: 236 LQMLANGDIAQLARRADASTEDVSRCLKLIREFNPKPGEAYESAPLRVHAPDVIVTRGPD 295 Query: 284 HWTVELNSDSIPRLQINQHYASMCNNARNDGDSQ----FIRSNLQDAKWLIKSLESRNDT 339 W V+LN ++P L IN+ YA+ A ++ F L A+WL ++LE RN T Sbjct: 296 GWVVDLNRSTLPALVINEAYAAEIGKAARGKAAEAGAQFASEALGSARWLRRALEQRNST 355 Query: 340 LLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFEL 399 L+++ IV QQ AF G +KP+ L D+A+AV MHEST+SRVT+ + +P+G F L Sbjct: 356 TLKIAGEIVRQQAAFLTDGLSALKPLALKDVAEAVGMHESTVSRVTSGLLMATPKGCFPL 415 Query: 400 KYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVA 459 K FS + T+ G ++ A+R +++ ++ +E KPLSD + L+S QG+ +ARRTVA Sbjct: 416 KSLFSVSLATDEGDARAAAAVRNMIEAIVKSEPAGKPLSDDAIAKLVSGQGVKLARRTVA 475 Query: 460 KYRESL 465 KYRE L Sbjct: 476 KYREML 481 >UniRef50_A9BRF9 RNA polymerase, sigma 54 subunit, RpoN n=16 Tax=Proteobacteria RepID=A9BRF9_DELAS Length = 538 Score = 455 bits (1172), Expect = e-126, Method: Composition-based stats. Identities = 198/538 (36%), Positives = 291/538 (54%), Gaps = 62/538 (11%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 MK GL LR+SQ L++TPQLQQ+I+LLQLSTLEL QE++Q L NP LE + + D Sbjct: 1 MKPGLSLRVSQHLSLTPQLQQSIQLLQLSTLELAQEVEQMLGDNPFLELANEEGDHDAAA 60 Query: 61 TQDSETLDTADALE--QKEMPEELPLDASWDTIYTAGT---------------------- 96 A+A E Q+ ++ W+ A + Sbjct: 61 GTREPAAPGAEATESFQESRADQPSAAVEWEPSSDASSGDAVETSGTAESLSWEGDGQTN 120 Query: 97 --------------PSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIAT 142 D+ + ++L D+L Q + DRA Sbjct: 121 SGNDDRDWGSDAPSSRTRGQGEEDEADATELARSAESLTDHLHRQALSLRLGEVDRAALR 180 Query: 143 SIVDAVDETGYLTVPLEDILESIGDEEIDI-----DEVEAVLKRIQRFDPVGVAAKDLRD 197 +++ +++ GYL PL+++ + + ++++ L+ +Q +PVGV A+DL + Sbjct: 181 FLIENLNDDGYLEDPLDELAQGLAGDDLEECEELVHRFTVALRLLQSLEPVGVGARDLAE 240 Query: 198 CLLIQLSQFDKTTP--------------WLEEARLIISDHLDLLANHDFRTLMRVTRLKE 243 CL +QL L A I + +DLLA D R L + +E Sbjct: 241 CLTLQLRDQLADAEREGSGSAEDEDRQAVLRTALDICAQPMDLLARRDLRKLASLCGARE 300 Query: 244 DVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGH-----WTVELNSDSIPRLQ 298 + L+EA+ LI L+PRPG+ + + V+PDV+VR ++V+LN D +P+L+ Sbjct: 301 ERLREALVLITRLEPRPGRRFADVQRQIVVPDVIVRPVRSGAGRMDFSVQLNPDVMPKLR 360 Query: 299 INQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQG 358 ++ YAS + R ++ LQ+A+W IK+++ R DT+LRVS+ IVE+Q+ FF G Sbjct: 361 VHDIYASALRSHRGSEGHAALQQRLQEARWFIKNIQQRFDTILRVSQAIVERQKNFFVHG 420 Query: 359 EEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASST 418 E M+P+VL DIA A+ +HESTISRVTT KY+ +P+G +ELKYFF S + TE GG ASST Sbjct: 421 ELAMRPLVLRDIADALGLHESTISRVTTAKYMATPQGTYELKYFFGSGLGTEAGGNASST 480 Query: 419 AIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 A+RAL+K+ +AAE+P KPLSD++L +L EQGI ARRTVAKYRE L IPP+ RK L Sbjct: 481 AVRALIKQFVAAEDPKKPLSDNQLADMLKEQGIECARRTVAKYRELLKIPPTTLRKAL 538 >UniRef50_Q7UQ69 RNA polymerase subunit sigma-54 n=2 Tax=Planctomycetaceae RepID=Q7UQ69_RHOBA Length = 526 Score = 455 bits (1170), Expect = e-126, Method: Composition-based stats. Identities = 154/493 (31%), Positives = 255/493 (51%), Gaps = 23/493 (4%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQ----------- 49 M GLQ R SQ + P++ Q++ +LQ+ TL LQ+ ++Q + NPLLEQ Sbjct: 31 MSVGLQARQSQVQKLAPRMIQSMEILQMPTLALQERIEQEMNENPLLEQQTGDPLNPDDG 90 Query: 50 IDTHEEIDTRETQDSETLDTADALEQKEMPEELPLDAS----WDTIYTAGTPSGTSGDYI 105 D + DTR + E + D + + L +D+ +D + + Sbjct: 91 DDEIPDKDTRSESEKELVVDNDHDNKDDFERLLNMDSDLPSTFDDSFRQSANRMSEDADR 150 Query: 106 DDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVD--ETGYLTVPLEDILE 163 ++ ++L DYL+ Q+ D IA I+ ++ + GYL +PL D+L Sbjct: 151 RHDMMANAQSRPESLNDYLLHQLAEMDIDDEVEQIAERIISTLNASDGGYLRMPLADLLP 210 Query: 164 SIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDH 223 S G + D ++ E L +Q +P G+AA+DL +CL+ QL D + +E +I H Sbjct: 211 S-GHSKEDFEKAEEALAVVQSLEPSGIAARDLSECLISQL---DPSVAHFDELSTLIRSH 266 Query: 224 LDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHN- 282 L+ LA + + + T ++++E + L+P+PG + V PD+++ + Sbjct: 267 LNDLAENRLPQISKKTGFSIELIQELREELHLLNPKPGAAFLETYVPNVTPDIILEQDES 326 Query: 283 GHWTVELNSDSIPRLQINQHYASMCNNAR-NDGDSQFIRSNLQDAKWLIKSLESRNDTLL 341 G + V L+ D +P L I+++Y + +D + +FI+ + A+WLI S+E R TL Sbjct: 327 GEYRVRLDDDRVPTLFISEYYRRRLQASDCSDAEREFIKQKINGAQWLIDSIEQRRSTLT 386 Query: 342 RVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKY 401 RVS IVE Q+ F ++G E ++P+ + IA V +H +T+SR K++ +PRGI L+ Sbjct: 387 RVSEAIVEHQKRFLDEGPEAIEPLKMQQIADKVGVHVTTVSRAVDDKWIQTPRGILPLRR 446 Query: 402 FFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKY 461 FF TE G + + IR +++LI E+ +KP SD L L + G+ VARRTV KY Sbjct: 447 FFVGGTQTEDGDDVAWDTIRLKLQELIDKEDKSKPYSDENLVDELKKAGMTVARRTVTKY 506 Query: 462 RESLSIPPSNQRK 474 R+ + IP S QR+ Sbjct: 507 RKKMGIPSSRQRR 519 >UniRef50_A4ISQ1 RNA polymerase sigma-54 factor RpoN n=3 Tax=Bacillaceae RepID=A4ISQ1_GEOTN Length = 435 Score = 454 bits (1168), Expect = e-126, Method: Composition-based stats. Identities = 152/479 (31%), Positives = 232/479 (48%), Gaps = 49/479 (10%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M+ L QL++T +L QAI LLQ S L+L+ L + NP LE T Sbjct: 1 MRAELWQEQRLQLSLTKELVQAIELLQYSALDLEAFLYEQSLENPFLEIRRGRMRRRTSR 60 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 T D + T+TL Sbjct: 61 T-----------------------------------------DKDRKQWLENISGRTETL 79 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 +L+ Q+ + + ++ A+DE GYL VPL ++ + EVE L+ Sbjct: 80 AGHLLAQLPGLMLPAKEERMVRHLIAALDEDGYLRVPLAELAARFS---VSEQEVERALR 136 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 +Q DP GV A+DL +CLL+QL + + E A I+ H A ++TL + Sbjct: 137 FVQSLDPPGVGARDLAECLLLQLERRPERD---ELAETIVRHHFVAFAEKAWKTLAKQLG 193 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKH-NGHWTVELNSDSIPRLQI 299 + L+ LI++L+PRPG P +++PD++V + +G W V N D P L Sbjct: 194 VSLGELQRVFELIRTLEPRPGIHYANETPHFIVPDLIVTRQADGGWIVTYNDDIHPELGW 253 Query: 300 NQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE 359 N+ Y + +F++ + WL KSLE R TL+ + I+++Q++ FE G Sbjct: 254 NKEYERHIVAVGDRHAERFMKEKYRQFTWLAKSLEQRKQTLVHLMGIIIDRQRSCFESGL 313 Query: 360 EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTA 419 +KPM + ++A+ + +HEST+SR KY+ +P G+ EL+ FFSS G ASS Sbjct: 314 SALKPMTMREVAEELGVHESTVSRAVRHKYVQTPFGMIELRRFFSSAATAGAGETASSVQ 373 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQ-GIMVARRTVAKYRESLSIPPSNQRKQLV 477 ++A+++ LI+AE+ PLSD +L LL +Q GI ++RRTVAKYRE L IP S +RKQ Sbjct: 374 VKAIIQTLISAEDRRAPLSDQQLADLLRDQHGIAISRRTVAKYREQLRIPSSAKRKQYT 432 >UniRef50_B3E042 DNA-directed RNA polymerase specialized sigma subunit n=1 Tax=Methylacidiphilum infernorum V4 RepID=B3E042_METI4 Length = 458 Score = 453 bits (1167), Expect = e-126, Method: Composition-based stats. Identities = 153/477 (32%), Positives = 244/477 (51%), Gaps = 28/477 (5%) Query: 2 KQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRET 61 GL + A++PQ+Q ++ +LQ +EL +QQ L SNPLLE + Sbjct: 4 SLGLYQSIKLHQALSPQMQHSLAILQAPAVELSTIIQQELLSNPLLEISEDKP------- 56 Query: 62 QDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGET--TQT 119 LE + + W + + + + Sbjct: 57 -----------LEGQSLEGLFHEKEKWYDYLGPNFEGAQRSIEDERKRQFFFDSQVVPPS 105 Query: 120 LQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVL 179 + L Q+ L +T A I+ +DE GYL LE+I +G + D VE L Sbjct: 106 MASELSRQLSLVCSDNTLLQAAQYIIGNLDERGYLNTELENIAHELG---LAYDLVEKAL 162 Query: 180 KRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVT 239 + +Q DP G+AA++L +CLL+QL K IIS++L LL + + Sbjct: 163 ELVQSLDPPGIAARNLSECLLLQLKALGKENSLE---FRIISEYLTLLERKKLTEIAKQL 219 Query: 240 RLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVI-PDVLVRKHNGHWTVELNSDSIPRLQ 298 ++ ++EAV I+SL+P PG ++ E E +I D++V K W V N + +PRL+ Sbjct: 220 KVSLKQVQEAVESIRSLNPFPGSKYRSEEKEKIIQVDLMVVKEAQDWKVYFNDEFMPRLR 279 Query: 299 INQHYASMC-NNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQ 357 IN HY S+ N ++ +++ + +LIK L R +TLL+V+ IV Q+ FF+ Sbjct: 280 INHHYESLLSKNDKDPSLKNYLKEKKRSGLFLIKCLRMRENTLLKVAEAIVHCQKDFFDS 339 Query: 358 GEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASS 417 G +KP+ +++IAQ +++HE+T+SR KY+ +P GIFELKYFF+S + G ++ Sbjct: 340 GPHALKPLTMSEIAQKIDVHETTVSRAIANKYVKTPHGIFELKYFFNSGFQKQTGEFVAN 399 Query: 418 TAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRK 474 I+ +++LI E+P PLSD ++ LL+++GI +ARRTVAKYR L I PS+ R+ Sbjct: 400 QTIKEAIERLIRNEDPRSPLSDQQIVELLAKEGIKMARRTVAKYRAHLKILPSHLRR 456 >UniRef50_C5D7M8 RNA polymerase, sigma 54 subunit, RpoN n=5 Tax=Geobacillus RepID=C5D7M8_GEOSW Length = 437 Score = 453 bits (1167), Expect = e-126, Method: Composition-based stats. Identities = 154/481 (32%), Positives = 234/481 (48%), Gaps = 50/481 (10%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M+ L +L++T +L QAI LLQ S +ELQ L + NP LE D Sbjct: 1 MRAELLQEQRLKLSLTKELTQAIELLQYSAVELQSFLYEQSLENPFLEIRD--------- 51 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 Y D + ++TL Sbjct: 52 -------------------------------YRLKRNFRNLSDKEKQQWIENMSTYSETL 80 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 YL Q+ S+ + I ++ +DE GYL V +E+I E I E E L+ Sbjct: 81 SSYLTAQLPALSLSEHEERIVHYMIACLDEDGYLRVNIEEIAERFA---ISKQEAEKALQ 137 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 IQ +P GV A++L++CL +QL + E A II H L ++TL + Sbjct: 138 IIQSLEPAGVGARNLQECLYLQLKRLPYRD---EFAEQIIQHHFSLFVEKAWKTLAKQLG 194 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRK-HNGHWTVELNSDSIPRLQI 299 + L+ +LI++L+PRPG P +++PD++V++ G W + N D P L Sbjct: 195 VDIASLQRVWDLIRTLEPRPGIHYTKERPHFIVPDIIVQRSEEGDWRIFYNEDVHPELIW 254 Query: 300 NQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE 359 N+ Y ++ ++ F++ + WL KSLE R TLL + IV++Q+ FE G Sbjct: 255 NRGYEQKISSCQDGQVHAFVKDKYRQFLWLAKSLEQRKQTLLNIMHVIVDKQKQCFETGF 314 Query: 360 EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTE--GGGEASS 417 +KP+ + ++A+ + +HEST+SR KY+ +P G EL+ FFSS V++ ASS Sbjct: 315 AALKPLTMREVAEELGIHESTVSRAVKNKYVQAPFGTVELRRFFSSAVSSVYMDEDAASS 374 Query: 418 TAIRALVKKLIAAENPAKPLSDSKLTSLLSEQ-GIMVARRTVAKYRESLSIPPSNQRKQL 476 ++ +++LI EN +PLSD KL LL EQ G++++RRTVAKYRE L IP S +RKQ Sbjct: 375 VKVKMFIRQLIEQENKQEPLSDQKLADLLHEQYGVVISRRTVAKYREQLHIPSSAKRKQY 434 Query: 477 V 477 V Sbjct: 435 V 435 >UniRef50_C7ILW5 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Clostridium papyrosolvens DSM 2782 RepID=C7ILW5_9CLOT Length = 452 Score = 451 bits (1161), Expect = e-125, Method: Composition-based stats. Identities = 138/477 (28%), Positives = 250/477 (52%), Gaps = 28/477 (5%) Query: 3 QGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE-- 60 +++ L+Q++A++PQ+QQ++ +LQ+ST EL ++Q NP++E D + D E Sbjct: 1 MNIEINLNQKMAISPQMQQSMEILQMSTQELMDYVKQLAVDNPVVEFDDQPYDNDRSEIL 60 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 + E LD+ + + D + ++ Y + L Sbjct: 61 RKKLEWLDSVNKEYRV-------------------YNHDLEEDEENKDVAHYMRGDEEDL 101 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 +L Q+ L ++ +D+ GYL +D+ +++ ID + E L Sbjct: 102 YQHLQSQLNLMKAPKELCKTIQYMIGCIDKNGYLQEKTDDMAKAL---RIDEKKAEMALH 158 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 ++Q +P GV A++L++CLL+QL + ++ P +++ +L+LL + + + Sbjct: 159 QLQLMEPAGVGARNLKECLLLQLERLNQNNPL---VITLVNCYLELLGKNQLNLIAKTLG 215 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTG-EPEYVIPDVLVRKHNGHWTVELNSDSIPRLQI 299 + D + +A +I+ L+PRPG + Y PD+++ K ++ V LN+ S P + I Sbjct: 216 VSIDKVNDAFKIIKKLNPRPGMGFGAKRDIHYQTPDLVIVKFCDYYEVLLNNFSDPHISI 275 Query: 300 NQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE 359 + +Y ++ + +D +I L++A W IK + RN+TLL V++ +V QQ FF++G Sbjct: 276 SSYYRNVLSQNPSDNVKNYISDKLKEADWAIKCITQRNNTLLNVTKMLVNQQIGFFDKGP 335 Query: 360 EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTA 419 Y+ PM IA +++HEST+SR KYL GIF L YFF++ ++ + A Sbjct: 336 SYLIPMNQKCIADKLQIHESTVSRAIRGKYLQCSWGIFGLDYFFTNGLSIGYDSQIVPDA 395 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 I++ +KK+I E+ KP SD K+ +L+++GI +ARRT+ KYRE + IP + RK+ Sbjct: 396 IKSDIKKIITEEDRKKPYSDQKIAEILNKKGISIARRTITKYREDMEIPKAGMRKEY 452 >UniRef50_C9XR96 RNA polymerase sigma-54 factor n=5 Tax=Clostridium RepID=C9XR96_CLODC Length = 448 Score = 451 bits (1161), Expect = e-125, Method: Composition-based stats. Identities = 162/476 (34%), Positives = 277/476 (58%), Gaps = 32/476 (6%) Query: 2 KQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRET 61 L+L SQ+L MT QL+Q++ +L +S LEL++E+++ E+NPL+E ++ EI+ E Sbjct: 4 NNSLELTQSQKLIMTTQLKQSLSILNMSKLELEEEIKREAENNPLVE-VEKSGEINWEEY 62 Query: 62 QDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQ 121 + +D + L++ E+ + + + + + L Sbjct: 63 --IKDMDRSRRLDRTEISYNPDNEVNLENLVKYSS----------------------NLY 98 Query: 122 DYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKR 181 + L +Q+ L +D + + I+D++DE GYL + I++++ +ID + E L Sbjct: 99 EDLKFQISLYKLTDKELEVCEYIIDSLDEDGYLRTEEKVIVDTL---KIDEELFEKCLIS 155 Query: 182 IQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRL 241 +Q+ +P GV A+ L +CL+IQ++ LEE I++ L+L+AN+ ++ + + + Sbjct: 156 VQQLEPSGVGARSLSECLMIQMASLGIYNEILEE---IVTKDLNLIANNKYKEISKKYNM 212 Query: 242 KEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQ 301 E +N+I++LDP+PG++ + Y+ PDV V K + + V LN +++IN Sbjct: 213 SLQKCVELINIIKTLDPKPGRTCSVEKSVYIQPDVTVEKIDDEFIVYLNEKDSYQIRINS 272 Query: 302 HYASMCNNARNDG-DSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 +Y + N+++D +FI+ L A L+K++ESR T+L+++ IV+ Q F +G + Sbjct: 273 YYKDILKNSQSDESAKEFIKERLNSATGLMKNIESRKTTVLKIAEEIVKAQDEFLRKGTK 332 Query: 361 YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAI 420 Y+KP+ + DIA+ +E HESTISR KY+ +P G++E +YFFSS + TE ASST+I Sbjct: 333 YIKPLKMKDIAEKLEFHESTISRGVNGKYMLTPFGVYEFRYFFSSAIETENNEMASSTSI 392 Query: 421 RALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 + ++K+ I EN KPLSD ++ LL E+GI VARRTVAKYRE L IP S++RK+ Sbjct: 393 KKIIKETIKDENKKKPLSDDHISKLLKEKGINVARRTVAKYREELGIPSSSKRKEY 448 >UniRef50_Q01PW4 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Candidatus Solibacter usitatus Ellin6076 RepID=Q01PW4_SOLUE Length = 535 Score = 451 bits (1160), Expect = e-125, Method: Composition-based stats. Identities = 154/536 (28%), Positives = 253/536 (47%), Gaps = 69/536 (12%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQ--------------------- 39 + LQL+++Q+ +TP L Q + +LQL+ LEL++ + Q Sbjct: 4 LSPRLQLKVAQKQILTPGLVQMVTVLQLNRLELKEMITQEIVKNPVLEESTNEPGEEITP 63 Query: 40 ------------------ALESNPLLEQIDTHEEIDTRETQDSETLDT------------ 69 L +L ++ + + + D Sbjct: 64 EELLPLLEAEHVQDPADRQLLEAAVLTDANSVDGSNGSAINGNLFPDAEESAAAAAVAEN 123 Query: 70 ---------ADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 A+A + +E+ + +D G S S + TL Sbjct: 124 DTIATNDPLAEAPAATDPFDEIDFGSFFDEYLDPGYKSPASESV-EKPSFETFLTAPITL 182 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 D+L Q+ ++ SD R A SI+ +DE GYL+ L++I EVE L Sbjct: 183 GDHLRSQLSVSLASDEVRDAAESIIGNLDEDGYLSASLDEIAAMGSH---TAAEVEQALI 239 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 +Q DP GV A++LR+CLL+Q+ + A I+S+ L LL ++ + +V Sbjct: 240 VVQSLDPAGVGARNLRECLLLQIESINGRGGV---AWQIVSNCLRLLETKQYKEIAKVLS 296 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQIN 300 + ++ AV++IQ L+PRPG V PDV K + +++N + +P+L++N Sbjct: 297 RPLEHIETAVHMIQHLNPRPGLRYSGAGARVVEPDVFFTKDGDDYIIQMNDEDVPQLRLN 356 Query: 301 QHYASMCNNARN--DGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQG 358 Y M + ++R A L+K++E R T+L+V + IV +Q F G Sbjct: 357 AQYRRMLDRENGATKEVRDYVRERYTSAIQLMKNIEQRKQTILKVCQAIVRRQTEFLSHG 416 Query: 359 EEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASST 418 +Y+KPM++ ++A+ V +H ST+SR KY+H+P+G+FEL+YFFS V GG Sbjct: 417 LDYLKPMMIKEVAEEVGVHPSTVSRAVASKYVHTPQGVFELRYFFSEAVQGPSGGGTPLL 476 Query: 419 AIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRK 474 ++ VKK+I E+ +KPL+D ++T LL +GI V RRTVAKYRE + IP ++QR+ Sbjct: 477 LLKRKVKKMIDDEDRSKPLTDEQITLLLQGEGINVTRRTVAKYREDMKIPSTHQRR 532 >UniRef50_D1N390 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Victivallis vadensis ATCC BAA-548 RepID=D1N390_9BACT Length = 472 Score = 450 bits (1159), Expect = e-125, Method: Composition-based stats. Identities = 142/476 (29%), Positives = 246/476 (51%), Gaps = 12/476 (2%) Query: 2 KQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRET 61 +Q L L Q+ ++ + Q++ LL L LEL++ L Q L +NPLLE E ++ Sbjct: 5 QQTLSTTLRQEQQLSARQLQSLELLNLPALELEERLTQELAANPLLEAEVQSEPVELPAQ 64 Query: 62 QDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQ 121 ++ + L+++ + E D + +++ + TLQ Sbjct: 65 PEAPEKEDESTLDERAVENEEWAD----ELPMPPGTGEAGFTNEENDFMLNSLSDAPTLQ 120 Query: 122 DYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKR 181 + L ++ + R +A I+ ++D+TGY D+ S E D + Sbjct: 121 EQLFSELATCDATPEVRRLAEEIIGSIDDTGYFRSTPADLAMSENAELADAEAALK---L 177 Query: 182 IQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRL 241 +Q FDP GV +DL +CL +QL + + TP R I+ HL+ +A + L R R+ Sbjct: 178 VQSFDPPGVGCRDLAECLKLQLERTGELTPLY---REILDHHLEEIARNHLPQLARTLRI 234 Query: 242 KEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDV-LVRKHNGHWTVELNSDSIPRLQIN 300 + L + ++ L+P PG ++ ++V+P+V +VR +G + V + +PRL + Sbjct: 235 SLEELNRCLARLRRLNPYPGSALAPEHADFVMPEVSIVRGADGEYEVAPRRNGMPRLFLA 294 Query: 301 QHYASMCNNAR-NDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE 359 + Y + D ++R LQ A+ L+++L+ R T++R++ IV Q+ F + G Sbjct: 295 ERYLKLLETPDLPTADKAYLRDKLQQARELMRALDLRQSTIVRIAGVIVATQRDFLDNGV 354 Query: 360 EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTA 419 +KP+ + + +E+HE+T+SR KY+ +P+GIF K+FF++ E G S+ A Sbjct: 355 AALKPLTMKQAGEMLELHETTVSRAVANKYVETPQGIFPFKFFFTAGFTGEDGTSVSNRA 414 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 + +K+LI ENPAKPLSD +L +L G+ VARRTVAKYRE ++IP S+ R++ Sbjct: 415 VMEKIKELIDKENPAKPLSDEQLAQMLKAGGLAVARRTVAKYREGMNIPSSSLRRK 470 >UniRef50_A4GID2 DNA-directed RNA polymerase specialized sigma subunit sigma54 n=1 Tax=uncultured marine bacterium HF10_19P19 RepID=A4GID2_9BACT Length = 504 Score = 450 bits (1159), Expect = e-125, Method: Composition-based stats. Identities = 166/500 (33%), Positives = 268/500 (53%), Gaps = 33/500 (6%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEI---- 56 + Q ++LR Q L MTPQLQQAI+LLQ++ LEL Q LQ+ + NP LE E Sbjct: 3 LSQSIKLRQKQSLVMTPQLQQAIKLLQMTNLELSQHLQEQMYDNPFLEVNGATETELSET 62 Query: 57 -------------------DTRETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTP 97 + S ++A + +E+ + P Sbjct: 63 AKHTSGPADSEVLNKNLTATEGQNDVSALRESAALADDPTQNQEIENRFDTALVDMPSNP 122 Query: 98 SGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVP 157 + D P+ + L Q+ LT DR IAT ++A++ +G++ Sbjct: 123 GVRNKFADGDFDPIDSLTSEDGFYPMLFKQMNLTFSDPADRIIATHFINALEPSGWIGNS 182 Query: 158 LEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEAR 217 +E I E G +++ E VL +Q F+P G+ A+DL +CL IQL + ++ + + Sbjct: 183 VEAIAEESG---CSVEQAETVLAALQGFEPAGLFARDLAECLKIQLIENNQFSHLFGQ-- 237 Query: 218 LIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVL 277 + D+L+ L + + L R + + + E +++I++L+P+PG+ + E PDV+ Sbjct: 238 --LLDNLEQLGRGEIKQLARKFKCAPEDIVEMLSIIRTLNPKPGEHLGIEFREMPSPDVI 295 Query: 278 VRKHNGHWTVELNSDSIPRLQINQHYASMCNNAR--NDGDSQFIRSNLQDAKWLIKSLES 335 V + W+VELN ++P + +N+HYA + + + + L +A+WL +++E Sbjct: 296 VTRKKQGWSVELNRSTLPSVLVNEHYAELMAKQKRTDQAVQDYSAETLTNARWLKRAVEQ 355 Query: 336 RNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRG 395 RN T L++S I+ Q F E+G +Y+KP+ L D+A AV MHEST+SRVTT + +PRG Sbjct: 356 RNQTTLKISAEIIRHQTDFLEKGLDYLKPLSLRDVALAVGMHESTVSRVTTGLLISTPRG 415 Query: 396 IFELKYFFSSHVNTEGGG-EASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVA 454 LK FFS ++ + AS+ ++R +VKK+I+ E P KPLSD ++ ++SEQGI +A Sbjct: 416 GMPLKSFFSVNIASRDSDMNASAASVRNMVKKIISQEVPGKPLSDEAISKVISEQGIDLA 475 Query: 455 RRTVAKYRESLSIPPSNQRK 474 RRTVAKYRE L+IP S+QR+ Sbjct: 476 RRTVAKYREMLNIPSSSQRR 495 >UniRef50_D2R5L0 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Pirellula staleyi DSM 6068 RepID=D2R5L0_9PLAN Length = 494 Score = 450 bits (1159), Expect = e-125, Method: Composition-based stats. Identities = 150/491 (30%), Positives = 251/491 (51%), Gaps = 21/491 (4%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTH----EEI 56 + GL+ R Q + P++ Q++ +LQL ELQ+ ++Q L NPLLE +D +E Sbjct: 3 LSFGLEARQVQVQKLAPRMIQSMEILQLPLQELQERIEQELAENPLLEMLDRDPSLPDEQ 62 Query: 57 DTRETQDSETLDT------ADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDD--- 107 RE + + +D + L LD + S + D Sbjct: 63 VERELPNEKDVDDKPIVVDEAHNNADDFERLLNLDREVPDYFDESRRSSNRMEEDSDRAH 122 Query: 108 ELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVD--ETGYLTVPLEDILESI 165 ++ + ++LQD+L+ Q+ S +A I+ +D + GY L D+L Sbjct: 123 DVISNVADRPESLQDHLLHQLGEMDLSLELMQMAERIISTLDPLDGGYFRSSLRDLLPID 182 Query: 166 GDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLD 225 +E I E L IQ+ DP G+ A+DLR+CLL+QL+ T EE + +I+ HL+ Sbjct: 183 ATKE-QIALAERALALIQQLDPPGIGARDLRECLLLQLT---PTMFMYEELKTLITSHLE 238 Query: 226 LLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDV-LVRKHNGH 284 L ++ + + T D +++A + ++ L+P+P V PDV +VR +G Sbjct: 239 DLRDNRLPLIQKSTGYSIDRIQKAWSELRKLNPKPASGFSEAFVPNVTPDVAVVRGEDGQ 298 Query: 285 WTVELNSDSIPRLQINQHYASMCNN-ARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRV 343 + V+++ P L I+++Y + + ++I+ + A+WLI+S+E R TL +V Sbjct: 299 YLVQVDESRTPTLHISKYYRERLASGTATPEEREYIKRKINAAQWLIESIEQRRSTLTKV 358 Query: 344 SRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFF 403 S+ IV+ Q F ++G E+++P+ + IA V +H +T+SR K++ +PRGIF LK FF Sbjct: 359 SQAIVDHQTKFLDEGPEHIEPLKMQQIADKVGVHVTTVSRAVDDKFIQTPRGIFPLKRFF 418 Query: 404 SSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRE 463 T G + + IR +++++ EN PLSD L L +QG+ VARRTV KYR+ Sbjct: 419 VGGTQTAEGDDVAWDIIRIRLQEIVDKENKQAPLSDDDLVEELKKQGLNVARRTVTKYRQ 478 Query: 464 SLSIPPSNQRK 474 + IP S QR+ Sbjct: 479 KMGIPSSRQRR 489 >UniRef50_C7IQW3 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Thermoanaerobacter ethanolicus CCSD1 RepID=C7IQW3_THEET Length = 470 Score = 449 bits (1156), Expect = e-125, Method: Composition-based stats. Identities = 157/450 (34%), Positives = 257/450 (57%), Gaps = 26/450 (5%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M+ L+L+ +Q+L MTP+L+QAI +LQL++LEL ++Q LE+NP+LE+ +T EE + E Sbjct: 3 MEFELKLQQAQKLIMTPELKQAIEILQLNSLELNALIEQELETNPVLEKEETSEEENAYE 62 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 E E++ ++ + + Y +L Sbjct: 63 YDLYELSKYIRETEERMYYDDSDDEEIEEVNY------------------ENFVSPKSSL 104 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 D+L++Q+ +TP + I I+ ++ +GYL ++DI E + E +EV L Sbjct: 105 SDHLLFQLHITPVPPKIQKICEYIIFSLSPSGYLREDIKDIAEIL---ECSEEEVLDGLS 161 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 +Q FDP G+AA++L++CL +QL + + ++ HL+ +A + L ++ Sbjct: 162 VVQSFDPPGIAARNLQECLKLQLLA---QDSYKGIVKKLVDYHLEEIAEGKYSYLAKLYN 218 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTG-EPEYVIPDVLVRKHNGHWTVELNSDSIPRLQI 299 + +++AV+ I+ L+P+PG S + + Y+IPDV V K G + V +N P+L+I Sbjct: 219 ISLKEVQQAVDFIKKLNPKPGSSFSSTTDVGYIIPDVEVIKREGEYFVIVNDSVTPKLKI 278 Query: 300 NQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE 359 N +Y S+ N+ ++ ++I S LQ A WLIKSLESR +TL +V + IVE Q+ F ++G Sbjct: 279 NNYYHSILNSH-DEEAKKYINSKLQSAMWLIKSLESRKETLYKVVKAIVELQRDFLDKGI 337 Query: 360 EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTA 419 Y+KPM IA V +HEST+SR KY+ +PRG+FE+K+FF S ++ G E S+ + Sbjct: 338 NYLKPMTQKQIADIVGIHESTVSRAINGKYVATPRGLFEIKFFFQSGISNRNGNEISAES 397 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQ 449 I+ L+KKLI E+PA PLSD K+ +L E+ Sbjct: 398 IKNLIKKLIEEEDPANPLSDQKIADILKEK 427 >UniRef50_C1F1M0 RNA polymerase sigma-54 factor n=1 Tax=Acidobacterium capsulatum ATCC 51196 RepID=C1F1M0_ACIC5 Length = 557 Score = 449 bits (1155), Expect = e-124, Method: Composition-based stats. Identities = 147/551 (26%), Positives = 266/551 (48%), Gaps = 77/551 (13%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 ++ L L+++Q+ +TP L Q + +L L+ LEL++ +Q + NP+LE+++ + Sbjct: 4 LQPKLNLKVAQRQILTPGLMQMVSVLALNKLELKEMIQAEIAENPVLEEMEESVPLLDDV 63 Query: 61 TQDSETLD-------TADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQ 113 + E D +++ E+K+ +E+ + + G + S + + Sbjct: 64 ARREEDHDRGLEIKASSEESEKKDPFDEIDFGSYFQDYLDPGFRTPNSFELTEKPSIENF 123 Query: 114 GETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDID 173 TL D+L+WQ+ + R A ++ ++E GYL ED+LE E++ + Sbjct: 124 LSAPSTLSDHLLWQLGALTLTPAIRDAAEYLIGNLNEDGYLPADEEDLLEGYLREQLAPE 183 Query: 174 EVEAV--------------------------LKRIQRFDPVGVAAKDLRDCLLIQLSQFD 207 E+V L+ +++ DP+G+A +DLR+CL++Q++ Sbjct: 184 GAESVNGHAPSALTALPPAMAERARAHLASALEVVRQLDPIGIATRDLRECLMVQVAAQR 243 Query: 208 KTTPWL-------------------------------------------EEARLIISDHL 224 + + E A I+ H+ Sbjct: 244 REFDLIYQRTAVVSAFDEQAEDSAPAESTAQPESSAPGDPERLQRISVFETAAAILDRHM 303 Query: 225 DLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGH 284 LL D R L + + + A++ I++LDPRPGQ E + PDV K + Sbjct: 304 LLLQKRDPRELSKAVARSVEETQRAIDFIRTLDPRPGQRYNRSEARLIEPDVAFVKRDDE 363 Query: 285 WTVELNSDSIPRLQINQHYASMC-NNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRV 343 + V +N + +P L++N Y + + +++ + A L++++E R +T+L+ Sbjct: 364 YVVVMNDEDLPSLRLNHGYRRLLNKDGAEKDVKDYVKERYRSALQLMRNIEQRKNTILKT 423 Query: 344 SRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFF 403 I+ +Q F E G E MKPM++ ++A+ + +H ST+SR + KY+H+P+G++EL++FF Sbjct: 424 CESIIRRQTDFLENGIEAMKPMMIKEVAEEIGVHPSTVSRAVSNKYVHTPQGVYELRFFF 483 Query: 404 SSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRE 463 S VN G ++ VKKLI E+P+KPL+D ++ +L QGI V RRTVAKYRE Sbjct: 484 SEGVNGPEGSGTPLMLLKRKVKKLIEDEDPSKPLTDDQIAQMLQSQGIEVTRRTVAKYRE 543 Query: 464 SLSIPPSNQRK 474 + IP ++QR+ Sbjct: 544 DMKIPSTHQRR 554 >UniRef50_C5ELZ1 RNA polymerase n=3 Tax=Clostridiales RepID=C5ELZ1_9FIRM Length = 461 Score = 447 bits (1151), Expect = e-124, Method: Composition-based stats. Identities = 138/483 (28%), Positives = 252/483 (52%), Gaps = 30/483 (6%) Query: 3 QGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQ 62 L+L++ Q ++ ++ Q+ +LQ+++ EL + + NP+++ ++ +E+ Sbjct: 1 MDLKLQVKQTQTLSQRMIQSAEILQMTSQELNTYINELALENPVIDIVEPPAGNQQKES- 59 Query: 63 DSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQD 122 + E+ L++ + Y DY + +TLQD Sbjct: 60 ---------------IEEQQWLNSFNEENYYLYQRQNNDDDYDFKNSWNINTDDGETLQD 104 Query: 123 YLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRI 182 YL Q+ FS + + +++++D GYL +EDI + D+ VE +L + Sbjct: 105 YLWSQLVTEEFSSLETDMIKFMLESLDNKGYLGEGVEDIASYF---QTDLSVVERLLYTL 161 Query: 183 QRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLK 242 Q+ DP GV A++L +CL +QL + TP L II+ L+++A + + R L Sbjct: 162 QQLDPAGVCARNLEECLSLQLERRQMLTPVLS---SIINGCLEMVARNQIPAIARKLHLS 218 Query: 243 EDVLKEAVNLIQSLDPRPGQSIQT-GEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQ 301 + +I+SL+P+PG S + + Y+IPDV + K H+ + LN P ++IN Sbjct: 219 QAEAAGYCQIIKSLNPKPGVSFSSREKLRYIIPDVTIVKFKEHFDILLNESMYPNIEINS 278 Query: 302 HYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEY 361 +Y+ M N + +++ + ++ A+W+ + + R TL++VS+ I+E Q+ FF G + Sbjct: 279 YYSQMNRNPDSAELKEYLSNKIRQAEWVRQCVTQRGKTLMQVSKSILEHQEGFFTYGPSH 338 Query: 362 MKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVN-------TEGGGE 414 + P+ LADIAQ +++HEST+SR ++KYL G++ + +FFS V+ + Sbjct: 339 LAPLKLADIAQELDIHESTVSRAVSKKYLQCSWGVYPMNFFFSRKVSVQENTADPDNASA 398 Query: 415 ASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRK 474 ++ I+ ++++I AE+ KP SD L L+E+GI ++RRTVAKYRE I ++ RK Sbjct: 399 VTAADIKRALREIIDAEDKKKPYSDRLLGEKLAERGISISRRTVAKYREEEGIADASGRK 458 Query: 475 QLV 477 + V Sbjct: 459 EYV 461 >UniRef50_A6CNF4 DNA-directed RNA polymerase subunit N n=1 Tax=Bacillus sp. SG-1 RepID=A6CNF4_9BACI Length = 430 Score = 447 bits (1150), Expect = e-124, Method: Composition-based stats. Identities = 140/476 (29%), Positives = 244/476 (51%), Gaps = 49/476 (10%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 + GL R S +L MT QL QAI LLQ S+ EL L+ NPLL+ E TR+ Sbjct: 3 LNTGLWQRQSLKLNMTQQLTQAIELLQYSSQELNAYLESKALENPLLQLEPVSYEERTRK 62 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 +G S D+I++ +L Sbjct: 63 RNQE--------------------------------YNGMSIDWIEE-----IAVQQHSL 85 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 ++L Q+ L + DR + + D++DE GYL +E + + ++ ++ Sbjct: 86 WEHLNAQLNLKTLNHEDRNTLSLLFDSLDENGYLPSNIESLFR--------VSDLSTYIE 137 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 +Q +P G+ A++L++CLL+Q+ + T E A II H ++T+ + Sbjct: 138 MLQSLEPAGIGARNLKECLLLQIQR---DTEAPEHAHSIIEHHFAAFCEKTWKTITKELG 194 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQIN 300 + ++ + +++L+PRPG + P+Y+ P++ V + V+L S+ +++ N Sbjct: 195 ITLSDIQLTADYVKTLNPRPGARFTSEAPQYIRPEMNVTRSKDGLEVQLVDGSVMKIKYN 254 Query: 301 QHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 Y + ++++ +F+R Q+ +WL+K L+ R TL++V +C+VE+Q+AFF G + Sbjct: 255 SEYDELIASSKDKEGLKFMRDKKQEFQWLLKMLDQRKTTLMKVGKCLVERQEAFFRYGPK 314 Query: 361 YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAI 420 +KP+ L ++A+ + +HESTISR KY+ +P G +E+K F S V + SS I Sbjct: 315 ELKPLTLKEVAETIGVHESTISRAVRGKYIGTPCGTYEMKALFVSGVGKDE-DAVSSEGI 373 Query: 421 RALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 +A + +++ E+ KPLSD + +L E+G+ V+RRTVAKYR+ L+IP S +RK+ Sbjct: 374 KAEIMQMVTTEDKKKPLSDQAIAVMLQEKGLHVSRRTVAKYRDQLNIPSSTRRKRY 429 >UniRef50_UPI0001C34EB5 RNA polymerase factor sigma-54 n=1 Tax=Clostridium sp. M62/1 RepID=UPI0001C34EB5 Length = 469 Score = 447 bits (1150), Expect = e-124, Method: Composition-based stats. Identities = 141/480 (29%), Positives = 243/480 (50%), Gaps = 30/480 (6%) Query: 2 KQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRET 61 + L ++ Q A++ ++ + +LQ+ EL ++L + NP+++ E Sbjct: 16 RTELFIKAEQTQALSQKMILSNEILQMGVQELCEKLGEIFLENPVVDLSQPSPE------ 69 Query: 62 QDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQ 121 E + S + + D ++ ++ E ++LQ Sbjct: 70 --------------DERMAKYQWLESLNDRNRDTYMHESRDDEEGNDDWKFRQEDGESLQ 115 Query: 122 DYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKR 181 DYL Q+ L S D I T +++++D+ GYL PL+ + E + + + VE +L + Sbjct: 116 DYLWSQISLKELSGKDEEIITYLMESLDDRGYLDEPLDSVAERFHEPK---ERVEEILSQ 172 Query: 182 IQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRL 241 +Q +P GV AKDL +CLL+QL + +P A I+ +HL+LLA + + + L Sbjct: 173 LQTLEPAGVFAKDLSECLLLQLKRNRMDSPA---AEEIVREHLELLAANKIPVIAKKVHL 229 Query: 242 KEDVLKEAVNLIQSLDPRPGQSIQT-GEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQIN 300 + E I++L+PRPG + + Y+IPDV V K + + LN + P ++IN Sbjct: 230 SVEETAEICQAIRNLNPRPGSHFASREQLSYLIPDVTVVKFADRFEILLNESTYPTIEIN 289 Query: 301 QHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 +Y M + + ++R L+ A+W+ +E R T++ V++ I+ Q FFE+G Sbjct: 290 DYYRKMAVQSDSSQVHDYLREKLRQAEWIRTCMEQRGRTIMNVTKTILMLQSEFFEKGPS 349 Query: 361 YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTE---GGGEASS 417 ++KP+ +++A+ + +HEST+SR QKYL GI+ + YFFS ++ E GG S Sbjct: 350 HLKPLKQSEVAEMIGIHESTVSRAVRQKYLQCSWGIYPMNYFFSRGISEEKGRGGRAVSV 409 Query: 418 TAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQLV 477 ++ + ++I EN KP SD L L E+G ++RRTVAKYRE L IP + RK + Sbjct: 410 QEVKNALTEIIREENKKKPFSDRILAEKLEERGFTISRRTVAKYREELGIPDAGGRKVFL 469 >UniRef50_C6W3I8 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Dyadobacter fermentans DSM 18053 RepID=C6W3I8_DYAFD Length = 480 Score = 446 bits (1147), Expect = e-124, Method: Composition-based stats. Identities = 149/468 (31%), Positives = 256/468 (54%), Gaps = 9/468 (1%) Query: 13 LAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSETLDTADA 72 L +P Q + LL L+T+EL+Q +++ LE NP+LE+ + ++ + D + Sbjct: 12 LKYSPLQIQMLNLLHLTTMELEQRIKEELEENPILEEG-KEDSTSEEAPEEFDDADISSG 70 Query: 73 LEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTP 132 + + + D D + ++ E + +D L QV Sbjct: 71 GDDNTVQDYYDWDEFRDDDIPDYKTYANNQSADNELYTRPMVEA-ISFRDDLKQQVHFLQ 129 Query: 133 FSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEE---IDIDEVEAVLKRIQRFDPVG 189 + + IA I+D++DE G+L + I + I ID DEV +LK IQ+ DP G Sbjct: 130 LDERQQLIADFILDSLDEDGFLRRESDVIADDISFANSMFIDTDEVNTMLKVIQQLDPPG 189 Query: 190 VAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEA 249 +AA DLR+CLLIQL++ D + A I+ D D L + ++ +MR+T L E+ LK+A Sbjct: 190 IAASDLRECLLIQLNRMDNQNDTWKWAYKIVCDAFDELGSRNYDKIMRITGLDEESLKKA 249 Query: 250 VNLIQSLDPRPGQSIQTGE--PEYVIPDVLVRK-HNGHWTVELNSDSIPRLQINQHYASM 306 + LI +L+P+P ++ E + PD ++ +G V+L + P L++N+ + M Sbjct: 250 IQLITTLNPKPASGLRNDAIVNESIKPDFMLWYTEDGEIEVQLTWGNSPALKLNKVFTQM 309 Query: 307 CNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE-EYMKPM 365 R+ +QF+++ + AKW I +++ R +T+L + IV+ Q +F+ G+ + ++PM Sbjct: 310 AEEKRDKATNQFLKNKMNSAKWFIDAIKQRENTMLNTLKAIVKLQYDYFQTGDIKKLRPM 369 Query: 366 VLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVK 425 +L D+A+ ++M ST+SRVTT KY+ +P GI LK F+ V E G E S+ I+ ++ Sbjct: 370 ILKDVAEIIDMDISTVSRVTTNKYVQTPFGIVLLKDLFTEGVTNEDGTEVSNREIQEAIR 429 Query: 426 KLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQR 473 ++++ E+ P +D ++T +L+ +G VARRTVAKYRE L+IP + R Sbjct: 430 EIVSEEDKRHPYNDQQITDMLAVKGYSVARRTVAKYREQLNIPTARLR 477 >UniRef50_A0RKT0 RNA polymerase sigma-54 factor n=75 Tax=Bacillus RepID=A0RKT0_BACAH Length = 458 Score = 445 bits (1146), Expect = e-123, Method: Composition-based stats. Identities = 144/475 (30%), Positives = 253/475 (53%), Gaps = 44/475 (9%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 +K L S +LAMT +L+QAI +LQ + EL + L + NPL+E E Sbjct: 24 LKASLLQEQSLRLAMTQELRQAITMLQYNVQELSEFLYEQSLENPLIELGGFEREKKKSS 83 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 T + + T+ Sbjct: 84 NNSKSTSKQVEN------------------------------------QMEIYSVDSTTI 107 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 Q +L+ Q++ + +R +A+ I+ +D GYL E++ + + V+ ++ Sbjct: 108 QQHLLNQIQYYKIEEEERKVASFIIMNMDGNGYLQETNEELANLLSAP---LHVVDRSVE 164 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 +Q +P GV A+++++CL +QL + + A ++ DH D+R L++V + Sbjct: 165 LVQSLEPAGVGARNIQECLTLQLKRLQRRN---GLAEEVVEDHFAYFVKKDWRKLVQVLK 221 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQIN 300 + L++AVN I SL P+PG + + +P Y++PD+ V+K +++N ++PR++I+ Sbjct: 222 CSNEELQDAVNCITSLQPKPGLAFSSDKPLYIVPDMAVKKDGDRLVLQMNERNMPRIEIH 281 Query: 301 QHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 Y+++ NN+ + + ++ Q +W+++SL+ R TLL+V I+E+Q+ FF +G E Sbjct: 282 SEYSALLNNSES-EVASYVSEKYQHVQWIMRSLKQRKQTLLQVMTIIMEKQRDFFWKGPE 340 Query: 361 YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAI 420 Y+KP+ L ++A+ + +HESTISR T KY+ +P G+FE+K FFS+ V+T S+ + Sbjct: 341 YLKPLALKEVAEELSVHESTISRATRNKYVQTPHGLFEMKSFFSNAVSTTEDEAVSTKRV 400 Query: 421 RALVKKLIAAENPAKPLSDSKLTSLLSEQ-GIMVARRTVAKYRESLSIPPSNQRK 474 + ++ L+ AEN KPLSD K++ LL E+ I+++RRTVAKYRE + IP S+ RK Sbjct: 401 KQFIQTLVEAENKKKPLSDQKISKLLEEEHEIVISRRTVAKYREQMHIPASSLRK 455 >UniRef50_D1R8J1 Putative uncharacterized protein n=1 Tax=Parachlamydia acanthamoebae str. Hall's coccus RepID=D1R8J1_9CHLA Length = 500 Score = 445 bits (1144), Expect = e-123, Method: Composition-based stats. Identities = 149/489 (30%), Positives = 259/489 (52%), Gaps = 22/489 (4%) Query: 2 KQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRET 61 K L+ +Q++ M+PQ+QQAI LLQ+ +EL ++ LE NP+LE I + E D T Sbjct: 12 KMQQSLKQTQRMIMSPQMQQAIHLLQMPLMELVDRIETELEQNPILESIQDYPEEDQDLT 71 Query: 62 QDSETLDTADALEQKEMPEEL-----------PLDASWDTIYTAGTPSGTSGDYIDDELP 110 + E AD E++ +EL +D + + T +++ Sbjct: 72 RLEEDNSEADLDEEQPPEKELLFDEQDFEILKQIDEDFRDHFAESGNYYTKRTEEEEKQK 131 Query: 111 VYQGETTQ---TLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGD 167 +Q + Q +L ++LM + T + D IA SI+ DE G+L L +I Sbjct: 132 NFQLNSIQAHVSLFEHLMTIAQETFANPKDIQIAESIIGNFDERGFLQTSLTEIAVL--- 188 Query: 168 EEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLL 227 + + E++ VLK IQ FDP GV A DL++ LIQL K A II D + L Sbjct: 189 NDFSVKELQRVLKTIQTFDPFGVGASDLQESFLIQLRCQKKEHSL---AYKIIEDCYEDL 245 Query: 228 ANHDFRTLMRVTRLKEDVLKEAVNL-IQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWT 286 ++ + + + +++A++ I LD PG S + ++PD ++++ +G Sbjct: 246 LHNRLPIIKKHLNCSIEDIQKAIDKDISKLDLHPGASFSGEIAQTIVPDAMIKEEDGKLD 305 Query: 287 VELNSDSIPRLQINQHYASMCNNAR-NDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSR 345 + + SD +P +++N+ Y M + +D FIR + AKWL++++ RN T+ R+++ Sbjct: 306 IVVTSDFLPPIRLNKRYMKMLEDESLSDATRDFIRQRVISAKWLLRNIHHRNTTIDRIAQ 365 Query: 346 CIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSS 405 + +QQ AFF+ + + P+ + +A + +HEST++R KY+ +PRG+ ++FF++ Sbjct: 366 FLAQQQHAFFQNPDGQLVPLTMKTVADNLGLHESTVARAVAGKYVETPRGLLPFRFFFTN 425 Query: 406 HVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESL 465 T+ G + S+ +R +K +I E+ +KPLSD K++ LL +GI ARRTV+KYR L Sbjct: 426 AYMTDEGSDISAETVREAIKDIIDKEDKSKPLSDHKISDLLEIKGIHCARRTVSKYRAEL 485 Query: 466 SIPPSNQRK 474 ++ + QR+ Sbjct: 486 NLGNTQQRR 494 >UniRef50_B5ZLK5 RNA polymerase, sigma 54 subunit, RpoN n=2 Tax=Gluconacetobacter diazotrophicus PAl 5 RepID=B5ZLK5_GLUDA Length = 458 Score = 444 bits (1142), Expect = e-123, Method: Composition-based stats. Identities = 164/477 (34%), Positives = 253/477 (53%), Gaps = 34/477 (7%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 + L LR +Q L MTPQL+QAI LLQLS L+ ++Q LE NPLLE+ + + R Sbjct: 3 IGPRLALRQAQTLVMTPQLRQAIHLLQLSNLDACSFIEQELERNPLLERANLAGLEELRP 62 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 + LE+ D +L Sbjct: 63 KVVAHGARHDPRLERVP-------------------------DQDWAATTGTLPGPAPSL 97 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 + L QV L+ DR + ++ +D G L P I +S+G D VE V + Sbjct: 98 HERLAQQVRLSWRDAGDRLVGAYLITLLDADGRLVPPTAVIAQSLGT---TFDHVERVRQ 154 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 + +F+P G+ A DL +CL QL + D+ P A ++ HLDLLA D R L + Sbjct: 155 TMMQFEPTGLFAHDLGECLAAQLRERDRLDP----AMAVLLRHLDLLARRDLRRLQGLCG 210 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKH-NGHWTVELNSDSIPRLQI 299 + + L + + +++L PRP + VIPDVL++ +G W +ELN +++P + + Sbjct: 211 VDAEDLADMIAEVRTLSPRPARDFGDPAACSVIPDVLLQPAPDGDWMLELNPETMPSVVV 270 Query: 300 NQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE 359 N ++ D F+ L A WL+++L+ R DT++RV+ I+ +Q+ F + G Sbjct: 271 NSALSTRVALRARREDRPFLNERLASANWLVRALQQRADTIIRVATAIMRRQRGFLDHGI 330 Query: 360 EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGG-EASST 418 +++P+VL DIA+ V +HEST+SRVT KY+ +PRG+FELKYFF++ + GG + S+ Sbjct: 331 GHLRPLVLRDIAETVGLHESTVSRVTANKYIATPRGLFELKYFFTTAIPGRAGGADHSAE 390 Query: 419 AIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 AIR +K LI+ E+ K LSD + + L ++GI ++RRTVAKYR++L IP S QRK+ Sbjct: 391 AIRHRIKTLISQESDGKILSDDAIVTRLRKEGIDISRRTVAKYRDALRIPNSAQRKR 447 >UniRef50_P38944 Putative RNA polymerase sigma-54 factor n=34 Tax=Clostridium RepID=RP54_CLOK5 Length = 453 Score = 443 bits (1139), Expect = e-123, Method: Composition-based stats. Identities = 146/478 (30%), Positives = 253/478 (52%), Gaps = 27/478 (5%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M L L Q+LAMT ++Q +I+LLQ+S+ ELQ+ +++ L+ NP+L+ +++ + + Sbjct: 1 MDFALNLTQEQRLAMTQEMQLSIKLLQMSSFELQEYVEKELQENPVLDIKESNVDKVEK- 59 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 D LE KE+ + L D + + ++ P ++L Sbjct: 60 ----------DKLEYKEIIKNLDFDN--------YSHHSYDRNPDEEVSPFNFISEEKSL 101 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 ++YL Q+ + + I I++ +D+ GYL + E E + +I + + Sbjct: 102 KEYLKDQIRDLDENQCIKTICLYIIENIDDRGYLILENE---EIEEELKISKELAAYCVD 158 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 I +P G+ A++L +CL IQ+ Q D E ++I +L+ +A + + + + Sbjct: 159 LIHSLEPHGIGARNLAECLKIQIKQKDMDE---ENIFIMIDKYLEFIAENKYNVIAKELN 215 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQT-GEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQI 299 + +E +LI++L P+P + T Y+ PD ++K + + + +N D PRL I Sbjct: 216 IDVKQAQEYGDLIKTLSPKPSRGFYTGESVRYISPDAYIKKIDSEYFIIMNDDLTPRLTI 275 Query: 300 NQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE 359 N Y + NN + +++ L A +LIKS++ R T+ RV IVE Q+ +F+ GE Sbjct: 276 NAIYKDIINNDTDKDAVSYVKEKLNSALFLIKSIQHRKSTIYRVLEKIVEIQKDYFDYGE 335 Query: 360 EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTE-GGGEASST 418 Y+KPM L +IA +++MHEST+SR KY+H RGI ++K F++ + SS Sbjct: 336 SYLKPMTLKEIASSMDMHESTVSRAIRDKYIHINRGIVKIKDLFTTGMAASFSEENVSSL 395 Query: 419 AIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 I+ +KK+I E+ KPLSD K+ L++E+G+ ++RRTVAKYRE + I S RK+ Sbjct: 396 IIKNSIKKMIDNEDRKKPLSDQKICDLINEEGMNISRRTVAKYREEMGIKSSKGRKRF 453 >UniRef50_B6YQD2 RNA polymerase sigma-54 factor n=1 Tax=Candidatus Azobacteroides pseudotrichonymphae genomovar. CFP2 RepID=B6YQD2_AZOPC Length = 471 Score = 442 bits (1138), Expect = e-122, Method: Composition-based stats. Identities = 142/484 (29%), Positives = 246/484 (50%), Gaps = 31/484 (6%) Query: 4 GLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQD 63 QL QQ +PQ Q +LL+L+TLE++ + + LE NP+LE+I +E + + Sbjct: 3 KQQLSYKQQQKFSPQQIQQTKLLELTTLEVENRINEELEENPVLEEIPEPDEYGLQIERL 62 Query: 64 SETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDY 123 +++ + L S +G E+ ++ +Y Sbjct: 63 NKS--------------DTFLGGSLREDNVHSYKFQQNGSLNRWEM---VYAEPESFHEY 105 Query: 124 LMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDE---EIDIDEVEAVLK 180 L+ Q++L S+ + I I+ +D+ GY+ + + + I + ++ I E++ VL+ Sbjct: 106 LLNQLKLKELSEEEIKIGQYIIGNMDDNGYIRQSFQTLSDDISFQYGHDVSISEIKKVLE 165 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 IQ DP G+ A DL++CLL+QL + TP I+ H + A + +L ++ Sbjct: 166 SIQGLDPPGIGAGDLQECLLLQLRRKKI-TPIRCLVIDILEKHFAIFAKKHYDSLCKIYN 224 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTG---EPEYVIPDVLVRKHNGHWTVELNSDSIPRL 297 + ++ LK+ + + L+P+PG ++ + ++IPD +V +G + ++P L Sbjct: 225 ISKENLKDVIREVALLNPKPGNICESSMESKLAHIIPDFIVEIIDGKLIFTMAKRNMPTL 284 Query: 298 QINQHYASMC------NNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQ 351 ++N+ Y+ + + + F++ + A+W I +++ RN TL I+E Q Sbjct: 285 KVNEGYSEILSNNVGNKSLKKREVVAFVKKKINSAQWFIDAIKQRNTTLYNTMLAIIELQ 344 Query: 352 QAFFEQGEE-YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTE 410 Q FF GEE +KPM L D++Q ST+SR T KY+ S GI+ L++FFS + E Sbjct: 345 QDFFLTGEEQALKPMKLKDVSQLCGYDISTVSRATINKYIQSDWGIYPLRFFFSEAMINE 404 Query: 411 GGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPS 470 G E S+ I+A++K I E+ P +D L +LL ++G +ARRTVAKYRE L+IP S Sbjct: 405 EGEEISTREIKAILKFFIKTEDKKNPFTDDVLANLLKKKGYNIARRTVAKYREQLNIPVS 464 Query: 471 NQRK 474 RK Sbjct: 465 RLRK 468 >UniRef50_Q0G1W5 DNA-directed RNA polymerase subunit N n=1 Tax=Fulvimarina pelagi HTCC2506 RepID=Q0G1W5_9RHIZ Length = 470 Score = 438 bits (1128), Expect = e-121, Method: Composition-based stats. Identities = 170/479 (35%), Positives = 261/479 (54%), Gaps = 24/479 (5%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 + LQ R SQ L MTPQL Q+IRLLQ EL+ L+ +E NPLL Sbjct: 3 LAAKLQFRQSQSLVMTPQLLQSIRLLQYGHGELKTFLEAEIERNPLL--------SMAPA 54 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 S+++ D + P E S Y + SG D +D +T +L Sbjct: 55 KPLSKSIQAVDGPQ----PGEGSAMPSRSERYGGTSGSGQRFDGLDTGFAN-VADTNISL 109 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 + + + S+ R IA + D +DE GY + + G D D VL Sbjct: 110 LGHALAEARDIAGSNDTRTIAEAFADELDENGYCRCDPAEFAIANG---FDPDRTTEVLL 166 Query: 181 RIQ-RFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVT 239 ++Q P G+ A++L+DC+ IQL + ++ P + + + D+L+LLAN DF L R+T Sbjct: 167 KLQAEAAPAGLFARNLKDCMAIQLKRRNRYDPIIAK----VIDNLELLANRDFAALRRLT 222 Query: 240 RLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHN-GHWTVELNSDSIPRLQ 298 + L + + I+SLDP+PG + E + PDVL+ G W VELN ++PR+ Sbjct: 223 GEDDHGLLDILAEIKSLDPKPGHAFDGRGGEGIEPDVLISADGEGGWVVELNPATLPRVL 282 Query: 299 INQHYASMCNN-ARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQ 357 ++ Y A + + F+ LQ A WL ++LESR T+++V+ IV++Q F + Sbjct: 283 TDRTYLKRVRKHAATEEERSFLSECLQSASWLERALESRAQTIMKVAEEIVKRQGGFLVE 342 Query: 358 GEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGE-AS 416 G MKPM LA +A A+ MHEST+SRVT K++ +PRG+FE+++FF+ + GG+ S Sbjct: 343 GISGMKPMTLAAVADAIGMHESTVSRVTNMKFVATPRGVFEMRFFFTRAIAAANGGDAHS 402 Query: 417 STAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 + +++ +K+LI AE P K LSD ++ ++L ++GI +ARRTVAKYRE+ SIP S QR++ Sbjct: 403 AESVKLRIKRLIDAEVPGKVLSDDEIAAILKKEGIDLARRTVAKYREAQSIPSSIQRRR 461 >UniRef50_B3QT08 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Chloroherpeton thalassium ATCC 35110 RepID=B3QT08_CHLT3 Length = 517 Score = 438 bits (1127), Expect = e-121, Method: Composition-based stats. Identities = 157/511 (30%), Positives = 258/511 (50%), Gaps = 38/511 (7%) Query: 3 QGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQ-IDTHEEIDTRET 61 Q L R Q + ++PQ +LLQL ++L+Q ++Q LE NP+LE+ ++ EE E Sbjct: 4 QSLSQRQVQTMRLSPQQLLYTKLLQLPLIQLEQRVKQELEENPMLEEFSESDEEAGQPEE 63 Query: 62 QDSETLDTADA-----------------LEQKEMPEELPLDASW--------DTIYTAGT 96 ++ D E+ E LP D + + + G Sbjct: 64 MATDLSQNNDDENKLNEKSEQNEEDLYIAEKPTKDEPLPKDDDYTKEFDQEIEEYFPDGD 123 Query: 97 PSG---TSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGY 153 G S + +Q ++ + ++ + ++ + AIA IV +DE GY Sbjct: 124 EEGFNVPSFREEPSDESYFQPVFHESFTERVLNDLRYQDVTEKELAIAEEIVGNIDEDGY 183 Query: 154 LTVPLEDILESIGDE--EIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQF----- 206 L P+E I + + E+ E+ VL++I DPVG+ A++L++CLLIQL Sbjct: 184 LRCPIEVIADGLMTTGIEVTEAEILKVLEKIWYIDPVGIGARNLQECLLIQLEAKYQRTE 243 Query: 207 DKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQT 266 D E+A+LI++ + F LM + + + L +A+ LIQS +P+PG + Sbjct: 244 DIDDTLYEQAKLILNKYYHEFTMKHFEKLMTLLSISPEELTQALLLIQSFNPKPGGDVSA 303 Query: 267 GEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNN-ARNDGDSQFIRSNLQD 325 Y+IPD +V + N + +++I++ Y + + ++ G +F+R+ + Sbjct: 304 SS-NYIIPDFIVTFDGKNLVAFSNERNSFQIRISEQYKPLLEDKSQPKGAKEFVRNKYEA 362 Query: 326 AKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVT 385 AK + ++E R TL RV ++ Q FF G +KPM+L D+A+ + ST+SRV Sbjct: 363 AKNFMTAIEMRRQTLQRVMNALLNLQYEFFTIGPNRLKPMILKDVAEVAGVDISTVSRVV 422 Query: 386 TQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSL 445 KY+ + +GI ELKYFFS+ + TE G E S+ I+ +K I E+ KPLSD K++ + Sbjct: 423 NGKYVQAHKGILELKYFFSTGLETESGDEISNKLIKEKIKSFIEKEDTRKPLSDDKISEM 482 Query: 446 LSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 L + G VARRTVAKYRE ++IP + RKQ+ Sbjct: 483 LQQNGFKVARRTVAKYREQMNIPVARLRKQI 513 >UniRef50_C7PK09 RNA polymerase, sigma 54 subunit, RpoN n=35 Tax=Bacteroidetes RepID=C7PK09_CHIPD Length = 497 Score = 437 bits (1125), Expect = e-121, Method: Composition-based stats. Identities = 148/483 (30%), Positives = 246/483 (50%), Gaps = 22/483 (4%) Query: 16 TPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDS--ETLDTADAL 73 +PQ Q ++LLQ+ T L++ +++ LE NP LE + E + ++ Q+ + D Sbjct: 15 SPQQIQLMKLLQVPTAVLEERIKEELEENPALEYGEDAHEDEYKDPQEEYNNNEEGDDDE 74 Query: 74 EQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGET------TQTLQDYLMWQ 127 + + E + + G DD P + ++L+ Q Sbjct: 75 FEPDGSENEYDNIDISEYVSEGDDDIADYKLRDDNYPDQDENKTIPVRVETSFHEHLLEQ 134 Query: 128 VELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEE---IDIDEVEAVLKRIQR 184 + + + AIA I+ ++D+ GYL + I++ + + D +E+ +++ IQ Sbjct: 135 LGMLELDERQNAIAEQIIGSIDDDGYLRREVSAIVDDLSFSQNVATDEEEIRELIRMIQE 194 Query: 185 FDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKED 244 FDP G+ A DL++CLL+QL + + + A LI+ ++ D + + + + +D Sbjct: 195 FDPPGICATDLKECLLLQLRRKPQDDFGVVGAYLILENYFDEFTKKHYEKIQKGLNMSDD 254 Query: 245 VLKEAVNLIQSLDPRPGQSIQT--GEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQH 302 LKEA+ I L P+PG + T YV+PD + +NG + LNS + P L+I++ Sbjct: 255 ALKEAIGQIIKLTPKPGGNFATLNKAESYVVPDFFILNNNGKLELTLNSKNAPDLRISEG 314 Query: 303 YASMCNNARNDGDSQ--------FIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAF 354 Y M FI+ + AKW I +++ R TLL I+ Q+ F Sbjct: 315 YRDMLKEYDRGDKKDKRQKEAVLFIKQKIDAAKWFIDAIKQRQHTLLSTMESIMGYQREF 374 Query: 355 FEQGEEY-MKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGG 413 F G+E M+PM+L DIA ++ ST+SRV KY+ + G F+LK+FFS ++T+ G Sbjct: 375 FLTGDETTMRPMILKDIADITQLDISTVSRVANSKYVQTEFGTFKLKFFFSESLSTDSGE 434 Query: 414 EASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQR 473 E S+ ++ ++ LI EN KPLSD LT +L ++G +ARRTVAKYRE L+IP + R Sbjct: 435 EVSTREVKKILSDLIEGENKRKPLSDENLTKMLQDKGYNIARRTVAKYREQLNIPVARLR 494 Query: 474 KQL 476 K+L Sbjct: 495 KEL 497 >UniRef50_UPI00016C46F0 RNA polymerase subunit sigma-54 n=1 Tax=Gemmata obscuriglobus UQM 2246 RepID=UPI00016C46F0 Length = 488 Score = 435 bits (1118), Expect = e-120, Method: Composition-based stats. Identities = 154/484 (31%), Positives = 249/484 (51%), Gaps = 32/484 (6%) Query: 19 LQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSETLD-TADALEQKE 77 + Q++ +LQLS +LQ ++ AL+ NP LE + E D T + D E Sbjct: 1 MIQSMEILQLSITDLQAKIDDALQENPFLELKEKLGETDEPPTDFNPDAPLKHDETGDLE 60 Query: 78 MPEELPLDASWDTIYTAGTPSGTSGDYIDDEL----PVYQGETTQTLQDYLMWQVELTPF 133 L+ WD + + + + + +LQDYL Q+ Sbjct: 61 FNRLEELNRDWDDHFNEEHRGSRASLEEEGDRKLEAMANMPDRPPSLQDYLADQIGELDI 120 Query: 134 SDTDRAIATSIVDAVDETGYL----------------TVPLEDILESIGDEEIDIDEVEA 177 + DR +A I VD TGYL TV LE+I + D + ++VE Sbjct: 121 EEDDRRLARHICSFVDRTGYLGARERANENDDKDTFRTVTLEEIAA-LYDRLVTPEDVED 179 Query: 178 VL-KRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLM 236 VL +QR +P GVAA+DL++CLL+Q+ P + R +I DHL+ +A + + Sbjct: 180 VLVHVVQRLEPAGVAARDLKECLLLQV---PHDAPHADALRTLIRDHLEDVAYNRIPVIQ 236 Query: 237 RVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRK-HNGHWTVELNSDSIP 295 + TRL+ ++EA+ I LDP+PG +YV+PDV+V + + +TV L + +P Sbjct: 237 KATRLEIAAIQEAIEEIHHLDPKPGLKFSDSGTQYVMPDVVVERADDNDYTVRLTDEWVP 296 Query: 296 RLQINQHYASMCNNAR-NDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAF 354 R+++++ MC +D +R LQ A WL+K++E R +TL++V++ I++ Q+AF Sbjct: 297 RIRVSKRVVDMCKRQDLDDKVKDKLRQKLQQADWLVKAVEQRRNTLMKVTKAIIDHQRAF 356 Query: 355 FEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGE 414 + G E+++P+ + IA V++H +T+SR K++ +PRG+F LK FF + Sbjct: 357 LDFGPEHIQPLKMQQIADQVKVHVTTVSRAVDDKWVQTPRGVFPLKRFFGGGKAKDENDV 416 Query: 415 ASS----TAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPS 470 S ++ + +L++ E+ A PLSD +L + L G VARRTV KYR+ L IP S Sbjct: 417 NSEVVAYEVMKQKLLELVSNEDKANPLSDEELVARLKAGGCPVARRTVTKYRKMLKIPSS 476 Query: 471 NQRK 474 QRK Sbjct: 477 RQRK 480 >UniRef50_C8N804 RNA polymerase sigma-54 factor n=1 Tax=Cardiobacterium hominis ATCC 15826 RepID=C8N804_9GAMM Length = 474 Score = 433 bits (1115), Expect = e-120, Method: Composition-based stats. Identities = 164/476 (34%), Positives = 262/476 (55%), Gaps = 8/476 (1%) Query: 2 KQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTH-EEIDTRE 60 Q L L L Q L +TPQLQQAI+LL +++L+LQ E+ L N +LE+ + +E + Sbjct: 4 NQSLDLSLKQGLTLTPQLQQAIKLLNMNSLDLQVEISAMLMQNIMLERKNDSLQERGSGS 63 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 ++ + D + + EL D++WD Y + L +Y L Sbjct: 64 DENENSEHDPDNGLIQTLSGELEYDSTWDEHYDHDWKDHQPYHEEESNLELY-LSGRPDL 122 Query: 121 QDYLMWQVELTP-FSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVL 179 +L Q+ P S+ R A + +D+ GY + E ++ ++ L Sbjct: 123 GAWLEEQINQMPHLSEARRRAALIVAFELDDDGYYRADNHKLAEQ---YQLSAADIADGL 179 Query: 180 KRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVT 239 + +Q+ P G+AA+DL +CL +Q++ TPW EE + I+ + + + + + Sbjct: 180 RIVQQCQPTGIAARDLEECLNLQIAALPADTPWREELQKIMQRYFG-FISKNPAMIRQRL 238 Query: 240 RLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQI 299 + E A+ L++SLDPRPGQS P+Y+ P+++VR+ NG +E + P L I Sbjct: 239 GMNEATYNHAIALLRSLDPRPGQSYTEQAPQYIEPEIIVREKNGISYIETGENIRPELTI 298 Query: 300 NQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE 359 NQ YA + A+ D +++ LQ+A+W + +++ R DT+ RV+ IV QQ FF++GE Sbjct: 299 NQDYAKIAEIAKG-ADKTLLQAQLQEARWFLTAIDKRADTIRRVAHIIVALQQDFFQEGE 357 Query: 360 EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTA 419 M+P+ +A+ +E+HEST+SR KYL RGI+EL+YFFS+ + G + S A Sbjct: 358 AAMRPLSRQKVAEMLEIHESTVSRAVNGKYLMCKRGIYELRYFFSAQLENSEGDDQSIIA 417 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 I+AL+ ++I E P KPLSD K+T LL+EQG +ARRTV KYRES+ IP + R++ Sbjct: 418 IKALIAEIINGEKPEKPLSDQKITDLLNEQGHKIARRTVTKYRESMDIPTTTLRRK 473 >UniRef50_B5YI16 RNA polymerase sigma-54 factor n=1 Tax=Thermodesulfovibrio yellowstonii DSM 11347 RepID=B5YI16_THEYD Length = 471 Score = 433 bits (1113), Expect = e-120, Method: Composition-based stats. Identities = 142/441 (32%), Positives = 244/441 (55%), Gaps = 13/441 (2%) Query: 36 ELQQALESNPLLEQIDTHEEIDTRETQDSETLDTADALEQKEMPEELPLDASWDTIYTAG 95 +Q L NP+LE + E I E E + + E++ +D + G Sbjct: 38 YIQLELMENPILELDEETENIQENEVSSEEY----EEPVAVDKLEKIMIDEYFAERADDG 93 Query: 96 TPSGT-SGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYL 154 G + + TT L ++L+WQ+ L+ D RA+A ++ +DE GYL Sbjct: 94 RDLGYFNPGVEEKPSFELFYSTTTDLWEHLLWQLRLSKAPDKIRAVAEVVIGNIDEDGYL 153 Query: 155 TVPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLE 214 E+I + + D + V+ + +Q FDP GVAA+D+++CL++Q+ ++ Sbjct: 154 KATEEEIAKM---SDTDNETVKQAIALVQEFDPAGVAARDIKECLILQIKALGLGDTLVQ 210 Query: 215 EARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIP 274 I +HL+ + + + + + D + ++V +I+ L+PRPG++ + +P Sbjct: 211 SF---IEEHLEDIKKKKYENIAKRFGISIDEVIKSVKIIEKLEPRPGRNFSKTQVNIPVP 267 Query: 275 DVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARND-GDSQFIRSNLQDAKWLIKSL 333 DV V K G + + LN + IP+L++++ Y + + +++R ++A L++S+ Sbjct: 268 DVYVTKVEGEYQIILNDEGIPKLRLSKIYRELFTEKNLPVQEKKYLREKFKNAVELLRSI 327 Query: 334 ESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSP 393 E RN T+ RV+ +V+ Q+ FF++G Y+KP+ L DIAQ + +HESTISRVT+ KYL Sbjct: 328 EQRNKTIYRVTESLVKFQKEFFDKGVSYVKPLNLKDIAQDLGLHESTISRVTSNKYLACE 387 Query: 394 RGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMV 453 G+F ++FFS+ +++ GG S+T ++ L++K+I EN PLSD +++ +L +QGI + Sbjct: 388 HGLFNFRFFFSNALSSNHGG-ISTTLVKDLIQKIINEENHTNPLSDKEISDMLKKQGIDI 446 Query: 454 ARRTVAKYRESLSIPPSNQRK 474 ARRTVAKYRE L IPP RK Sbjct: 447 ARRTVAKYREELKIPPKPLRK 467 >UniRef50_C9KMQ5 RNA polymerase sigma-54 factor n=1 Tax=Mitsuokella multacida DSM 20544 RepID=C9KMQ5_9FIRM Length = 455 Score = 433 bits (1113), Expect = e-119, Method: Composition-based stats. Identities = 155/478 (32%), Positives = 248/478 (51%), Gaps = 28/478 (5%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 ++Q L + LSQ LAMT QLQQAI++LQLS+ +L +++ NP+LE + E Sbjct: 4 IEQSLGMNLSQHLAMTMQLQQAIQILQLSSQDLCAVIEKEYLENPVLEMEYPTGRRELYE 63 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 S + G+ DD TL Sbjct: 64 QDGSMNVRA------------------LADYLDGGSKQPAYFTDEDDRQFDAAAPLHMTL 105 Query: 121 QDYLMWQVELTPFSDT-DRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVL 179 ++ L+ QV T + +RA+AT +V ++D GYLT+P + ++G E+ +L Sbjct: 106 EEELLEQVNFTFKENEYERAVATFLVGSLDSRGYLTLPTAEAARAMG---CSEAEILRIL 162 Query: 180 KRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVT 239 IQ F+P GV A+DL +CL +Q + + +I HLD +A H + + Sbjct: 163 AVIQSFEPAGVGARDLAECLRLQAERQGIYEGLIA---AVIDRHLDEVAAHRIKEIAAAE 219 Query: 240 RLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQI 299 ++ ++ AV++++ L+P+PG + TG P Y+ PDV++R+ + VE+ +P+L I Sbjct: 220 HVEPAAVQMAVDIVRRLNPKPGAAYGTGAPAYITPDVIIRRGEQGYEVEVEESDVPQLHI 279 Query: 300 NQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE 359 + Y ++ + ++I S L A WLI S+E R T+ RV IV +Q A+FE+G Sbjct: 280 SALYRQ--SDTFDKATQKYIASRLHAASWLINSIEQRRATIRRVVEEIVRRQPAYFEKGP 337 Query: 360 EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFS-SHVNTEGGGEASST 418 +++PM + D+A + +HEST+SR KY P GI L+ FF+ +E G + ++ Sbjct: 338 AFLQPMTMKDVADTIGVHESTVSRAVANKYAELPTGIVALRSFFTLRSTRSETGEDVAAA 397 Query: 419 AIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 ++ ++ LI ENP KPLSD KL +LL +GI ++RRTV KYRE L S +RK+ Sbjct: 398 QAKSAIEALIKGENPKKPLSDQKLCTLLKSKGIALSRRTVMKYREQLGYDSSVKRKRY 455 >UniRef50_B8CYG5 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Halothermothrix orenii H 168 RepID=B8CYG5_HALOH Length = 436 Score = 432 bits (1111), Expect = e-119, Method: Composition-based stats. Identities = 155/477 (32%), Positives = 260/477 (54%), Gaps = 45/477 (9%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 ++ L L Q+L MTP+L+ AI+LLQ S EL+ L++ L+ NPLLE +E Sbjct: 3 LRFDLDLNQKQELVMTPKLKLAIKLLQYSYQELENYLEEELKRNPLLE----------KE 52 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 + + + + + D +++ L Sbjct: 53 SSNGDYFQNHKNYSDYDYSNDRNSDNNYENF----------------------VTYKINL 90 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 +YL Q+ D + IA I+ +D+ GYL + +I +++ EVE VLK Sbjct: 91 TEYLESQL-YQVCEDHELKIARYIIGNLDDRGYLRTTVSEIGHHF---KVEESEVEKVLK 146 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 ++Q+ DPVGV A+++R+ LL++L E A+ I+++ LD LA+ + +++ + Sbjct: 147 KVQQLDPVGVGARNIREALLVKLGNLG-DDENTEIAKNIVTNFLDELASGKIKEIIKKIK 205 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQ-TGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQI 299 ++ + +A+NLI+ L+P P +++PDV+VRK G + VE+NS P L+I Sbjct: 206 KDKEQVLKAINLIKELEPYPAAGFAAKENTGFIVPDVIVRKVEGKFVVEMNSSLTPSLKI 265 Query: 300 NQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE 359 N +Y M + +++ N + A WLI+S+E R T+ R++ I +QQ F E+G Sbjct: 266 NPYYYKMLQDVGG-ESREYLEKNYKSALWLIRSIEQRRITIYRIAMAITNRQQEFLEKGI 324 Query: 360 EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTA 419 +Y+KP+ + ++A + +HEST+SR TT KY+ +P+GI+ELK+FFS VN S+T+ Sbjct: 325 KYLKPLTMEELADTLGIHESTVSRATTSKYIQTPQGIYELKFFFSGGVN-----GVSTTS 379 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQ-GIMVARRTVAKYRESLSIPPSNQRKQ 475 I+A +K+ I E PLSD KL +L ++ G+ ++RRTVAKYR+ + IP S +RK+ Sbjct: 380 IKAYLKEYIDKEGAKNPLSDKKLARILKDEIGVNISRRTVAKYRKQMGIPSSRKRKK 436 >UniRef50_B0PGS4 Putative uncharacterized protein n=1 Tax=Anaerotruncus colihominis DSM 17241 RepID=B0PGS4_9FIRM Length = 447 Score = 431 bits (1109), Expect = e-119, Method: Composition-based stats. Identities = 133/474 (28%), Positives = 228/474 (48%), Gaps = 29/474 (6%) Query: 3 QGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQ 62 L +RL Q + P+++Q++R+LQ+ +++L + L++ NP+ E ++ + + +E Sbjct: 1 MELGVRLEQNQILAPRMEQSVRILQMDSVQLGEYLKELALENPVAE-VEPPPQREQKEKL 59 Query: 63 DSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQD 122 L+ + ++E D D TP+ ++L D Sbjct: 60 AQRKLEWLENQTRREQENMGYYDDDGDLTPEQNTPAPQD----------------ESLTD 103 Query: 123 YLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRI 182 +L+ QVE A A ++ +D+ GYL E + G + +E + + Sbjct: 104 HLLAQVESAAVPRALAAAARYVIGCLDDNGYLKADPEQMRAKAGACDA---LLERAIALV 160 Query: 183 QRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLK 242 Q FDP GV A+DL +CL +Q+ D AR + D L +A L T Sbjct: 161 QSFDPPGVGARDLAECLCLQIPASD------ALARRLARDFLPEIAKKRVGVLAAKTGAS 214 Query: 243 EDVLKEAVNLIQSLDPRPGQSIQ-TGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQ 301 ++ AV I+ L+P+PG Y+ PD++V H+ V L + P+++++ Sbjct: 215 AGEVEAAVARIRRLNPKPGALYGAHVVAHYITPDIVVTSFGDHYNVMLCEFAYPQVRLSD 274 Query: 302 HYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEY 361 Y + + ++I + W+IK +E+RN TL+ V+R IV QQ+ FF G ++ Sbjct: 275 SYLQIARETADPEVIKYIGEKIDQVNWVIKCIENRNRTLVEVARAIVRQQERFFRYGPQH 334 Query: 362 MKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIR 421 + + + +IA V +HEST+SR KYL G++ L+YFF E GG SS ++ Sbjct: 335 LGVLRMREIAGLVGLHESTVSRAVRGKYLQCAHGVYPLRYFFVKG--PEHGGAVSSETVK 392 Query: 422 ALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 ++ LI E+ P SD L LL+ GI ++RRTVAKYR + +P ++ R + Sbjct: 393 YKLRALIDTEDHTHPFSDRALCELLAADGISISRRTVAKYRGEMGVPGASGRVR 446 >UniRef50_A5EVL1 RNA polymerase sigma-54 factor n=1 Tax=Dichelobacter nodosus VCS1703A RepID=A5EVL1_DICNV Length = 469 Score = 431 bits (1109), Expect = e-119, Method: Composition-based stats. Identities = 160/473 (33%), Positives = 255/473 (53%), Gaps = 11/473 (2%) Query: 3 QGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQ 62 Q L + L QQL++TPQLQQAI++L ++ +LQ E+ Q L N +LE D + + Sbjct: 6 QNLNINLKQQLSLTPQLQQAIKILNMNQQDLQVEIAQMLTQNFMLELDD-----HLQMQR 60 Query: 63 DSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQD 122 + E+ EL D W+ +Y + + + E L Sbjct: 61 VDSEEEPPKEGLLDELNAELEYDCDWEEVYDSDWHDHAPYREQEIDFDAI-IEARPALLP 119 Query: 123 YLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRI 182 YL Q++ P S A + + +DE GYL D+ + I + EA ++ I Sbjct: 120 YLREQLQQMPLSPEVLGAAEAFISHLDEDGYLREKCADLAQQ---YRIKMPVAEAAIQAI 176 Query: 183 QRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLK 242 + P GV A DL DCL +Q++ + TP+L + I++ H L + + + L Sbjct: 177 KNCQPSGVGAFDLEDCLNLQIALLPENTPYLSVLKRIMTRHF-LFIGKNPQLICNRLDLN 235 Query: 243 EDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQH 302 E ++AV L+++L+PRP Q +Y+ P+V+VR+ G +E + P L+IN Sbjct: 236 ESDYEQAVLLLKTLNPRPAQEFAHEHGQYIRPEVIVREKGGISFIETDEHIQPLLRINAE 295 Query: 303 YASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYM 362 YA + +A + D +++ L +A+W I +++ R DT+ RV+ IV QQ FF++GE+ M Sbjct: 296 YAKLTQSAVD-QDKVLLQAQLNEARWFINAIDKRADTIQRVASVIVALQQDFFQEGEKAM 354 Query: 363 KPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRA 422 +P+ +A+ + +HEST+SR KYL RGIFEL+YFFSS + T G E SSTA++A Sbjct: 355 QPLTRQKVAELLNVHESTVSRAVNGKYLMCKRGIFELRYFFSSQLETTDGEEQSSTAVKA 414 Query: 423 LVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 ++ +++ E+P KPLSD K+ +L ++G +ARRT AKYRE L I S R++ Sbjct: 415 VISEIVRQEDPKKPLSDQKIADILLKKGYKIARRTAAKYREELGIATSTMRRE 467 >UniRef50_C9BP10 RNA polymerase sigma-54 subunit n=11 Tax=Enterococcus faecium RepID=C9BP10_ENTFC Length = 444 Score = 431 bits (1109), Expect = e-119, Method: Composition-based stats. Identities = 136/479 (28%), Positives = 239/479 (49%), Gaps = 46/479 (9%) Query: 2 KQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRET 61 + + +Q+LAMT QLQQ+I++LQ ++ EL ++ NPL+E ++ Sbjct: 6 NFSQKQQQTQKLAMTQQLQQSIQVLQYNSEELLAFVENQAMENPLVEVVEPE-------- 57 Query: 62 QDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQ 121 W Y S +S + + +T +L Sbjct: 58 --------------------------WQPDYIKA--SSSSYEGEETNYLNQIPDTKGSLF 89 Query: 122 DYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKR 181 D L+ QV L R I +V+ +D G+LT+ LE+ + IG I ++ L Sbjct: 90 DSLIEQVHLNYRDTFLRKIVLYLVEYIDLNGFLTISLEEAGKEIGATPI---QMLDALTL 146 Query: 182 IQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRL 241 IQ+ +P GV A+ L++CL++Q + E A +++ + + L ++ + + + Sbjct: 147 IQQLEPAGVGARSLQECLMLQTER---DDYAPELAYIVLEECFEELVERKWKEIAQRFSV 203 Query: 242 KEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGH-WTVELNSDSIPRLQIN 300 +++ + +Q+L P PG+ Y+IPDV V + V N + P ++ Sbjct: 204 DLHAVQQIFDYLQTLSPSPGRIFDRSSELYIIPDVRVLVDDDKNVQVISNRKNQPNIRFQ 263 Query: 301 QHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 + Y + + +++ Q+ +WL K++ R DT+LRV++ IV +Q+AFF E Sbjct: 264 ESYFKQMSQQADKETENYLKERKQEFEWLKKTILQRGDTILRVAQVIVSRQKAFFIDKER 323 Query: 361 YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHV---NTEGGGEASS 417 +KP+ L ++A +++HEST+SR KYL + G+FELK FF++ + +TE + S+ Sbjct: 324 PIKPLTLKEVATEIDVHESTVSRAVNGKYLETDFGVFELKKFFTTRIPTNSTEQTEDLSA 383 Query: 418 TAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 + +++L+ E+ KPLSD KL LL + I ++RRTVAKYR+ L IP S++RK+ Sbjct: 384 DTAKKKLQELVDQEDKNKPLSDQKLVELLKKDEIAISRRTVAKYRDLLGIPSSSKRKRY 442 >UniRef50_Q2B706 DNA-directed RNA polymerase subunit N n=1 Tax=Bacillus sp. NRRL B-14911 RepID=Q2B706_9BACI Length = 443 Score = 431 bits (1108), Expect = e-119, Method: Composition-based stats. Identities = 146/477 (30%), Positives = 248/477 (51%), Gaps = 38/477 (7%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M GL + S +LAMT +L QAI LLQ S LEL L+ NPL++ E Sbjct: 3 MNAGLFQQQSLKLAMTQELSQAIALLQYSALELTAFLESRALENPLMQI----------E 52 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 T++ +D + + D SW A L Sbjct: 53 TENVRAMDPRRDRVRGASSKLKKDDRSWIEQIRAKDNL---------------------L 91 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 +DYL+ Q+E+ S I I+ ++DE GYL + +I + + E D E L Sbjct: 92 EDYLISQLEIKYISPLMDKIIRRIIKSIDENGYLRESVTEIADELCVSEGDAAE---ALA 148 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 +Q +P G+ A+ L++CLL+Q+ + + A +I+ +H + A+ ++ L + Sbjct: 149 ELQLLEPAGIGARTLQECLLLQVQRLLSPD---DLAEVIMEEHFEWFADKKWKQLASLLG 205 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQIN 300 ++ ++ +L+++L+PRP + Y++PDV V + + + + +P++ N Sbjct: 206 VELKDIQRVSDLVRTLNPRPAAAFSKESAGYIVPDVAVSWDGSSFLITVQDELLPKVSFN 265 Query: 301 QHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 Y + + ++++ QD W+++SLE R DT+ +V+ +VE+QQ FF +G Sbjct: 266 SQYYESFKSTGDKEVRKYLQDRSQDYNWIVRSLEQRKDTIKKVTMKLVEKQQDFFIEGPA 325 Query: 361 YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAI 420 ++PM + +IA +E+HEST+SR +KY+ +P G FELK FF+S V T G ASS ++ Sbjct: 326 KLRPMTMKEIADELEIHESTVSRTVREKYVQTPFGTFELKTFFTSAVKTTGADGASSASV 385 Query: 421 RALVKKLIAAENPAKPLSDSKLTSLLSE-QGIMVARRTVAKYRESLSIPPSNQRKQL 476 + + ++ AE+ KPLSDS++ S+L + I+++RRTVAKYR+ L IP S +RK+ Sbjct: 386 KKKIAAMVEAEDKLKPLSDSEIMSILEKGDAIVISRRTVAKYRDQLGIPSSAKRKRY 442 >UniRef50_P24219 RNA polymerase sigma-54 factor n=7 Tax=Bacillus RepID=RP54_BACSU Length = 436 Score = 431 bits (1108), Expect = e-119, Method: Composition-based stats. Identities = 137/478 (28%), Positives = 239/478 (50%), Gaps = 45/478 (9%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M LQ + +T +L+QAI LL + EL + + + NPL+E+ +T + Sbjct: 1 MDMKLQQVQVLKPQLTQELRQAITLLGYHSAELAEYIDELSLENPLIERKETDTPPLSYH 60 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 + ++ +A + +TL Sbjct: 61 KTNKNRMNAQEAG-------------------------------------LQLSNPQKTL 83 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 QD L Q ++T++ I ++ ++D GYL +E+ + + E EAVL Sbjct: 84 QDALKQQSLDMNLTNTEKKIFNYLIHSLDSNGYLEEDIEEAARRLS---VSAKEAEAVLA 140 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 ++Q +P G+ A+ L++C+L+QL + E+A +++S H D A ++TL T Sbjct: 141 KLQSLEPAGIGARSLQECILLQLQRLPNRN---EQAEMLVSAHFDAFAQKKWKTLSVETG 197 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQ-TGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQI 299 + +++ + I +L PRPG + Y+ PD+ + NGH ELN+ S P + + Sbjct: 198 IPLHTIQDISDDIAALHPRPGLLFARPEQDVYIEPDIFITVKNGHIAAELNTRSFPEIDL 257 Query: 300 NQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE 359 + Y ++ ++ ++ + Q+ +WL ++L R T+ R+ ++ +Q+ FF +G Sbjct: 258 HPQYRTLLSSGSCQDTVSYLSAKYQEWRWLSRALRQRKQTITRIINELITRQKDFFLKGR 317 Query: 360 EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTA 419 MKP+ L ++A + +HEST+SR K + +P G+FE+K FFS+ G G+AS+ A Sbjct: 318 SAMKPLTLREVADCLSLHESTVSRAIKGKTIQTPYGLFEMKLFFSAKAEASGDGDASNYA 377 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQ-GIMVARRTVAKYRESLSIPPSNQRKQL 476 ++ ++ LI E+ KPLSD KL LL EQ GI ++RRTVAKYR+ ++IP S RK+ Sbjct: 378 VKTHLENLINQEDKTKPLSDQKLVDLLYEQHGIQISRRTVAKYRDQMNIPSSAARKRY 435 >UniRef50_B0RT01 RNA polymerase sigma-54 factor n=10 Tax=Bacteria RepID=B0RT01_XANCB Length = 487 Score = 431 bits (1108), Expect = e-119, Method: Composition-based stats. Identities = 182/476 (38%), Positives = 260/476 (54%), Gaps = 20/476 (4%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 MK + +L QQL +TPQL Q+IRLLQL ++L+ E+++ALE+NPLLE + + D Sbjct: 21 MKTTISAQLGQQLHLTPQLLQSIRLLQLDGMQLELEIRRALETNPLLELEELADSSD--- 77 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 E D +ELP W+ S + DD + + Sbjct: 78 ----EAPSAEDGATDMAAFDELPESTMWEV------QSSSWNGEDDDRMQRVAAGESTDP 127 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDE-EIDIDEVEAVL 179 ++ ++ L +TD A ++ D+ GYLT L + + I +D EA+ Sbjct: 128 HVRILRELAL-DLDETDLGTAAFWLEQTDDAGYLTEALPTLQQLAATRLGISVDAAEAIR 186 Query: 180 KRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVT 239 +R+ DP G+AA DLR+CL QL+ P A I++ LDLLA HD+ L R Sbjct: 187 QRLLHGDPAGLAACDLRECLQAQLAALPGRVPARHLAGRILAGDLDLLAGHDYALLARAH 246 Query: 240 RLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQI 299 D ++EAV LI SL PRPG + VIPDVL +G W V LN + R+ I Sbjct: 247 DADVDDVREAVRLILSLQPRPGDDLLQETNASVIPDVLAWHADGSWRVALNPATTHRVSI 306 Query: 300 NQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE 359 N + A + Q +R LQ+A+WL + L R +TLLR +R IVE+Q AF +GE Sbjct: 307 NPVHERALAEAGDAA--QPLRDMLQEARWLTRGLSMRYETLLRATRAIVERQAAFLARGE 364 Query: 360 EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTA 419 E M P+ L +IA + MHESTISR+TT KY+ +PRG FELK+FF+ + G S A Sbjct: 365 EAMAPLTLKEIADEIGMHESTISRITTGKYIQTPRGTFELKHFFAVRL---EGASVSGQA 421 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 ++A+V++LI +E +PL+D + LLS QG+ +ARRTVAKYRE L I P+ +R++ Sbjct: 422 VKAMVRRLIESEPAGRPLADEAIAGLLSRQGVNIARRTVAKYREQLDIAPARERRR 477 >UniRef50_C7R9H7 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Kangiella koreensis DSM 16069 RepID=C7R9H7_KANKD Length = 495 Score = 430 bits (1105), Expect = e-119, Method: Composition-based stats. Identities = 185/490 (37%), Positives = 286/490 (58%), Gaps = 16/490 (3%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTH--EEIDT 58 M LQL LSQQL + PQLQQ+I+LLQLS L LQQE+Q L++NPLL +D E Sbjct: 1 MNPNLQLSLSQQLKLNPQLQQSIKLLQLSQLALQQEIQYQLDNNPLLTLLDDSYCEPEAA 60 Query: 59 RETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQ 118 +SE + + + + + + ++ +D + + + Sbjct: 61 SSVSNSELDVSPLPTVFPNNRDTNNIGSLANLRHIDSGQHHSTYSIHNDGESNLENQFQE 120 Query: 119 T--LQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDE---EIDID 173 + L+++L WQ++++ S D IA +++ +D+ G+LTV ++I+E I + D D Sbjct: 121 SIGLREHLEWQIQMSSLSRADMEIAYYVIENIDDAGFLTVSHQEIIEQIKQDFEHRFDPD 180 Query: 174 EVEAVLKRIQRFDPVGVAAKDLRDCLLIQL---------SQFDKTTPWLEEARLIISDHL 224 EVEAV+ ++Q+ +P+G A+ +L+ LL+QL Q LE A+ ++ H Sbjct: 181 EVEAVIHQVQQLEPLGCASSNLQQFLLLQLQLAINNTSNPQQSALESALELAQRLVHHHF 240 Query: 225 DLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGH 284 D L H + L++ L + + +A+++IQ L +P EY+ PD+LV G Sbjct: 241 DYLCKHHYSKLIKRLSLTQQEMDDALSVIQCLRSKPNHQYIGEVTEYIRPDILVYNLQGS 300 Query: 285 WTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVS 344 W +L S++ P+L IN YA + D +++ NLQ A+W ++S+E+RNDTL RV+ Sbjct: 301 WLAQLASNNAPQLDINHQYAQALRQSNKTCDKHYLQQNLQRARWFMQSIEARNDTLKRVA 360 Query: 345 RCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFS 404 IV+ QQ FF+ GE ++PM L D+A+ +++HESTISR + K+L SP GI+ELKYFFS Sbjct: 361 DWIVQHQQNFFDCGESALRPMRLKDLAEDLKLHESTISRACSDKFLQSPNGIYELKYFFS 420 Query: 405 SHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRES 464 + V + GGE SS AI+ +K+ + AE KPLSD +L +L E+GI +ARRTVAKYRE+ Sbjct: 421 NAVPSTQGGEWSSKAIKNKIKQYVKAEPSRKPLSDIELAKMLQEEGIAIARRTVAKYREA 480 Query: 465 LSIPPSNQRK 474 L+I PS QRK Sbjct: 481 LNILPSGQRK 490 >UniRef50_D2UDB4 Probable rna polymerase sigma-54 factor protein n=1 Tax=Xanthomonas albilineans RepID=D2UDB4_XANAL Length = 466 Score = 429 bits (1104), Expect = e-119, Method: Composition-based stats. Identities = 183/476 (38%), Positives = 267/476 (56%), Gaps = 21/476 (4%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 MK + +L QQL +TPQL Q+IRLLQL L+L+ E+++ALE+NPLL Sbjct: 1 MKPTVSAQLGQQLHLTPQLLQSIRLLQLDGLQLEMEIRRALENNPLL--------ELEEP 52 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 +E +A+ Q +ELP + WD P+ D DD L + Sbjct: 53 EAATEAETAVEAVLQTAAFDELPEPSMWDV------PATGWNDGEDDRLQHIAAGESTDP 106 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDI-LESIGDEEIDIDEVEAVL 179 ++ ++ L + A ++ D+ GYL L+ + L + ++ +VE Sbjct: 107 HLRVLQRLAL-ELPPREIEAAAFWLEHCDDAGYLDDALDTLTLLACTRLDLSAAQVETAR 165 Query: 180 KRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVT 239 +R+ DP G+AA DLR+CL +QL P A I+ L LLA+HD+ L R Sbjct: 166 QRLLHGDPAGLAACDLRECLHVQLHDLPGPVPGRHLAARILDGDLHLLASHDYALLARKL 225 Query: 240 RLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQI 299 + + ++EAV LI SL PRPG S+Q + +VIPDV+ + +G W V LN + R+ I Sbjct: 226 DAEAEDVREAVRLILSLQPRPGDSLQPQDLGHVIPDVVAWQADGSWRVALNPATTHRVNI 285 Query: 300 NQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE 359 N + A +Q +R LQ+A+WL + L R +TLLR +R IVE Q AF +GE Sbjct: 286 NPMHERALAEAG--EAAQPLREMLQEARWLTRGLSMRYETLLRTTRSIVEHQAAFLNKGE 343 Query: 360 EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTA 419 E M P+ L ++A A+ MHEST+SR+TT KYL +PRG FELK+FF+ + G S A Sbjct: 344 EAMAPLTLKEVADAIGMHESTVSRITTGKYLQTPRGTFELKHFFAVRL---EGAAVSGQA 400 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 +RA+V++LI AE ++PL+D + +LLS QG+ VARRTVAKYRE L I P+ +R++ Sbjct: 401 VRAMVRRLIEAEPSSRPLADEAIAALLSRQGVNVARRTVAKYREQLDIAPARERRR 456 >UniRef50_A9H5R6 RNA polymerase sigma-54 factor 1 n=3 Tax=Gluconacetobacter diazotrophicus RepID=A9H5R6_GLUDA Length = 469 Score = 428 bits (1101), Expect = e-118, Method: Composition-based stats. Identities = 148/474 (31%), Positives = 257/474 (54%), Gaps = 27/474 (5%) Query: 2 KQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRET 61 + + + +Q L M+ +++Q+I++LQLS EL + L +E NPLLE+ T Sbjct: 7 QPRQEFKQNQGLFMSARMRQSIQILQLSNAELHEFLDAEVEKNPLLERDPTTSAPLAERP 66 Query: 62 QDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQ 121 + A D+ +DD+ E+ L+ Sbjct: 67 GLAAPPPMMRAPGATGDAGRWTSDS-----------------GLDDDGTGRLAESAPALR 109 Query: 122 DYLMWQVELTPFSDTDRAIATSIVDAVDETGYL-TVPLEDILESIGDEEIDIDEVEAVLK 180 D + Q+ L+ + T+R I ++ A+D G L +DI ++ ++ + +VEA+ + Sbjct: 110 DVMFEQLVLSGCTTTEREIGAHLIAALDPAGRLAGGATDDIAATL---QVTLRDVEAIRQ 166 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 R+ RFDP G+ A LR+CL QL + ++ P A + D+LDLLA HD + L + Sbjct: 167 RMMRFDPAGLFATSLRECLAAQLQERNRFGP----AMARLLDNLDLLARHDLKRLRQACD 222 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKH-NGHWTVELNSDSIPRLQI 299 + L++ + +++LDP+PG + ++PD+L+ + G WT+ELN +S PR+ + Sbjct: 223 VSATDLEDMIAELRTLDPKPGAEHGSTLT-VIVPDILMEQTAEGGWTLELNPESTPRVVL 281 Query: 300 NQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE 359 N ++ + + + ++ L A WLI++L+ R+ T+LRVS I+ +Q+ F + G Sbjct: 282 NSALSTRMSLRAHGAERTYLNDTLTSANWLIRALQQRSMTILRVSTEILRRQEDFLQHGP 341 Query: 360 EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTA 419 + ++P+ L +A+A+ +HEST+SRVT KY+ +PRG+ LK+FF + + G S+ A Sbjct: 342 QALQPLNLRTVAEALNIHESTVSRVTANKYVATPRGVLPLKFFFVAAMTGNDGEIRSNIA 401 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQR 473 I+++++++I E P LSD ++ L QGI +ARRTVAKYRE++ P S QR Sbjct: 402 IQSVIRRMIQGERPDAVLSDEAISLTLRRQGIDIARRTVAKYREAMGFPNSLQR 455 >UniRef50_C8PV20 RNA polymerase sigma-54 factor n=1 Tax=Enhydrobacter aerosaccus SK60 RepID=C8PV20_9GAMM Length = 599 Score = 428 bits (1100), Expect = e-118, Method: Composition-based stats. Identities = 166/440 (37%), Positives = 273/440 (62%), Gaps = 20/440 (4%) Query: 51 DTHEEIDTRETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELP 110 D + E + +D+++ L +++ ++P+DA WD IY+ S +G +D Sbjct: 161 DADSDYRYDEEYGLDGIDSSEHLSSQQV--DMPVDAQWDDIYS-YESSAATGIDSEDSQD 217 Query: 111 VYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDE-- 168 Y+ T +QDY+ WQ+ L S D +A ++D++DE G++T+ +++ +S Sbjct: 218 DYKLATQGNIQDYVRWQLNLRRLSTIDMLMAEYLIDSMDERGFITLSNDELFQSFDTMLS 277 Query: 169 -------EIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIIS 221 ++ ++++E V+K+IQ +P+GV A++L +CLLIQL++ TP + A+ I+ Sbjct: 278 FYQVENVDLALEDIELVVKQIQNCEPLGVGARNLAECLLIQLNKLPSDTPSWQAAKQILM 337 Query: 222 DHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPE-------YVIP 274 H + AN++ L++ + L ++ A+ L+++L+P P S + + + Y IP Sbjct: 338 -HSEFFANNNINALLKSSNLDVSEIQPALALLRTLNPNPALSYEKSQRQLDNGIESYDIP 396 Query: 275 DVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLE 334 DV+V + HW V LN +++P+L+INQ YA + + N +++ L DA+ I+S+E Sbjct: 397 DVIVVQRGQHWEVSLNPETLPKLRINQVYAKLVSRNDNSEQGVYLKEQLYDARLFIRSIE 456 Query: 335 SRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPR 394 RN LL+V+ CIV++QQAFFEQG M+PMVL D+A V +HEST+SR+TT K + +P+ Sbjct: 457 ERNQNLLKVATCIVKRQQAFFEQGVMAMQPMVLKDVADEVGLHESTVSRITTSKTIVTPK 516 Query: 395 GIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVA 454 G+F LKYFFSS V+++ G SSTAI A++K++I AE+P KPLSDS + L ++GI +A Sbjct: 517 GLFSLKYFFSSQVSSDEGEGVSSTAISAMIKQMIEAEDPKKPLSDSSIMKNLQDKGIDIA 576 Query: 455 RRTVAKYRESLSIPPSNQRK 474 RRTV KYRE ++I S QRK Sbjct: 577 RRTVTKYREGMNIGSSTQRK 596 Score = 54.5 bits (130), Expect = 8e-06, Method: Composition-based stats. Identities = 43/124 (34%), Positives = 65/124 (52%), Gaps = 10/124 (8%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 MK G+ +L+ + +TPQ+QQAIRLLQLS+LEL+QE+Q L+SNP+LE+ + E Sbjct: 1 MKIGIGAKLTTGMTLTPQMQQAIRLLQLSSLELEQEVQLKLDSNPMLEREEEWET----- 55 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 + + AD L E E + +D Y + + + Y T+ L Sbjct: 56 -----SYEDADNLPDGENYPEHDTNDDYDYDYDEDDYKVEGVELSEADFDDYTRHETEVL 110 Query: 121 QDYL 124 +DYL Sbjct: 111 EDYL 114 >UniRef50_B2RK26 RNA polymerase sigma-54 factor n=2 Tax=Porphyromonas gingivalis RepID=B2RK26_PORG3 Length = 485 Score = 427 bits (1099), Expect = e-118, Method: Composition-based stats. Identities = 150/492 (30%), Positives = 239/492 (48%), Gaps = 25/492 (5%) Query: 3 QGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQ 62 L QQ ++ Q Q I+LL+L +EL++ +Q+ LE+NP LE+ EE+ Sbjct: 2 LKQTLAQRQQQNLSVQQIQQIKLLELPAIELEERIQKELEANPALEEGAYDEEVAGSADG 61 Query: 63 DSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQD 122 T D L + + D + E + +L D Sbjct: 62 ------TEDNLMGDDTSDLSLGDYRTEEDIPEYKLREIQDRNSRREEIPFSAAV-PSLND 114 Query: 123 YLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDE---EIDIDEVEAVL 179 L+ Q++ P +D + +A I+ ++E GYL LE+IL+ + E D EVE V+ Sbjct: 115 RLVEQLKFLPLTDRQQQLAPYIIGNIEEDGYLHRDLEEILDDLAFRAGIEADKKEVEEVI 174 Query: 180 KRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVT 239 +Q DP G+ A+DL++CLL+QL + T + A I+++H D + F L Sbjct: 175 GLVQSLDPPGICARDLKECLLLQLKRLP-DTTARQTALHILTNHYDDFVSKRFEQLQEGA 233 Query: 240 RLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEY---VIPDVLVRKHNGHWTVELNS-DSIP 295 L + +KEA LI L+P+P V PD +V + V L I Sbjct: 234 SLSDSEMKEAFELIMQLNPKPANGWGDDAEATMNRVHPDFIVERMGDDLVVSLTRGRDIQ 293 Query: 296 RLQINQHYASMCNNARNDGDSQ---------FIRSNLQDAKWLIKSLESRNDTLLRVSRC 346 L+++ Y M + ++ ++ F++ + A+W I++L R +TL R Sbjct: 294 PLRVSPVYQEMMQDYQSSAKNRSRERKQTLLFVKQKVDQAQWFIEALRQRRETLQRTMEA 353 Query: 347 IVEQQQAFFEQGEEY-MKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSS 405 IV Q A+F GE +KPM+L D+A STISRV+ KY+ + GIF LK+FFS Sbjct: 354 IVRLQDAYFRSGELADLKPMILKDVADPTGYDVSTISRVSNSKYVQTDFGIFSLKHFFSD 413 Query: 406 HVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESL 465 + G E S+ ++ ++ + I +E+ PL+D++L +L+E G +ARRTVAKYRE L Sbjct: 414 GTVNDKGEEVSTREVKRVLAEAIDSEDKRSPLNDTELAEVLAENGYRLARRTVAKYREQL 473 Query: 466 SIPPSNQRKQLV 477 P + RK++V Sbjct: 474 GYPTARMRKEVV 485 >UniRef50_Q9K710 RNA polymerase sigma factor (Sigma54) n=1 Tax=Bacillus halodurans RepID=Q9K710_BACHD Length = 445 Score = 425 bits (1094), Expect = e-117, Method: Composition-based stats. Identities = 147/478 (30%), Positives = 248/478 (51%), Gaps = 36/478 (7%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M+ GL + + L MT +L+QAI LLQ ST++L +++ NPL+E D + + + Sbjct: 1 MEFGLFQQQTTSLVMTNELRQAISLLQYSTVDLAAFIEEQALENPLIELKDRSDRVLSE- 59 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 + M EE P + D+ Y L Sbjct: 60 -------------HIRMMREERPEGE-------------GTLDWSQSSPFDYLHVERLNL 93 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 DYL+ Q P + + + ++ + GYL+ L + +G + E E L Sbjct: 94 SDYLIQQARDLPLNKNEFEWLCYFIYSLRDDGYLSRSLHSLQADLGLTD---QEAEKTLY 150 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 +Q +P G+ A+ L++CLL+QL + + P A I+ +++LLA ++ + + Sbjct: 151 HLQHLEPAGIGARSLQECLLLQLQRKKQRDPL---AETIVEHYMELLAEKRWKMIADDLQ 207 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQIN 300 + ++ + IQ LDPRPG I Y++PDV + G T+ L D +P++ +N Sbjct: 208 ISLADVQRVYDCIQQLDPRPGSQIGGEPTNYLVPDVTIDWVEGELTILLQDDYLPKITLN 267 Query: 301 QHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 + Y ++ + +Q+ + +WL+KS++ R TLL+V+ I+ +Q+AFFE+ E Sbjct: 268 RQYQTLLTDGEG-EAAQYAKEKYHQMQWLVKSIQQRQQTLLKVTEAILRKQRAFFEEKEG 326 Query: 361 YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGG-EASSTA 419 ++P+ L ++A+ + +HEST+SR TT KY +PRG+ ELK FF S +++ G SS + Sbjct: 327 ALQPLTLREVAEEIGVHESTVSRATTNKYAQTPRGLLELKSFFVSSISSRFGEKGPSSDS 386 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQ-GIMVARRTVAKYRESLSIPPSNQRKQL 476 ++ LV+KL+ EN AKPLSD K+ LL +Q + +RR +AKYR+ L IP S +RK+ Sbjct: 387 VKKLVRKLVEEENKAKPLSDQKIAHLLKDQYNVEASRRVIAKYRDELGIPSSTKRKRY 444 >UniRef50_B4SIK0 RNA polymerase, sigma 54 subunit, RpoN n=3 Tax=Stenotrophomonas RepID=B4SIK0_STRM5 Length = 469 Score = 425 bits (1093), Expect = e-117, Method: Composition-based stats. Identities = 184/477 (38%), Positives = 263/477 (55%), Gaps = 20/477 (4%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 MK L +L QQL +TPQL Q+IRLLQL L L+QE+Q+ L+SNPLL EI+ E Sbjct: 1 MKAALSTQLGQQLHLTPQLLQSIRLLQLDGLHLEQEIQRLLDSNPLL-------EIEEAE 53 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 +E+ D + +ELP + WD + D DD + + Sbjct: 54 APAAESTDADATTLETAAFDELPESSMWDVA------GSSWQDGDDDRMARIAAGESSDP 107 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDE-EIDIDEVEAVL 179 Q ++ ++ L D + A+A +D DE GYL PL + + +I D VEA+ Sbjct: 108 QLRVLQRLSL-DMDDRELAVAAFWLDHCDEAGYLQAPLAQLQLLASAQFDIAADGVEAIR 166 Query: 180 KRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVT 239 +++ +P G+AA+DLR+ L QL P A I+ LD LA HD+ L R Sbjct: 167 QQLLHGEPAGMAAQDLREGLQAQLRSLHGVVPARHLAARILDGALDALAAHDYPALARQH 226 Query: 240 RLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQI 299 + D ++EAV LI SL PRPG S+ V+PDV+ + W V LN + R+ I Sbjct: 227 DAEIDDVREAVRLILSLQPRPGDSLLPERNAVVVPDVVAWHADNQWKVALNPATSRRVSI 286 Query: 300 NQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE 359 N Y + +R LQ+A+W + L R DTLLR +R IVE+Q AF +GE Sbjct: 287 NSQYEQALAET--SEAAPALREMLQEARWFSRGLSMRYDTLLRTARVIVERQAAFLVRGE 344 Query: 360 EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTA 419 E M P+ L ++A+ + MHEST+SR+TT K+L +PRG FELK+FF+ + G S A Sbjct: 345 EAMAPLTLKEVAEEIGMHESTVSRITTGKFLQTPRGTFELKHFFAVRL---EGASVSGQA 401 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 ++A+V++LI AE +PL+D + LLS QG+ +ARRTVAKYRE L I P+ +R++L Sbjct: 402 VKAMVRRLIDAEPAGRPLADEAIAGLLSRQGVNIARRTVAKYREQLDIAPARERRRL 458 >UniRef50_B8DD95 RNA polymerase sigma-54 factor n=20 Tax=Listeria RepID=B8DD95_LISMH Length = 447 Score = 423 bits (1089), Expect = e-117, Method: Composition-based stats. Identities = 134/469 (28%), Positives = 238/469 (50%), Gaps = 45/469 (9%) Query: 13 LAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSETLDTADA 72 L MT QL Q+I +LQ +T +L L+ NPL+E I Sbjct: 19 LNMTQQLSQSIAMLQFATADLVAFLEDKALENPLIEVIPGS------------------- 59 Query: 73 LEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTP 132 D + D Y++ +G+S D + + TL D L Q+ L Sbjct: 60 ------------DFATDFSYSSRKSTGSS---DDTDWLEQIADNKLTLADALKEQLHLMD 104 Query: 133 FSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAA 192 + T + I +++++++ GYL + L+D+ ++ ++ V L+ +Q +P GV A Sbjct: 105 VTQTQKIIVLYLIESLNDNGYLQIDLKDVSAALLMDDSS---VLEGLEILQSMEPAGVGA 161 Query: 193 KDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNL 252 +D R+C+L+Q+ + A +I A ++ + + ++E + Sbjct: 162 RDARECILLQIERSP---DAPYIAYDVIQKFFTEFAEKKWKKIAAEMDVSLQDIQEVSDW 218 Query: 253 IQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARN 312 IQ+L+P+PG ++ +YV+PD+++ +H + V L +P+++ + Y Sbjct: 219 IQTLNPKPGSEFESERVQYVVPDLILLQHEDEFAVSLAKQFLPQVRFQEAYYETMRATEE 278 Query: 313 DGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQ 372 +QF+R + W+ K +E R +TL RV IV Q+A+F +++P+ L ++A+ Sbjct: 279 KDVAQFLREKAGEFDWIKKGIEQRENTLQRVGEAIVSHQKAYFLDNSAHLQPLTLKEVAE 338 Query: 373 AVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVN-----TEGGGEASSTAIRALVKKL 427 + +HEST+SR KY+ + G++ELK FF+S + E G+ SST I+ LV++ Sbjct: 339 ELGVHESTVSRAVNGKYMETTNGVYELKRFFASGLQKKSSENENTGDISSTTIKKLVQEF 398 Query: 428 IAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 +AAE+ KPLSD K+ +L+E+ I V+RR +AKYR L+IP S++RK+ Sbjct: 399 VAAEDKLKPLSDQKIVDMLAEKEIQVSRRAIAKYRLELNIPSSSKRKRF 447 >UniRef50_C3J8N1 RNA polymerase sigma-54 factor n=2 Tax=Bacteria RepID=C3J8N1_9PORP Length = 488 Score = 423 bits (1088), Expect = e-117, Method: Composition-based stats. Identities = 157/488 (32%), Positives = 252/488 (51%), Gaps = 15/488 (3%) Query: 3 QGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQ 62 Q Q+LA+ Q Q I+LL++S EL +++ L +NP LE ++ EE + Sbjct: 2 LKQQQEQRQKLAIDVQQIQQIKLLEVSGEELADRIREELATNPALEVVEESEETTPEDNF 61 Query: 63 DSETLDTADALEQKEMPEEL-PLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETT-QTL 120 E + EQ+ + ++ P D + D DD+ P Y +L Sbjct: 62 LDEEPLSNTENEQEGLQDDFSPEDYTADDEREDALREPPRPSAGDDDGPSYVQPNEAPSL 121 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEE---IDIDEVEA 177 D L Q+ SD + IA I+ + + GYL+ L +I +++ E E+E Sbjct: 122 SDELHEQLISLTLSDRELTIAEYIIGNLSDDGYLSASLHEISDALLFNENLDASDAEIEE 181 Query: 178 VLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMR 237 ++ RIQ+ DP G+AA+DLR+ LL+QL + K A II + + LA H + ++R Sbjct: 182 MIHRIQQLDPPGIAARDLRESLLLQLRRLPK-DEVHSLALSIIEGYFEDLAAHRYDRIIR 240 Query: 238 VTRLKEDVLKEAVNLIQSLDPRPGQSIQT---GEPEYVIPDVLVRKHNGHWTVELNSD-S 293 + D EA +I+ L+PRP + ++PD V HNG + +N + Sbjct: 241 GLAITPDRFSEAQRIIRQLNPRPASGYGSNLEAAVARIVPDFTVHLHNGELQLWINDAPN 300 Query: 294 IPRLQINQHYASM----CNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVE 349 +P+L I+ Y ++ + F S + +A+ I +L+ R TLL V IV+ Sbjct: 301 LPQLGISPAYLAITKAPIRSEAEKTSRAFASSRIAEARQFIDALKRRRKTLLHVVGAIVQ 360 Query: 350 QQQAFFEQGE-EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVN 408 Q+ FF G+ + ++P+VL IA+ V + S+ISR+T +KY+ S GI+ LK+FFS Sbjct: 361 AQEDFFRTGDIQQLRPLVLRQIAETVALDISSISRITQRKYIQSDYGIYPLKFFFSEGTT 420 Query: 409 TEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIP 468 G SS + + L+++LI E+ PLSD++L +LLS++GI +ARRTVAKYRE L IP Sbjct: 421 GSDGEAVSSRSTKDLLRQLIEKEDKRTPLSDTELGALLSQEGIPIARRTVAKYREQLGIP 480 Query: 469 PSNQRKQL 476 + R++L Sbjct: 481 IARLRREL 488 >UniRef50_Q2S3F8 RNA polymerase sigma-54 factor n=2 Tax=Sphingobacteriales RepID=Q2S3F8_SALRD Length = 504 Score = 423 bits (1087), Expect = e-116, Method: Composition-based stats. Identities = 160/490 (32%), Positives = 267/490 (54%), Gaps = 17/490 (3%) Query: 5 LQLRLSQ--QLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQ 62 L+L+ Q Q ++PQ Q I+LLQL T +L++ +++ LE NPLLE+ EE + Sbjct: 6 LELKQEQDLQQKLSPQQIQYIKLLQLDTFDLERRIEEELEENPLLEEGLGEEEQREEDEI 65 Query: 63 DSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQD 122 D+ + + LE ++ E+ ++ + + + G DDE Q+L + Sbjct: 66 DATAEEMENELETEDDEEDFDVEDLLNNTDDMYGYNASPGYQGDDEDRDRPMPADQSLPE 125 Query: 123 YLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDE---EIDIDEVEAVL 179 L Q+ +TD IA I+ ++DE GYL ++ IL+ I EI+ ++V+ VL Sbjct: 126 QLQGQISFLNLDETDEIIADQIIGSIDEDGYLKREIDSILDDILFNHGIEIEEEDVQKVL 185 Query: 180 KRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVT 239 +++Q +P G+AA+DL++CLL+QL + + + A ++ D + F L + Sbjct: 186 RQVQSLEPAGIAARDLQECLLLQLRRMPEDVDGRDTAIAMLEDEYEAFTKKHFDKLQKRL 245 Query: 240 RLKEDVLKEAVNLIQ-SLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQ 298 + E LK A +LI+ LDP+PG+ + E Y+ PD VR +G + + LN + P L Sbjct: 246 DVDERELKTAFDLIRQRLDPKPGEGEFSEETNYITPDFSVRYVDGEFVITLNGRNAPDLH 305 Query: 299 INQHYASMCNNARNDG-----------DSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCI 347 +++HY M + +F++ A+W I S+ R T+ V I Sbjct: 306 VSRHYRKMLEKLKAQKKSDDVDEVDEETEEFLKDKFSSAQWFIDSINQRRHTMYLVMDAI 365 Query: 348 VEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHV 407 V+ Q+ FF GE ++KPM+L DIA+ ++M ST+SRV KY+ + G++ELKYFFS + Sbjct: 366 VQLQEDFFRYGEGHLKPMILKDIAEIIDMDISTVSRVVNGKYVQTEWGVYELKYFFSEGL 425 Query: 408 NTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSI 467 T G E S+ ++A +++++ AE+ P+SD L L E+G +ARRTV+KYR+ LSI Sbjct: 426 ETVDGEEVSNKEVKAELQRIVDAEDKTDPMSDQDLADALEEKGFKIARRTVSKYRKQLSI 485 Query: 468 PPSNQRKQLV 477 P + R+++V Sbjct: 486 PVARLRREIV 495 >UniRef50_Q6M9X4 Putative RNA polymerase sigma-54 factor (Sigma-N) n=1 Tax=Candidatus Protochlamydia amoebophila UWE25 RepID=Q6M9X4_PARUW Length = 492 Score = 421 bits (1082), Expect = e-116, Method: Composition-based stats. Identities = 144/483 (29%), Positives = 258/483 (53%), Gaps = 13/483 (2%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQI--DTHEEIDT 58 M+Q + L+Q+L M+ +QQAI LLQL LEL+ +++ + SNPLL+ I + Sbjct: 13 MQQKQGMNLTQRLMMSTHMQQAIHLLQLPILELEPFIEEQVVSNPLLDIIPIEKEGAFIE 72 Query: 59 RETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGE--- 115 T SE ++ ++ +++ LD + + + +++L Y Sbjct: 73 ERTSASEKMEKEITIDDRDLAILNRLDEDYREHFAGSETTPMKRSSEEEKLKSYLENSIC 132 Query: 116 TTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEV 175 +L + L Q T + + AIA ++ +D G+L PL++I ++ V Sbjct: 133 ADPSLLEKLHQQAIDTFNNQQELAIADILIGYIDANGFLKTPLQEICLL---HNLEESAV 189 Query: 176 EAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTL 235 + +L+ +Q F+P G+AA +++ LLIQL K + A +I D+ + L ++ + Sbjct: 190 KDILREMQEFEPYGIAAASIQESLLIQLRCLHKE---GKLAYRLIKDYYNELLHNHIPLI 246 Query: 236 MRVTRLKEDVLKEAVNL-IQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSI 294 + + ++EA+ I LD PG + +IPDV +R+ V+++ D Sbjct: 247 QKQLKCSFSEIQEAIEKDIAKLDLHPGTHFSAQTSQVLIPDVTLRQEGEKLIVDVDRDRA 306 Query: 295 PRLQINQHYASMCNNARND-GDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQA 353 P L+IN+ Y + N++ QFI+ +L A+WL+++L+ R T+ R++ + Q Sbjct: 307 PTLKINRKYLRLLNDSSTSNETKQFIKRHLFSARWLVRNLQQRYSTIERIAEFLAVNQYE 366 Query: 354 FFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGG 413 FF Q + +KP+ + IA A+E+HESTI+R + KY++SP+GIF L+ FF++ +E G Sbjct: 367 FFTQPDGQLKPLTMKTIADALELHESTIARTVSNKYINSPKGIFSLRSFFTTKYTSEEGE 426 Query: 414 EASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQR 473 + S+ ++ + ++I+ EN +P SD K++ L +GI ARRTVAKYR++L + + QR Sbjct: 427 DLSAKTVKEAILEIISGENKLRPFSDEKISEFLKSKGITCARRTVAKYRQALDLGNTQQR 486 Query: 474 KQL 476 K+ Sbjct: 487 KKF 489 >UniRef50_A1TNE5 RNA polymerase, sigma 54 subunit, RpoN n=2 Tax=Acidovorax RepID=A1TNE5_ACIAC Length = 468 Score = 421 bits (1082), Expect = e-116, Method: Composition-based stats. Identities = 152/488 (31%), Positives = 246/488 (50%), Gaps = 49/488 (10%) Query: 5 LQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDS 64 L R +Q ++P+LQ+A++LLQ+ T E Q + A++ NP L Sbjct: 6 LGARQTQTPHLSPRLQKAVQLLQMPTAEFIQSVMAAVDENPFL----------------- 48 Query: 65 ETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYL 124 + +W + +P SGD + + + T TLQ++L Sbjct: 49 -----EEDEAAAPAAPGPEEGPAWTAAPGSRSPQAGSGDGL---SMLDREPATATLQEHL 100 Query: 125 MWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDE-EIDIDEVEAVLKRIQ 183 Q+ L D +A+ +V+ + + GYL L+ + G E E +E++A L+ +Q Sbjct: 101 HSQLRLLRLPDRAFLLASLVVEELSDDGYLLASLDSLCRDYGVEPEATAEELDAALRTVQ 160 Query: 184 RFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHD----FRTLMRVT 239 +P GV A+DL++CL +QL R + L A R L Sbjct: 161 SLEPAGVGARDLQECLRLQLPAV-----ACPLQRALCDAVLARAAEGSGPQAMRQLAARL 215 Query: 240 RLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQI 299 + ++EA+ ++ LDP PG + +Y++PDV+ K G WTV LN +PR+++ Sbjct: 216 DVPAHAVREAMERLRHLDPHPGWRHGSQPVQYIMPDVIAHKARGQWTVSLNEAVMPRVRV 275 Query: 300 NQHYASMCNNARNDGDSQF--------------IRSNLQDAKWLIKSLESRNDTLLRVSR 345 ++ Y + + + D + + L +A+W ++ ++ R T+L V+R Sbjct: 276 HRQYQQLLQSPADAPDGPAPAPEDTGARNAHRDLAAQLAEARWTVRHVQQRFSTVLDVAR 335 Query: 346 CIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSS 405 I+ +Q F E G M+P+ L DIA+ + +H ST+SRVT KYL +P G+FELKYFFS Sbjct: 336 AILRRQPHFLEYGPIGMRPLALKDIAEELGVHVSTVSRVTNNKYLQTPFGLFELKYFFSR 395 Query: 406 HVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESL 465 + T G ++S TAIR LV++++AA++ +PLSD + L QGI +ARRTV KYR+ L Sbjct: 396 AMTTPAGRDSSPTAIRGLVQEILAADDGQRPLSDVDIARQLERQGIRIARRTVTKYRQQL 455 Query: 466 SIPPSNQR 473 IPP+ QR Sbjct: 456 RIPPAEQR 463 >UniRef50_B9JZG8 RNA polymerase sigma-54 factor n=1 Tax=Agrobacterium vitis S4 RepID=B9JZG8_AGRVS Length = 482 Score = 420 bits (1080), Expect = e-116, Method: Composition-based stats. Identities = 145/465 (31%), Positives = 237/465 (50%), Gaps = 44/465 (9%) Query: 48 EQIDTHEEIDTRETQDSETLDTADALEQKEMPEELPLD-------------ASWDTIYTA 94 E E D+ D + ++ E L + + Sbjct: 15 EPGTDSEAPPAPAPSDTLQSDWYEHGGDGDLNERLDANFGTAFSDDGANPKTDAPEMLGQ 74 Query: 95 GTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYL 154 + + +L+D+L Q+ S +DR IA +++D +DE GYL Sbjct: 75 WKSMPGAQGDGEGYDLDDFVAGKVSLRDHLGQQLPFVLSSASDRMIALALIDQLDEAGYL 134 Query: 155 TVPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLE 214 L+++ +G D++E +L +Q +P G+ A+ L +CL IQL Q D+ P Sbjct: 135 RADLDEVATQMG---ASRDDMERILAALQTMEPAGLFARSLGECLAIQLRQRDRLDP--- 188 Query: 215 EARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIP 274 A + +LD LA DF +L R+ + E+ L + + I+ L+P+PG +T E V+P Sbjct: 189 -AMAALIGNLDYLAKRDFASLKRLCGVDEEDLLDMLAEIRKLNPKPGAGFETDALETVVP 247 Query: 275 DVLVRKH-NGHWTVELNSDSIPRLQINQHYASMCNNA----------------------R 311 D+LV G W VELN++++PR+ +N Y + + + Sbjct: 248 DILVAPSLEGGWLVELNAETLPRVLVNNAYFTEIRRSSLREGAMKTANGQSGNSKTGQSK 307 Query: 312 NDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIA 371 +G+ F+ LQ A WL +SL+ R T+++V+ I+ QQ AF G ++++P+ L +A Sbjct: 308 AEGEQAFLTDCLQTANWLTRSLDQRAKTIMKVATEIIRQQDAFLRHGVDHLRPLNLKTVA 367 Query: 372 QAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGE-ASSTAIRALVKKLIAA 430 A++MHEST+SRVT+ KY+ +PRG+FELKYFFS + + GG+ S+ A+R ++ LIA Sbjct: 368 DAIKMHESTVSRVTSNKYMLTPRGLFELKYFFSVSIGSAEGGDSHSAEAVRHRIRMLIAQ 427 Query: 431 ENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 E+P LSD + L G+ +ARRTVAKYRE+++I S QR++ Sbjct: 428 ESPENILSDDDIVESLKNGGVELARRTVAKYREAMNIASSVQRRR 472 >UniRef50_D2LXG7 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Bacillus cellulosilyticus DSM 2522 RepID=D2LXG7_BACS4 Length = 433 Score = 419 bits (1078), Expect = e-115, Method: Composition-based stats. Identities = 132/464 (28%), Positives = 227/464 (48%), Gaps = 48/464 (10%) Query: 14 AMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSETLDTADAL 73 MT +L+Q I +LQ S +ELQ + + L NPL+E +++ A Sbjct: 16 VMTNELRQGIAMLQCSAMELQDYIHELLLENPLIEIE---------SFENNNWTAITHAD 66 Query: 74 EQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPF 133 E E + D L+ +L Q+ Sbjct: 67 ESTSAIEHISKDF-------------------------------VDLKQFLQNQITFLDL 95 Query: 134 SDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAK 193 + + IA VDE GYL P +I + + + EV + IQ +P GV A Sbjct: 96 DKSIKNIALYAAQCVDENGYLLHPPSEIAIELN---VSLTEVTKAIDIIQTLEPAGVGAS 152 Query: 194 DLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLI 253 L+ CLLIQ+ Q + E+A I+ ++ + LAN +T+ + L++ + I Sbjct: 153 SLQQCLLIQMRQQKERD---EQAEFILENYFEELANKQLKTIANKENISVLKLQKITDKI 209 Query: 254 QSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARND 313 Q L+P+PG YV+PDV V+ + + ++ + +P+L +N++Y + N+ + Sbjct: 210 QQLNPKPGAIFSNEPCTYVVPDVSVKSTIEGFKLYIHDELLPKLTLNKNYQELMKNS-DT 268 Query: 314 GDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQA 373 +++I+ + W+ K +E R TL V+ I+E+Q F + G ++P+ L +A Sbjct: 269 TINKYIQKKYEQYVWIKKCIEQRQKTLFDVASTIIEKQLDFLKGGAVNLRPLTLKTVADH 328 Query: 374 VEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENP 433 + +HEST+SR T KY+ +P G++ KYFF++ V + G SS +++ +K++I E+ Sbjct: 329 LGIHESTVSRATMNKYIETPMGLYPFKYFFTASVGSNKGQTNSSESVKTHLKQMIDNEDK 388 Query: 434 AKPLSDSKLTSLLSE-QGIMVARRTVAKYRESLSIPPSNQRKQL 476 KP SD KL +++ E I V+RRTVAKYR+ ++IP S +R++ Sbjct: 389 TKPFSDDKLATMIHENYAIAVSRRTVAKYRDEMNIPGSRKRRRF 432 >UniRef50_C5TQ27 RNA polymerase sigma-54 factor n=8 Tax=Neisseriaceae RepID=C5TQ27_NEIFL Length = 451 Score = 418 bits (1074), Expect = e-115, Method: Composition-based stats. Identities = 159/478 (33%), Positives = 248/478 (51%), Gaps = 39/478 (8%) Query: 4 GLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQD 63 L L+L Q + +LQQ++R+LQ+S LEL++E++ L NPLLE+ +T E D+ + Sbjct: 3 SLVLKLKQTQQLNQRLQQSLRILQMSGLELEREVEDWLLDNPLLERPETDEFADSGLNRT 62 Query: 64 SETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDY 123 +G D E + + Y Sbjct: 63 -----------------------------VTMPRAGQQLSGDDAEDIWSNIAEEEDFKHY 93 Query: 124 LMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDE-EIDIDEVEAVLKRI 182 L QV P S + A ++D + E GYLT LE+I++ E +D + ++ + Sbjct: 94 LHAQVCEHPLSQVEAAYVHVLIDFLGEQGYLTDSLEEIIDHTPLEWMLDEEALQNAQDIL 153 Query: 183 QRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRL- 241 Q FDP GVAA DL + L++QL + +P + A ++ L L + + ++R +L Sbjct: 154 QTFDPPGVAAADLTESLMLQLMRLPA-SPARQMAAHLVQSSLQDLGKNRKQNVLRFRKLY 212 Query: 242 ---KEDVLKEAVNLIQSLDPRPGQSIQT-GEPEYVIPDVLVRKHNGHWTVELNSDSIPRL 297 + ++ A+++I L+P P + Y+ PDV V++ W V N + P+L Sbjct: 213 PDTDSETIEAALDMIAELNPYPAYGFASATPTPYIQPDVWVKEGKDGWEVISNEAAWPKL 272 Query: 298 QINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQ 357 Q+NQ Y + +A + + +AK I SLE R T+LR++ IV+ Q+ FF Sbjct: 273 QLNQEYCDLMKSAEEGALG--WKEKINEAKQRIDSLELRKSTVLRLAEYIVKNQEDFFIF 330 Query: 358 GEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNT-EGGGEAS 416 GE + PM++ D A + + ESTISR QKYL PRG+F L+YFF+ VN + G S Sbjct: 331 GEIGLSPMLMKDAAAELGLAESTISRAANQKYLSCPRGLFALRYFFTQAVNADDDGEGFS 390 Query: 417 STAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRK 474 AI+A++ +LI +E+ +KP SD L LL ++GI +ARRTVAKYRESL IPP+++RK Sbjct: 391 QGAIKAVLSQLIESEDSSKPYSDETLVKLLKQRGIEIARRTVAKYRESLDIPPAHKRK 448 >UniRef50_B0S8M7 DNA-directed RNA polymerase sigma-54 subunit n=6 Tax=Leptospira RepID=B0S8M7_LEPBA Length = 473 Score = 416 bits (1070), Expect = e-115, Method: Composition-based stats. Identities = 151/477 (31%), Positives = 262/477 (54%), Gaps = 12/477 (2%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 + L R +Q+L MT L+Q+I LL LSTLEL ++Q L NPLL+++ E+ E Sbjct: 3 LGASLSHRQTQKLVMTQDLRQSIELLSLSTLELSDKIQNELLENPLLDELGVDEKTKMPE 62 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYT-AGTPSGTSGDYIDDELPVYQGETTQT 119 + + + L E D +W Y+ G + S ++ + +T Sbjct: 63 LFSIDEVKRLEKLNH-----EKSTDVNWQDSYSLEGPRTYDSEASDRNQKYIESSTRGET 117 Query: 120 LQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVL 179 L+++L+ Q+ L + + I ++ +D+ G++T L + + +G E ++ VL Sbjct: 118 LEEHLLNQLRLIKLTKLEFEIGEVLISMIDDKGFITDDLTLVAKEMGYPE---PKLRRVL 174 Query: 180 KRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVT 239 + I DP+G+ AKD+++ LLIQ L +I + L L D++ + + Sbjct: 175 QVINELDPIGIGAKDMQETLLIQGRILFPENTLLH---QLIGEFLSDLEKVDYKKIAKNL 231 Query: 240 RLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQI 299 ++ E+ + LI+ L+P P + Q + +YV+ DV+V++ + + +N + +P+L I Sbjct: 232 KITEEEILSLARLIKKLEPYPATTYQGRKIDYVVADVVVKEVGNEFNIFINDEWLPKLTI 291 Query: 300 NQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE 359 + Y + + ++ ++ A+WLI+S++ R TL RV CI++ Q FF G Sbjct: 292 QEEYKELLGQKLPPKEKEYFQTKYSSAQWLIRSIQQRRQTLQRVVSCIIDFQVDFFRGGI 351 Query: 360 EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTA 419 ++KP+ L ++A+ + +HESTISR+TT KY+ + GIFELK+FFSS V + GG+ SS Sbjct: 352 GFIKPLTLKEVAEKLGLHESTISRITTNKYIQTTWGIFELKWFFSSGVKSAEGGKESSKK 411 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 I +++ L+ E+ PLSD + L+ ++GI +ARRTVAKYR+ L I PSN+RK++ Sbjct: 412 IHEIIRNLVKEEDEQNPLSDQDIVELMEKKGIEIARRTVAKYRKVLRILPSNERKRI 468 >UniRef50_A6DS74 Putative uncharacterized protein n=1 Tax=Lentisphaera araneosa HTCC2155 RepID=A6DS74_9BACT Length = 470 Score = 416 bits (1069), Expect = e-114, Method: Composition-based stats. Identities = 133/474 (28%), Positives = 242/474 (51%), Gaps = 11/474 (2%) Query: 5 LQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDS 64 + Q+ + P ++ +L L +ELQQ++ + L NP LE E + Sbjct: 7 QSQTMRQEQTLAPHQLLSLEILSLPVMELQQKINEELALNPTLELDKALGENLAGDPLSE 66 Query: 65 ETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYL 124 T T++A+ + E L ++ Y + Q L +L Sbjct: 67 STEMTSEAMNAVDKDESLIGMVQLESYYGDSAFNPDQDKKRQHYFDSL--SCEQDLSSFL 124 Query: 125 MWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQR 184 + Q+ SD D IA I+ +++ GYL +E++ + + + VL+ +Q Sbjct: 125 LSQIHQGEISDEDIEIANVIIALLNDRGYLNASIEEVA---FNAMCPLKDASRVLELLQT 181 Query: 185 FDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKED 244 FDP G+AA+DLR+CLLIQL ++ HL+ L + + + R ++ Sbjct: 182 FDPPGIAARDLRECLLIQLK-----NEKGSLIYRLVDKHLEKLEKNKIKEIARSLKISPI 236 Query: 245 VLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYA 304 +++ + +Q L+P PG + P+++ PD++ + V + D +PRL++++++ Sbjct: 237 EVQDLIEYLQRLNPAPGLAYSNKRPDFISPDIIFELKDDEIEVTSSKDFVPRLRLSENFM 296 Query: 305 SMCNNAR-NDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMK 363 +M + + ++R L +++ L+ SL+ R TLLR+SR + Q++FF ++ Sbjct: 297 NMLEDPKVEAETKTYLREKLAESRSLLASLDLRESTLLRISRLVARDQKSFFTGKSSSLQ 356 Query: 364 PMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRAL 423 P+ + +I+ +E+HE+TISR KYL SP+GIF L+ FF+ V G E ++ I+ + Sbjct: 357 PVTMREISGELELHETTISRAVAGKYLDSPKGIFPLRDFFNHAVKVNEGEEMTAEGIQEI 416 Query: 424 VKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQLV 477 ++++I E+P KP+SD K+ + L E GI +ARRTVAKYRE+ +++RK + Sbjct: 417 IREIINDEDPEKPISDGKILTQLEEMGINIARRTVAKYREAAGFSAASKRKMIF 470 >UniRef50_Q0EWW0 DNA-directed RNA polymerase subunit N n=1 Tax=Mariprofundus ferrooxydans PV-1 RepID=Q0EWW0_9PROT Length = 464 Score = 415 bits (1067), Expect = e-114, Method: Composition-based stats. Identities = 153/478 (32%), Positives = 269/478 (56%), Gaps = 23/478 (4%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M+ L +L Q+LA+TPQL Q++++L ++++EL L++++ESNP+L+ D + T Sbjct: 1 MQTKLAHKLGQRLALTPQLTQSLKVLAMNSMELDAYLEESIESNPMLDI-DFNATPTTDA 59 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 + L+ ++ + +E D W+T+Y S D + Q+L Sbjct: 60 AGEERALEISEQDQWRE-----QGDNRWETMY-------ASASRDDYNEREPLWQQEQSL 107 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDE-EIDIDEVEAVL 179 + L QV+ P S+ + IA ++D++D+ GY + + + + DE D + V+ VL Sbjct: 108 SESLHEQVDRQPMSEAEHRIAHMLIDSLDDDGYFRLGTDAFVREVADEITTDAEAVDNVL 167 Query: 180 K-RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRV 238 IQ+ DP G+ A+DL +CLL+QL + W++ ++ + D L D L Sbjct: 168 HNVIQQLDPSGLGARDLTECLLLQLDGSQEIDIWVK---RLLLHYSDKLLLPD-DELAAA 223 Query: 239 TRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKH-NGHWTVELNSDSIPRL 297 + ++ A + ++ LDP PG ++ E Y+ P+++ R++ N V++ + Sbjct: 224 ADCDVETVQLARSRMRRLDPFPGHGLRGEENYYIRPEIVFRRNSNNDIEVDIPGTGWRGI 283 Query: 298 QINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQ 357 ++N+ + ++ +F+ +++AKWL+ +L+ R++TL++V+ C+ E+Q+AF E Sbjct: 284 RLNEQWKEHEWKGKD---KEFMSQAMKEAKWLLHALDQRSETLMKVALCLAERQRAFLEY 340 Query: 358 GEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASS 417 G +KP+ L D+A+ V +HESTISRVT KY +P G+ EL+ FFS+ + T GGG S Sbjct: 341 GILGLKPLTLQDVAEDVGLHESTISRVTNSKYAETPIGLIELRRFFSAGLPTRGGGTISV 400 Query: 418 TAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 ++ VK LI +E +P+SD + L +GI +ARRTVAKYRE L +PPS+QR++ Sbjct: 401 YRVQQRVKALIDSEPAGRPISDQAIADRLQAEGIEIARRTVAKYREQLGLPPSSQRRR 458 >UniRef50_C6VM89 RNA polymerase factor sigma-54 n=5 Tax=Lactobacillaceae RepID=C6VM89_LACPJ Length = 445 Score = 411 bits (1057), Expect = e-113, Method: Composition-based stats. Identities = 129/481 (26%), Positives = 230/481 (47%), Gaps = 46/481 (9%) Query: 1 MKQGLQLRLSQ--QLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDT 58 + G + + Q +LAMT +LQQ+I++LQ + EL+ L Q NPL++ Sbjct: 3 LGPGFRQQQRQSQKLAMTQRLQQSIQMLQFNVEELRDFLTQKALENPLIDV--------- 53 Query: 59 RETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQ 118 D +W+ + A + + D + Sbjct: 54 --------------------------DTNWNNNH-ASLNAAKNVTTKADFIERVSTSNQH 86 Query: 119 TLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAV 178 +L +YL+ Q+ LT R I +++ VD GYL + + + I E+ Sbjct: 87 SLFEYLLDQIHLTMRDTHLRQIVLYLIEYVDVNGYLRIDERQVRQETKATPI---ELLDA 143 Query: 179 LKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRV 238 + +Q+ DP GV A+ L++ L++Q A +++ + D L N + L + Sbjct: 144 ITLLQQLDPPGVGARSLQEALMLQTEN---DDHAPNLAYIVLEESFDELVNRQWDLLAKK 200 Query: 239 TRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQ 298 ++ + + +++L P PG +I Y+ PD++V G + S + P ++ Sbjct: 201 YQVTLADISSIYDYVRTLTPVPGAAIGQETTGYIFPDLVVTNQGGQLALRTASMAQPVVK 260 Query: 299 INQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQG 358 Y + +++++ + W+ SL+ R T+ RV I+E+Q FF + Sbjct: 261 FRSRYYQQMGQHDDQEVTEYLKEKKSEYDWIANSLQQREATIFRVGTAIIERQADFFLEK 320 Query: 359 EEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVN--TEGGGEAS 416 ++P++L D+AQ +++HESTISR KY+ + G+FELK FF+ V+ GG S Sbjct: 321 TTDLRPLLLRDVAQQLKVHESTISRSINGKYIQTDFGMFELKRFFTKAVSKRPTGGKIVS 380 Query: 417 STAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 + +++ + LI EN KPLSD K+ +L+ + + ++RRTVAKYRE+L+IP S++RKQ Sbjct: 381 ADSVQHRIVTLIEQENKEKPLSDQKIVQILNAENVELSRRTVAKYRENLNIPSSSRRKQY 440 Query: 477 V 477 + Sbjct: 441 L 441 >UniRef50_Q5WDK1 DNA-directed RNA polymerase sigma-54 factor sigma-L n=1 Tax=Bacillus clausii KSM-K16 RepID=Q5WDK1_BACSK Length = 445 Score = 410 bits (1054), Expect = e-113, Method: Composition-based stats. Identities = 146/481 (30%), Positives = 234/481 (48%), Gaps = 46/481 (9%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M+ GL R + L MT +L+QA+ LLQ S++++ L++ NPLLE + RE Sbjct: 1 MEIGLLQRQTTSLVMTQELRQALHLLQYSSVDVIAYLREQALENPLLELHEQSTLSRERE 60 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQ-- 118 GT DD+ Q + Sbjct: 61 LV--------------------------------GTRPIRQPMSSDDKQAALQNVAQRGR 88 Query: 119 TLQDYLMWQVELTP-FSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEA 177 TL D L Q+ +P S+ D+ T ++ + E GYL L + D I E E Sbjct: 89 TLADELYEQLIESPTLSENDKCELTYLIGNLREDGYLGEALPQL---CADRNITESEGER 145 Query: 178 VLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMR 237 +L +Q F+P GV A+ L +CL +QL + P A I+ +HL+ LA ++ L + Sbjct: 146 LLAILQSFEPAGVGARSLGECLALQLKRMPDCHPL---AIDIVLNHLEALAARKWKQLAK 202 Query: 238 VTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHN-GHWTVELNSDSIPR 296 + ++ + ++ LDP+PG YV PDVL+ K G V +N D +P Sbjct: 203 QYGVAVQDIQHLYDQLKELDPKPGLRYSKETAIYVQPDVLMAKDESGKLLVFMNDDILPA 262 Query: 297 LQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFE 356 +++++ Y + S + + Q +WL +SLE R T+ RV+ + Q + Sbjct: 263 IRVHEEYDHLLKQQV--ETSAYAKQKRQHVEWLKRSLEQRQQTVRRVAEVLASMQADYLL 320 Query: 357 QGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEAS 416 Q +KP+ L D+AQ + +HEST+SR T KY +PRG+ ELK FS HV+ + + Sbjct: 321 QPSGVLKPLTLNDVAQVLGIHESTVSRATANKYAQTPRGLVELKTLFSGHVSKSDA-QLT 379 Query: 417 STAIRALVKKLIAAENPAKPLSDSKLTSLLS-EQGIMVARRTVAKYRESLSIPPSNQRKQ 475 + ++ +K++I+ E+ +KPLSD KL L ++G+ ++RR VAKYR+ L I PS++RK+ Sbjct: 380 NHHVKVWLKEMISVEDKSKPLSDQKLAEQLRIDKGVALSRRVVAKYRDELGILPSSKRKR 439 Query: 476 L 476 Sbjct: 440 Y 440 >UniRef50_A5WCB6 RNA polymerase, sigma 54 subunit, RpoN n=3 Tax=Psychrobacter RepID=A5WCB6_PSYWF Length = 581 Score = 410 bits (1054), Expect = e-113, Method: Composition-based stats. Identities = 169/460 (36%), Positives = 279/460 (60%), Gaps = 30/460 (6%) Query: 41 LESNPLLEQIDTHEEIDTRE-----TQDSETLDTADALEQKEMPEELPLDASWDTIYTAG 95 L N L + T +I+ + T ++ A+A ELP+D WD IYT Sbjct: 123 LNENALDDTNKTEGDIEQNQALISITTTADNDLKAEASNLDTSLGELPIDTEWDDIYTHS 182 Query: 96 TPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLT 155 + D + YQG T+ +LQD++ WQ+ + S IA ++DA+D+ G++ Sbjct: 183 PTGLAAPDTQ--GMSDYQGATSVSLQDHIRWQLTFSKLSSVQSLIADYLIDALDDHGFIQ 240 Query: 156 VPLEDILESIGD--------EEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFD 207 + + ++ +S + ++I+++ ++ V++ IQ +P+GV A++L + L IQL D Sbjct: 241 IDMAELKDSFDEMASFYQWQQKIELEHIQQVIELIQSCEPLGVGARNLAESLQIQLRALD 300 Query: 208 KTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTG 267 + TP++ +A ++ +H LL +++ + LM T LK + + A+ LI++L+ PG + Sbjct: 301 ENTPYMRQALRLLDEH-QLLVSNNIKELMSRTGLKNNEISPALELIRTLNAAPGLAFSKA 359 Query: 268 EPEY-------VIPDVLVRKHNGH------WTVELNSDSIPRLQINQHYASMCNNARNDG 314 +P+Y IPDV+V+ + W VELN +++P+L+INQ YAS+ + Sbjct: 360 QPDYGSTPEVYDIPDVIVQLVHNQGGGEAVWKVELNPETLPKLRINQQYASLVKRGDDSP 419 Query: 315 DSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAV 374 D+ ++R NL DA+ I+S+E RN LL+V+ CI++ QQ F QG MKP++L ++A+ V Sbjct: 420 DNVYLRDNLMDARLFIRSIEERNHNLLKVATCIIKMQQDFLLQGATAMKPLILKEVAEEV 479 Query: 375 EMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPA 434 +HEST+SR+TT K + +P+G+F LK+FFSSHV+++ G + SSTAI A+++ LI AE+P Sbjct: 480 GLHESTVSRLTTSKSILTPQGLFSLKHFFSSHVSSDQG-DVSSTAISAMIEALIDAEDPK 538 Query: 435 KPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRK 474 KP+SDS + L +QGI +ARRTVAKYRE+++I S QRK Sbjct: 539 KPMSDSAIKQHLQQQGIDIARRTVAKYREAMNIGSSTQRK 578 Score = 66.4 bits (161), Expect = 2e-09, Method: Composition-based stats. Identities = 66/284 (23%), Positives = 104/284 (36%), Gaps = 35/284 (12%) Query: 2 KQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRET 61 L LS +TPQ+QQAI+LLQLS+LEL+QE+Q L+SNPLLE+++ + Sbjct: 5 SFNLGFNLSTTQKLTPQMQQAIKLLQLSSLELEQEVQMKLDSNPLLERVEDDDIDAEDFN 64 Query: 62 QDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQ 121 E E ++ + D T S D + L Sbjct: 65 SIEELTRLELDAEAQKEVYDPYDDDYGLEYQEGATEDVFSELDGDGLGNLGDLNDLNDLN 124 Query: 122 DYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKR 181 + + T SI D L ++ S+G+ ID + Sbjct: 125 ENALDDTNKTEGDIEQNQALISITTTADND--LKAEASNLDTSLGELPIDTE-----WDD 177 Query: 182 IQRFDPVGVAAKD--------------LRDCLLIQLSQFDKTTPWLEEARLIISDHLDL- 226 I P G+AA D L+D + QL+ ++ A +I D LD Sbjct: 178 IYTHSPTGLAAPDTQGMSDYQGATSVSLQDHIRWQLTFSKLSSVQSLIADYLI-DALDDH 236 Query: 227 -LANHDFRTLMRVT-----------RLKEDVLKEAVNLIQSLDP 258 D L +++ + +++ + LIQS +P Sbjct: 237 GFIQIDMAELKDSFDEMASFYQWQQKIELEHIQQVIELIQSCEP 280 >UniRef50_Q3J1U1 Sigma-54 factor (RpoN2) n=4 Tax=Rhodobacter sphaeroides RepID=Q3J1U1_RHOS4 Length = 444 Score = 409 bits (1051), Expect = e-112, Method: Composition-based stats. Identities = 136/482 (28%), Positives = 225/482 (46%), Gaps = 55/482 (11%) Query: 1 MKQGLQL------RLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHE 54 M G+QL Q L +T QLQQAI LLQ+ EL ++ E NP +E Sbjct: 3 MTPGMQLYTAQSFAQRQSLVVTAQLQQAICLLQMPNAELSSFIESQSEENPFIELRLPPA 62 Query: 55 EIDTRETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQG 114 + P G + D + Sbjct: 63 PV-------------------------------------PSAPLGKTAPEDWDRVAGLAA 85 Query: 115 ETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDE 174 + +L ++ ++ F A A +DA++ G+L P+E++ G + ++ Sbjct: 86 DPGPSLYVHVAAEIARLGFDAPQAAAAQVFLDALEPWGWLGRPMEELAFRAG---LSLEA 142 Query: 175 VEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRT 234 EA+L R+Q+ +P G+ A+ L +CL +Q + TP + Sbjct: 143 AEALLARLQKIEPAGLFARTLAECLQLQAEEQGLLTPLFAAVLAHLPLLAAADLKG---- 198 Query: 235 LMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSI 294 L R + LK + ++ L+P+PG P PD++V + W V+LN ++ Sbjct: 199 LCRACGCGMEDLKAVLRSLRGLNPKPGALFDAAPPPQRPPDLVVSRGAEGWRVDLNRSTL 258 Query: 295 PRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAF 354 P + + A + ++ L AKWL +++E RN T L++ +V +Q+ F Sbjct: 259 PSVVVRSDAAEGFART----AAPYVGERLSVAKWLARAVEHRNQTTLKIGAEVVRRQRGF 314 Query: 355 FEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGE 414 E+G M PM L ++A AV +HEST+SRV++ + +P+G F LK FF++ + G Sbjct: 315 LEEGLARMAPMTLREVADAVGVHESTVSRVSSGLMIATPQGTFPLKSFFTAALAAREGDT 374 Query: 415 A-SSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQR 473 A S+ A+R V++L+ AE+P PLSD + ++S++G+ +ARRTVAKYRE L+IP S QR Sbjct: 375 AGSAAAVRHRVRQLVQAESPDDPLSDDAIAKIISDEGVTLARRTVAKYREQLNIPSSVQR 434 Query: 474 KQ 475 ++ Sbjct: 435 RR 436 >UniRef50_D1PTK8 DNA-directed RNA polymerase sigma subunit RpoN n=8 Tax=Prevotella RepID=D1PTK8_9BACT Length = 525 Score = 407 bits (1046), Expect = e-112, Method: Composition-based stats. Identities = 125/483 (25%), Positives = 229/483 (47%), Gaps = 29/483 (6%) Query: 19 LQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE----------TQDSETLD 68 + Q ++LL++ EL++ + L+ NP LE+ + RE +D Sbjct: 35 MLQ-VKLLEMPLAELEENVLSELDDNPALEERRDDPDDSGRERDGEDGMLSDPEDEPYEQ 93 Query: 69 TADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQV 128 + E++E + D A S D + T++ D L Q+ Sbjct: 94 KTEREEREEALNNALENLGSDDELPAPAGYTGSQGGSDADYEEIVWGDTRSFYDKLKEQM 153 Query: 129 ELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDE---EIDIDEVEAVLKRIQRF 185 + ++ R++ ++ ++D+ G L L+ I + + ++ + +E VL R+Q F Sbjct: 154 GVLVLTEEQRSVMEYLIGSLDDDGLLRKSLDTISDELAIYHNIDVSEEFIEDVLHRLQAF 213 Query: 186 DPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDV 245 DP G+ A+ L++CLL+Q+ + + + R ++ + D + + + +L + Sbjct: 214 DPPGIGARSLQECLLLQIERR-QDSKLTRLMREVVEQYYDEFTKKHWGRIAQALQLTHEQ 272 Query: 246 LKEAVNLIQSLDPRPGQSIQTG---EPEYVIPDVLV-RKHNGHWTVELNSDSIPRLQINQ 301 ++ L+P+PG S+ + + PD L+ GH + +N IP L+++ Sbjct: 273 ADVVHEELRKLNPKPGASLGETLGRNTQQITPDFLIDTDEEGHVSFTINRGRIPELKVSP 332 Query: 302 HYASMCNNARNDGDSQ---------FIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQ 352 ++ M R+ + + ++ A+ I+++ R TL + I+ Q+ Sbjct: 333 SFSDMVKTYRSSKHQMNRQEKEALLYAKQKVEKAQGFIEAVRQRRHTLYVTMKAIINWQK 392 Query: 353 AFFEQGEEY-MKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEG 411 FF+ G+E +KPM+L DIA+ + STISRV+ KY +P G F L++FF+ TE Sbjct: 393 KFFQDGDEADLKPMILKDIAEKTGLDISTISRVSNIKYAQTPWGTFPLRFFFTDGYVTED 452 Query: 412 GGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSN 471 G E S+ I+ ++K+L+ EN P SD L L ++G +ARRTVAKYRE L +P + Sbjct: 453 GEELSTRKIKMVLKELVRKENKKMPFSDEALARELKKKGYPIARRTVAKYREQLGLPVAR 512 Query: 472 QRK 474 RK Sbjct: 513 LRK 515 >UniRef50_A8UBI0 RNA polymerase sigma-54 factor n=28 Tax=Lactobacillales RepID=A8UBI0_9LACT Length = 449 Score = 406 bits (1045), Expect = e-112, Method: Composition-based stats. Identities = 131/479 (27%), Positives = 231/479 (48%), Gaps = 38/479 (7%) Query: 2 KQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRET 61 +Q QQLAMTPQLQQ+I++LQ + +L + L+Q NP + I + T Sbjct: 4 EQNYTQLQKQQLAMTPQLQQSIQMLQYNRKDLVEFLKQKSLENPFI-------SISVKST 56 Query: 62 QDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQ 121 ++ T + ++ + WDT+ +L Sbjct: 57 PRNQGTSTQKYNSNQSRTDQTSNGSVWDTV---------------------ATTPAASLY 95 Query: 122 DYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKR 181 ++ Q+ L+ R + + +D GYLTV LED + + D ++ L Sbjct: 96 ATVIDQIHLSFRETALRDLIIWLAQYLDNNGYLTVSLED---ACTLTQADPLQLLDALTL 152 Query: 182 IQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRL 241 +Q+ +P GV A++L++CL++Q + + A LI+ + + AN + + + + Sbjct: 153 LQQLEPAGVGARNLQECLMLQTERKE---EAPNLAYLILEEEFEAFANRKWECIAKRYAI 209 Query: 242 KEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNG-HWTVELNSDSIPRLQIN 300 ++E + I++L P PG + +Y+ PD+ V+ + V +P + Sbjct: 210 SLSEVQEVSDFIKTLTPHPGAIFSSTPTQYIRPDLSVKVTDEQEIVVSSVKSGLPVIIFQ 269 Query: 301 QHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 + Y ++ S F+ + +WL ++L R DT+L++ IV Q+AFF + Sbjct: 270 KEYYEELKVLKDKEVSTFLTEKQSEYEWLKRTLIQREDTILKIGIAIVNAQKAFFLSEDH 329 Query: 361 YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHV---NTEGGGEASS 417 ++ + L IA+ + +HEST+SR KYL + G+FELK+FF++ + + + G SS Sbjct: 330 PIQSLTLKTIAEELSIHESTVSRAINGKYLTTEFGLFELKHFFTNALLSTSEDHDGAISS 389 Query: 418 TAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 I+ ++ LI E+ KPLSD K+ +L + GI ++RRTV KYRE+L I S +RK+ Sbjct: 390 NQIKKEIQSLIQNEDTKKPLSDQKIVDILQKDGIKISRRTVTKYREALFIASSPKRKRF 448 >UniRef50_A6L093 RNA polymerase sigma-54 n=31 Tax=Bacteroidales RepID=A6L093_BACV8 Length = 489 Score = 406 bits (1045), Expect = e-112, Method: Composition-based stats. Identities = 127/478 (26%), Positives = 236/478 (49%), Gaps = 23/478 (4%) Query: 14 AMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSETLDTADAL 73 ++PQ ++LL+L T+EL++ + + NP LE+ E + T+ E D Sbjct: 18 TLSPQQILVVKLLELPTVELEERIHSEILDNPALEEGKEMPENEDDNTEYVENEDGNTDS 77 Query: 74 EQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPF 133 + + + G + + + L Q+++ Sbjct: 78 NEDFSLGDYSNEDDIPDYKLQEHNRSKEGVAEEIPFSDAV-----SFYEILKDQLQMQEL 132 Query: 134 SDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEE---IDIDEVEAVLKRIQRFDPVGV 190 + R IA ++ ++D+ G L +E I++ + +E+ +L+ IQ FDP G+ Sbjct: 133 TPEQRDIAEYLIGSLDDDGLLRKNMESIMDELAIYRGIYTTEEELNKILEIIQDFDPAGI 192 Query: 191 AAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAV 250 A+ L++CLL+Q+ + +P + II D + +++ + E+ EAV Sbjct: 193 GARSLQECLLLQIQRK-ADSPLKQIELDIIGKCCDEFTRKNKERIIQKLGITEEQYNEAV 251 Query: 251 NLIQSLDPRPGQSIQT---GEPEYVIPDVLVR-KHNGHWTVELNSDSIPRLQINQHYASM 306 + + L+PRPG S+ + +IPD +V + T+ LN+ ++P L++++ + + Sbjct: 252 SDLTKLNPRPGSSLGEAMGKNMQQIIPDFIVETYEDDTITLSLNNRNVPELRLSRQFTEL 311 Query: 307 CNNARNDGDSQ---------FIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQ 357 + + D+Q F++ + A+ I +++ R TLL + I++ Q+ FF + Sbjct: 312 LDEHTRNKDNQSKASKDALMFLKQKVDAAQGFINAVKQRQHTLLTTMQAIIDIQRPFFLE 371 Query: 358 GEEYM-KPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEAS 416 G+E + KPM+L D+A+ + STISRV+ KY+ + GI+ LK+FFS TE G E S Sbjct: 372 GDESLLKPMILKDVAERSGLDISTISRVSNSKYVQTNYGIYSLKFFFSDGYTTEDGEELS 431 Query: 417 STAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRK 474 I+ ++K+ + E+ KP +D +L L +G +ARRTVAKYR+ L+IP + R+ Sbjct: 432 VREIKRILKECVDTEDKEKPYTDDELAETLKTKGYPIARRTVAKYRQQLNIPVARLRR 489 >UniRef50_C9LBN7 RNA polymerase sigma-54 factor n=1 Tax=Blautia hansenii DSM 20583 RepID=C9LBN7_RUMHA Length = 438 Score = 406 bits (1044), Expect = e-112, Method: Composition-based stats. Identities = 124/476 (26%), Positives = 233/476 (48%), Gaps = 40/476 (8%) Query: 3 QGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE-T 61 L+ L Q ++ ++ QA+ +LQ++ +L++ +Q+A+ NP++E +T + D E Sbjct: 1 MELKQELEIQARVSQEMVQAVSILQMTAWDLKEYVQEAMLENPVIELEETTRKQDNEEIV 60 Query: 62 QDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQ 121 + E ++ D + +EL + E L+ Sbjct: 61 RKLEWMENGDYQNKVYYQQELEESNEF------------------------WEENEPDLR 96 Query: 122 DYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKR 181 +YL+ Q+ +I ++ ++DE GYL E+I + +G ++E++ + Sbjct: 97 EYLLEQMAFMDLDKKAASIIRYMIQSLDERGYLLENEEEIADILGR---SLEEIQRARQI 153 Query: 182 IQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRL 241 + +P+GV A +L++CLLIQL + T+ A I+ ++++ + +++ T Sbjct: 154 LCTMEPLGVGALNLQECLLIQLRKKGCTS----LACEIVENYIEEFGKNQLSKIVKKTGR 209 Query: 242 KEDVLKEAVNLIQSLDPRPGQSI-QTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQIN 300 + +A I+ +P+P Y+IPDV+V K ++ + +N P + I+ Sbjct: 210 DLKEIAQACEQIKEQNPKPAGYFPARPYKNYIIPDVIVVKLKDYFEILVNDYDSPEIFIS 269 Query: 301 QHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 Y M + + ++I+ ++ A+WL +E RN TLL+++ I+ Q FF++G+ Sbjct: 270 PFYRQMMRE-QGEETGKYIKEKIRQAEWLKSCIEQRNRTLLQLTEEILRSQTEFFQRGKN 328 Query: 361 YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAI 420 Y+KPM + A+ +++H STISR KYL G+F L +FFSS + + I Sbjct: 329 YLKPMTQKEAAEKLQVHPSTISRAVQGKYLQCTWGMFPLSFFFSSGTDKG------AEYI 382 Query: 421 RALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 + +K++I E+ P SD L L E I ++RRT+AKYR S+ I + RK+ Sbjct: 383 KECLKRIIENEDKKNPYSDRVLAEKLQEMDIDISRRTIAKYRNSMHISEALGRKEY 438 >UniRef50_Q11E47 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Chelativorans sp. BNC1 RepID=Q11E47_MESSB Length = 456 Score = 405 bits (1041), Expect = e-111, Method: Composition-based stats. Identities = 141/478 (29%), Positives = 236/478 (49%), Gaps = 36/478 (7%) Query: 4 GLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQD 63 L + + Q L ++ ++ QA+ +LQ EL L++ +E NPLL D E + + Sbjct: 6 NLGVGVRQSLTISREMVQAVEILQYDREELAAFLREQVEKNPLLRMKDRAEAAPGQGLGE 65 Query: 64 SETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDY 123 D+ D + +G D TL + Sbjct: 66 RWRRDSGD-------------------------RAFATGAAGDAPDIASSIGEEVTLSAH 100 Query: 124 LMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQ 183 L Q+ L + R A ++D+++E GYL + E +G DE++A + +Q Sbjct: 101 LHLQLALVKCTPEVRVRAGQVIDSLEEDGYLRQDPVKLAELLG---CSQDEMDAAIALVQ 157 Query: 184 RFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKE 243 FDP GV A++L +CL +QL + + P A + H DL+ + + L + + E Sbjct: 158 TFDPAGVCARNLAECLQLQLREQGELRP----AMAALLTHTDLIVKGEVKRLAAICGVSE 213 Query: 244 DVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHN-GHWTVELNSDSIPRLQINQH 302 ++ + ++SLDP PG+++ +PDVLV G VELN D IP+L +++ Sbjct: 214 SEVRVMLRKLRSLDPAPGRALDCTPVCPALPDVLVDLTPTGALKVELNPDLIPKLLLDRS 273 Query: 303 Y-ASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEY 361 Y A + + R + ++ ++ L+++L+ R T+LR+ R IV +Q+A+F G + Sbjct: 274 YHAEVSSQIREKDEKSYLDECMRSGALLMRNLDRRFTTMLRICREIVRRQEAYFRHGLSH 333 Query: 362 MKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSH--VNTEGGGEASSTA 419 ++P+ +IAQ + +HEST+SR T KY+ RG+ +K+FFS G +S Sbjct: 334 LRPLTQGEIAQELGIHESTVSRATANKYILCSRGLLPVKFFFSEALGGTGTDGLGHASET 393 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQLV 477 IR +++++ E P K LSD + +LL +GI +ARRTVAKYR L IP S R++L Sbjct: 394 IRRRIREVVDGETPEKILSDDVIAALLHGEGIDIARRTVAKYRSQLKIPSSADRRRLA 451 >UniRef50_B0P364 Putative uncharacterized protein n=3 Tax=Clostridiales RepID=B0P364_9CLOT Length = 434 Score = 404 bits (1039), Expect = e-111, Method: Composition-based stats. Identities = 133/476 (27%), Positives = 225/476 (47%), Gaps = 44/476 (9%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M + L Q ++ Q++++L L EL LQ NPLL+ + Sbjct: 1 MNFSPKTTLVQTQTLSQTQLQSLKILSLDNFELNNFLQNEYIENPLLDYNENSNLPS--- 57 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 W+ + S +D + + Sbjct: 58 ---------------------------WNQYVSYS-----SAKEDEDIYKEIPDFSENGI 85 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 +++L+ Q+ FSD +++D +D+ GY + L+D + G IDI V+ L Sbjct: 86 KEFLLDQLNQRNFSDLQWTAMQTMIDCLDDCGYFKLSLKDFSQWFG---IDISTVKYCLD 142 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 + +P+G+ +KDL CLL QL + TP L II HLD +A T+ + Sbjct: 143 ILSSLEPLGIFSKDLPHCLLRQLEARQELTPELN---QIIRYHLDDIAAGKINTITQKLS 199 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQIN 300 + +++ + I+ L+PRP T +Y++PD+L+ + W + LN I + Sbjct: 200 MSTQDVRKCIAKIRELNPRPISGFLTNSTDYIVPDILIDYQDSSWIIRLNDQWIGNYSLC 259 Query: 301 QHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 +Y +M + +++ ++ R + ++ S+E R +T+L+++ ++E+Q+ +F G Sbjct: 260 DYYLNMMHTSQSPELKEYFRKKYNRVQLIMHSIEQRRETILKITSAVLERQKDYF-TGNS 318 Query: 361 YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAI 420 +KPM LADIA + MH STISR KYL P G+ LK F+S + S + Sbjct: 319 TLKPMTLADIASDISMHTSTISRGIKNKYLQYPFGVVYLKDLFTSSAGKKDNN--SPITV 376 Query: 421 RALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 + +K +IA+ENP KP SDS L++LL ++GI ++RRTVAKYRE + I + RK Sbjct: 377 KKQLKAIIASENPNKPYSDSTLSNLLKQKGIKISRRTVAKYREEIGIKSTYNRKIY 432 >UniRef50_A7B1W8 Putative uncharacterized protein n=1 Tax=Ruminococcus gnavus ATCC 29149 RepID=A7B1W8_RUMGN Length = 442 Score = 404 bits (1039), Expect = e-111, Method: Composition-based stats. Identities = 126/472 (26%), Positives = 238/472 (50%), Gaps = 33/472 (6%) Query: 3 QGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQ 62 GL+L++ Q+ + + + R+LQ++ E+ +Q+ NPL+E + E + Sbjct: 1 MGLELKVEQKQRVYQKQIEQARILQMNAQEIAVYIQEVALENPLIEVEELAEAPLEELVR 60 Query: 63 DSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQD 122 + D + E D W S L + ++L D Sbjct: 61 E-------DMRKSDETGVTASEDTDW------------SYAGGHQLLEDWWTLQEESLVD 101 Query: 123 YLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRI 182 + Q+ P + ++ I + ++D GYL + ++ + E I + E+ + L+ + Sbjct: 102 IIHQQLLTMPIGEKEKKIVEKLAGSLDSRGYLEISVKKLAEYI---PCSVRELRSALEIL 158 Query: 183 QRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLK 242 + +P G+ A DL++CL++QL + + A ++ ++L+ L+ H + + + Sbjct: 159 KSLEPAGIGAADLKECLILQLKRQKDS----RLAITLVKNYLEDLSKHKISAIAKELGEE 214 Query: 243 EDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQH 302 E +++A + I++L+P+PG+ YVIPD++V K +G + ELN L++N+ Sbjct: 215 EAAVRDAFSRIRTLNPKPGRIYGRNTGGYVIPDIIVSKEHGKYIAELNEAVYRELRLNEF 274 Query: 303 YASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYM 362 Y + +++ ++I A+WL +E R+ TL R++ +V+ Q+ F + G++ M Sbjct: 275 YVKL-RDSKEAEVREYIMQKQAQAEWLRACIEQRSHTLQRIADILVDFQRMFLDSGKD-M 332 Query: 363 KPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRA 422 KP+ D+AQ +E++ESTISR KYL G++ L F +G E SS +++ Sbjct: 333 KPIRQKDVAQIMEVNESTISRAVKGKYLQCGWGVYALSDFM-----PKGTEEVSSDSVKL 387 Query: 423 LVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRK 474 +++ I +E+ KPLSD KL L E+GI ++RRTVAKYR ++I + R+ Sbjct: 388 MLRNFIQSEDKKKPLSDQKLAQKLGEEGIQISRRTVAKYRMQMNILDAAGRR 439 >UniRef50_B1HSZ7 RNA polymerase sigma-54 factor n=2 Tax=Bacillaceae RepID=B1HSZ7_LYSSC Length = 428 Score = 404 bits (1038), Expect = e-111, Method: Composition-based stats. Identities = 134/475 (28%), Positives = 235/475 (49%), Gaps = 53/475 (11%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M+ ++ Q+ M+ QL+QAI LLQ ST EL+Q +++ NPL+E + Sbjct: 1 MQLSIKQTQELQIVMSAQLRQAIELLQYSTQELEQYIREQELVNPLIELSEP-------- 52 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 E L + + Y S + + + Sbjct: 53 ----------------TFKEHLQISKTCGRHYNNWHLS---------------TKCEKNI 81 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 +D L QV LT ++ D + I+ +D+ GY ++ + E+E + Sbjct: 82 RDELFQQVRLTFDNEKDIQLLKHIIYHLDDNGYYEQSIQSSYNDL--------EIEKGIH 133 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 +Q P+G+ A++L++CLL+Q + A IIS++L+ LA+++++ + + Sbjct: 134 LLQTIGPLGIGARNLKECLLLQTIYGPNS---PAHADTIISNYLEELAHNNWKKISKELD 190 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQIN 300 + + L+ IQSL P+ IPD++V +G T LN +P++ I+ Sbjct: 191 ISLNDLQIIYLFIQSLQPKLSSLFYQELVHTTIPDIIVDIVDGGITFSLNDYYLPKVSIH 250 Query: 301 QHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 Y + + + + +L D WL+ S+E R +T++ + + ++E+Q+ FF G + Sbjct: 251 ADYFPYIK--AHSSEKSYFKKHLADYHWLVNSIEQRRNTMINIMKALIEKQRKFFLDGLD 308 Query: 361 YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAI 420 ++P+ L +IA +++HEST+SR+TT KY+ + G FELK FSS ++T G S + Sbjct: 309 AIQPLTLREIADQIDVHESTVSRITTNKYVQTAFGTFELKELFSSKLSTANGHSVSQIKV 368 Query: 421 RALVKKLIAAENPAKPLSDSKLTSLLSEQ-GIMVARRTVAKYRESLSIPPSNQRK 474 ++L+ I +EN AKP SD K+ + GI ++RRT+AKYRE +SIP S +RK Sbjct: 369 KSLLSDYIKSENKAKPFSDQKIAEYFNSALGIEISRRTIAKYREDMSIPSSARRK 423 >UniRef50_D1W3B9 RNA polymerase sigma-54 factor n=1 Tax=Prevotella buccalis ATCC 35310 RepID=D1W3B9_9BACT Length = 556 Score = 403 bits (1037), Expect = e-111, Method: Composition-based stats. Identities = 130/478 (27%), Positives = 239/478 (50%), Gaps = 25/478 (5%) Query: 19 LQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHE----EIDTRETQDSETLDTADALE 74 + Q ++LL++ EL++ + L+ NP LE+ + E E D R+ ++ + + + E Sbjct: 83 MLQ-VKLLEMPLTELEESVNAELDDNPALEKAEGDERHEDETDGRDEREEDFAERTEREE 141 Query: 75 QKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFS 134 ++E ++ + D + D D E VY T++ D L Q+ + + Sbjct: 142 REEALDKALENIGRDDEMPDAYGAYHPQDNADYEEIVY--GDTKSFYDKLKEQMMMENLT 199 Query: 135 DTDRAIATSIVDAVDETGYLTVPLEDILESIGDE---EIDIDEVEAVLKRIQRFDPVGVA 191 DT + + ++ ++D+ GYL +E I + + ++ ++E VL +Q FDP G+ Sbjct: 200 DTQKDVMEYLIGSLDDDGYLRKDVESISDELAIYHNIDVTPTQIEEVLYILQWFDPAGIG 259 Query: 192 AKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVN 251 A+ L++CLL+Q+ + + + + +++ D + + +L + L+ Sbjct: 260 ARSLQECLLLQVERRP-ESKLKDILQQVVTRQFDAFTKKHWDKIQANLKLSDLQLRAVQE 318 Query: 252 LIQSLDPRPGQSIQTG---EPEYVIPDVLV-RKHNGHWTVELNSDSIPRLQINQHYASMC 307 I+ L+P+PG S+ + + PD ++ N + + LN IP+L I+ ++ M Sbjct: 319 EIRKLNPKPGASMGETMGRNVQQITPDFIIDVDDNNNISFTLNQGKIPQLTISPSFSDMV 378 Query: 308 NNARNDGDSQ---------FIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQG 358 + +N+ ++ + + + A+ I +++ R TL + I++ Q+ FF G Sbjct: 379 DTYKNNKENMNRQEKEALLYAKQKVDKAQGFIDAIKQRRHTLYITMKAIIDWQRKFFIDG 438 Query: 359 -EEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASS 417 E +KPM+L DIA E+ STISRV+ KY + G F L++FF+ TE G E S+ Sbjct: 439 DESDLKPMILKDIADKTELDISTISRVSNIKYAQTKWGTFPLRFFFTDSYTTEDGEELST 498 Query: 418 TAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 I+ +K++I E+ KP SD L L + G VARRTVAKYRE L + + RK+ Sbjct: 499 RKIKLALKEIIDHEDKRKPFSDEALAKELKKMGYPVARRTVAKYREQLGLSVARLRKE 556 >UniRef50_A3V230 Sigma-54 factor (RpoN2) n=1 Tax=Loktanella vestfoldensis SKA53 RepID=A3V230_9RHOB Length = 445 Score = 402 bits (1034), Expect = e-110, Method: Composition-based stats. Identities = 144/479 (30%), Positives = 242/479 (50%), Gaps = 46/479 (9%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M L Q L TPQLQQAI+LL + LEL +++ E NP +E + Sbjct: 1 MTPNAHLAQKQSLVFTPQLQQAIKLLLFNNLELSNYVEKIAEENPFVEVELPEMRVPAPR 60 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 + + D D + + +TQ Sbjct: 61 VM-----------------------------------ASSQRDPSFDPISLLADRSTQGF 85 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 L QV+ ++RAI +I VD +G+L++P + +++G +D V VL+ Sbjct: 86 AAQLFAQVDDILTEQSERAIGYAIASHVDPSGWLSIPTPLLADNLG---VDDACVCTVLR 142 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 ++Q +P G+ A++L +CL++Q+ D A LII +L L+ L R T Sbjct: 143 KLQSAEPAGLFARNLAECLVLQIVADDPD----RSALLIIMQNLVLVERGAIPELRRKTG 198 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVI-PDVLVRK-HNGHWTVELNSDSIPRLQ 298 + +K + ++ +P+PG ++ PD+L + +G W VELN ++P L+ Sbjct: 199 CSAEEVKRLLRRLREFNPKPGLALSDDVMMSARAPDILAARGQDGEWYVELNGATLPILK 258 Query: 299 INQHYASMCNN-ARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQ 357 +++ ++D D ++R L +A+WL +++ RN+T ++V+ IV Q+AF E Sbjct: 259 VDEVEGRRVRKLVKHDSDQAYVRDTLGNARWLKRAIAQRNETSIKVAAEIVRFQKAFLEH 318 Query: 358 GEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEG-GGEAS 416 G ++M+P+ L +A AV +HESTISRVT+ + +P+G F LK FFS+ ++ +G S Sbjct: 319 GMQHMRPLKLKTVADAVGLHESTISRVTSSLMMQTPQGSFPLKTFFSTAIDLDGTDEGVS 378 Query: 417 STAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 + +R ++ LI AENP+ PLSD + L +G+ +ARRT+AKYR+ IP S+QR++ Sbjct: 379 ARMVREKIRNLIGAENPSGPLSDEFIAQSLQCEGLSIARRTIAKYRKLDKIPSSSQRRR 437 >UniRef50_B3ESG5 Putative uncharacterized protein n=1 Tax=Candidatus Amoebophilus asiaticus 5a2 RepID=B3ESG5_AMOA5 Length = 479 Score = 400 bits (1029), Expect = e-110, Method: Composition-based stats. Identities = 144/492 (29%), Positives = 256/492 (52%), Gaps = 32/492 (6%) Query: 3 QGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQ 62 Q L+L +TPQ Q ++LLQ+ ++++ +QQ L NP+LE + + E +E + Sbjct: 2 QKLRLTQKLTQKLTPQQIQLVKLLQIPSIDINARIQQELAENPVLEPANDNVEY-LQEAE 60 Query: 63 DSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQD 122 D+ +DT E+P++ L ++ + Q Sbjct: 61 DNSAIDTMTVGYIDELPQKNYL--TYRDYEAEERWLRKEASVPNRYSLQEQLLEQL---- 114 Query: 123 YLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEE---IDIDEVEAVL 179 E+ + I ++ +++ GY+ L + + + + EVE +L Sbjct: 115 ------EMLRLDEGQHKIGEYLIGSLETDGYIRRDLAALANDLLLTQYIQTNETEVETIL 168 Query: 180 KRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVT 239 K+IQ FDP G+ A+ L++CLLIQL++ + P A I++ +L + +++ Sbjct: 169 KKIQTFDPPGIGARSLQECLLIQLNRQP-SKPVRNMAIQILNQTFELFTKKHYSQIIKKL 227 Query: 240 RLKEDVL-KEAVNLIQSLDPRPGQSIQTG--EPEYVIPDVLVRKHNGHWTVELNSDSIPR 296 +++ L KEA+ LI L+P+PG ++ + + + + PD LV KHN V LN+ + P Sbjct: 228 AIEDQELFKEALELIAKLNPKPGGTLGSDIQQNQILYPDFLVTKHNQQLEVRLNAYNTPE 287 Query: 297 LQINQHYASMCNNARN-----------DGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSR 345 L++++ Y + ++ S F++ + AKW I++L R TLLR + Sbjct: 288 LRLSRSYIHILETSQKLGKDKKKSPSLQAASSFVKQKAESAKWFIEALNQRKKTLLRTMQ 347 Query: 346 CIVEQQQAFF-EQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFS 404 IV+ Q FF E+ E +KPM+L D+A+ +EM ST+SR+ K + + GI+ LK+FF+ Sbjct: 348 AIVQLQYDFFMEEDESKLKPMILKDVAKIIEMDISTVSRIVNNKSVQTQFGIYPLKFFFT 407 Query: 405 SHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRES 464 ++T G + SS A++ + +LI E+ +P +D +LT++L ++G +ARRTVAKYRE Sbjct: 408 EAISTTMGEDVSSKAVKQALLELIQQESKQQPYADEQLTAMLVDKGYHIARRTVAKYREQ 467 Query: 465 LSIPPSNQRKQL 476 L++P + RK+L Sbjct: 468 LNMPVARLRKEL 479 >UniRef50_B0VJD8 RNA polymerase sigma-54 factor n=1 Tax=Candidatus Cloacamonas acidaminovorans RepID=B0VJD8_9BACT Length = 485 Score = 399 bits (1026), Expect = e-109, Method: Composition-based stats. Identities = 134/489 (27%), Positives = 234/489 (47%), Gaps = 21/489 (4%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQ-------IDTH 53 M+Q L L+ Q+LA+ P++ Q++++L L LEL+ ++Q L +NPLLE Sbjct: 4 MEQYLSLKQKQELALKPKMLQSLKMLALPILELESYIKQELVNNPLLELREEKDEDDIDE 63 Query: 54 EEIDTRETQDSETLDTADALEQK-----EMPEELPLDASWDTIYTAGTPSGTSGDYIDDE 108 + + S ++ +D E E E + +W+ +++ + + Sbjct: 64 SNFEQSTPESSTPIEESDMSENHLETLAEAEELTEILDTWNEYHSSY---EGWSSDSETD 120 Query: 109 LPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDE 168 + ++ + Q+ + + T IVD+ D G+L +I+ Sbjct: 121 HTEALIRYEENGKEKFLEQLFPLELPENEIDFITDIVDSCDSYGFLPKGF-NIVNLAKKY 179 Query: 169 EIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLA 228 I + E + I P G++A+++ +CL+ QL++ K ++S+H + L Sbjct: 180 LITAERAEGLHNIILSLSPKGISARNITECLMAQLTEEQKQN---RILVGLVSEHFENLI 236 Query: 229 NHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVE 288 + ++ + + E+ + A I LDP+PG I + YV PDV ++ +G + + Sbjct: 237 HRRYQKIASAYGVSEETILLAKEQISKLDPKPGLRILSTSAVYVFPDVTMKLIDGKYEII 296 Query: 289 LNSDSIPRLQINQHYASMCNNAR-NDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCI 347 +N P + I+ Y M N + Q++R + AK+LIKS+ R TL RVS I Sbjct: 297 INDHITPNIIISPRYRKMINRGYFDKETMQYVRERINSAKFLIKSIYMRMRTLERVSLSI 356 Query: 348 VEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHV 407 + Q FF G MKP+ A IA+ + ++ESTISRV KY +P GI+ K FF+S Sbjct: 357 INHQYDFFYLGTGQMKPLTYAVIARDLGVNESTISRVVKHKYAETPYGIYAFKDFFTSTA 416 Query: 408 N-TEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLS 466 + S ++ + +LI E+ KP SD +L LL +G+ ++RR + KYR+ L Sbjct: 417 GFDDDYQSVSRQKVKTHLIRLIETEDKKKPYSDQELVELLKAEGLNISRRIITKYRDELG 476 Query: 467 IPPSNQRKQ 475 I S+ R+Q Sbjct: 477 ILNSHLRRQ 485 >UniRef50_C2ME31 RNA polymerase sigma-54 factor n=1 Tax=Porphyromonas uenonis 60-3 RepID=C2ME31_9PORP Length = 492 Score = 399 bits (1025), Expect = e-109, Method: Composition-based stats. Identities = 141/481 (29%), Positives = 237/481 (49%), Gaps = 21/481 (4%) Query: 14 AMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSETLDTADAL 73 +T + Q I+LL+L EL+Q + +E NP LE+ T + +E +D++ + Sbjct: 15 TLTARQIQQIQLLELPVTELEQRISAEIERNPALEEAYTARDDSNESNATNEQVDSSLSQ 74 Query: 74 EQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPF 133 ++ E + D I + +E+P +L DYL Q+ Sbjct: 75 SDQDRLEARNEFGNDDEIPAYRLRMIAEREQQREEIPFAAHGL--SLTDYLDNQLSTLEL 132 Query: 134 SDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEE---IDIDEVEAVLKRIQRFDPVGV 190 ++ + + IV + E GYL L I + + +E E+ +L+ IQ DP GV Sbjct: 133 TERQQLLVPYIVGNLREDGYLDRSLPLIAQDLLLKEGIDASEQELAELLQIIQSLDPPGV 192 Query: 191 AAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAV 250 A+ L++CLL+QL + +++ + A I+S + D A F L + + L+ Sbjct: 193 GARTLQECLLLQLHRMEQSETVVN-AEKIVSSYFDDFAYKRFERLTKR-GFDQKQLEAVS 250 Query: 251 NLIQSLDPRPGQSIQTGEPEY---VIPDVLVRKHNGHWTVELNS-DSIPRLQINQHYASM 306 +LI L P+PG + V PD ++ +H G T+ L IP L ++ Y M Sbjct: 251 SLIHQLSPKPGNGFDSSAETLLSKVTPDFIITEHEGELTLTLTDQREIPALTVSPSYKQM 310 Query: 307 CNNARN---------DGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQ 357 + R+ Q+ R ++DA+W I +L+ R DTL I+ Q+ FF Sbjct: 311 IADYRDASTSERAKLKETIQYTRDRVKDAEWFISALQQRYDTLRTTMTIIMTLQRDFFLS 370 Query: 358 GEE-YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEAS 416 G+ ++PM+L D+A+ + STISRV+ KY+ GI+ +K+FFS + + G + S Sbjct: 371 GDIIDLRPMILKDVAELARLDISTISRVSNSKYVQCQWGIYPVKFFFSESMQAKDGSDVS 430 Query: 417 STAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 + I+ +K++I E+P +PL+D +LT LS QG +ARRT AKYR+ L +P + R++L Sbjct: 431 TKVIKDCLKQIIDGEDPRQPLTDDQLTEELSRQGYDIARRTTAKYRQQLGLPTARLRRKL 490 Query: 477 V 477 Sbjct: 491 T 491 >UniRef50_A4SER6 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Chlorobium phaeovibrioides DSM 265 RepID=A4SER6_PROVI Length = 447 Score = 398 bits (1023), Expect = e-109, Method: Composition-based stats. Identities = 152/478 (31%), Positives = 234/478 (48%), Gaps = 41/478 (8%) Query: 6 QLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSE 65 +L+ Q+ ++ Q + +LLQL L+Q + + L+ NPLLE ++ +E E + S Sbjct: 5 RLQQKQKAQLSTQQIISSQLLQLPLANLEQRIYEELQENPLLEAVEAEKENSLDERERSS 64 Query: 66 TLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLM 125 + + +Q + + L+ Sbjct: 65 ASSGGQSSGEH----------------------------------FFQAVQFDSFHEILL 90 Query: 126 WQVELT-PFSDTDRAIATSIVDAVDETGYLTVPLEDILESI--GDEEIDIDEVEAVLKRI 182 Q+ L + +A I+ +D GY E I++S+ E+D DEVEA+ +I Sbjct: 91 KQLALQENIERGEVEVAIEILGNLDSDGYFVEDPEVIVDSLRIAGLEVDGDEVEAIRLKI 150 Query: 183 QRFDPVGVAAKDLRDCLLIQLS--QFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 DP GVAA DLR+ LL+QL + + A I+ H D + F L++ Sbjct: 151 LHLDPPGVAALDLRERLLVQLHSSRGKASVRVRGVAEAILIHHFDDFIHRRFERLVKKLP 210 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQIN 300 + + + A+N I +LDP PG Q Y+ PD LV NG T LN S ++++ Sbjct: 211 HQPEEIDAAINAIVALDPHPGI-FQDEGGHYISPDFLVSFDNGELTASLNDRSALSVKVS 269 Query: 301 QHYASMC-NNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE 359 Y + + D QFIR N+Q A +LESR TLL+V +++ Q AFF G Sbjct: 270 DRYRDILGKRQGSKEDLQFIRRNMQRANDFASALESRRQTLLKVIESLMKHQYAFFADGP 329 Query: 360 EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTA 419 ++ P+ + IA + STISR KY+ + G+FELKYFF+ + T+ G + SS Sbjct: 330 AFLAPLGMKTIAADTGLDISTISRAANSKYVQTRFGVFELKYFFTGAIQTDDGEDVSSKV 389 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQLV 477 I+ + +I AE P+KPLSD +LT++LSEQG +ARRTVAKYRE + IP + RK++ Sbjct: 390 IKQHLADMIEAEEPSKPLSDDRLTAMLSEQGFQIARRTVAKYREQMQIPVARLRKKIF 447 >UniRef50_B2UL79 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Akkermansia muciniphila ATCC BAA-835 RepID=B2UL79_AKKM8 Length = 465 Score = 398 bits (1022), Expect = e-109, Method: Composition-based stats. Identities = 146/483 (30%), Positives = 257/483 (53%), Gaps = 32/483 (6%) Query: 2 KQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRET 61 + LQ +++Q+A++ +Q +++LQ S LEL+Q ++QALE+NP+LE++ + Sbjct: 3 EVSLQHGMTRQMAVSQSMQTGMQILQASALELRQIIRQALETNPMLEELPDASPEALEDG 62 Query: 62 QDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQ 121 D + + W+ G SG + D ++L+ Sbjct: 63 PDGDA--------------WNEREDGWNEFTAEGRLSGDAAARRDFMYES--VVAPESLK 106 Query: 122 DYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKR 181 +LM Q + + + R ++DA+DE G+LT +++ E + ++E L Sbjct: 107 THLMDQAQHSALTGRARDALFLLIDALDERGFLTESPQELEEQGC---FSMRDMEEALAA 163 Query: 182 IQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRL 241 ++ DP GV A +LRD LLIQL Q A ++ LA H + R+ + Sbjct: 164 LREMDPPGVGAANLRDSLLIQLEQRGLK---RSLAFRLVKRCWRELAAHKYEEAARLLDV 220 Query: 242 KEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHN-GHWTVELNSDSIPRLQIN 300 + + A+ +I+SL P PG + G +++PDV+V + G V L S+ +PRL +N Sbjct: 221 EPGAVAAALEVIRSLTPDPGGAYAPGGNPHLLPDVIVEEGPSGVLEVILTSEYLPRLSMN 280 Query: 301 QHYASMCNN-ARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE 359 + Y + + + Q++R ++ + L+++L+ R +T+LR++R IV +Q+ FF G Sbjct: 281 ERYMELMAEGSGSRELRQYLRRAFREGQELLRALDMRQETVLRLARVIVRRQEDFFRSGP 340 Query: 360 EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGG------- 412 +K M + ++A+ + +H ST+SR KYL G+ EL+ FFS+ V +EGG Sbjct: 341 SRLKAMGMEEVAEEMGVHVSTVSRACRDKYLLCRWGMKELRSFFSAGVPSEGGVSPDGAA 400 Query: 413 -GEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSN 471 G ++ A++ L+++LIA E+ +KPLSD+ L + L E+G+ +ARRTVAKYRE + I P++ Sbjct: 401 SGAVAAGAVQELMRRLIAEEDSSKPLSDAGLAAALREKGVNIARRTVAKYREQMKILPAS 460 Query: 472 QRK 474 R+ Sbjct: 461 LRR 463 >UniRef50_D1CE57 RNA polymerase, sigma 54 subunit, RpoN n=2 Tax=Bacteria RepID=D1CE57_THET1 Length = 478 Score = 396 bits (1019), Expect = e-109, Method: Composition-based stats. Identities = 136/496 (27%), Positives = 245/496 (49%), Gaps = 43/496 (8%) Query: 1 MKQGLQLRLSQQLAM--TPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTH----- 53 M+ + +Q++ + +P L +A +L LS EL+Q + L NP LE +D Sbjct: 3 MQMSQEQNQAQEMTIKASPSLIEANYILSLSLPELRQTILNELSQNPALELVDHETCPFC 62 Query: 54 EEIDTRETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQ 113 E+ ++ + + + + E+L D+ + Y+A + S S D DD P+ Sbjct: 63 GEVMVGGKCENCSREDSKTDHTDTVNEDL--DSLYYESYSATSRSLVS-DDEDDFDPMSI 119 Query: 114 GETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDID 173 + Q + L + + + D IA +++++DE GYL PL+ I +G D+ Sbjct: 120 VASEQDFHESLRSDLH-SILPEEDYEIADYLIESLDENGYLRQPLDAIARELGR---DVQ 175 Query: 174 EVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWL-EEARLIISDHLDLLANHDF 232 VE VL+R+Q P GV A++L++CLL+QL ++ + E R I+ ++++ L +H + Sbjct: 176 RVEWVLQRLQEIAPAGVGARNLQECLLLQLRYLEQEGEIIPEYVRAILENYIEELGSHKY 235 Query: 233 RTLMRVTRLKEDVLKEAVNLIQ-------SLDPRPGQSI-QTGEPEYVIPDVLVRKHNGH 284 + R + + + EA I+ SLDP G++ Y+ PDV++ + G Sbjct: 236 GYIARKLKTSPEKVAEARQFIKQKLSPYPSLDPAVGRTWKSPSRSTYISPDVIIFEREGK 295 Query: 285 WTVELNSDSIPRLQINQHYASMCNNAR------NDGDSQFIRSNLQDAKWLIKSLESRND 338 VE+ L+++ Y + + ++ + I+ + K I ++ R Sbjct: 296 LEVEVVEGRQFELRLSPAYQQIAKDLEAHPNSYSENERTHIKEYISRTKMFISNVNQRRK 355 Query: 339 TLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSP-RGIF 397 T+ +++ +VE Q+ F G ++KP+ A +A + +HEST+SR T KY+ P R + Sbjct: 356 TIYKIASALVELQEDFIRYGVRHLKPLTRAMLADYIGVHESTVSRATAGKYVMLPNRKVI 415 Query: 398 ELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRT 457 FF++ ++ I+ ++K++I +E+ A L+D ++ L E+GI VARRT Sbjct: 416 PFSDFFTASLS-----------IKDVIKEIIMSEDKA--LTDRQICDKLRERGIRVARRT 462 Query: 458 VAKYRESLSIPPSNQR 473 VAKYR L I PS R Sbjct: 463 VAKYRAELGILPSTLR 478 >UniRef50_C4GJ01 Putative uncharacterized protein n=1 Tax=Kingella oralis ATCC 51147 RepID=C4GJ01_9NEIS Length = 453 Score = 396 bits (1018), Expect = e-109, Method: Composition-based stats. Identities = 157/484 (32%), Positives = 251/484 (51%), Gaps = 43/484 (8%) Query: 2 KQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRET 61 +QL+L Q ++ +QQ++R+LQ+S +E+++E++ L NPLL++++ E+ Sbjct: 3 STNIQLKLRQTQQLSQNMQQSLRVLQMSGIEIEREVEDWLADNPLLDRVEQPEKTYEPPQ 62 Query: 62 QDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQ 121 ++ +L DD +TL Sbjct: 63 TTADIAKRGVSL------------------------------DDDDSSAWENLAQEETLN 92 Query: 122 DYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDE-EIDIDEVEAVLK 180 YL QV P + ++ A ++D +D+ GYLT +E+I+E E ++ D++E L+ Sbjct: 93 AYLHKQVAEHPLTPSEAARVHILIDFLDDKGYLTESIEEIIEHTPLEWMLEEDDMEIALE 152 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 ++ FDP G+A DL LL QL + + A II+ HLD + + + L R ++ Sbjct: 153 HLRAFDPAGIATPDLTQSLLYQLDRLPL-SEARRCAAQIITRHLDQITQNTPKNLNRFSK 211 Query: 241 L----KEDVLKEAVNLIQSLDPRPGQSIQTGEP-EYVIPDVLVRKHN-GHWTVELNSDSI 294 L E VL++A+ +I +L P P + EP +YV PDV V+K++ G W N +S+ Sbjct: 212 LLPEYSETVLRDALEIITNLRPYPSYGFASEEPTQYVRPDVFVQKNDKGEWYAISNEESL 271 Query: 295 PRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAF 354 P+++IN R + AK I L+ R T+LRV+ I+ QQ F Sbjct: 272 PQIKINTEIIEALQ--EESNLDPIWREKINGAKQKIDMLQQRKSTILRVAEYILAHQQDF 329 Query: 355 FEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVN---TEG 411 F GE + PM+L D A+ +E+ ESTISR + KYL P+G+F L+YFFS + +E Sbjct: 330 FYFGEIGLVPMLLKDCAKHLELAESTISRAVSNKYLACPQGLFALRYFFSQNAAINDSET 389 Query: 412 GGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSN 471 G S+ AI++++ +++ E+ KP SD L LL +QGI +ARRTVAKYRE L IP Sbjct: 390 GNAISANAIKSVIAQIVEHEDKTKPHSDCSLHRLLQQQGINIARRTVAKYREQLGIPTVQ 449 Query: 472 QRKQ 475 QR++ Sbjct: 450 QRRE 453 >UniRef50_C8WN98 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Eggerthella lenta DSM 2243 RepID=C8WN98_EGGLE Length = 474 Score = 396 bits (1017), Expect = e-108, Method: Composition-based stats. Identities = 142/482 (29%), Positives = 234/482 (48%), Gaps = 25/482 (5%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M+ + + + P Q + +L L L ++ +E NPLL+ H + E Sbjct: 11 MEARSNVSVRTKQHFAPTAIQGLEVLSLPVARLDAYVRDLVERNPLLDFDYDHGSLSFEE 70 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVY--QGETTQ 118 D E D A E + A PS + D +L + T+ Sbjct: 71 LPDEEDGDAAADAETAAEG------------FDARPPSAIAWDARGFDLARLRDECSQTE 118 Query: 119 TLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAV 178 TL ++ Q+ + DRA+ ++++ +D+ GY + + + G I++ + + Sbjct: 119 TLHSHVRMQLTGVRVGEEDRALLDALIENIDDDGYFSGSMHALCAEAGR---SIEDGQRL 175 Query: 179 LKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRV 238 L+ +Q+ P GV A+DL +CL +Q+ D P+ + R ++ LD LA + LMRV Sbjct: 176 LELVQQLSPRGVGARDLAECLALQI---DDGLPYADVIRDMLRTGLDDLAENRTTKLMRV 232 Query: 239 TRLKEDVLKEAVNLIQSLDPRPGQSIQTGE-PEYVIPDVLVRKHNGHWTVELNSDSIPRL 297 L D L +I +LDPRPG S + YVIPD+ +R+ ++V++ + L Sbjct: 233 YHLTIDDLAAIREVICTLDPRPGSSFSQRKGTVYVIPDITIRRDGTAFSVQVTGELSETL 292 Query: 298 QINQHYASMCNNAR-NDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFE 356 +N Y M +D +++ +A + +++ R TL R + E Q FF Sbjct: 293 VLNGSYDRMEQRGGMDDEAREWLHEKRAEADAALANIDQRRQTLHRFGVYLAEVQYDFFM 352 Query: 357 QGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHV---NTEGGG 413 GE M+P+ + A A+ +H STISR KY +P G+F LK+FFSS V E Sbjct: 353 GGEARMRPLTMQQAADALGVHVSTISRTVQDKYALTPWGVFPLKHFFSSSVACTAEERRH 412 Query: 414 EASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQR 473 SS AI+ +K L+A E+ PLSD+ +T++L+ +G+ + RRTVAKYRE+L I +QR Sbjct: 413 ALSSLAIKDRIKDLVAQEDRRTPLSDATITAILNGEGVDIKRRTVAKYREALGIGRQSQR 472 Query: 474 KQ 475 ++ Sbjct: 473 RR 474 >UniRef50_Q01194 RNA polymerase sigma-54 factor n=7 Tax=Rhodobacter RepID=RP54_RHOSH Length = 434 Score = 395 bits (1016), Expect = e-108, Method: Composition-based stats. Identities = 135/476 (28%), Positives = 224/476 (47%), Gaps = 48/476 (10%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M R + QLAMT ++Q+++R+LQ+S +L L NP LE Sbjct: 1 MDMMQFQRQTTQLAMTQRMQESLRILQMSNADLADYLTAQALENPCLEVRVPEGASVAPA 60 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 PS +D + +L Sbjct: 61 L-----------------------------------PSRGIQAGLDRDAFATVEGQPPSL 85 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 ++ Q++L F DR A + +A++ +G+L P+ E E++ +E +L+ Sbjct: 86 LAHVEAQIDLAFFDPGDRRTALAFAEALEPSGWLGQPV---SEVAAAAEVEEEEALVILE 142 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 R+Q +P G+ A+ L +CL +QL T L + DHL LLA L R Sbjct: 143 RLQALEPAGLFARSLAECLALQLEDLGLLTWELRT----MLDHLPLLAEGRIADLARRCD 198 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQIN 300 + + ++E + LI+SL P+PG++ PDV V + W VEL +PR++++ Sbjct: 199 CEPEHIRENLALIRSLSPKPGEAFAADRTPIQPPDVRVLRGPEGWEVELTRAQLPRIRVS 258 Query: 301 QHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 + + + ++ A+WL +++E R TLLR + C+V Q F +QG Sbjct: 259 E-----AGDTGDRQADAWLARARSQARWLERAVERRQATLLRTAVCLVRHQADFLDQGPR 313 Query: 361 YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGE-ASSTA 419 ++P+ + ++A +++H STISR T + + +PRG+ L+ FFS V+++G S A Sbjct: 314 ALRPLSMEEVALELDLHPSTISRATATRLIETPRGLIPLRAFFSRSVSSDGPEAPQSQDA 373 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 + ALV+++IA E+ KP SD + G ++ARRTV KYRE+L IP S RK+ Sbjct: 374 LMALVREIIAREDRTKPFSDDAIVKQAKLAGAVLARRTVTKYRETLGIPSSYDRKR 429 >UniRef50_UPI000169A703 RNA polymerase sigma-54 factor n=5 Tax=Enterobacteriaceae RepID=UPI000169A703 Length = 353 Score = 394 bits (1014), Expect = e-108, Method: Composition-based stats. Identities = 280/351 (79%), Positives = 318/351 (90%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 MKQGLQL+ SQQLAMTPQLQQAIRLLQLSTLELQQE+Q ALESNPLLEQ D HEEID +E Sbjct: 1 MKQGLQLKFSQQLAMTPQLQQAIRLLQLSTLELQQEIQLALESNPLLEQTDLHEEIDAKE 60 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 T DSE+LDT +ALEQK+MPEELPLDA+WD IYTAGTPSG DY DDELPVYQGETTQTL Sbjct: 61 TVDSESLDTREALEQKDMPEELPLDATWDEIYTAGTPSGMGNDYSDDELPVYQGETTQTL 120 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 QDYLMWQV+LTPF++TD AIATSIVDAVD+TGYLTVPLEDILES+GDE + +DEVEAVLK Sbjct: 121 QDYLMWQVDLTPFTETDAAIATSIVDAVDDTGYLTVPLEDILESMGDENVALDEVEAVLK 180 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 RIQ FDP+GVAA++LR+CLL+QLSQ+ K TP+L EARLI+S++LDLL NHDFR ++R++R Sbjct: 181 RIQHFDPIGVAARNLRECLLVQLSQYAKDTPYLAEARLIVSEYLDLLGNHDFRMMIRLSR 240 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQIN 300 LKED LKEA+ LIQSLDPRPGQSI TGE EYVIPDVLVRK G WTVELN+DSIPRL++N Sbjct: 241 LKEDTLKEAIALIQSLDPRPGQSINTGESEYVIPDVLVRKEKGIWTVELNADSIPRLKVN 300 Query: 301 QHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQ 351 Q YA+M N+ RND D QFIRSNLQ+AKWLIKSLESRN+TLL+V+RCIVEQQ Sbjct: 301 QQYAAMGNSVRNDSDGQFIRSNLQEAKWLIKSLESRNETLLKVARCIVEQQ 351 >UniRef50_C9LEP5 RNA polymerase sigma-54 factor n=1 Tax=Prevotella tannerae ATCC 51259 RepID=C9LEP5_9BACT Length = 491 Score = 391 bits (1006), Expect = e-107, Method: Composition-based stats. Identities = 137/480 (28%), Positives = 239/480 (49%), Gaps = 24/480 (5%) Query: 15 MTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQI--DTHEEIDTRETQDSETLDTADA 72 ++ RLL+L ++L+Q ++ LE N LE++ D +EE ET +++ ++ A Sbjct: 17 LSAVQVAMARLLELPVMDLEQRVRNELEDNAALEEVGPDKNEEDMAAETTEADDNESETA 76 Query: 73 LEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTP 132 ++ +E + D I + + +L D L Q+ Sbjct: 77 EDEPHADDETADYLTEDDIPDYLLRQRNEAEEREVQLAATNNA-----YDELYRQIGEHD 131 Query: 133 FSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDE---EIDIDEVEAVLKRIQRFDPVG 189 + R I ++ ++D GYL L I + + ++ +E+E +L +QRF+P G Sbjct: 132 LDEQQRRIMEYLIGSLDNDGYLRKDLRTIGDELAIYQNLDVSEEELERLLHLLQRFEPRG 191 Query: 190 VAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEA 249 + A+DL++CL +QL + + + A I+ H + T+ + ++ L++A Sbjct: 192 IGARDLQECLRVQLESPEFKSSFKALAIAIVDRCFKDFTYHHWNTIKVRLKTDDESLQQA 251 Query: 250 VNLIQSLDPRPGQSIQTGE---PEYVIPDVLVR-KHNGHWTVELNSDSIPRLQINQHYAS 305 LI+ L+P+PG ++ IPD V + +G +V LN+ +P L++++ + Sbjct: 252 AQLIRRLNPKPGSALNETTIGTAPTAIPDFYVHVEDDGSISVRLNNGDVPELRVSKAFKD 311 Query: 306 MCNNARNDGDSQ--------FIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQ 357 D + R + DA+ ++ + R TL+ V R IVE+Q+ FF Sbjct: 312 TVREFGGHKDLNKSQRDAYVYARKKVGDAQLFLELINRRRKTLMGVMRGIVERQRDFFLN 371 Query: 358 GEEY--MKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEA 415 ++ + PM L D+A+ + ST+SRVT KY+ + RG++ LK+FFSS + G E Sbjct: 372 DDDEMLLVPMTLRDVAEKAGVDISTVSRVTGSKYVQTQRGLYPLKFFFSSQFTSGEGEEL 431 Query: 416 SSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 SS +A +++ IAAE+ PL+D LT ++ E+G ++RRTVAKYRE L IP S RKQ Sbjct: 432 SSRQAKAALREAIAAEDKRHPLADEALTIVMKEKGFPISRRTVAKYREQLGIPKSGLRKQ 491 >UniRef50_C0QWG2 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Brachyspira hyodysenteriae WA1 RepID=C0QWG2_BRAHW Length = 434 Score = 391 bits (1006), Expect = e-107, Method: Composition-based stats. Identities = 129/475 (27%), Positives = 239/475 (50%), Gaps = 52/475 (10%) Query: 2 KQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRET 61 ++ + L + Q + + ++ L +EL++++++A+E NP LE Sbjct: 9 NTSIRTAIKNDLRLNYQTRVWLDVIALPAIELKEKIEKAMEENPFLEY------------ 56 Query: 62 QDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQ 121 + ++G I+ + ++L Sbjct: 57 ----------------------------DFNDNYSKPSSAGSDINSIIENTVENNKESLF 88 Query: 122 DYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKR 181 +L Q+++T + +A I ++E GYLT+ ++I + DI ++E ++ Sbjct: 89 SHLKSQIDITFNDKKEIELAEQICSFINEDGYLTIESDEISNILN---ADIKQIEKIISI 145 Query: 182 IQRFDPVGVAAKDLRDCLLIQLSQFDKT---TPWLEEARLIISDHLDLLANHDFRTLMRV 238 I+ FDP GV AK++ +CL IQL K + A I+ ++LD L+ ++ + Sbjct: 146 IKTFDPYGVGAKNINECLSIQLKMKKKEADEKEIYDTAINIVENYLDELSKKNYDKIALN 205 Query: 239 TRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQ 298 ++ + + +A+ LIQ+L+P P + T +Y++P++ + K N +W V+ + IP L+ Sbjct: 206 LNIEVNTVLKALKLIQTLEPYPAREYDTSSVKYIVPELFIFKENDNWFVKTDETFIPHLK 265 Query: 299 INQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQG 358 I++ Y + + + F++ ++A+ LI + R TLL++ +++ Q FFE G Sbjct: 266 ISKKYIKLLDREESKDSINFLKEKKKEAESLINASNDRKKTLLKIGEALLKFQINFFEYG 325 Query: 359 EEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASST 418 +E+MKP+ L D++ V + ESTISR+ KYL++ G F +KYFFS VN G S Sbjct: 326 KEFMKPLTLKDMSLEVNLSESTISRIANGKYLNTVWGTFSIKYFFSRAVN----GGLGSR 381 Query: 419 AIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQR 473 ++ ++K++I EN LSD K+ +L +GI ++RRTVAKYR+S++I S R Sbjct: 382 GVKEIIKRII--ENSPAKLSDEKIRLILKSEGIDISRRTVAKYRKSMNIFSSRNR 434 >UniRef50_B0NX39 Putative uncharacterized protein n=1 Tax=Clostridium sp. SS2/1 RepID=B0NX39_9CLOT Length = 431 Score = 387 bits (995), Expect = e-106, Method: Composition-based stats. Identities = 124/474 (26%), Positives = 233/474 (49%), Gaps = 46/474 (9%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M ++L + Q++++L EL++ LQ NPL+E ++ +E Sbjct: 1 MSYEMKLEQGLSQQLNQFQVQSLKILSFDNYELEKFLQDEYAENPLMEHKESGKEF---- 56 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 T G +G Y D E + + + Sbjct: 57 ----------------------------------FTLHGNAGGYQDIEQSDIEDKKIEDP 82 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 + + M Q+ ++ + + + ++E+G L V ++I +G I+ + E +L Sbjct: 83 EAFFMEQLNAKDYTKKEWNVMKYMAQCLEESGLLLVSTKEISHKLG---IEEKDCERLLD 139 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 +++ +P GV A+ + +CLL+QL + ++ R I+ +HL+ +A T+ R Sbjct: 140 HLKQLEPAGVFAESVSECLLLQLEREGILN---DDLRYIVENHLEDIAMGHLSTVSRALD 196 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQIN 300 +K +++ + IQ L+PRP G +Y++PD+L+ K + LN D I IN Sbjct: 197 IKTSQVRKYIFKIQELNPRPLSGYTGGTDQYIVPDILMEKDGEELKIRLNDDWIGDYSIN 256 Query: 301 QHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 +Y M A + ++ R + +++I S+E R +T+L++S+ I+++Q+ +F + + Sbjct: 257 DYYVKMMEQAEDSELKEYFRKKYERCRFIITSIEQRRETMLKISKAILDRQREYFMK-HK 315 Query: 361 YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAI 420 +KPM + +IA +EMH ST+SR KY+ P G ++ F++ T G ++++ I Sbjct: 316 QLKPMTMQNIADDIEMHVSTVSRAVKGKYIQYPGGTIGMRDIFNN-TQTFGDQDSTTEEI 374 Query: 421 RALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRK 474 + +++L+ E+ KPLSDSK+ SLL + + ++RRTVAKYR L I + QRK Sbjct: 375 KEEIRRLVKEEDKKKPLSDSKIVSLLEQNNMKISRRTVAKYRAQLGIAGTTQRK 428 >UniRef50_C2ECN0 RNA polymerase factor sigma-54 n=1 Tax=Lactobacillus ruminis ATCC 25644 RepID=C2ECN0_9LACO Length = 449 Score = 383 bits (985), Expect = e-105, Method: Composition-based stats. Identities = 131/466 (28%), Positives = 223/466 (47%), Gaps = 49/466 (10%) Query: 13 LAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSETLDTADA 72 LAMT Q+QQ+IR+L+ + +L L NP + +H + +E A Sbjct: 29 LAMTQQMQQSIRILKYGSEDLHNFLSNVELENPFMIVNVSHSYVTGGLDHQNEHDIAEFA 88 Query: 73 LEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTP 132 +E+K Q+L DYLM QV+LT Sbjct: 89 VEKKA----------------------------------------QSLYDYLMDQVKLTM 108 Query: 133 FSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAA 192 R + + +D+ GYL LE + + G ID + L +Q+ DP G A Sbjct: 109 RKTPIRDMVVYFISQLDQNGYLKADLEKLSKEKG---IDKVLMLDALTLLQQLDPPGTGA 165 Query: 193 KDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNL 252 ++L++CL++Q+ + A I+ + + N + + + + +++ ++ Sbjct: 166 RNLQECLILQVQ---YDSSAPLNAEKILKEDFEDFTNRKWSKIAKKHCISIGDVQKILDY 222 Query: 253 IQSLDPRPGQSIQTGEPEYVIPDVLVRKH-NGHWTVELNSDSIPRLQINQHYASMCNNAR 311 +Q+L P PG E Y+ PD+++ K +G V+L +S P ++ + Y N+ Sbjct: 223 VQTLSPAPGAIYDQSEVGYIEPDLVIEKKLDGSLEVKLTKESNPEIRFKKEYYESLKNSS 282 Query: 312 NDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIA 371 + +++ + + + + + R +TLLR+ R IVE+Q FF + +KP +L D A Sbjct: 283 DKHVLDYLKEKRNEFEKIQEDVLMRGNTLLRLGRLIVERQHDFFTESNRPLKPFLLRDAA 342 Query: 372 QAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVN--TEGGGEASSTAIRALVKKLIA 429 Q +++HESTISR + KYL + ELK FFS V+ E G S+ I+ ++ ++ Sbjct: 343 QKLQLHESTISRAVSGKYLLYEGKVMELKEFFSRAVSYAGENGENVSADEIQQKIRLIVE 402 Query: 430 AENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 E+ PLSD K+ + E+G+ V+RRT+AKYRE L IP S+ RK+ Sbjct: 403 KEDKKNPLSDQKIVDKMKEEGLKVSRRTLAKYRERLGIPASSFRKR 448 >UniRef50_C9RQK6 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Fibrobacter succinogenes subsp. succinogenes S85 RepID=C9RQK6_FIBSS Length = 543 Score = 382 bits (982), Expect = e-104, Method: Composition-based stats. Identities = 146/546 (26%), Positives = 254/546 (46%), Gaps = 74/546 (13%) Query: 1 MKQGLQLR--LSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQ--------- 49 M G+Q +Q+ ++P L Q++++LQ ++ EL+ +++ +E NPLLE Sbjct: 1 MNLGMQANIGQTQEQTLSPALLQSVKMLQKTSQELETAIKEEVEVNPLLEVDDGDFDDQD 60 Query: 50 --IDTHEEIDTRETQDSETLDTADALEQKEMPEELPLDA----------SWDTIYTAGTP 97 +D E + D + + + + + +D+ +WD+ GT Sbjct: 61 VSVDKDPEELDPRADSDDLPDDIEDMARGSLDDTADVDSSYLDGESSDVNWDSYLGDGTS 120 Query: 98 SG--------TSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTD------------ 137 + G D++ + ++LQ+ L Q+ L + Sbjct: 121 YDDAPFNDLNSGGKDPDEDWDRPIKDVGKSLQEQLEDQLRLWNGTRELQEQLQENGVTEE 180 Query: 138 --RAIATSIVDAVDETGYLT---VPLEDILESIGDEEIDIDEVEAVL------------- 179 R + +++++++ G+L E + ++ IDE+E VL Sbjct: 181 HFRKLVQYLINSINDDGFLCDVNRDNESEAMIVQSDDKYIDEIERVLRGELKLEDASLPV 240 Query: 180 ----KRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTL 235 +Q F P G+ A+D R+C LIQ A I+ + + L + + Sbjct: 241 REAVHVLQSFKPSGIGARDQRECFLIQAYAIPNFPSL---AIRILEEEYENLLQLRYAKI 297 Query: 236 MRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIP 295 + + D +K AV + L P PG + + D+ V + G++ V + Sbjct: 298 AKALNVSADEVKTAVASLSRLRPHPGFQLSHSYSHIINADLKVVEKKGNYEVVCFKTKMQ 357 Query: 296 R-LQINQHYASMCNN-ARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQA 353 + L+INQ Y ++ + + + D +++++ L A LIK++++R T+ V R IV++Q+ Sbjct: 358 KSLRINQTYKAILTDPSASKQDKEYVKAQLAKATDLIKAVDNRFSTIELVMRAIVKRQRG 417 Query: 354 FFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHV---NTE 410 FFE G ++KPM+L D+A V + ST+ R T QKY+ +P G++ELK FF+S V + Sbjct: 418 FFENGPAFLKPMILQDVADDVHLAVSTVQRATDQKYVETPYGMYELKQFFTSGVKQGSAP 477 Query: 411 GGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRE-SLSIPP 469 E S I +K LI E+ + PLSD ++ L +QGI VARRTVAKYRE L I P Sbjct: 478 DAEEVGSAQIIDAIKTLIDEEDKSSPLSDQDISDELLKQGIKVARRTVAKYREKELKILP 537 Query: 470 SNQRKQ 475 NQRK+ Sbjct: 538 KNQRKR 543 >UniRef50_B2V793 RNA polymerase, sigma 54 subunit, RpoN n=5 Tax=Aquificales RepID=B2V793_SULSY Length = 439 Score = 381 bits (979), Expect = e-104, Method: Composition-based stats. Identities = 143/479 (29%), Positives = 247/479 (51%), Gaps = 46/479 (9%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 MKQ L L+L +L +T L+ + ++ + EL QE+ LE NP LE Sbjct: 1 MKQNLGLKLQHKLNLTLSLKHQLNIMVMPKQELLQEIIHELEENPFLE------------ 48 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 EE+ ++ + T + S + ++ P+ + +L Sbjct: 49 -------------------EEIHINNDYQEKLTDLSVSYSE--DEEELNPLNRLTYKPSL 87 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 L Q++L F ++ IA I+D +DE GY E + E +DI+ VE + K Sbjct: 88 LKTLEIQIDL-EFDGKEKEIALDIIDNLDEKGY--ASQESLNEIASKYNVDIEAVEKIRK 144 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 ++ + +P G+ AK L + L+ + + A II + L+ + + ++ L++ + Sbjct: 145 KLMKLEPTGLGAKSLTEFLITEYREKFGRDSI---AEQIIQEDLNKIKDKEY--LLKKYQ 199 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGH---WTVELNSDSIPRL 297 + E+ L+E ++ I++L P P + E YV PD+ + + N + + +N +P+L Sbjct: 200 IDEEALEEIISNIKALRPYPLYGYEDFEAHYVEPDIFIYETNDKDQPFEIVINEQDLPKL 259 Query: 298 QINQHYASMCNNAR-NDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFE 356 + Y + N N+ +F+ LQ A LI+ +E R + L + +V QQ+ F Sbjct: 260 NLTNQYKKILNRKDINEETKKFLYEKLQKAIGLIRGIEQRRENLKNLVESLVNQQKDFLL 319 Query: 357 QGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEAS 416 G+E++KP+ L D++Q + +HESTISR+ + K+ +P G+ LK FFS+ V+ E G S Sbjct: 320 YGKEHLKPLTLKDVSQKIGLHESTISRIVSNKFAQTPIGVLPLKAFFSNKVSKESGN-IS 378 Query: 417 STAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 S ++ L++ LI E+P KPLSD+ + +LL ++GI +ARRTV KYRE L+IP S +RK+ Sbjct: 379 SDRVKYLIQNLIENEDPKKPLSDNDIVNLLKKEGIHIARRTVTKYREELNIPDSRKRKK 437 >UniRef50_C6JNV9 RNA polymerase sigma-54 factor n=2 Tax=Fusobacterium RepID=C6JNV9_FUSVA Length = 427 Score = 379 bits (975), Expect = e-104, Method: Composition-based stats. Identities = 124/476 (26%), Positives = 239/476 (50%), Gaps = 66/476 (13%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 + L+L+ +L++T +++ ++ +LQ+S+ L+ +++ NP+LE Sbjct: 16 LDFTLKLKQEMKLSLTQEMKISMNILQMSSSNLKDFIEKEALKNPMLEV----------- 64 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 T TPS + P +TL Sbjct: 65 --------------------------------TYSTPSSKYNSDEETTSPFDFIIEEKTL 92 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 D+L Q+ S ++I +++ +D+ GYL++ +I +++ +I +++ + Sbjct: 93 IDFLEEQLGYLKISPKIKSICEYVINNLDDRGYLSISKLEIKKAL---KISTAQLKEAMD 149 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 I +P G+ A++L++ L IQL D E+ +I D+L+ L + + + Sbjct: 150 IIYTLEPAGIGAENLKESLKIQLITKDIID---EKLFTLIDDYLEELGDRKYSLISEKLH 206 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGE-PEYVIPDVLVRKHNGHWTVELNSDSIPRLQI 299 + + +++ +++I+SL+P P + G YV+P+ + + TV LN ++IP+++I Sbjct: 207 VSVEQIEDYLDIIKSLEPIPARGYFVGNRTNYVVPEAKIEIVDDELTVTLNEEAIPKIKI 266 Query: 300 NQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE 359 N Y S + + ++N+ A LIKS+E R TL RV ++ +Q+ FF +G+ Sbjct: 267 NSSYKSTNSLSD--------KNNMYTAINLIKSIEKRYITLERVLNQLIVKQKNFFFRGK 318 Query: 360 EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTA 419 ++++ + L DIA+ + +HESTISR K++ +P+GI +K F +N+E Sbjct: 319 DFLQTLTLKDIAKELNLHESTISRAIRDKFIETPQGIIAIKSLFI--LNSECLE------ 370 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 I+ +++LI +EN + PLSD K++ +G +ARRT+AKYRE L IP + +RK+ Sbjct: 371 IKKTIEELIKSENKSSPLSDEKISLYFKNKGCSIARRTIAKYREELGIPSTRERKR 426 >UniRef50_C1QAL1 RNA polymerase, sigma 54 subunit, RpoN/SigL n=1 Tax=Brachyspira murdochii DSM 12563 RepID=C1QAL1_9SPIR Length = 436 Score = 378 bits (970), Expect = e-103, Method: Composition-based stats. Identities = 128/477 (26%), Positives = 237/477 (49%), Gaps = 55/477 (11%) Query: 2 KQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRET 61 ++ + L + Q + + + S +EL++++++A+E NP LE Sbjct: 10 NTSIRTAIKNDLRLNYQTRLWLDTISSSAVELKEKIEKAMEDNPFLEYD----------- 58 Query: 62 QDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQ 121 S +S ID + ++L Sbjct: 59 ------------------------------IKDKYTSKSSSSDIDSIIENTAANGKESLF 88 Query: 122 DYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKR 181 +L Q+E++ S + +A I ++ GYL + ++ + + E+E ++ Sbjct: 89 SHLKSQIEISFKSKKEMELAEQICSFINHDGYLKITSGEMSNILN---ASVSEIEKIVSV 145 Query: 182 IQRFDPVGVAAKDLRDCLLIQLSQFDKTTP-----WLEEARLIISDHLDLLANHDFRTLM 236 I+ FDP GVAAKD+ +CL IQL K + A I+ ++LD L+ D+ + Sbjct: 146 IKTFDPYGVAAKDINECLSIQLKMKKKEDLKENGFLYDTAIDIVENYLDKLSKKDYDYIA 205 Query: 237 RVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPR 296 +++D + +A+ LIQ+L+P P + T +Y++P++ + K NG W V+ + IP Sbjct: 206 SSIGVEKDTVIKALKLIQTLEPYPAREYDTSAVKYIVPELFILKENGIWIVKTDETFIPP 265 Query: 297 LQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFE 356 L+I++ Y + + ++ F++ ++A+ LI + R +LL++ +++ Q FFE Sbjct: 266 LKISKKYIKLLDREKSKDSINFLKEKKKEAESLINAANERKKSLLKIGEALLKFQLDFFE 325 Query: 357 QGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEAS 416 G+E++KP+ L D++ V + EST+SR+ KYL++ G F +KYFFS +N G Sbjct: 326 YGKEFIKPLTLKDMSLEVNLSESTVSRIANGKYLNTVWGTFSIKYFFSRAIN----GGLG 381 Query: 417 STAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQR 473 S ++ ++K++I EN LSD K+ +L +GI ++RRT+AKYR+S++I S R Sbjct: 382 SRGVKEIIKRII--ENSQAKLSDEKIRLILKSEGIDISRRTIAKYRKSMNIFSSRNR 436 >UniRef50_B5J6Z7 RNA polymerase sigma-54 factor n=3 Tax=Bacteria RepID=B5J6Z7_9RHOB Length = 448 Score = 377 bits (968), Expect = e-103, Method: Composition-based stats. Identities = 143/479 (29%), Positives = 238/479 (49%), Gaps = 46/479 (9%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 + + +Q L TPQLQQAI+LL L+ +EL + E NP LE + + Sbjct: 4 ISISTNISQNQSLVFTPQLQQAIKLLLLNNIELSSYAESIAEENPFLEIDLPEVRMPASQ 63 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 + + D + + + ++ Sbjct: 64 GANV-----------------------------------AQKNSEFDPISLLPDKAGESF 88 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 L QV+ T +RAI ++ +D TG+LT PL + +++ ++ V AVL Sbjct: 89 GARLFAQVDDTLKDQAERAIGYALASHLDPTGWLTTPLSLLAQNLN---VEEKYVAAVLS 145 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 ++QR +P G+ A+DL +CL +Q+ TT + II +L LL + R Sbjct: 146 KLQRAEPTGLFARDLSECLSLQI----PTTDLDHTSMGIIIANLALLERGLLNEMRRKVG 201 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVI-PDVLVRKH-NGHWTVELNSDSIPRLQ 298 D L+ + ++ L+P+PG ++ G+ + PD+L K NG W V+LN ++P ++ Sbjct: 202 CSADELRYFLRRLRGLNPKPGLALSEGDQAPIRAPDLLTAKGPNGEWFVKLNGSTLPIIK 261 Query: 299 INQHYASMCNN-ARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQ 357 +++ + + D ++R NL +A+WL +++ RN+T ++V+ IV Q F E Sbjct: 262 VDEAAGQRVRKFLKLEIDQIYVRENLGNARWLKRAIAQRNETSIKVAAEIVRIQLPFLEH 321 Query: 358 GEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVN-TEGGGEAS 416 G ++M+P+ L IA+AV +HESTISRVT+ + +P+G LK FFS+ + AS Sbjct: 322 GIKHMRPLKLKTIAEAVGLHESTISRVTSALMIQTPQGTLPLKTFFSNAIELNGSDEGAS 381 Query: 417 STAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 + +R V+ LI E P KPLSD + L+ +G+ +ARRT+AKYR+ IP S QR++ Sbjct: 382 ARMVREKVRTLIGQEVPIKPLSDEFIMQKLNSEGLSIARRTIAKYRKLDKIPSSCQRRR 440 >UniRef50_Q5FPW5 RNA polymerase sigma-54 factor RpoN n=1 Tax=Gluconobacter oxydans RepID=Q5FPW5_GLUOX Length = 438 Score = 376 bits (965), Expect = e-102, Method: Composition-based stats. Identities = 153/474 (32%), Positives = 240/474 (50%), Gaps = 43/474 (9%) Query: 3 QGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQ 62 GL R SQ L MTPQL+QAI LLQ + +L Q L+Q E+NPLL Sbjct: 4 PGLIQRQSQSLVMTPQLRQAIALLQYTQTDLAQHLRQVCETNPLLILEP----------- 52 Query: 63 DSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQD 122 +PE +P + + + + +D Sbjct: 53 ------------GDTVPEAVPASEDFHDDDPDRFTTASDRPE--------AAAPPPSDRD 92 Query: 123 YLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRI 182 L+ Q+ ++ A ++D++DETG L V + D+ +G D ++EA+ + + Sbjct: 93 ELILQIR-HSIPPEEQHAAFHLLDSLDETGRLPVSVTDLAAELGM---DAPKLEAIRQTL 148 Query: 183 QRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLK 242 +P G+ A+ L +CL QL ++ P A + D+LDLLA D+R L L Sbjct: 149 MHLEPAGLFARSLEECLAAQLRVRNRLDP----AMQTLLDNLDLLARRDWRRLREKCALD 204 Query: 243 EDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQH 302 +D L + + IQ+LDPRPG S+ P D++VR + + + LN+ +P ++++ Sbjct: 205 QDDLLDMLAEIQALDPRPGLSLPPPAPPIEP-DLIVRPNGTGFRLTLNTRLLPAVRLDDT 263 Query: 303 YASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYM 362 + + + + + +A LI++L SR +LL V R IV+ Q AF G + Sbjct: 264 LRAQI--DGHTEAGRMLLAYAGEATALIRALHSRKQSLLNVGRAIVQHQAAFLRDGPTAL 321 Query: 363 KPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRA 422 +P+ + +IA+ E+HESTISR+ + KY+ +PRG LK FFS+ + +E G S+ AI+ Sbjct: 322 RPLTMREIAERTELHESTISRIVSSKYIDTPRGTVPLKLFFSTALASEDGTTQSAHAIQH 381 Query: 423 LVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 ++ L+AAE LSD LT LL ++G + RRTVAKYRE L I S+QRK+L Sbjct: 382 RLQALVAAE-GDSVLSDDALTGLLQKEGFSIQRRTVAKYREGLGIAKSSQRKRL 434 >UniRef50_B4S818 RNA polymerase, sigma 54 subunit, RpoN n=10 Tax=Chlorobiaceae RepID=B4S818_PROA2 Length = 489 Score = 375 bits (963), Expect = e-102, Method: Composition-based stats. Identities = 141/490 (28%), Positives = 244/490 (49%), Gaps = 17/490 (3%) Query: 3 QGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQ 62 +L+ SQ+ ++ Q + +LLQL L L+Q + L+ NPLLE I+ E + Sbjct: 2 PDFKLQQSQRAQLSAQQILSSQLLQLPLLNLEQRIYDELQENPLLELIEEKNESVDETGE 61 Query: 63 DSETLDTA-------DALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGE 115 S D++++ E +E + + + + D E Q Sbjct: 62 QSGDDGDDGDGEGMFDSVDRFEARDEKRPEKNEQPKESQEGVLHFTVDTTPKEN-FIQAI 120 Query: 116 TTQTLQDYLMWQVELTP-FSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDE---EID 171 + ++ ++ + L T+ IA+ I+ +D+ GYL L+ + + + +++ Sbjct: 121 QQDSFEERMLRDLSLREEIGSTELLIASEILGNLDDDGYLQDGLDIVADGLLTNHGVDVE 180 Query: 172 IDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLE---EARLIISDHLDLLA 228 +++ VL IQR DP G+A LR+ LL+QL + A+ ++ + D Sbjct: 181 PRDIQRVLHIIQRMDPPGIAVASLRERLLVQLELNQAASGSGGTAIIAKKLLDSYFDDFL 240 Query: 229 NHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVE 288 N+ + +++ +++ + L+ A+ I +LDP P +Y++PD +V NG T Sbjct: 241 NNRYEKIIKRMQIRPEQLEAAIKEIAALDPHPFVVY-QDTGDYIMPDFIVTYENGRLTAA 299 Query: 289 LNSDSIPRLQINQHYASMCNNAR-NDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCI 347 LN S +Q++ Y + N + GD QF+R L AK ++E R TLL V + Sbjct: 300 LNDRSNLSVQVSDAYRDVLKNRKIPRGDKQFVRQKLNRAKEFASAIEQRRHTLLSVIDAL 359 Query: 348 VEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHV 407 ++ Q FF G + P+ + D+A+ STISR KY+ + G FELKYFFS Sbjct: 360 MQFQYEFFVSGPSMLVPLGMKDVAEKSGFDLSTISRAVNGKYVQTRFGTFELKYFFSGGT 419 Query: 408 NTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSI 467 T+ G E S+ ++ ++++++AE+ KPLSD +L +L E+GI +ARRTVAKYRE + I Sbjct: 420 TTDEGEELSTKIVKQYLQEMVSAEDSKKPLSDDRLAQMLEEKGIRIARRTVAKYREQMQI 479 Query: 468 PPSNQRKQLV 477 P + RK++ Sbjct: 480 PVARLRKKIF 489 >UniRef50_C8PMB8 RNA polymerase sigma-54 factor n=1 Tax=Treponema vincentii ATCC 35580 RepID=C8PMB8_9SPIO Length = 499 Score = 373 bits (959), Expect = e-102, Method: Composition-based stats. Identities = 133/511 (26%), Positives = 235/511 (45%), Gaps = 54/511 (10%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M Q L RL Q+ M+ Q++ +L + TLEL++ + + L NP LE I + + E Sbjct: 4 MGQTLGQRLEQR--MSQSQIQSLDVLAMPTLELRERIAEELVENPALELIRSSGKPAVPE 61 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 + + + + + T S + D L Q+L Sbjct: 62 AERTPQKERNVPYYRDDR--------------TPSAVSLEASDAFQTFLENIPAPQRQSL 107 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILE-SIGDEEIDID------ 173 Q +L+ Q+ + + A I+ + G+ VPL ++ + + + D D Sbjct: 108 QSHLLEQLFVHKLDPLTTSFAERIIGNLTTDGFYVVPLNELFKTELSAKSADKDSALTRH 167 Query: 174 EVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKT----TPWLEEARLIISDHLDLLAN 229 ++ L ++R DP+G A +D + LL+Q P I+++H L Sbjct: 168 KISHALSIVRRLDPIGCATQDFKQSLLVQAKILFHDKIAIDPVYAYTIDILTNHFAYLEK 227 Query: 230 HDFRTLMRV--------TRLKEDVLKEAVNLIQSLDPRPGQSIQTGEP--EYVIPDVLVR 279 +L+R +L ++ ++ ++LI SL+P PG+++ EY+IP + Sbjct: 228 ARPYSLVRAVNGNADIPYKLTQENAEDILSLIASLNPFPGRALAADVTPDEYIIPTAFIE 287 Query: 280 KHNGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDT 339 ++ +TV +N+ IP L ++ + S+ ++ ++ +I+ +Q AK I SL R T Sbjct: 288 RNGQEFTVRINNLEIPLLTVSPEFQSLISHTKDAAAKTYIKEQMQKAKAFIGSLNQREKT 347 Query: 340 LLRVSRCIVEQQQAFFEQGEE-YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFE 398 ++ V IV Q+AFF G++ + P+ IA+ +++HEST+SR KY+ G FE Sbjct: 348 IVAVLGKIVAVQEAFFLTGDKRRLVPLTQQQIAKELDIHESTVSRTVAGKYVQCQWGTFE 407 Query: 399 LKYFFSSHVNTEGGGEASS--------------TAIRALVKKLI-AAENPAKPLSDSKLT 443 ++YFF++ V + +SS ++ +K+L+ LSD K++ Sbjct: 408 IQYFFTNSVAVQPPPGSSSQPNASAPAATPATREGVKDCIKELLTEHAAKDAKLSDQKIS 467 Query: 444 SLLSEQ-GIMVARRTVAKYRESLSIPPSNQR 473 LL + GI VARRTVAKYR+ L I S R Sbjct: 468 DLLQARFGISVARRTVAKYRKELDIGSSYSR 498 >UniRef50_C3WCT3 RNA polymerase sigma-54 factor rpoN n=1 Tax=Fusobacterium mortiferum ATCC 9817 RepID=C3WCT3_FUSMR Length = 413 Score = 372 bits (956), Expect = e-101, Method: Composition-based stats. Identities = 126/476 (26%), Positives = 228/476 (47%), Gaps = 64/476 (13%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M L+L+ +L +T +++ ++ +LQ+S+ +L++ L++ +NP +E Sbjct: 1 MDFSLKLKQETKLILTQEMKTSMNILQMSSSQLKEYLEKEAVTNPAIEIT---------- 50 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 S D+ P+ +TL Sbjct: 51 ------------------------------YNNYTYKSYNPSSSEDNFSPLDLVSEEETL 80 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 DYL Q+ S + I IV+ +D GYL P +I + + I+ +++ + Sbjct: 81 FDYLEEQLGYLKISSKIKNICLFIVNNLDARGYLATPKLEIKKLLN---INNQQLKEAFE 137 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 I DP+GV A++L+DCL IQL + E +I ++L+ +A+ +F + Sbjct: 138 IIYTLDPIGVGAENLKDCLKIQLRSKNIID---ETLFSLIDNYLEEIASQNFSLIEEELN 194 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQ-TGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQI 299 + ++ + + ++LI++L P P + + Y++P+ + + T ++N + IP++ I Sbjct: 195 ITKEDILDYLDLIRTLSPIPARGYVVSTSNNYIVPEAKIEIKDNKLTFKINEELIPKINI 254 Query: 300 NQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE 359 N Y+ + +N + +A ++K LE R TL + ++ +Q+ FF +GE Sbjct: 255 NSSYSDNPSANKNS---------IANAINIMKCLEKRYQTLNGILELLIIKQKDFFFKGE 305 Query: 360 EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTA 419 ++ ++L DIA + +HESTISR KYL +P+GI +K F ++S+ Sbjct: 306 NFLHSLILKDIANELNLHESTISRAIKDKYLDTPQGIISMKSLFVI--------DSSTII 357 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 I+ L+++ I EN P SD KL+ LL E+G VARRTVAKYRE L + +RK+ Sbjct: 358 IKKLIEEFITEENKKNPFSDEKLSLLLKEKGYSVARRTVAKYREELGFGSTRERKK 413 >UniRef50_D2RMY8 RNA polymerase, sigma 54 subunit, RpoN n=2 Tax=Acidaminococcus RepID=D2RMY8_ACIFE Length = 445 Score = 371 bits (954), Expect = e-101, Method: Composition-based stats. Identities = 133/474 (28%), Positives = 208/474 (43%), Gaps = 34/474 (7%) Query: 3 QGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQ 62 L L Q+ + L Q ++LLQL LEL+Q +++A+E+NPLLE E +ET Sbjct: 4 TKLILAPQQKQQLNLHLVQQMKLLQLGALELEQYVREAVEANPLLEFPGEAEGPAWQETA 63 Query: 63 DSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQD 122 ++ E + +A G +TLQ Sbjct: 64 QEVYRRKRTRDQEDEPLPDPVANA---------------------------GRQEKTLQQ 96 Query: 123 YLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRI 182 + Q+ S DR++A + +D G+ T +E+ + G + D V VL++I Sbjct: 97 VVEEQLGCLRLSGVDRSLACYMAGTLDSRGWWTESVEETARAFG---VTEDRVLQVLQQI 153 Query: 183 QRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLK 242 Q+ +P G+ A+DL CLL+QL K + R II + LDLLA + L R Sbjct: 154 QQLEPAGIGARDLSQCLLLQLENQGKEA---DLTRRIIREGLDLLARNQIPALARKFGCT 210 Query: 243 EDVLKEAVNLIQSLDPRPGQSIQT-GEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQ 301 + + A I LDP+PG G Y D V V + + +NQ Sbjct: 211 QKEILAAKARICVLDPKPGARFAGAGPVVYQREDARVEDTGEGLKVTVYDTWGRKFVLNQ 270 Query: 302 HYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEY 361 Y N +++ L A+ L + L+ R TLL V + +V Q+ FF G + Sbjct: 271 EYLDWAGEQGNGQVKAYLKEQLGKARQLQQLLKERQQTLLVVFQALVSHQEPFFRLGPGH 330 Query: 362 MKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIR 421 +P+ LAD+A+ + ST+SR K + G F F ++ G + ++ Sbjct: 331 RQPLKLADLAEETGLAVSTVSRALQHKVIGCRWGSFTAGSFLQGQASSHEQGAVTEERLQ 390 Query: 422 ALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 L+++LI E+ PLSD + L +QG+ VARRTV KYR + I + RK+ Sbjct: 391 QLIRELIEGEDKHHPLSDQAICRALEQQGVQVARRTVNKYRVKMGIGDKSARKE 444 >UniRef50_A9B5F2 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Herpetosiphon aurantiacus ATCC 23779 RepID=A9B5F2_HERA2 Length = 461 Score = 369 bits (948), Expect = e-100, Method: Composition-based stats. Identities = 137/483 (28%), Positives = 232/483 (48%), Gaps = 38/483 (7%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M + + +P L +L LST ELQQ +QQ LE NP LE +D ++ E Sbjct: 7 MSPEALAQQAMSTKASPALIALNNMLVLSTHELQQLIQQELEENPALENVD----LEPDE 62 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 T + L + E+ L + YTA D+ P+ T L Sbjct: 63 TCSRCGRPLIEMLCLYCVHEDQRLAEAERGDYTAAG-------EDDEFDPLMMVATPAQL 115 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 + L+ + + + D IA +V +D+ G+L DI ++ ID + V AVL Sbjct: 116 SEVLLRDLRAS-LPEQDYFIAEYLVGCLDDQGFLDANTGDIAATLT---IDEERVIAVLL 171 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 ++Q PVGV A+D+++CLL+QL + D+ +I++ + LA H + + + Sbjct: 172 KLQDIAPVGVGARDVQECLLLQLRRLDEEDVRHPYVERVITEFWNDLAEHRYGAIAQALN 231 Query: 241 LKEDVLKEAVNLIQ-SLDPRPG--QSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRL 297 + D + E I+ L P P + Y++PDV++R++ G E+ L Sbjct: 232 AEYDAVVEVREFIREHLRPYPLALSGEGSARTNYIMPDVIIRENEGKLEAEVLMSDRSFL 291 Query: 298 QINQHYASMCNNAR------NDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQ 351 +IN Y S+ R + D + + A+ + ++ R +T+ R+S ++E Q Sbjct: 292 RINPLYQSLVKRGREAEAEMSSEDRDHLSQYVARAQMFLTNIRQRRETIRRISEFLIETQ 351 Query: 352 QAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSP-RGIFELKYFFSSHVNTE 410 + F QG +++PM A++A + +HEST+SR T KY+ P R + +FF++ +N Sbjct: 352 EDFLRQGVRFLRPMTRAEVADGIGVHESTVSRATANKYVQLPNRSVIPFSHFFTASLN-- 409 Query: 411 GGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPS 470 ++ ++ +L+ E +PL+D +L LL+E+G VARRT+AKYR L+I PS Sbjct: 410 ---------VKDVLLELVQNE--VRPLTDQELVELLAERGFEVARRTIAKYRNQLNILPS 458 Query: 471 NQR 473 R Sbjct: 459 TLR 461 >UniRef50_Q3MKN6 RpoN (Fragment) n=2 Tax=Gammaproteobacteria RepID=Q3MKN6_THIRO Length = 368 Score = 367 bits (943), Expect = e-100, Method: Composition-based stats. Identities = 164/368 (44%), Positives = 227/368 (61%), Gaps = 17/368 (4%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDT-------- 52 MKQ +QLRL Q L MTPQLQQAIRLLQLSTLELQ+E+Q+AL++N +LE+ D Sbjct: 1 MKQSIQLRLGQHLTMTPQLQQAIRLLQLSTLELQKEIQEALDTNLMLEEGDEADRFNVGE 60 Query: 53 --------HEEIDTRETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSG-D 103 E+I+T +T+D E EMP+ELP+D W ++ + PS + G D Sbjct: 61 QPQTGTIQSEDIETPRLAVEQTVDREIHAESNEMPDELPVDTLWTDVFDSYLPSTSHGSD 120 Query: 104 YIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILE 163 D P Q QTL D+L WQ+ L S+ D IA +++D++D GYL + ++++L Sbjct: 121 DGSDYDPFAQQSRPQTLLDHLAWQLNLCRLSERDNMIAQAVIDSIDADGYLRIDIDELLL 180 Query: 164 SIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDH 223 ++ EI +EVEAV+ RIQ FDP GV A++L +CLLIQLSQ TPW A I D Sbjct: 181 TVDHPEISAEEVEAVVHRIQSFDPPGVGARNLPECLLIQLSQLPAQTPWRNAAMAICRDG 240 Query: 224 LDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNG 283 + LA D +L+R + E+ + A+ LI+ L+PRPG I +YV+PD+ VRK G Sbjct: 241 FEYLAKRDVASLVRQLKESEEAVAGALALIRRLNPRPGSLIAGAPAQYVVPDIFVRKREG 300 Query: 284 HWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRV 343 W+VELN +S+P+L++N YA + A D ++S+LQ+A+W IKSL SRNDT+LRV Sbjct: 301 RWSVELNPESMPKLRVNAEYARLIRRADQSADGVTLKSHLQEARWFIKSLASRNDTVLRV 360 Query: 344 SRCIVEQQ 351 IVE Q Sbjct: 361 GAKIVEMQ 368 >UniRef50_B3W836 Sigma 54 transcription factor n=2 Tax=Lactobacillus casei RepID=B3W836_LACCB Length = 441 Score = 366 bits (939), Expect = 1e-99, Method: Composition-based stats. Identities = 127/479 (26%), Positives = 221/479 (46%), Gaps = 55/479 (11%) Query: 1 MKQGLQLRLSQ--QLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDT 58 M Q ++L Q +L +T ++Q+I++LQL ++L L+ ESNP +E Sbjct: 11 MDQSIRLNQRQINKLVLTQGMRQSIQMLQLDAVDLDAYLKDVAESNPFIEV--------- 61 Query: 59 RETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQ 118 E E+ A+++ + G +T+ Sbjct: 62 --------------RSHFERAEDSLSGATFEE--------------------MSAGSSTE 87 Query: 119 TLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAV 178 L D+L+ QV+L+ + R I +++ ++ GYL + I++ IG I +++ Sbjct: 88 NLFDHLLMQVQLSLAGNPLRQIVVYLINQLNNNGYLILEDRQIVDEIG---ISPEKLTEA 144 Query: 179 LKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRV 238 ++ +Q DP GV A++L++CL +Q + T + I+ +LL +HD + Sbjct: 145 MRLLQGLDPPGVGARNLQECLSLQAHR---DTGIPKGVIAILDQDFELLVSHDMTRICEK 201 Query: 239 TRLKEDVLKEAVNLIQSLDPRPGQSIQTGEP-EYVIPDVLV-RKHNGHWTVELNSDSIPR 296 L L A++ I+SL PG+ + +P Y+IPD + ++G + L P Sbjct: 202 NNLSTTELHNALDFIKSLSAAPGKVFEQPQPISYIIPDARLSVTNDGQLKLWLTKWGRPE 261 Query: 297 LQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFE 356 L + + + Q+++ ++ L L+ R +TLL IV Q AF Sbjct: 262 LVFAEKTYQDLKKSADSATQQYLKEKHEEYLSLQHGLQRREETLLATVNQIVVNQHAFLL 321 Query: 357 QGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGE-A 415 + + P++L D+A+A++++EST+SR K+L + GIF K FFS Sbjct: 322 H-QAALAPLLLRDVAKALQVNESTVSRTIKGKHLQTDLGIFAFKDFFSKRTQAVSSSAYH 380 Query: 416 SSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRK 474 S ++ + +LI +EN P SD+ L L E+G VARRTV KYR L +P ++ RK Sbjct: 381 SVDQLKFTMMQLIQSENKMCPASDNLLVKWLYEKGFKVARRTVTKYRNELGLPAASARK 439 >UniRef50_C8WRI0 RNA polymerase, sigma 54 subunit, RpoN n=2 Tax=Alicyclobacillus acidocaldarius RepID=C8WRI0_ALIAD Length = 421 Score = 361 bits (927), Expect = 3e-98, Method: Composition-based stats. Identities = 134/474 (28%), Positives = 225/474 (47%), Gaps = 55/474 (11%) Query: 2 KQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRET 61 GL+L + Q+L +T +++ ++R+L LS+ +L Sbjct: 3 SLGLELSMRQELRLTAEMRLSLRVLALSSADLA--------------------------- 35 Query: 62 QDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQ 121 +EL A + + P +D P+ + + + L+ Sbjct: 36 ------------------DELERFAEEEPWFRYERPRPAIVSRAEDVDPLARVASREPLE 77 Query: 122 DYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKR 181 + L ++ L +A + D +DE GYL P++ I E +G E L Sbjct: 78 ERLKHELRLMDLPAPVLRVALYLADDLDERGYLAEPIDVIAERLG---ASPAEAREALAA 134 Query: 182 IQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRL 241 +Q DP G+ A+DL CLL+QL ++ P II HL +A + + Sbjct: 135 LQSCDPPGIGAEDLTSCLLLQLR--NEREPLKSLMASIIRFHLSDVAEGRLDDIASSLSV 192 Query: 242 KEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQ 301 ++EAV I+ L P P + ++PDVLVRK G WTVE+ + PRL++ Sbjct: 193 SLAQVEEAVRRIRRLTPAPAIAASNDPVAPLMPDVLVRKVAGEWTVEVTEWAAPRLELRA 252 Query: 302 HYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEY 361 Y + + + +F+ + L+ A WL +++E R TL V+ +V Q+ + E+G Sbjct: 253 EYRRLM-QSGEEEARRFVSARLKRAAWLTRAIERRRMTLQSVAEALVRWQEGYLERGAVA 311 Query: 362 MKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIR 421 ++P+ LADIA+ + +HEST+SR K L SP+G+ ++ FS V S A + Sbjct: 312 IRPLRLADIAEEIGVHESTVSRAVKDKILGSPQGLIPMERLFSVEVAP----GWSQEAAK 367 Query: 422 ALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 A + +++ AE+ A PLSD + +LL+ +G ++RR +AKYRE+L IP S QR++ Sbjct: 368 ARLAEIVRAEDKASPLSDQAIANLLASEGCRLSRRAIAKYREALRIPNSFQRRR 421 >UniRef50_Q8ENP0 RNA polymerase sigma-54 factor n=1 Tax=Oceanobacillus iheyensis RepID=Q8ENP0_OCEIH Length = 430 Score = 354 bits (910), Expect = 3e-96, Method: Composition-based stats. Identities = 130/476 (27%), Positives = 234/476 (49%), Gaps = 55/476 (11%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 MKQ L + S Q M L Q+I +LQL+ +EL ++Q E NPL+E++ ++ Sbjct: 1 MKQKLVINQSLQWKMNQSLYQSIEILQLTGMELYDYMKQVAEENPLIEEVQPIDKEL--- 57 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 S D Q+L Sbjct: 58 ---------------------------------------ISQFRTTDYSIDEMNTAEQSL 78 Query: 121 QDYLMWQVELTPFSDTDRA-IATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVL 179 D L + + D + +D+++E GYL + +ED E+++ VE L Sbjct: 79 YDQLKSNLYVLELEDKSLLPVIVFGIDSLNEDGYLEITMEDWAYYC---EVELTTVERAL 135 Query: 180 KRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVT 239 IQ +P G+ A++L +C+ +QL+Q + P++ ++++ + LLA + + Sbjct: 136 SYIQSLEPAGIGARNLTECIQLQLNQMNIDAPYIS---SLMNEGITLLAEENSHQIALNY 192 Query: 240 RLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQI 299 + E+ ++ + I+ P+PG+ + + E++IP+ + K + W + + S P +QI Sbjct: 193 GITEEAAQKLIESIKLCHPKPGKLLSPTKTEFIIPEASIYKDDTEWKISFFNWSSPAIQI 252 Query: 300 NQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE 359 N Y+ + + + F++ ++ L ++++ R+ TL ++ R IVE+Q FFE+G Sbjct: 253 NSDYS---KHDLDREAASFVKKKQKEVDMLQQAIDYRSSTLEKIIRIIVEKQLPFFERGP 309 Query: 360 EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTA 419 + +KP+ L++++ +++H STISR QKY+ + G+ LKYF V G +S Sbjct: 310 KMLKPLTLSELSAQLDLHISTISRAIRQKYVQTAHGVLPLKYFLQREVQ--KGAGVASIV 367 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQ-GIMVARRTVAKYRESLSIPPSNQRK 474 I+ L+K+L+ E+ +KPLSD K+ L+ E+ I +ARRT+ KYRE L I S +RK Sbjct: 368 IKQLLKELVDLEDKSKPLSDQKIKQLMEERYQIKIARRTIVKYREELQIASSVKRK 423 >UniRef50_Q1IR37 Sigma-54, RpoN n=1 Tax=Candidatus Koribacter versatilis Ellin345 RepID=Q1IR37_ACIBL Length = 577 Score = 351 bits (902), Expect = 3e-95, Method: Composition-based stats. Identities = 112/312 (35%), Positives = 179/312 (57%), Gaps = 10/312 (3%) Query: 173 DEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQ---FDKTTPWLEEARLI------ISDH 223 D + + IQ DPVGVA +DLR+CLLIQL A+ I +SDH Sbjct: 263 DALREAIHIIQNLDPVGVATQDLRECLLIQLRYFEGLPHKNGNGHIAQAIDDGIRMVSDH 322 Query: 224 LDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNG 283 + L N ++ + + + + A++ I++LDP+PG E + PDV K Sbjct: 323 MHELQNKQYKEISKALGRPIESITAALDFIRTLDPKPGLRYNKQETRLIEPDVAFVKQGD 382 Query: 284 HWTVELNSDSIPRLQINQHYASMC-NNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLR 342 + V +N + IP+L++N Y + +A +++ + A LIK++E R T+L+ Sbjct: 383 EYIVVMNDEEIPQLRVNPGYKRLLNRDAAEKDVRNYVKERYKSAIQLIKNIEQRKQTILK 442 Query: 343 VSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYF 402 V I+ +Q+ F + G + +KPM++ ++A+ + +H ST+SR KY+H+ +G++EL+YF Sbjct: 443 VCYSIINRQRDFLDHGIDQLKPMMIKEVAEEIGVHPSTVSRAVANKYVHTSQGVYELRYF 502 Query: 403 FSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYR 462 FS VN GG S ++ VKKLI E+PA+PL+D ++T +L QGI V RRTVAKYR Sbjct: 503 FSESVNGPEGGATSLLILKRRVKKLIEEEDPARPLTDEQITRILQSQGIQVTRRTVAKYR 562 Query: 463 ESLSIPPSNQRK 474 E + IP ++QR+ Sbjct: 563 EDMRIPSTHQRR 574 Score = 133 bits (336), Expect = 1e-29, Method: Composition-based stats. Identities = 41/171 (23%), Positives = 81/171 (47%), Gaps = 10/171 (5%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTH------- 53 ++ L L++SQ+ +TP L Q + +L L+ +EL++ + + + NP+LE++D + Sbjct: 4 LQPRLNLKVSQKQILTPGLVQMVSVLALNKMELKEMINEEMIENPVLEELDENVPLIDDI 63 Query: 54 ---EEIDTRETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELP 110 EE R++ + + E K+ EE+ + + G S + + ++ Sbjct: 64 SAKEEQRDRDSSLATAEEAPATPEAKDPFEEIDFGSFFQEYLDPGYRSSSEIEDVERPSF 123 Query: 111 VYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDI 161 TL D+LMWQ+ D A A I+ +++ GYLT +++ Sbjct: 124 ENFLSKPTTLTDHLMWQLGSMHLKDDVLAAAELIIGNLNDEGYLTASEDEL 174 >UniRef50_C0CQW9 Putative uncharacterized protein n=1 Tax=Blautia hydrogenotrophica DSM 10507 RepID=C0CQW9_9FIRM Length = 454 Score = 351 bits (900), Expect = 4e-95, Method: Composition-based stats. Identities = 117/479 (24%), Positives = 222/479 (46%), Gaps = 33/479 (6%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M L Q+ ++ ++ +L + EL L + NP+LE Sbjct: 1 MNFHTFLSTEQRQTLSANQLHSLEILACTNQELDSFLTKEYLENPMLE------------ 48 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 ++ E K + + + + +S + ++P + L Sbjct: 49 --------SSVNKENKLLADVESIYEKNKSYRDYYLEEDSSVEKRRSDIPAKPDLQFKNL 100 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDI--LESIGDEEIDIDEVEAV 178 L++Q+ +S+ A ++D +D GY T+ L ++ ++ +E++ Sbjct: 101 ---LLYQLHQNDYSNRQWACMEYLIDCLDSDGYFTMELSELSHASAVSGLHFKTEELQTA 157 Query: 179 LKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRV 238 L ++ +P G+ ++ L +CL+ QL + + L +HL+ L T+ R Sbjct: 158 LSCLKTLEPAGIFSQSLSECLIAQLKKKEIKDDTLFLLIE---EHLEELMKGHLSTISRK 214 Query: 239 TRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQ 298 +L +K + I L+PRP S + E Y++PD++V K N W + +N + + Sbjct: 215 LKLPTVQIKSYLYEISLLNPRPVMSAEDDEINYILPDIIVTKSNQLWDISINDSWMGKYS 274 Query: 299 INQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQG 358 +N +Y M + Q+ + L+ A++++ S+E R TL+++ +++ Q A+ E G Sbjct: 275 LNNYYIEMMQKTEDACLHQYFKEKLERARFILNSIEQRKATLIQIVSFLLDYQNAYLEGG 334 Query: 359 EEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNT-EGGGEASS 417 +KP+ +A A+ + ST+SR KYL + +K FS+ V++ + + SS Sbjct: 335 -GSLKPLKQEQLADALGISVSTVSRAVRGKYLQYKK-TILIKSLFSAPVSSCKKENQISS 392 Query: 418 TAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 +A++ + +LI E + LSD KL LL++ GI ++RR VAKYR L IP S +R+QL Sbjct: 393 SAVKEKLFQLIQQE--EQVLSDQKLAELLADSGIQISRRAVAKYRTELGIPDSRERRQL 449 >UniRef50_C5EQJ4 RNA polymerase n=1 Tax=Clostridiales bacterium 1_7_47FAA RepID=C5EQJ4_9FIRM Length = 458 Score = 348 bits (893), Expect = 3e-94, Method: Composition-based stats. Identities = 115/484 (23%), Positives = 212/484 (43%), Gaps = 37/484 (7%) Query: 1 MKQGL--QLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDT 58 M+ GL L Q+ ++ Q++ +L L ++ + L++ NP +EQ + Sbjct: 1 MENGLVMSQELKQKQTLSAYQYQSLHILHLGNAQVGELLKKEYLENPFIEQRE---GFSG 57 Query: 59 RETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSG-DYIDDELPVYQGETT 117 E Q E A+ E + +P + D G GTSG D+ D Sbjct: 58 EEYQWLEYYK-ANVKESRPIPGNGSGPEAGDADGDNGKEYGTSGCDWRMD---------- 106 Query: 118 QTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEA 177 + Q+ + R + ++ +D+ G+L + + +I + + Sbjct: 107 ------IKEQLYDGRTPENRRRLLEQMILLLDDHGFLAFSEREGSRLL---KIPVRQYRV 157 Query: 178 VLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMR 237 + K++ +P G+ + + L QL + P + R + +HL+ + F + Sbjct: 158 LRKQLMELEPEGIGCVSMGEYFLFQLMKKGIHVP--DAFRDLCMNHLEDITEMTFVQIAH 215 Query: 238 VTRLKEDVLKEAVNLIQSLDPRPGQSIQTG-EPEYVIPDVLVRKHNGHWTVELNSDSIPR 296 + +K V ++ +L P P + G E VIPD+L+ G V +N + + Sbjct: 216 MIHASFQEVKRWVRVLGTLKPYPIRDSGEGCAVETVIPDILIVPRGGGLEVRVNDYYMRQ 275 Query: 297 LQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFE 356 ++ Y + N+ +++ L A+ + ++ RN T+ R+ ++ Q +FF Sbjct: 276 YCVSDFYRRTMKDEDNEELQEYMDRKLLRARQIYLAVSRRNRTICRMGEYLLRVQGSFFR 335 Query: 357 QGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGG---- 412 G ++ M A +E+HEST+ R+ + KY+ P+GI LKYFFS V+ G Sbjct: 336 GG--FLTGMTYKMFADELEVHESTVCRIVSNKYVSCPQGILPLKYFFSKGVDVVDGQGRV 393 Query: 413 -GEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQ-GIMVARRTVAKYRESLSIPPS 470 G +++R L+ LI E +P SD KL +L ++ G+ ++RRTV+ YRE I Sbjct: 394 TGTMGKSSVRELIAFLIEKEPGDRPYSDGKLADMLKKEYGLRISRRTVSNYREEAGIRSV 453 Query: 471 NQRK 474 +RK Sbjct: 454 YERK 457 >UniRef50_A8LQ77 RNA polymerase sigma-54 factor n=1 Tax=Dinoroseobacter shibae DFL 12 RepID=A8LQ77_DINSH Length = 438 Score = 344 bits (882), Expect = 5e-93, Method: Composition-based stats. Identities = 121/476 (25%), Positives = 202/476 (42%), Gaps = 56/476 (11%) Query: 2 KQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRET 61 ++GL LR Q+L +TP+++ + +L++S L++ L + E NP+L + T Sbjct: 4 REGLTLRQQQRLTLTPEMRTTLSVLRMSAAALEELLVRQAEENPILSLRRPGPPPAAQAT 63 Query: 62 QDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQ 121 LDT +L Sbjct: 64 AYEVALDTT--------------------------------------------VAEVSLG 79 Query: 122 DYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKR 181 D+L Q+ L + A ++ ++ ETGYL +I + +E V L Sbjct: 80 DHLRAQLGLMSLAPPVHQAALALSWSLTETGYLDSTPAEIAQECALDEAT---VLLGLAA 136 Query: 182 IQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRL 241 +Q +PVGV A+ L +CL +QL A + LDLL D R T + Sbjct: 137 LQGCEPVGVGARSLAECLRLQLVDKGIAPAVAARATEV----LDLLVGSDVARAARRTGI 192 Query: 242 KEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNG-HWTVELNSDSIPRLQIN 300 + L + L+ L P PGQ P+ PDV V +G + + L ++ Sbjct: 193 PAEDLGAVIRLLPELSPYPGQRFSPT-PQVSAPDVAVHFPDGAGPEIRVLRGRQSDLALD 251 Query: 301 QHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 + AR + + +A+ L ++L R + L R+ +V+ Q FF +G Sbjct: 252 P---ELMAAARREAADTALARYGAEAEALHRALGYRANALERIVAFLVDYQSGFFREGGA 308 Query: 361 YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAI 420 M+P+ +A + +H +T+ R K L G+ L FFS+ + E G S+ + Sbjct: 309 AMRPLTREVLAARLGLHAATVGRAVADKTLAHAGGVIPLSAFFSARLGPETGAATSAYGV 368 Query: 421 RALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 ++ + L+AAE+ L+D ++ L ++G+ +ARRTVAKYR L+IP S RK+L Sbjct: 369 QSRIAALVAAESEDAVLTDGEIAQRLKKEGVDIARRTVAKYRGCLNIPSSYDRKRL 424 >UniRef50_UPI000196CE77 hypothetical protein CATMIT_02522 n=1 Tax=Catenibacterium mitsuokai DSM 15897 RepID=UPI000196CE77 Length = 414 Score = 342 bits (878), Expect = 2e-92, Method: Composition-based stats. Identities = 118/476 (24%), Positives = 226/476 (47%), Gaps = 66/476 (13%) Query: 3 QGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQ 62 L+L+ Q+ + + + ++LQ+ +L +++ NPL++ D E Sbjct: 1 MKLELKQGQKHQIYQKQIEKNQILQMDVQQLLAHIEKISFENPLIDTDDMIE-------- 52 Query: 63 DSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQD 122 TS + ++ +T TL++ Sbjct: 53 ------------------------------------STSDIGKEFDIDSLSRKTEPTLKE 76 Query: 123 YLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRI 182 + WQ+ + + + S+V+ +D+ GYL + + DI + + D E + Sbjct: 77 VIHWQLINKDIDNKE--LVESLVELLDDNGYLRLSINDICTYL---KCDEKEYLEAKDTL 131 Query: 183 QRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLK 242 + DP G+ A L++CLL+QL + K T + ++++ + L+ L+ + + + + Sbjct: 132 SKLDPPGLGADTLKECLLLQLERL-KETKDIHLTKILVDECLEDLSKSHYHAVSKKLGIS 190 Query: 243 EDVLKEAVNLIQSLDPRPGQSIQTG-EPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQ 301 ++ ++E + +I +LDPRP + + E Y +PD++++ V+LN + IN Sbjct: 191 QNKVRELLQIILTLDPRPASNYSSSLEVNYPVPDIIIKDG----IVQLNPMIYKDININT 246 Query: 302 HYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFE-QGEE 360 +Y S+ N ++I S L+ WL + L R + + ++ + + QQ FF QG Sbjct: 247 NYLSL---DENKETKKYIESKLRQVSWLQQCLSQRKNLIYDIAVFLFDYQQDFFMNQGSC 303 Query: 361 YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAI 420 + P++ D+A + +HESTISR KY++ +G L +G + S +I Sbjct: 304 H--PLLQKDLAMLLGVHESTISRAIKDKYIYCDKGFILLSDLI-----PKGTEDNSVDSI 356 Query: 421 RALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 + +K++I E+ KPLSD K+T+LL ++GI ++RRTVAKYR L+IP ++ RK + Sbjct: 357 KEKIKEVIDNEDKKKPLSDQKITNLLKDKGIEISRRTVAKYRSELNIPDASGRKHV 412 >UniRef50_B6BVF1 RNA polymerase sigma-54 factor n=1 Tax=beta proteobacterium KB13 RepID=B6BVF1_9PROT Length = 422 Score = 339 bits (869), Expect = 2e-91, Method: Composition-based stats. Identities = 127/478 (26%), Positives = 228/478 (47%), Gaps = 61/478 (12%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M L L L ++P ++Q++ LL+ + +E++ + L NP L+ D Sbjct: 1 MALSAHLALKNSLKLSPNIEQSVNLLKSNEIEIELLINDFLSKNPYLQLDD--------- 51 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 + + + E + S D IY +L Sbjct: 52 ------SEKINLNYSANVIENNEENISEDNIYGL------------------------SL 81 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIG-DEEIDIDEVEAVL 179 +DYL+ + D +A I+D +D+ GYL + + + D + +++ ++ Sbjct: 82 KDYLLNNLFDLGLDYEDELLARLIIDYIDDNGYLKEGYDFFITELALDSDTANKKIKNLI 141 Query: 180 KRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVT 239 ++ G+ A++L++CL QL QF + +++ II +HL LAN +F+ + Sbjct: 142 LKLNTISSPGIGARNLQECLDFQLDQF-IQNQIVLDSKKIIENHLVDLANKNFKKIATNL 200 Query: 240 RLKEDVLKEAVNLIQSLDPRPGQSI-QTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQ 298 L+ D + + I +L+P+PG + + +++ PD++V+ + + V L ++ L+ Sbjct: 201 NLQTDHIIKCNEFIVTLNPKPGLAYLSSDTSQFITPDIIVKNNGDKFNVSL-KNNYDSLK 259 Query: 299 INQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQG 358 + ++ + ND + AKW IK+L R ++RV I + F Sbjct: 260 L----FNLKKDEIND------KDAYNQAKWFIKNLNYRKINIIRVVNAIFSHHKEFL--N 307 Query: 359 EEYMK-PMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASS 417 E +K P+ + IA +E+HEST+SR+ K++ +P GIFELKYFF + VN S+ Sbjct: 308 ENILKSPLNIKTIANQLEIHESTVSRIVNNKFIETPHGIFELKYFFINEVNNT-----SN 362 Query: 418 TAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 I +K +I EN KPLSDS++ L ++ I ++RRTVAKYRE L I +++RK+ Sbjct: 363 KTILDKIKAIIRDENKVKPLSDSEILLTLGQENITISRRTVAKYREQLGILSASKRKK 420 >UniRef50_C8S196 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Rhodobacter sp. SW2 RepID=C8S196_9RHOB Length = 441 Score = 338 bits (867), Expect = 3e-91, Method: Composition-based stats. Identities = 135/475 (28%), Positives = 229/475 (48%), Gaps = 56/475 (11%) Query: 2 KQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRET 61 + + L +Q+L + L +I+LLQ L + LQ+ NP L Sbjct: 4 RPRIVLAQTQRLQLNLGLSASIQLLQADASGLTRYLQEQAADNPHLSLQRPAPG------ 57 Query: 62 QDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQ 121 W +T P +L Sbjct: 58 -------------------------DWLPRWTTAFAQTAQ--------PPEAASAAPSLM 84 Query: 122 DYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKR 181 ++M ++E +R IA + +A++ +G++ LE I +S G + E EAVL + Sbjct: 85 AHVMDRIEALTRPGRERQIAHLLAEALEPSGWVGRSLEAIADSAG---ASLPEAEAVLAK 141 Query: 182 IQR-FDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 +Q+ +PVG+ A++L +CL +Q D P ++ + HLDLLA+ F L R+ Sbjct: 142 LQKGIEPVGLFARNLAECLRLQAQDADCLDPVMQA----VLGHLDLLADGQFSRLARLCG 197 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQIN 300 + E + + LI+ DP+PG G PD+L + W V LN ++P L+++ Sbjct: 198 VTEAEITARLRLIRGFDPKPGAQFDHGAAPLREPDLLATRGPTGWQVALNRSALPMLELH 257 Query: 301 QHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 + + ++ A+ L + L++RN TLLRV+ ++ +Q+A E+G Sbjct: 258 --------APDHRPVPEAAKAQWAAAQALNRMLQNRNATLLRVAAEVLRRQEAALERGLS 309 Query: 361 YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAI 420 + P+ +A +A+A+ +HESTISR+ + +P G + L+ FS+ + E G S+ A+ Sbjct: 310 ALVPLTMAQVAEALGLHESTISRIVAGTAVDTPLGCWWLRQMFSTRLGNETDG-VSAAAL 368 Query: 421 RALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 RA + +L+A E+P KPL D L L++ G++VARRTVAKYRE L IPP+++R++ Sbjct: 369 RAALARLVAGEDPGKPLGDQALVEALAQDGMVVARRTVAKYREMLHIPPAHRRRR 423 >UniRef50_Q3IW74 Sigma54-2 (RNA polymerase sigma-54 factor) n=5 Tax=Rhodobacter sphaeroides RepID=Q3IW74_RHOS4 Length = 432 Score = 338 bits (867), Expect = 3e-91, Method: Composition-based stats. Identities = 128/468 (27%), Positives = 221/468 (47%), Gaps = 51/468 (10%) Query: 2 KQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRET 61 +Q + + +Q+L + L +IR+L L + LQ+ NP ++ Sbjct: 4 RQRISIAQTQRLQLNLGLTASIRVLNSDAEGLTRYLQEQAAENPHIQL------------ 51 Query: 62 QDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQ 121 E + D L + W ++ + S +L Sbjct: 52 ---EPATSTDWLPR------------WTSVLSRLAQGEGSAGGE------TVAAAGPSLM 90 Query: 122 DYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKR 181 ++M +++ +R IA + +A++ TG+L ++I + EVEAVL Sbjct: 91 AHVMARIDTLYPRGPERRIAILLAEALEPTGWLGTGPDEIARQA---RVPSAEVEAVLAG 147 Query: 182 IQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRL 241 +Q+ +P G+ A+ L +CL +Q + ++ L + DHLDL+A L R+ Sbjct: 148 LQKIEPAGLFARTLAECLRLQAIEAERLDSTLSC----LLDHLDLVAEGALGRLARLCNT 203 Query: 242 KEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQ 301 E + + L+++ DP+PG G PD++ K W V LN ++P +QI Sbjct: 204 DEAGVTARLRLLRTFDPKPGAQFDPGAAPVREPDLIATKGEAGWEVSLNRSAMPTVQI-- 261 Query: 302 HYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEY 361 + R+ A+ + + +E+RN TLLRV+R I+ +Q+A ++G Sbjct: 262 ------RKPDKRPTTPAARAAWTQAQAVGRMIENRNATLLRVAREILARQEAALDEGPSA 315 Query: 362 MKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIR 421 + + + ++A+A+ +HEST+SRV + +PRG + L+ FS + G S+ AIR Sbjct: 316 LVALTMTEVAEALGIHESTVSRVVAGTCVDTPRGTWWLRRMFSGRLAE---GGPSAAAIR 372 Query: 422 ALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPP 469 A + +L+A E+PA PLSD L L+ + + +ARRTVAKYRE L+IPP Sbjct: 373 AAIARLVAQEDPAAPLSDGALVEALAAEDMQLARRTVAKYREMLNIPP 420 >UniRef50_B9KSN5 RNA polymerase, sigma 54 subunit, RpoN n=3 Tax=Rhodobacter sphaeroides RepID=B9KSN5_RHOSK Length = 424 Score = 332 bits (852), Expect = 2e-89, Method: Composition-based stats. Identities = 126/472 (26%), Positives = 216/472 (45%), Gaps = 72/472 (15%) Query: 4 GLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQD 63 +QLRL Q+LA L Q +L+ + + + + + NP L E+ Sbjct: 3 SMQLRLGQRLAQRAVLVQRAEILEATGADWAERIAAEAQRNPFLRVRQPATAAPIPES-- 60 Query: 64 SETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDY 123 L + Sbjct: 61 --------------------------------------------------AALPPDLHAW 70 Query: 124 LMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQ 183 L Q+ + DRA+A +++A++ +G+L PL + ++ VL R+Q Sbjct: 71 LGSQIRMAMADPEDRALAFRLLEALEPSGWLGQPLSRLA------PGTEEQAARVLHRLQ 124 Query: 184 RFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKE 243 + +P G+ A+DLR+CL++Q + P A + D LD LA+ + R L+E Sbjct: 125 QMEPAGIFARDLRECLMLQARDRGQLDP----AMAAVLDRLDCLASDGPAAVARAAGLEE 180 Query: 244 DVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHY 303 + + LI+ +DP+PG + G+ PD++ R+ W+VELN +P +++ Sbjct: 181 QTVLRCLELIRRMDPKPGAAFAPGDAPLREPDLIARRTASGWSVELNRSMLPEVRVTPL- 239 Query: 304 ASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMK 363 DG +R Q+A L K+ R TLL V +VE+Q+AF ++G + Sbjct: 240 --------PDGSPADVRQMHQEALSLAKATGLRGRTLLAVGALVVERQRAFLDEGPAALV 291 Query: 364 PMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRAL 423 + + + A A+ +H STISR T + +PRG+ ++ FS+ + EG G S+ A++AL Sbjct: 292 ALGIGEAADALALHPSTISRTVTGLLMATPRGLVAVRDLFSARLA-EGTGALSAPALQAL 350 Query: 424 VKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 +++ IAAE+ PL D ++ +L+ +GI VARRTVAK+R +PP+ R++ Sbjct: 351 IRETIAAESAQAPLEDGEIVEVLARRGIHVARRTVAKHRTLAGLPPAAVRRR 402 >UniRef50_D1B1S7 RNA polymerase sigma-54 factor, RpoN n=10 Tax=Campylobacterales RepID=D1B1S7_SULD5 Length = 423 Score = 329 bits (845), Expect = 1e-88, Method: Composition-based stats. Identities = 127/479 (26%), Positives = 210/479 (43%), Gaps = 64/479 (13%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 MK + + + + L+ + +LQ + L + L+ +E NP + + EI + Sbjct: 1 MKLRVSQTQTTKQKFSSTLRGWLPILQANLDTLVETLEPFVEENPFI-SVKAGSEIPEKP 59 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 + + + E L LD ++L Sbjct: 60 FEKKNIFRESAKTSVSDTIEALTLD-------------------------------KKSL 88 Query: 121 QDYLMWQVEL-TPFSDTDRAIATSIVDAVDETGYLTVP-LEDILESIGDEEIDIDEVEAV 178 L QV ++ + IA I++ ++ GY L +I ++ +E EVE + Sbjct: 89 FQTLYEQVNPPLFPTEKSQRIAYEIIENINAEGYFEADALVEIAHTLNVKET---EVEKI 145 Query: 179 LKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRV 238 +R +P+GV A+D+++ L QL E A +I + D++ + L Sbjct: 146 RQRFAYLEPLGVGAQDVKEAFLFQLQDLTLENTLYEMAEKLILN-FDVIESFGKEPLFH- 203 Query: 239 TRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQ 298 EA+N+I+ P E E V+PD+ + G V LN P + Sbjct: 204 ---------EALNIIKRFHNPPAIDFLEEEKE-VVPDIFIYTIEGAIEVRLNDTYYPEVI 253 Query: 299 INQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQG 358 I+ D + F+ L+DAK LI +LE R TL ++ I+E Q FF Sbjct: 254 IDTE--------GVDESNSFVSQKLKDAKDLIDALEMRKATLYKIGLMIIEYQYDFFFG- 304 Query: 359 EEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASST 418 + +KPM L D+A + + STISR KYL RG+ LK FF++ V + S++ Sbjct: 305 -KAIKPMKLKDLADDLGRNPSTISRAIAGKYLSCARGVIPLKQFFATAVE----EDISNS 359 Query: 419 AIRALVKKLIAAENPAKPLSDSKLTSLLSEQ-GIMVARRTVAKYRESLSIPPSNQRKQL 476 AI+ + +L+ EN KPLSD KL SL+ +Q + + RRT+ KYR+ +I S++RK+L Sbjct: 360 AIKEYMIELVKHENKQKPLSDIKLLSLIEKQFNVKMVRRTITKYRQQFNIASSSERKKL 418 >UniRef50_Q73JL4 RNA polymerase sigma-54 factor, putative n=1 Tax=Treponema denticola RepID=Q73JL4_TREDE Length = 463 Score = 329 bits (844), Expect = 2e-88, Method: Composition-based stats. Identities = 121/506 (23%), Positives = 225/506 (44%), Gaps = 79/506 (15%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 +KQ Q LSQ++ M Q+ A+ +L LS+ ELQ+E+ + ++ NP L Sbjct: 3 LKQRQQQILSQKMVMNQQMLNAVAMLNLSSEELQEEVIKEVKRNPAL------------- 49 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 + T S GD L + ++ +TL Sbjct: 50 --------------------------VFKTSSRVSAASAEEGDKHQSFLESIEDDSRKTL 83 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDI-LESIGDEEIDIDEVEAVL 179 Q +L+ Q + + A I+ +D+ G+ VPLE++ + +++I+ E++ L Sbjct: 84 QAHLIEQAGESITDEYVLDAAMLIIQNLDQNGFYWVPLEELFAGLLAEKKINHAEIKKAL 143 Query: 180 KRIQRFDPVGVAAKDLRDCLLIQL----------SQFDKTTPWLEEARLIISDHLDLLA- 228 ++RF+P+G A ++ L++Q D II +H ++L Sbjct: 144 NIVRRFEPIGCACSGFKESLIVQAGILCESPKTHEILDIYKTIYSLCVKIIKEHYEVLVF 203 Query: 229 ----NHDFRTLM-RVTRLKEDVLKEAVNLIQSLDPRPGQSIQT--GEPEYVIPDVLVRKH 281 + L + + + +E LI +L+P+PG + + +++ P +++ Sbjct: 204 VSDLKLFIKKLAQKKIDIDLETAEELAGLIDALNPKPGLAYASKGDGEKFITPIAEIKRE 263 Query: 282 NGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLL 341 + +N + +P L+I+ Y N+ + + + L A + L RN T+L Sbjct: 264 GNEIKIIINDEEVPALEISPEYEK-IKNSGSKEEKKEASEFLNKAALFMNVLAYRNQTIL 322 Query: 342 RVSRCIVEQQQAFFEQGEE--------------YMKPMVLADIAQAVEMHESTISRVTTQ 387 +V +V Q+AFF Y+KP+ DIA+ V + ST+SRV+ Q Sbjct: 323 KVLTALVNFQEAFFLGRPCKPSSEGESDKMQAGYLKPLKQIDIAEIVGLSPSTVSRVSNQ 382 Query: 388 KYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLS 447 KY+ G+FE+K FS V+ G S + ++++I ++ K +D++++ +L Sbjct: 383 KYIRCEWGLFEIKDLFSPEVS----GGLSKDFVEKAIQEIIESDTEKK--TDTRISQILK 436 Query: 448 EQGIMVARRTVAKYRESLSIPPSNQR 473 E+GI +A RTV KYR+ + +P S R Sbjct: 437 ERGIDIAVRTVNKYRKEMGLPSSYHR 462 >UniRef50_C3XKI9 RNA polymerase sigma-54 factor n=2 Tax=Campylobacterales RepID=C3XKI9_9HELI Length = 442 Score = 327 bits (838), Expect = 7e-88, Method: Composition-based stats. Identities = 130/482 (26%), Positives = 209/482 (43%), Gaps = 53/482 (10%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 MK Q + + ++ L+ + +LQ +L++ L NP E + + + Sbjct: 1 MKLRAQTSTTLKAKLSSTLKSWLPILQSGMGDLEETLNGFGLENPYFEVKSGIVDTLSTQ 60 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 + ++ + G ++ + ++L Sbjct: 61 S------------------------IAYKKQHKEKMRGAKGGKSLEGDGIEQFCIQEESL 96 Query: 121 QDYLMWQVELTPFSDT-DRAIATSIVDAVDETGYLTVPLEDILESIGDE---EIDIDEVE 176 + L+ Q+E F + IA I++ +D GY I + + EI EVE Sbjct: 97 EVLLLRQIEPPLFPTRNSQEIAKKIIENLDNEGYFDGDCVVIAQECSKDLGVEIYASEVE 156 Query: 177 AVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLM 236 + R +P G+ A D+ + QL D + I+ + L Sbjct: 157 KIRLRFAYLEPPGIGALDVMESFRFQLDHLDVPSDVYGLCLEILEN------------LQ 204 Query: 237 RVTRLKEDVLK-EAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIP 295 TR K + L +A+ IQS P E VIPD+LV + + V++N P Sbjct: 205 EHTRFKNNPLYPQAMRAIQSFKNPPALDFFQKEVA-VIPDILVLEDKDNIQVQINDKYYP 263 Query: 296 RLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFF 355 + I +N FI++ +++A+ L+ +LE R TL ++ IVE Q FF Sbjct: 264 SILI----QKQEKTDKNSIQDAFIKAKIKEARDLVDALEMRKATLYKIGLMIVEYQYEFF 319 Query: 356 EQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEA 415 + GE +KPM L D+A+ STISR + KYL RGIF LK FF++ + E Sbjct: 320 KGGE--IKPMTLKDLAEEFGHAPSTISRAISNKYLECSRGIFPLKNFFATAI----DEET 373 Query: 416 SSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQ-GIMVARRTVAKYRESLSIPPSNQRK 474 S+T I+ V LI EN KPLSDSK+ L +E+ + + RRT+AKYR L+I S++RK Sbjct: 374 SNTTIKDFVADLIRNENKQKPLSDSKILKLATERFKVTMVRRTIAKYRAQLNIASSSERK 433 Query: 475 QL 476 +L Sbjct: 434 KL 435 >UniRef50_B9Y8Z2 Putative uncharacterized protein n=1 Tax=Holdemania filiformis DSM 12042 RepID=B9Y8Z2_9FIRM Length = 426 Score = 324 bits (830), Expect = 6e-87, Method: Composition-based stats. Identities = 123/477 (25%), Positives = 201/477 (42%), Gaps = 69/477 (14%) Query: 1 MKQGLQLR--LSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDT 58 MK L L + Q + P + +++ +L +S+ L L + + SNPLLE D Sbjct: 1 MKSTLALTPSIQPQHRLKPAMLESLNILHMSSDALAAYLNEQMLSNPLLEWSDQR----- 55 Query: 59 RETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQ 118 T E Sbjct: 56 -----------------------------------------TVRSDDLYEQAGQFVAAEV 74 Query: 119 TLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAV 178 +L+ L Q + D+ IA +++ +D+ GYL L+ + G I+ + + Sbjct: 75 SLKQQLRQQAAVL-LDPADQVIAETLIGLLDDDGYLREELDAL---CGLMHINKARLNRI 130 Query: 179 LKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRV 238 L ++ P G+ A DLR+CLL+QL + +++HL+ LA +L R Sbjct: 131 LSLLKTLKPAGIFAHDLRECLLLQLMEQHPENELARR----LTEHLEALARGGTTSLCRT 186 Query: 239 TRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQ 298 D L EA+ L++ DP+PG+S Q ++ +V V +G + + L + S L Sbjct: 187 LHCTADQLNEAIALLRRCDPKPGRS-QGAAAAPLVCEVQVEIEDGQFKITL-AHSFSELI 244 Query: 299 INQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQG 358 N + +++ +AK L+ +++ RN TL ++R I Q AFF +G Sbjct: 245 FNP------MPINDPTVQDYLKQKTAEAKNLLLAIQKRNQTLASITRAICLNQSAFFLRG 298 Query: 359 EEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASST 418 + + P+ IA + +H STISR K L ++ FFS+ V + S Sbjct: 299 -QPLIPLTRHQIADQLGLHPSTISRSLAGKGLEFNGQLYPFSVFFSAQVRN----DLSQD 353 Query: 419 AIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 + +K+LI E+ PLSD +L+ L G ++RRTV KYRE L IP S R+Q Sbjct: 354 QVLRQLKRLIHEEDAEAPLSDQQLSDRLKALGCPISRRTVVKYREKLRIPDSRVRRQ 410 >UniRef50_B9L984 RNA polymerase sigma-54 factor n=1 Tax=Nautilia profundicola AmH RepID=B9L984_NAUPA Length = 410 Score = 321 bits (823), Expect = 3e-86, Method: Composition-based stats. Identities = 115/475 (24%), Positives = 220/475 (46%), Gaps = 77/475 (16%) Query: 5 LQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDS 64 ++L+ ++ +L + +L+ EL +E+++ + NP +E + Sbjct: 1 MKLKTKITNKLSTKLLGFLPILKAGVDELFEEIKEISKENPYIEVRNK------------ 48 Query: 65 ETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYL 124 + ++ + + + +TL + L Sbjct: 49 ------------------------------RFVTVSNLKNANADEIEALTLSEETLYESL 78 Query: 125 MWQVELTPF--SDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRI 182 + Q+E + + + IA I++ ++ G+ ++I + +G +D ++V+ V +R Sbjct: 79 LKQIEDSNLFPTKRSKDIALEIIEDINNEGFFEGDEKEIAKRLG---VDEEKVKRVRERF 135 Query: 183 QRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLK 242 +P GV AKDL++C++ QL D + A +I+ +L+ + + Sbjct: 136 MYLNPAGVGAKDLKECMIFQLQNIDMPEDVYKLASEMIT-YLENIDK----------FVN 184 Query: 243 EDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQH 302 E KEA+ +I+ L+ P E +IP+++V +G + +N + P + + Sbjct: 185 EPKYKEAMKIIKQLNVVPAMEYIKDEE--IIPEIIVLNIDGQLEIRINDEHYPEINV--- 239 Query: 303 YASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYM 362 + + F + ++A+ ++ +LE R TL +++ IVE Q FF+ G + Sbjct: 240 -------KDPENKNSFSKEKFKEARNIVDALEMRKATLKKIALMIVELQYEFFQGGV--I 290 Query: 363 KPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRA 422 KPM + D+A +E STISR + KYL RGI LK FFS + + SS I+ Sbjct: 291 KPMKIKDLADELEYAPSTISRAISNKYLLCDRGIIPLKNFFSIAL----DEDTSSNQIKE 346 Query: 423 LVKKLIAAENPAKPLSDSKLTSLLSEQ-GIMVARRTVAKYRESLSIPPSNQRKQL 476 +K LI E+ KPLSD KLT +++++ + + RRT++KYR+ L IP S +RK++ Sbjct: 347 EIKNLIKNEDKNKPLSDDKLTEIINQKYNLNLVRRTISKYRDQLKIPTSRERKRI 401 >UniRef50_Q256I9 DNA-directed RNA polymerase sigma 54 n=5 Tax=Chlamydophila RepID=Q256I9_CHLFF Length = 422 Score = 321 bits (823), Expect = 4e-86, Method: Composition-based stats. Identities = 117/473 (24%), Positives = 203/473 (42%), Gaps = 64/473 (13%) Query: 8 RLSQQLAM----TPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQD 63 + Q+L++ + ++QQ +++LQ EL + Q + NP + EE + Sbjct: 3 QQHQKLSLNYLPSLRMQQGLQMLQSPITELSSYVLQQIIHNPFFDLSSLEEE-EWSACSP 61 Query: 64 SETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDY 123 ++D + ++L + Sbjct: 62 LSSVDAS-------------------------------------------YSRPESLFSH 78 Query: 124 LMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQ 183 L+ QV+ T D IA I+ + + G L P ED+ + E+ +D + V + IQ Sbjct: 79 LLTQVQQTFDHAEDLLIAQHIIGNLSDQGLLLSPPEDLSLQL---EVPLDSIHVVWQTIQ 135 Query: 184 RFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKE 243 F P+G+A+ L+D L+ L + A II +H LL N +F + + R Sbjct: 136 HFHPLGIASPSLQDYWLLHLEGSSH-----QLAYKIIKEHYALLINCNFLRIAKKCRCTP 190 Query: 244 DVLKEAVN-LIQSLDPRPGQSIQT-GEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQ 301 LK+A+ + ++ P + + + +PDV V K W ++++S +P +++N Sbjct: 191 ADLKQALKNALATIPWCPAEGYASLSSTQPALPDVYVTKKQQGWEIQISSRGLPPIKLNS 250 Query: 302 HYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEY 361 + + + + AKWLIK+L R TL + I+ Q+ F Sbjct: 251 EVFHIYEQLPREEKKN-LTQQILSAKWLIKNLRKREQTLFSIIEKILPHQEGFLLGKTSS 309 Query: 362 MKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIR 421 KP+ + +++ + HESTI R K L +P GI +K F + + S I Sbjct: 310 PKPLSVKQLSEDLSYHESTIFRAIENKKLAAPIGIIPMKLLFPRAASDDS---HSKETIL 366 Query: 422 ALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRK 474 + + I +E PLSDS ++ +S+ GI ARRTVAKYR L I P+++RK Sbjct: 367 QWIHQWITSE--TTPLSDSDISERISKHGIQCARRTVAKYRAQLKILPAHKRK 417 >UniRef50_Q7P6F0 RNA polymerase sigma-54 factor rpoN n=9 Tax=Fusobacterium RepID=Q7P6F0_FUSNV Length = 443 Score = 319 bits (819), Expect = 1e-85, Method: Composition-based stats. Identities = 103/471 (21%), Positives = 208/471 (44%), Gaps = 73/471 (15%) Query: 6 QLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSE 65 + +L+Q L ++ ++ +I +L++S ++L + +++ D+ + + Sbjct: 46 RQKLTQSLKLSQMMKLSINILKMSVMDLNKFIEKEFSE-------------DSGISVELN 92 Query: 66 TLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLM 125 + KE P D + L Sbjct: 93 YSKKENFNGGKEAEMNYPTD-------------------------------EKNFFQILE 121 Query: 126 WQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQRF 185 Q+ + + I I++ +D+ GYL + +I + + E+ E+E I Sbjct: 122 EQLSYFKINKKIKEICIFIINNLDKKGYLELSKIEIKDIL---EVSNKELEEAFDIIHNL 178 Query: 186 DPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDV 245 +P G+ A L +CL IQL E+ L I ++L LLA+ + + + +++ Sbjct: 179 EPYGIGAYSLEECLKIQLKAKKI---IEEKLSLFIDNYLYLLADKKYDLIKEKLNINDNI 235 Query: 246 LKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYAS 305 L +++I+SL+P P + G+ +IPDVLV E+N SIP++ + Sbjct: 236 LFSYIDIIKSLNPIPSRGYSVGKVRKIIPDVLVEIKKNEIFYEINRASIPQINV------ 289 Query: 306 MCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPM 365 ++ + ++ + + + +I +E R +T+ ++ + I+ +Q+ FF + + + Sbjct: 290 -----KDKIEDKYYK-KINE---IISCIEKRFETIDKIMKIIIREQKIFFTSQGKKINTL 340 Query: 366 VLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVK 425 ++DIA + + ST+SR +KY+ + GI L+ F+ +++ + + Sbjct: 341 KISDIADKLNLSPSTVSRAVKEKYIKTNFGIISLRKLFNL--------DSAVFLYQQKIL 392 Query: 426 KLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQL 476 + I EN P+SD + +LL + GI +ARRTV KYRE L S++RK+ Sbjct: 393 EYIENENKENPISDQDIVNLLEKDGIKIARRTVTKYREKLGYKSSHKRKKY 443 >UniRef50_D0GPK2 RNA polymerase sigma-54 factor n=1 Tax=Leptotrichia goodfellowii F0264 RepID=D0GPK2_9FUSO Length = 453 Score = 319 bits (818), Expect = 1e-85, Method: Composition-based stats. Identities = 122/477 (25%), Positives = 237/477 (49%), Gaps = 53/477 (11%) Query: 1 MKQGLQL--RLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDT 58 M+ QL +L + A++ + ++ +L++S EL + L++ E NPLLE + Sbjct: 24 MEIKQQLINKLVNKQAISQKQLYSLEILKMSEQELFEFLKKEKEENPLLEIENE------ 77 Query: 59 RETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQ 118 ++ +++ S + + + + ++ Sbjct: 78 ------------------------------ESFFSSFWKSEKNDKAFEVKD---ETVASK 104 Query: 119 TLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAV 178 L + + Q+ FS + + I++++DE+G+L + +++I + +ID + + + Sbjct: 105 NLIENIKLQINNQNFSYIENEVLIYILNSIDESGFLDLGIKEIRKKF---DIDNKKFKYI 161 Query: 179 LKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRV 238 L+ I+ +P G+ K+ +D QL + ++ ++I ++L+ L N + L + Sbjct: 162 LELIKEAEPNGIGTKNTKDFFKYQLLKKRIKD---KKLIILIDNYLEKLTNQ--KELCKE 216 Query: 239 TRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQ 298 + E L E + +I+ L +P ++I + EY+ PD++V+K N W V LN ++ Sbjct: 217 LDIFEGKLSEYIGIIKGLKLKPIENIN-EKIEYIFPDIIVKKINNEWKVMLNEGFYKNIK 275 Query: 299 INQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQG 358 IN+ Y+++ + + +I ++ ++IK +E R TL ++ I+E+Q+ +FE+ Sbjct: 276 INREYSNLLEKSEDQEMINYINKKIKRIDFIIKCIEQRRQTLYKIGNVILEKQKKYFEKN 335 Query: 359 EEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASST 418 E+ + PM DIA + +HESTISR KYL S RGI ++K FFS + + SS Sbjct: 336 EDII-PMKQKDIALELNVHESTISRAIKNKYLESLRGIVKIKSFFSIGYDKKNIS-ISSL 393 Query: 419 AIRALVKKLIAAENPAKPLSDSKLTSLLSEQ-GIMVARRTVAKYRESLSIPPSNQRK 474 I+ + ++I+ E SD K+ ++E+ I ++RRTVAKYR+ L I N RK Sbjct: 394 TIKKYISEIISNEKNGVIYSDEKIRKFINEKYEINISRRTVAKYRKELKIYNKNVRK 450 >UniRef50_Q30RF5 Sigma-54 (RpoN) n=2 Tax=Campylobacterales RepID=Q30RF5_SULDN Length = 422 Score = 318 bits (815), Expect = 4e-85, Method: Composition-based stats. Identities = 119/479 (24%), Positives = 203/479 (42%), Gaps = 71/479 (14%) Query: 6 QLRLSQQ----LAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRET 61 QLR +Q ++ L+ + +L S +L + + +++NP++E E+ + Sbjct: 3 QLRQTQSVENRHKLSNTLRNWLPILHSSLSDLGEAMSPFIDANPIIEISSGFEDSFEK-- 60 Query: 62 QDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQ 121 +S E ++L Sbjct: 61 ------------------------------LIPKKIGNSSVANTRTEQIEALTFVKKSLY 90 Query: 122 DYLMWQVE-LTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 D L Q+E + + IA+ +V +DE GY E+ + + I I+E E V Sbjct: 91 DVLDEQIEAPLFPTPISQKIASFVVCNLDENGYYEGDSEEFCK---NNAITIEEFEKVRL 147 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 R +PVGV AK+L + L QL D + A +I D L + Sbjct: 148 RFAHVEPVGVCAKNLLESFLFQLDSSDISDKVYPLAIKVIKD------------LENIYD 195 Query: 241 LKEDV-LKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVR-KHNGHWTVELNSDSIPRLQ 298 + E + ++ + P + VIPD+++ N V+LN P + Sbjct: 196 YSNEAGFSEVMRVLTTFKNPPAIEYLEESAQ-VIPDLMIFFNDNDSIEVKLNDAFYPIIN 254 Query: 299 INQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQG 358 I+ Y + ++ +++AK L+ +L+ R TL +V IVE Q FF G Sbjct: 255 IDTSY---------SIEHDYVSQKIKEAKSLVDALDMRKATLYKVGLMIVEYQYEFFTGG 305 Query: 359 EEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASST 418 + P+ L +A + STISR KY+ RG++ +K FF++ + + S+ Sbjct: 306 --AIMPLTLKTLADEFGHNPSTISRAIANKYIACDRGVYAMKEFFTTAI----DEDVSNA 359 Query: 419 AIRALVKKLIAAENPAKPLSDSKLTSLLSEQ-GIMVARRTVAKYRESLSIPPSNQRKQL 476 AI+ V +I +EN KPLSD KL L+ ++ + + RRT+AKYR+ L+I S++RK+L Sbjct: 360 AIKEFVIGVIKSENRKKPLSDMKLLELIQDKFKVQMVRRTIAKYRKQLNIAGSSERKKL 418 >UniRef50_Q7WTR8 RpoN (Fragment) n=2 Tax=Pseudomonas RepID=Q7WTR8_PSEYM Length = 328 Score = 316 bits (811), Expect = 1e-84, Method: Composition-based stats. Identities = 151/326 (46%), Positives = 215/326 (65%), Gaps = 22/326 (6%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEE----- 55 MK L LR+ QQL MTPQLQQAIRLLQLSTL+LQQE+Q+ALESNP+LE+ + ++ Sbjct: 1 MKPSLVLRMGQQLTMTPQLQQAIRLLQLSTLDLQQEIQEALESNPMLERQEEGDDFDNSD 60 Query: 56 -----------IDTRETQDSETLDTADALEQKE----MPEELPLDASWDTIYTAGTPSGT 100 D +E E+ T D LE E +P ELP+D +W+ +Y S Sbjct: 61 PLADNIEQKPNPDVQEPTYQESAPTVDNLEDGEWSERIPNELPVDTAWEDVYQTSASSLP 120 Query: 101 SGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLED 160 S D + + + ++LQ +L+WQ+ + P SD DR +A +++D ++ GYL LE+ Sbjct: 121 SNDDDEWD-FTTRTSAGESLQSHLLWQLNVAPMSDKDRLVAVTLIDCINNQGYLDETLEE 179 Query: 161 ILESIGDE-EIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLI 219 ILES E +I++DE+EAVL RIQ+F+P G+ A++L +CLL+QL Q TPWL EA+ + Sbjct: 180 ILESFDPELDIELDEIEAVLHRIQQFEPAGIGARNLSECLLLQLRQLPAKTPWLTEAQRL 239 Query: 220 ISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVR 279 ++D++DLL + D+ LMR +LKED L++ + L+QSL+PRPG I++ E EYVIPDV+VR Sbjct: 240 VTDYIDLLGSRDYGQLMRRMKLKEDELRQVIELVQSLNPRPGSQIESTEAEYVIPDVIVR 299 Query: 280 KHNGHWTVELNSDSIPRLQINQHYAS 305 K N W VELN +S+PRL++N YA Sbjct: 300 KDNERWLVELNQESVPRLRVNPQYAE 325 >UniRef50_C4PNB9 RNA polymerase sigma-54 factor n=8 Tax=Chlamydia RepID=C4PNB9_CHLTZ Length = 436 Score = 315 bits (807), Expect = 3e-84, Method: Composition-based stats. Identities = 110/479 (22%), Positives = 188/479 (39%), Gaps = 65/479 (13%) Query: 5 LQLRLSQQLAMTP--QLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQ 62 L + +A+ P LQQ + +LQ+ EL + Q + NP + ++ Sbjct: 2 LHQHQTASVALCPALHLQQGLDMLQMPVAELATFVSQQITINPCFDLDSLDSPPES---- 57 Query: 63 DSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQD 122 Q T+TL Sbjct: 58 ------------------------------------------FSFFPISEQHPFTETLSA 75 Query: 123 YLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRI 182 YL+ Q++ S +R IA IV + G + + + V +RI Sbjct: 76 YLLRQIDTNFASSQERTIAQYIVGNLSPEGLFLENPSLVAADLN---VSEHLFHKVWQRI 132 Query: 183 QRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLK 242 Q+ P+GV A L+ + L +EA II +H LA DF T+ R Sbjct: 133 QQLHPLGVGAPSLQSYWVSLLQTSPH-----KEALAIIRNHFPRLARCDFTTIARKMHAT 187 Query: 243 EDVLKEAVN-LIQSLDPRPGQSIQTG--EPEYVIPDVLVRK-HNGHWTVELNSDSIPRLQ 298 + + S+ P P +PD + N W V +N D +P ++ Sbjct: 188 TTEILTFLRHAFASIPWCPAAGFSETLHPPAPALPDAYLSFSRNSSWDVSINKDCLPSIR 247 Query: 299 INQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQG 358 +N + + + + ++ AK L+++++ R +TLL + R ++ Q+ F + Sbjct: 248 LNNTVLDIY-PSLPREEKDHLSQQIRAAKQLLRNVKKREETLLAILRVLIPYQEEFLLKK 306 Query: 359 EEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASST 418 K + IA+ + +HE+T+ R K L +P G+ ++ F V + + S Sbjct: 307 RTSPKAFSVKQIARELSLHEATVCRAIDNKTLATPVGLLPMRSLFPQAVGS--CPDQSKA 364 Query: 419 AIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQLV 477 I + + I+ E PLSD+ ++ + E+GI ARRTVAKYR L+I P++QRK L Sbjct: 365 TILHWIHQWISTE--KHPLSDAAISQKIIEKGIPCARRTVAKYRSQLNILPAHQRKHLC 421 >UniRef50_C8PAD9 DNA-directed RNA polymerase sigma subunit RpoN n=1 Tax=Lactobacillus iners DSM 13335 RepID=C8PAD9_9LACO Length = 426 Score = 313 bits (802), Expect = 1e-83, Method: Composition-based stats. Identities = 113/476 (23%), Positives = 205/476 (43%), Gaps = 64/476 (13%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 + L+ L +L ++P+L+Q + +L +T +L + L E+NP ++ T+ T Sbjct: 7 LSLRLKESLITRLFLSPKLKQDLDILSYNTEDLLKVLHDIAETNPFIDLKYTNANTTT-- 64 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 L Q + +L Sbjct: 65 ------------------------------------------------LDWVQDPSQDSL 76 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 +YL+ Q++L+ +S+ D+ + T ++ +D GYL + + I E DI + +L Sbjct: 77 VEYLIKQIQLSAWSNNDKKLVTFLIYKLDNNGYLRFTCKQLANEIEYSEADIQNAKNLL- 135 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 P+GV A DL +CLLIQ + P A I+ HL L + Sbjct: 136 --HELSPLGVGAYDLNECLLIQAKKLLHFNPI---ALAILEKHL--LERLADTSSWNSLP 188 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQT-GEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQI 299 K++ + EA+ ++ L+P PG +Y+IPD++ NGH V+ + ++P + Sbjct: 189 WKKEKILEALKELRKLEPTPGAKFDNFTNIQYLIPDLIFEIDNGHVLVKDSKFNLPEVVF 248 Query: 300 NQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQ-G 358 N+ + + + ++ + + L SLE R TL+R+ + + Q A+ + Sbjct: 249 NEVEYTNLKGSCATNEVEYFNAQKKQFMDLQLSLERRQKTLIRLGEYLAKYQLAYLKTMD 308 Query: 359 EEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASST 418 ++ +K + + ++AQ++ + STISR KY I LK F ++ Sbjct: 309 KKQLKALNMNNVAQSLGLSVSTISRAVKDKYFECNNRIISLKIMFMKSFKN----NITAM 364 Query: 419 AIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRK 474 + +++LI E+ + PLSD + L QGI ++RR V KYR ++I S RK Sbjct: 365 KVTDTIERLINEEDKSHPLSDQDICDQLLLQGINISRRAVTKYRTKMNIQNSYWRK 420 >UniRef50_A6DC70 RNA polymerase sigma-54 factor n=1 Tax=Caminibacter mediatlanticus TB-2 RepID=A6DC70_9PROT Length = 407 Score = 309 bits (793), Expect = 1e-82, Method: Composition-based stats. Identities = 117/477 (24%), Positives = 213/477 (44%), Gaps = 80/477 (16%) Query: 3 QGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQ 62 L+ +++ +L + +L + +L+ EL + +++ NP +E + Sbjct: 1 MKLKAKVTNKL--STKLISFLPILKAGLDELYEHIKEVSFENPFIEVRNK---------- 48 Query: 63 DSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQD 122 + ++ + + + + Sbjct: 49 --------------------------------KFITVSNLKNAITDKIEALSTSESSFYE 76 Query: 123 YLMWQVELTPF--SDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 L+ Q+E + F ++ R IA I + + G+ E+I S+G +D+++V+ + + Sbjct: 77 DLVSQIENSHFFPTEKSRFIALLIAEDITPDGFFDGNEEEIALSVG---VDVEKVKKIRE 133 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 R + P GV AKD+++C L QL D + +I +D L + + Sbjct: 134 RFKYLTPTGVGAKDIKECFLFQLDNLDIDEELYLLVKNMI---------NDLENLDKFYK 184 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQIN 300 +A+ +I+ P E ++V +NG+ + LN + P + IN Sbjct: 185 --HKRYNDAIKIIKDFKTTPALEYSISEEIIPE--IIVINNNGNLEIRLNEEFYPEIFIN 240 Query: 301 QHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 ++ D ++ + L++A+ L+ +LE R TL +++ IVE Q FF+ G Sbjct: 241 EY-----------VDDKYSKEKLKEARSLVDALEMRKSTLKKIALMIVELQYDFFKGGV- 288 Query: 361 YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAI 420 +KPM + D+A +E STISR KYL RGI LK FFS+ +N E S+ I Sbjct: 289 -IKPMKIQDLADELEFAPSTISRAIANKYLLCDRGIIPLKNFFSTAIN----EEVSANQI 343 Query: 421 RALVKKLIAAENPAKPLSDSKLTSLLSEQ-GIMVARRTVAKYRESLSIPPSNQRKQL 476 + +K +I E+ KPLSD K+ ++E+ I + RRT+ KYRE+++IP S +RK+L Sbjct: 344 KEEIKNIIKNEDKNKPLSDDKICEFINEKFNIKLVRRTITKYREAINIPSSRERKRL 400 >UniRef50_UPI0001906882 RNA polymerase factor sigma-54 n=2 Tax=Rhizobium etli RepID=UPI0001906882 Length = 340 Score = 309 bits (791), Expect = 2e-82, Method: Composition-based stats. Identities = 122/352 (34%), Positives = 184/352 (52%), Gaps = 20/352 (5%) Query: 1 MK--QGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEI-- 56 MK L R Q L +TPQL +IRLLQL+ EL Q ++Q +E NP L+ Sbjct: 1 MKSFTSLHQRQQQSLVITPQLIASIRLLQLAHTELNQFVEQEIEKNPFLDLASNDGGASG 60 Query: 57 -DTRETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGE 115 D D ++ + L + W +I G S +D+ Sbjct: 61 VSPTAADDPNISAREDHVDGPARTDMPELSSPWKSIRDTGNLSPGERPSLDE-----FAA 115 Query: 116 TTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEV 175 +T+TL +++ Q+ LT F+ +R IA ++ D +D+TGYL V L+++ E + E V Sbjct: 116 STETLHEHVAHQIALTAFTPQERLIAGALADHLDDTGYLQVNLQELAERLNSPEAG---V 172 Query: 176 EAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTL 235 + VL+ +Q FDP G+ A+ L +CL IQL Q D+ P A + +L+LLA DFR L Sbjct: 173 KRVLEALQLFDPPGIFARSLGECLEIQLRQRDRFDP----AMAALVANLELLARRDFRAL 228 Query: 236 MRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKH-NGHWTVELNSDSI 294 R R+ ED L + +N I++LDP+PG Q+ E +IPDV V G W VELN + + Sbjct: 229 KRRCRVDEDDLLDMLNEIRALDPKPGNQFQSARSESIIPDVFVLPSPGGGWHVELNREIL 288 Query: 295 PRLQINQHYASMCNN--ARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVS 344 P++ INQ Y + A++ D F+ Q A WL++SL+ R T+L+V+ Sbjct: 289 PKVLINQTYFAQVTRLTAQSSKDQSFLNECFQSASWLVRSLDQRATTILKVA 340 >UniRef50_UPI000196AFF4 hypothetical protein CATMIT_00324 n=1 Tax=Catenibacterium mitsuokai DSM 15897 RepID=UPI000196AFF4 Length = 408 Score = 306 bits (785), Expect = 9e-82, Method: Composition-based stats. Identities = 113/479 (23%), Positives = 214/479 (44%), Gaps = 74/479 (15%) Query: 1 MKQGLQ--LRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDT 58 MKQ +Q L Q L + +L +++ L + ++ + +QQ LE+NP LE Sbjct: 1 MKQKMQYIQTLKQTLKLNQKLLKSLDFLTDNIDDINKVVQQVLETNPFLEL--------- 51 Query: 59 RETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQ 118 S D + + + Sbjct: 52 -----------------------------------------KSPKNYDTQQFIESISNKR 70 Query: 119 TLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAV 178 +L+D L Q+ + + +++++D++G+L+ P++ + D +ID + ++A Sbjct: 71 SLKDDLYLQLSACTRPYNE-DLMDYLIESLDDSGFLSYPIDQ---YLTDLDIDREMLDAH 126 Query: 179 LKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRV 238 L ++ F+P GV A D D ++IQL +K + D+ D++ ++ + + Sbjct: 127 LDILRSFEPNGVGAADAIDSIMIQLKNNNKIKS-----YTLFRDYQDVILTQNYSLIKQK 181 Query: 239 TRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQ 298 T LK++ + I+S +P P + + +Y+ PDVL+ + + + + P L Sbjct: 182 TGLKKEEIDHLFYEIRSCNPFPCNMYSSSQDDYISPDVLIEVEDSNIIIT--PINQPELI 239 Query: 299 INQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQG 358 +N N N ++S +A +LI++L RN T+L V+ +V+ Q +F Sbjct: 240 VNDLLYEKVKNDEN------MKSYFNEAHFLIENLTKRNQTVLFVANALVDIQSGYFLY- 292 Query: 359 EEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASST 418 ++ + P L+ +A HESTISR KY ++ LK S + SS Sbjct: 293 DDELYPCTLSQLANETGFHESTISRTLNNKYYSFNGEVYPLKQLLVSQTASGD----SSD 348 Query: 419 AIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQLV 477 +I+ + +L+ +E+ PLSD+++ L E + +RR + KYR+ L+IP S +RK L+ Sbjct: 349 SIKKAIVELVDSEDKEHPLSDNQILKKLEELELHCSRRVIVKYRQQLNIPSSTKRKILL 407 >UniRef50_UPI0000D54D13 DNA-directed RNA polymerase subunit N n=1 Tax=Psychroflexus torquis ATCC 700755 RepID=UPI0000D54D13 Length = 413 Score = 306 bits (785), Expect = 1e-81, Method: Composition-based stats. Identities = 118/464 (25%), Positives = 207/464 (44%), Gaps = 58/464 (12%) Query: 3 QGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQ 62 + + Q+L +TP L+++I LLQLS EL ++QQ +E NP LE+I+ E Sbjct: 5 LSQKFKQRQKLTLTPSLKKSIDLLQLSRYELINKIQQEIEENPFLEKIEDFENNTAP--- 61 Query: 63 DSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQD 122 D+ ++ E+ L+ Sbjct: 62 --------------------------------------------DKDFSFEIESKVDLKG 77 Query: 123 YLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK-R 181 L+ Q+ I+ I++ +DE G L LED+ E + E I E+E VL+ Sbjct: 78 SLLDQINDLNLDIKSLQISKLIINNIDEAGKLVEQLEDL-EELSSYEYSIREIETVLQDV 136 Query: 182 IQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLII-SDHLDLLANHDFRTLMRVTR 240 I + P G+ +D ++C+ IQ+ E II +D LD L + + Sbjct: 137 IHKLHPHGIGYRDHKECIRIQIEYGKLKNELKEICLSIILNDSLDDL--NKIKNNFISNG 194 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQIN 300 +E + A+N I+ D PG + Q +Y+ PD+ + K N + P+++I+ Sbjct: 195 GEESAFENALNEIKKCDLSPGLNFQES--QYIYPDLKITKENNQTKISFIEKDFPKIKID 252 Query: 301 QHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 + A + + + +AKWL+ S+ RNDT+L+V I+ +Q FFE Sbjct: 253 EALAKNVKKNLKIEKNNELSEKISEAKWLLSSINKRNDTVLKVGELILSKQIHFFENNPI 312 Query: 361 YMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAI 420 ++ + +I++ + +H+ST+SR+ KY+ SP+GI LK S V+ +S + Sbjct: 313 KIEALSNKEISEKLNIHQSTVSRILRNKYIESPKGIIPLKSLMVSSVS--KSRNVTSIQL 370 Query: 421 RALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRES 464 L++ + E K ++ L+++G +ARRT+ KYR+ Sbjct: 371 MKLIENITKKEKKPKSD--KQIAIELNKRGFNLARRTITKYRKM 412 >UniRef50_Q9ZLC8 RNA polymerase sigma-54 factor n=34 Tax=Campylobacterales RepID=RP54_HELPJ Length = 414 Score = 296 bits (759), Expect = 9e-79, Method: Composition-based stats. Identities = 118/475 (24%), Positives = 222/475 (46%), Gaps = 72/475 (15%) Query: 5 LQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDS 64 L+ LS + + L+ + +LQ +L++ L+Q NPL++ + + Sbjct: 4 LRANLSPKNKLNATLKGWLPILQSELEDLEEVLKQNALDNPLIKIENKRIKN-------- 55 Query: 65 ETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYL 124 ++ + S D++++ +++L + L Sbjct: 56 ---------------------------FSDRFNTKKSSDHLEN-----CATASKSLFETL 83 Query: 125 MWQVEL-TPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQ 183 Q+ ++T + IA I+ ++ GY +E+ + +G ++ + E V KR Sbjct: 84 ESQIIPPLFPTETSQKIAMDIISGLNNEGYFEENIEERAKVLG---VESEVYEKVRKRFS 140 Query: 184 RFDPVGVAAKDLRDCLLIQLSQFDKTT-PWLEEARLIISDHLDLLANHDFRTLMRVTRLK 242 +P G+ AKD+++ L QL + EE R II L+L +H+F Sbjct: 141 YLNPAGIGAKDVKEGFLFQLDGRELDNNELYEETRKII---LNLEKHHEFSKDFY----- 192 Query: 243 EDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQH 302 ++A+ +++S P E E VIP++ + + + V LN +S P + + ++ Sbjct: 193 ---YEKALKILKSFKNPPAIEFLEKEIE-VIPELFILEVDNEMIVRLNDESYPTISLEEN 248 Query: 303 YASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYM 362 DS +++ L++AK LI +L R T+ ++ ++E Q FF+ E + Sbjct: 249 RFK---------DSDYLKEKLKEAKDLIDALNLRKATIYKIGLMLLEYQYDFFKGKE--L 297 Query: 363 KPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRA 422 +P+ L D+A STISR + KYL RG+F +K+FFS ++ E S+ I+ Sbjct: 298 RPLKLLDLANEFNHSVSTISRAISNKYLACERGVFPIKHFFSIALDN---SETSNAVIKD 354 Query: 423 LVKKLIAAENPAKPLSDSKLTSLLSEQ-GIMVARRTVAKYRESLSIPPSNQRKQL 476 + +LI E+ +PLSD+K+ L+ E+ + + RRT+ KYR+ L+I S++RK+L Sbjct: 355 YLLELIKNEDKKEPLSDAKILELIEEKFHLKMVRRTITKYRQLLNIASSSERKRL 409 >UniRef50_A8RDS7 Putative uncharacterized protein n=1 Tax=Eubacterium dolichum DSM 3991 RepID=A8RDS7_9FIRM Length = 406 Score = 294 bits (754), Expect = 3e-78, Method: Composition-based stats. Identities = 106/480 (22%), Positives = 205/480 (42%), Gaps = 83/480 (17%) Query: 1 MKQGLQLR--LSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDT 58 M+Q L L+ + Q+ +QA+++LQ++ +LQ +++ + NP L Sbjct: 1 MEQKLLLKPDIKQKSNFHSAREQALQILQMNQQDLQMYIREQADHNPFL----------- 49 Query: 59 RETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQ 118 + + D+ +Y+ Q Sbjct: 50 -------------------VMNTIGEDSDIFDVYSP----------------------KQ 68 Query: 119 TLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAV 178 +L D L Q+ + I ++ ++ GY + LE ++ E+ Sbjct: 69 SLSDTLYDQLCYIEKPYKE-EIVDYLLSRLNSNGYFKISLEQLIL---GSCFSQKEIIET 124 Query: 179 LKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRV 238 + +QR +P+G +L++ L IQ + E I+ D+L+ LA H F + Sbjct: 125 IAVLQRLEPIGCFCFNLKESLQIQCEMHE---EACSETGYILCDYLEDLAFHRFAQVEVK 181 Query: 239 TRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQ 298 T L + ++E IQ L+P+P + + ++P++ V+ GH +E + Sbjct: 182 TGLSLEEIEEGFAFIQGLNPKPASNYA-TQSAVILPEIRVKLVQGHLVLETVQEI----- 235 Query: 299 INQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQG 358 + ++++ ++A ++ S++ R T++++ +V++Q+AFF + Sbjct: 236 -----FRLQLEEDMGTHHEYLKRQRKEATLIMNSIQKRKMTIMQIMEFLVDKQKAFFLEK 290 Query: 359 EEYMKPM---VLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEA 415 KP+ L D+++A +H STISR K + +KY G Sbjct: 291 ----KPLCYCTLQDVSKACGLHVSTISRAIQNKSFEFQNNYYPIKYLLVHG----GDKAH 342 Query: 416 SSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 S I++ +K LI E+ +P SD +L LL ++GI ++RRTV+KYRE+ + ++QRKQ Sbjct: 343 HSQEIKSRIKALIDNEDKQRPYSDERLRKLLEKEGIRISRRTVSKYREACLLFNASQRKQ 402 >UniRef50_Q5LLX0 RNA polymerase sigma-54 factor n=1 Tax=Ruegeria pomeroyi RepID=Q5LLX0_SILPO Length = 427 Score = 289 bits (741), Expect = 1e-76, Method: Composition-based stats. Identities = 101/476 (21%), Positives = 192/476 (40%), Gaps = 58/476 (12%) Query: 3 QGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQ 62 Q +Q+LA+T ++ ++ LL + E + +++ N L + Sbjct: 5 QRQIQTQAQKLALTQAMRASLSLLSMDADEAAEAIRREQSRNSFLRTVPPPLPGGGGAAD 64 Query: 63 DSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQD 122 E E Sbjct: 65 QPEIAHMESGTED----------------------------------------------- 77 Query: 123 YLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRI 182 L+ QV L + +A +V ++DE G+L E+ + ++ + +L+ Sbjct: 78 -LLRQVALIRMTTRQNQLAQDLVHSLDERGFLPDSPEETASYLQCSPAELSALVPILQD- 135 Query: 183 QRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLK 242 +P GV A L D +QL ++ P +E + LDL+A D + + + Sbjct: 136 -AVEPAGVFAWSLADSFRLQLQAKNRFDPLIER----LLCRLDLIARQDIDGICKACDVD 190 Query: 243 EDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLV-RKHNGHWTVELNSDSIPRLQINQ 301 + E + I+SL+P P P++++ +G T LN ++PRL + Sbjct: 191 REDAIEMLEDIRSLNPSPLFRQSHPIQASGEPELIIKTAPDGTCTASLNEAALPRLLTDD 250 Query: 302 H-YASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEE 360 ++S + + R + A ++++++ R +TLL + I ++Q F G Sbjct: 251 ALFSSTMAAETDAHAQSYYRDCYRGAANMVRAMQKRANTLLSAGQTIADRQHKFIRSGRL 310 Query: 361 YMK-PMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTA 419 K P+ + IAQ +++STISR + + GIF ++F + ++ + + + Sbjct: 311 RDKQPLTMTLIAQEAGLNKSTISRALSNCRIRLDSGIFPAEHFLARPLS-DDTPDRTRDQ 369 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 + ++ LI ENP P+SD L L + + ++RRTVAKYR+ L IP + +RK+ Sbjct: 370 VLQRLRLLIETENPRSPMSDQVLARQLGKARLSISRRTVAKYRQFLQIPGAYERKR 425 >UniRef50_O83149 RNA polymerase sigma-54 factor n=2 Tax=Treponema pallidum RepID=RP54_TREPA Length = 475 Score = 289 bits (739), Expect = 2e-76, Method: Composition-based stats. Identities = 115/493 (23%), Positives = 199/493 (40%), Gaps = 67/493 (13%) Query: 16 TPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSETLDTADALEQ 75 +L + LLQLS +L+ E+ +A++ NPLLE + R T + L Sbjct: 13 NQRLVHGLCLLQLSRGDLKTEVLRAVQRNPLLEIRPSS----ARRTGKACYLS------- 61 Query: 76 KEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSD 135 + D L + ++ L QV Sbjct: 62 ----------------LGDRRERMRARDRFQQLLENQPDKQVDNIRAVLREQVFYQKHEA 105 Query: 136 TDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDE-VEAVLKRIQRFDPVGVAAKD 194 +A + + +D+ G+ ++ G + E + + IQR +P G A + Sbjct: 106 IVLDLACAFIQMLDDHGFFSISPAIFQNMCGSMPTALQEKIPQAIALIQRLEPQGCAVFN 165 Query: 195 LRDCLLIQ--LSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVT------------- 239 ++ L +Q L + P +++ H +LL D RV+ Sbjct: 166 FKESLAVQARLRFERFSDPLYRCVINLLTHHSELLFCSDNMCDGRVSVHALTTQINSMGL 225 Query: 240 ---RLKEDVLKEAVNLIQSLDPRPGQSIQT----GEPEYVIPDVLVRKHNGHWTVELNSD 292 ++ + +K+ + LI+ L P PG+ + + PDVL+ K + ++N Sbjct: 226 CVQKVSSNDVKDILLLIKELHPFPGKCVSNAQRADTNMLLEPDVLITKTAHGFVTQINCT 285 Query: 293 SIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQ 352 IP + Y C +++ + +++ + DA L+ L R TLL +++ IV Q Sbjct: 286 GIPTVVFRNDY---CMHSKAAEKNHALKACMHDALSLVSMLSYRERTLLDIAKTIVHYQC 342 Query: 353 AFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHV-NTEG 411 FF+ G + P+ + D+A + ST+SR+ K+L F L+YFFS V +TE Sbjct: 343 GFFDHGPAKLTPLRMTDVAHRTGLSVSTVSRIVRDKWLQYGSQHFSLRYFFSPRVLSTEE 402 Query: 412 GGEASST------------AIRALVKKLIAAENPAKP-LSDSKLTSLLSEQGIMVARRTV 458 + SS +++ + +LI + LSD ++ LL EQGI ARRTV Sbjct: 403 YRDRSSLGQNYPSSPHSKVSVKYRISRLIQEVRTQRISLSDRRIAQLLGEQGIKCARRTV 462 Query: 459 AKYRESLSIPPSN 471 KYR L S+ Sbjct: 463 NKYRSELRTCSSS 475 >UniRef50_D0D5Z1 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Citreicella sp. SE45 RepID=D0D5Z1_9RHOB Length = 419 Score = 289 bits (739), Expect = 2e-76, Method: Composition-based stats. Identities = 114/476 (23%), Positives = 195/476 (40%), Gaps = 62/476 (13%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M +L++SQ ++ I +LQLS EL + L Q +SNPLL Sbjct: 1 MSPSTRLQVSQNQVF--RMGHVISVLQLSGEELDEHLLQTAQSNPLL------------- 45 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 + + D + + +L Sbjct: 46 ------------------------------VVRRRRQTAIRAGSAHDLIDSTFADRPTSL 75 Query: 121 QDYLMWQV-ELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVL 179 D+++ ++ L + ++V+ ++ +G+L P+ I E++G + + VE L Sbjct: 76 YDHVLRELAGLAGRGAAMERLILALVEELEPSGWLGRPVPQIAETLG---LSVQLVETAL 132 Query: 180 KRIQR-FDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRV 238 +QR P G+ A+DLRDCL +QL ++A + HL++L L R Sbjct: 133 DLVQRRVSPAGIFARDLRDCLRLQLEDQG----LWDDAAGRVLAHLEVLGTGGAEALERA 188 Query: 239 TRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQ 298 T L + ++ ++ LDP+PG T DV + W P + Sbjct: 189 TGLDAATIATRLHRLRRLDPKPGSQFATDLTLMREADVRIEARGDGWV--------PIFR 240 Query: 299 INQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQG 358 + + S +R L +A+ L ++L+ R L ++ + ++E Q AFF G Sbjct: 241 TSFETVVAVPPGASGDSSPEMRRALGEARALKQALDLRQGALKQIVQVMIEVQGAFFRDG 300 Query: 359 EEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASST 418 E ++P+ A IA H ST+SRV + P GI + + S Sbjct: 301 PEALQPLTQAMIAAKTGFHLSTVSRVLNGLLIEGPNGIIPARTLCARRSALCSTDGPSKP 360 Query: 419 AIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRK 474 + A ++ L+ AE + PLSD +L+ L +G+ V+RR VA+YR L P+ QR+ Sbjct: 361 KVLARLRALLLAECASHPLSDVQLSDALRAEGLAVSRRVVARYRHELGFAPAAQRR 416 >UniRef50_C0XEY8 RNA polymerase factor sigma-54 n=2 Tax=Lactobacillus gasseri RepID=C0XEY8_9LACO Length = 413 Score = 285 bits (729), Expect = 3e-75, Method: Composition-based stats. Identities = 113/476 (23%), Positives = 198/476 (41%), Gaps = 70/476 (14%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 + Q + SQ+ ++ +L S +L L+ E NP L Sbjct: 2 INQFQKTTQSQKQIFKQYQLTSLSMLSDSYTDLAHYLKTQEEKNPYLTV----------- 50 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 + + D+I ++ Sbjct: 51 ---------------------------------TSNRTKQNLDWITEDESGLTKTK---- 73 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 L+ L S+ + ++D +D G+L+ ++E ++ + + Sbjct: 74 ---LLHDFNLEVKSNKLKYFGAIVIDNLDGHGFLS-DYHHLIEQFPQQQ---KLINKAIN 126 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 +Q P G+AA+ + +CLL+QL + + + II +L+ LANH+FR + Sbjct: 127 IVQNIGPTGIAARSVSECLLLQLKHK---SNYPKNTDTIIKYYLEDLANHNFRKIYTNLS 183 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEPE-YVIPDVLVRKHNGHWTVELNSDSIPRLQI 299 + ++ L + + I+SL RPG I T +IP++ + + L D+ Q Sbjct: 184 ISKNDLFKVICFIKSL--RPGVEINTDINNKIIIPELFICYDHKKIFTHLIEDN----QF 237 Query: 300 NQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE 359 N + + + + +FI+ + A+ L K+ + R DTLL + + I EQQ+ FF G Sbjct: 238 NLEFKTPSYSTNDTETLKFIKKQKKQAQNLQKNYQRRQDTLLLIGQTIAEQQEIFFATGG 297 Query: 360 EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTA 419 + P+ + IA ++ STISR KY GIF L FSS +N S Sbjct: 298 KKFTPLNESQIALETHLNVSTISRTVRSKYFQCDFGIFPLNILFSSKINN-----FSQKN 352 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 I ++KK+I EN PL+D ++ + L + I V+RRT++KYR+ L I QR++ Sbjct: 353 ILNMLKKIILNENQKNPLTDDEIKNKLLKNNIAVSRRTISKYRKKLGIGNYYQRQK 408 >UniRef50_B7C885 Putative uncharacterized protein n=1 Tax=Eubacterium biforme DSM 3989 RepID=B7C885_9FIRM Length = 406 Score = 275 bits (704), Expect = 3e-72, Method: Composition-based stats. Identities = 107/478 (22%), Positives = 188/478 (39%), Gaps = 79/478 (16%) Query: 1 MKQGL--QLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDT 58 MKQ L Q L MT L+ + +L L L ++NP Sbjct: 1 MKQDLIYTHTYKQTLHMTTGLKSHLEILSKDRQTLSDLLYNVSQNNP------------- 47 Query: 59 RETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQ 118 + TPS Y++ + Sbjct: 48 ---------------------------------FLEYTPSQDIQQYLETGISN-----KP 69 Query: 119 TLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAV 178 +L+D L Q+ + + IA I++++D G+ +DI + D + + E Sbjct: 70 SLKDELYLQLHTSTKKYNE-PIANYIIESLDSHGFFD---QDIHTVLSDLKCTKAQFEET 125 Query: 179 LKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRV 238 L IQ F+P+GVAAK+ D L+IQL A I+ ++ L DF T+ Sbjct: 126 LSFIQTFEPIGVAAKNSIDSLMIQLKTKG-----YTVAYTILKNYSKELEEKDFYTISES 180 Query: 239 TRLKEDVLKEAVNLIQSLDPRPGQSIQTGEP-EYVIPDVLVRKHNGHWTVELNSDSIPRL 297 + + + + + +Q +P P T +P+ + + + L Sbjct: 181 LDIPYETVFDELAHMQECNPFPCSEYDTESTTNLALPEFTIEIDEDQLKII--PKEMGNL 238 Query: 298 QINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQ 357 ++ + A + L +AK+ I S+ RN T+L ++ ++ Q+ +F Sbjct: 239 SLHCEEVKLSKEA---------KKYLNEAKFYIDSINRRNKTILLLANILITHQKNYFLF 289 Query: 358 GEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASS 417 ++ +K L +IA+ ST+SR + KY ++ +K F S +S Sbjct: 290 QDD-LKECTLKEIAEESGYSISTVSRTLSDKYYEFNDHMYPVKDLFISKT----HKGSSK 344 Query: 418 TAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 +I+ ++ LI ENP PL D ++ L + +RRT++KYR+ L+IP S QRK+ Sbjct: 345 DSIQKAIQLLIEVENPENPLQDEEIVEELKNMELYASRRTISKYRKELNIPNSKQRKK 402 >UniRef50_O66858 RNA polymerase sigma factor RpoN n=1 Tax=Aquifex aeolicus RepID=O66858_AQUAE Length = 398 Score = 267 bits (684), Expect = 5e-70, Method: Composition-based stats. Identities = 94/363 (25%), Positives = 175/363 (48%), Gaps = 30/363 (8%) Query: 112 YQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEID 171 YQ T + + L ++L ++ +A +++ ++E G+L+ +E+I + + Sbjct: 65 YQIPYTPSELEELQQNIKL-ELEGKEQELALELLNYLNEKGFLSKSVEEISDVL---RCS 120 Query: 172 IDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHD 231 ++E+E V +++ R +P+GV +KD+ + L +Q E I+ L L Sbjct: 121 VEELEKVRQKVLRLEPLGVCSKDVWEFLELQ------IEEIYPEEEEILKKALRDLKRGK 174 Query: 232 FRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNS 291 +L L P S + D ++ + NG + + L Sbjct: 175 KLKPEIKGKLS------------RLRLFPLSSSAEKVYTFAKVDAIIEEENGEFFIYLYE 222 Query: 292 DSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQ 351 D I + +N+ Y + +RN + ++ + + + K L+ R L +V IVE+Q Sbjct: 223 DFI-DIDLNEEYWELYKKSRN--LQKELKEAFERYESIRKVLDIRRRNLRKVLEKIVERQ 279 Query: 352 QAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEG 411 + F G+ +KP+ L +++ + +HEST+SR+ KY+ +P G + L+ FF E Sbjct: 280 KDFL-TGKGSLKPLTLREVSSEIGIHESTLSRIVNSKYVKTPVGTYSLRTFFVR----ES 334 Query: 412 GGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSN 471 + + L+K+++ E+ KP SD ++ ++L E+G VARRTVAKYRE L IP S Sbjct: 335 AEGLTQGELMKLIKEIVENEDKRKPYSDQEIANILKEKGFKVARRTVAKYREMLGIPSSR 394 Query: 472 QRK 474 +R+ Sbjct: 395 ERR 397 >UniRef50_Q7M8V1 RNA POLYMERASE SIGMA-54 FACTOR n=1 Tax=Wolinella succinogenes RepID=Q7M8V1_WOLSU Length = 404 Score = 266 bits (681), Expect = 1e-69, Method: Composition-based stats. Identities = 120/474 (25%), Positives = 198/474 (41%), Gaps = 84/474 (17%) Query: 5 LQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDS 64 LR+SQ+ A+ ++Q +L+ S EL+++L +A NP L Sbjct: 2 QSLRISQKQALRLSVRQWCAVLEASGSELEKKLSEAALENPFL----------------- 44 Query: 65 ETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYL 124 P+ +SGD+I++ + LQ+ L Sbjct: 45 -------------------------KFRRKSLPTFSSGDFIEN------SPKERFLQESL 73 Query: 125 MWQVELTPFSDT-DRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQ 183 + Q++ + F + IA I++ ++ GY I E G E EVE + KR + Sbjct: 74 LDQIDSSFFPTEFSQKIAAKIIEELNVEGYFEGDESAIAEEFGTSEA---EVEKIRKRFR 130 Query: 184 RFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKE 243 + DP GV AKD + +L + D A I+ + + + Sbjct: 131 KLDPCGVGAKDSLEAFEFRLLESDYDEDLSSLAYEIL---------RSPGQIHHLQG--Q 179 Query: 244 DVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHY 303 L EA++L + P GE + PD+LV + G + +E+ D Sbjct: 180 ARLLEAIDLAKRFSAPPALEFMQGEA-FRRPDILVAEDEGVFRIEVWGDE---------- 228 Query: 304 ASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMK 363 + A + ++ ++A+ L R+ TL +++ IV+ Q+ FF+ GE ++ Sbjct: 229 FELGVEACGVKEKNSLK---KEARLLCDYFNMRHSTLRKIATLIVDLQRDFFQGGE--LR 283 Query: 364 PMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRAL 423 P ++ A + + + T SR QK L RG F L+ FF E S IRA Sbjct: 284 PFSVSQAALEIGISQPTFSRAIAQKSLCCSRGTFPLRKFFPY----EAKNGVSGEEIRAF 339 Query: 424 VKKLIAAENPAKPLSDSKLTSLLSEQ-GIMVARRTVAKYRESLSIPPSNQRKQL 476 +K LIA E + SD +L+ L+ + G+ + RRT+ KYRE L IP N RK+L Sbjct: 340 IKALIAQEQGGRIYSDEQLSELVKRKFGVHIVRRTIGKYREQLGIPSPNFRKKL 393 >UniRef50_B1CB68 Putative uncharacterized protein n=1 Tax=Anaerofustis stercorihominis DSM 17244 RepID=B1CB68_9FIRM Length = 243 Score = 265 bits (678), Expect = 2e-69, Method: Composition-based stats. Identities = 72/243 (29%), Positives = 140/243 (57%), Gaps = 1/243 (0%) Query: 233 RTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSD 292 + + + +++ + I+ L+P+P +I+ EP Y+ PD+L+ N W +ELN + Sbjct: 2 SKISKELNISRLEVRKYIYSIKCLNPKPLINIKMSEPVYINPDILLTYENNKWNIELNDN 61 Query: 293 SIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQ 352 I I+ +Y M + + ++ + + L ++++ SLE R +T+L +++ I+ +Q+ Sbjct: 62 WINNYYISDYYLKMIDTSEDENLKMYFKEKLSKCRFILNSLEQRRNTILNITKVIIRRQE 121 Query: 353 AFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGG 412 +F G + M L+++A ++M+ ST+SR KY+ SP GI ++ FSS+V+ Sbjct: 122 KYFR-GNGKIVSMTLSEVADEIDMNVSTVSRAIKNKYMSSPIGIINMRDLFSSYVSYGED 180 Query: 413 GEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQ 472 + ++ +K +I EN KP SD ++ + L+++ I ++RRTV+KYR+ L+IP S Sbjct: 181 IRLTPEDVKQKIKVIIEEENKKKPYSDDEIVNKLNDENINISRRTVSKYRKELNIPTSYN 240 Query: 473 RKQ 475 RK+ Sbjct: 241 RKE 243 >UniRef50_UPI0001BC42F5 RNA polymerase factor sigma-54 n=2 Tax=Fusobacterium RepID=UPI0001BC42F5 Length = 384 Score = 264 bits (675), Expect = 5e-69, Method: Composition-based stats. Identities = 80/368 (21%), Positives = 160/368 (43%), Gaps = 34/368 (9%) Query: 107 DELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIG 166 ++ + +L Q+ R + ++ +G+L ++ + +G Sbjct: 49 EKSFFENLTEEKDFYTFLEEQLLYINPPKNIRENLIFCIYNLNSSGFLEFSDIELCKHLG 108 Query: 167 DEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDL 226 I + E++ + + P+GV A + R+C+ +QL + + +E I HL Sbjct: 109 ---ISMKELKETYEYLYTLHPIGVGAHNFRECIRLQLQKKKEWNQKMEG----ILLHLQY 161 Query: 227 LANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWT 286 +A+ + L + + ++ + +N I++ +P P + + ++PD ++ N W Sbjct: 162 IADGNSEKLRKKLGITKEEFQSFLNKIKNCNPIPARGYFIRKNLTIVPDFVLVLENEVWI 221 Query: 287 VELNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRC 346 + N++ L Y++ K L +E R DTL ++ Sbjct: 222 AKENTELRDSL-----YSTQIIETP-------------SIKLLRLCIEKRMDTLKKIVDY 263 Query: 347 IVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSH 406 +VE Q+ +F +GE ++ + +A + +H ST+SR KYL + +GI+ +K F Sbjct: 264 VVEYQKEYF-KGENFLHTLHEKQVAHDLNLHLSTVSRAIQNKYLKTEKGIYSIKSLFCY- 321 Query: 407 VNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLS 466 E I+ +++LI EN KP +D+++ L + + RRT+AKYR+ L Sbjct: 322 -------EEKREKIKMEIERLIKYENYQKPYTDTQIQEELKSKFGKIPRRTIAKYRQELG 374 Query: 467 IPPSNQRK 474 S RK Sbjct: 375 YVSSFYRK 382 >UniRef50_B7J217 RNA polymerase sigma-54 factor n=19 Tax=Borrelia RepID=B7J217_BORBZ Length = 419 Score = 261 bits (668), Expect = 4e-68, Method: Composition-based stats. Identities = 103/465 (22%), Positives = 200/465 (43%), Gaps = 64/465 (13%) Query: 9 LSQQLAMTPQL----QQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDS 64 + Q+L ++ L Q I++L L+ EL + + + E+N LE Sbjct: 2 IKQKLKISQNLNSIQIQTIKILGLNQKELTKLILEESENNECLEID-------------- 47 Query: 65 ETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYL 124 K E L Y D + + + +T +L+++L Sbjct: 48 ---------SNKIFFETLKTYRFKKVFYKEDDMIKNQHD-----IALEKTQTNTSLKEHL 93 Query: 125 MWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQR 184 + Q+ + ++ + I +++ ++ G+ + D+ + E++ + ++ IQ+ Sbjct: 94 LLQLRIQRINEDEIKIGEILINNLNSKGFHIINPYDLFKKEEKEKV-----KKTIELIQK 148 Query: 185 FDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKED 244 FDP+G+ ++ + L++Q T ++ L + L +++ Sbjct: 149 FDPIGICVPNIIESLILQAKHHKLETNIIKILEK------AELLEKTQKKLKEELKIRSK 202 Query: 245 VLKEAVNLIQ-SLDPRPGQSIQTGEPE--YVIPDVLVRKHNGHWTVELNSDSIPRLQINQ 301 A+ +I+ L+P P + YV PD+L+ HN + +++ +N Sbjct: 203 EFNTALEIIRQKLNPNPTLEFKDPNDTNFYVDPDILIINHNNKFKIKIKE-------VNI 255 Query: 302 HYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEY 361 + + N + AKWLI+SL R++ L ++ I Q+ F +G + Sbjct: 256 FKKELKRTSENP-------QKQKKAKWLIESLRYRDEILAKIGIAIYTLQKEFLRRGFKS 308 Query: 362 MKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIR 421 ++PM L+ +++ + + +STISR KYL G +K FSS V E S +I+ Sbjct: 309 LRPMNLSILSEKISVSKSTISRAIKNKYLKCEWGTILIKELFSS-VGGAKTNEFSKLSIK 367 Query: 422 ALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLS 466 VKKL+ A K +SD +++ +L +GI ++RRTV KYR L Sbjct: 368 ITVKKLLEA---NKKMSDKEISVILKSKGISISRRTVNKYRNELK 409 >UniRef50_A8UUG6 RNA polymerase sigma factor RpoN n=1 Tax=Hydrogenivirga sp. 128-5-R1-1 RepID=A8UUG6_9AQUI Length = 398 Score = 258 bits (659), Expect = 4e-67, Method: Composition-based stats. Identities = 103/452 (22%), Positives = 186/452 (41%), Gaps = 77/452 (17%) Query: 23 IRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSETLDTADALEQKEMPEEL 82 + +L EL+Q L++ ESNP +E++ Sbjct: 22 VEILLHPVQELEQLLKEEKESNPFIEEVYV------------------------------ 51 Query: 83 PLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIAT 142 T + P + + LQ + ++E IA Sbjct: 52 ------------SGRVHTFYEEKRLPEPTLKIHPLEALQRNVKAELEGLDLD-----IAQ 94 Query: 143 SIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQ 202 ++ DE G+ I G + + VE + + + R DP+GV +KDL++ + +Q Sbjct: 95 ELISQTDEKGFFRGDQTAIALKYG---VSKEYVEDIREFVMRLDPLGVCSKDLKEFVRLQ 151 Query: 203 LSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQ 262 + + P L E + +RLK ++ L P Sbjct: 152 IEELYPEEPELVEEFE---------KALRGENISEDSRLKLSHVR--------LSP---L 191 Query: 263 SIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIRSN 322 + P D ++ +G + + I ++ ++ Y M + + +F++ Sbjct: 192 EEEISVPRVAKVDAVIELDDGELVGYVYEELI-EVRPSRSYMEMMSKVKG-EAREFLKEY 249 Query: 323 LQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTIS 382 L+ + K L R D L ++ I+E Q F +GE +K +++ D+A + + EST+S Sbjct: 250 LERYENFKKILAIRRDNLKKILNEIIEVQADFL-KGEGNLKSLLVKDVAYKLGVSESTVS 308 Query: 383 RVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKL 442 R+ + KY+ +P+G + ++FF E G S + +K+++A E+ KPLSD ++ Sbjct: 309 RLISSKYVKTPQGTYPFRFFFVR----ETAGGISQEELMKEIKEVVAREDKGKPLSDDEI 364 Query: 443 TSLLSEQGIMVARRTVAKYRESLSIPPSNQRK 474 +L +G VARRTVAKYRE L IP S +R+ Sbjct: 365 AKILQSKGYNVARRTVAKYRELLGIPSSRRRR 396 >UniRef50_C4FUT1 Putative uncharacterized protein n=1 Tax=Catonella morbi ATCC 51271 RepID=C4FUT1_9FIRM Length = 434 Score = 257 bits (658), Expect = 5e-67, Method: Composition-based stats. Identities = 85/446 (19%), Positives = 172/446 (38%), Gaps = 47/446 (10%) Query: 21 QAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSETLDTADALEQKEMPE 80 Q ++L LS +L L+ + NP +E + E Sbjct: 35 QLWQMLGLSAAQLTYFLEDEILENPFIELDYPKTKPQQASVTLQEHSAII---------- 84 Query: 81 ELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAI 140 + E + L +L Q+ + + R Sbjct: 85 ---------------------------GVDPQMPEAPRNLPMFLFEQIMMYRHT-IIRDA 116 Query: 141 ATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLL 200 ++D ++ GYL +++ + +G E I + Q+ +P G+ A D+R+CL+ Sbjct: 117 MVRLIDLLNPQGYLPYSYQEVAKQLGIEPI---IALDAITLFQQLEPAGIGAYDMRECLM 173 Query: 201 IQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRP 260 +Q Q A ++ ++ D L D++ ++ T L + V+ Q+L P Sbjct: 174 LQTEQ---DAHAPNVAYYLLEEYFDQLKAEDYQAIVAATGLALADVLACVSYYQTLRTSP 230 Query: 261 GQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIR 320 Q E ++++ DV V + V N+ P+L N+ Y + F + Sbjct: 231 ADLFQVEEEDHLLDDVTVLQDQEGMKVRYNAHYYPKLIFNEPYYQEMLATQEPEVVAFSK 290 Query: 321 SNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHEST 380 L ++L R +L+V++ I Q +F Q + P++L +A+ + E Sbjct: 291 PQKLMYDRLARNLRVREQLILKVAQAIAAVQHDYFSQISDAKVPLLLKQVAEITGLPEPV 350 Query: 381 ISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDS 440 ++ + + K + + + + F + EG S+ I+ ++ +++ + LSD Sbjct: 351 VNLLVSNKNIGFGQYVLPMTDFITVA-TREGRDGFSAEKIKQVIHEILH--DAPADLSDE 407 Query: 441 KLTSLLSEQGIMVARRTVAKYRESLS 466 +L L E+ IM++ V YR++L Sbjct: 408 ELVERLEERKIMISPFMVRNYRQALG 433 >UniRef50_A1BC03 RNA polymerase, sigma 54 subunit, RpoN n=1 Tax=Paracoccus denitrificans PD1222 RepID=A1BC03_PARDP Length = 396 Score = 243 bits (620), Expect = 1e-62, Method: Composition-based stats. Identities = 79/358 (22%), Positives = 150/358 (41%), Gaps = 32/358 (8%) Query: 115 ETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDE 174 + L+ Q+ L P IA +V +D+ G L PL +I +G Sbjct: 69 PQPDDPRAELIAQIGLLPLPADQMRIAQELVHCLDDRGLLADPLAEIAGWLGT---TPAV 125 Query: 175 VEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRT 234 +E +L + R +P GV A+D+ +C +QL + PW++ + D LDL+A + Sbjct: 126 LEGLLPHLHRLEPHGVFARDMSECFRLQLRAKNLLDPWMDR----LLDRLDLVAEGNLSA 181 Query: 235 LMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSI 294 + + + + I++L P P G P +EL + + Sbjct: 182 IAAFLGTDHEDAGDMIADIRALTPAPLGIPAAGGPPP--------------ELELTAQGV 227 Query: 295 PRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAF 354 L+ A + + A+ L+ ++E+R TLLR+ ++E Q ++ Sbjct: 228 --LKPGPSLALALGDEGDGEARAM-------AQGLVAAVENRMQTLLRIGTALIEIQSSW 278 Query: 355 FEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGE 414 G +P+ + + ++ + +STISR + +P G L+ +++ + Sbjct: 279 LL-GHGARRPLTMTALGTSLGLSKSTISRAVAGVVIRTPAGPVHLRDLLKPPISSHNP-D 336 Query: 415 ASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQ 472 + + ++I +D++L L+ +GI ++RRTVAKYR L +P Q Sbjct: 337 LDREGVLQTLSQIIGDWPEGYRCTDARLAEKLAARGIRLSRRTVAKYRLGLGVPRHRQ 394 >UniRef50_Q2EU28 RpoN (Fragment) n=40 Tax=Gammaproteobacteria RepID=Q2EU28_ECOLX Length = 161 Score = 238 bits (607), Expect = 4e-61, Method: Composition-based stats. Identities = 161/161 (100%), Positives = 161/161 (100%) Query: 310 ARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLAD 369 ARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLAD Sbjct: 1 ARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLAD 60 Query: 370 IAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIA 429 IAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIA Sbjct: 61 IAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIA 120 Query: 430 AENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPS 470 AENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPS Sbjct: 121 AENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPS 161 >UniRef50_B9Y4S8 Putative uncharacterized protein n=1 Tax=Holdemania filiformis DSM 12042 RepID=B9Y4S8_9FIRM Length = 417 Score = 236 bits (603), Expect = 1e-60, Method: Composition-based stats. Identities = 84/368 (22%), Positives = 162/368 (44%), Gaps = 32/368 (8%) Query: 107 DELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIG 166 DE+ Q + L+ L+ Q+ + +A I++A+D+ G+ + Sbjct: 76 DEVLFAQAQPEFDLRADLLNQLHTGRWRFR-LDVAEYIIEALDDHGFYD-------PAQP 127 Query: 167 DEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDL 226 +E+ A L +Q+ +P G+ ++ D + QL ++ A I+ + + Sbjct: 128 APGFQPEEIAAALSGVQQLEPFGIGCRNSLDYIRRQLRFRNE-----RMALRILDEGAEE 182 Query: 227 LANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWT 286 L+ TL R RL L++ +N+I+S P + E YV DV + +G ++ Sbjct: 183 LSRGQISTLCRKLRLTATELQDQLNVIRSCQLYPC-QLGPVENTYVQADVRLTLEDGEFS 241 Query: 287 VELNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRC 346 + P++ ++ S ++ L++A+ + ++ RN T+ V +C Sbjct: 242 II---PLSPQVLLD---------IPAGPLSPQLKQYLKEAQLTLDLIDQRNLTMQLVFQC 289 Query: 347 IVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSH 406 +V +Q+ Q + + L ++A+ +H ST+SR KY I Sbjct: 290 LVRRQRDHLLQ-DAPLAVCRLKEVAEETGLHLSTVSRACAHKYYEFNGRIRPFSDLLCKA 348 Query: 407 VNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLS 466 + + S I +K+ IA E+PA PL D +L +G++++RR +A R+ L+ Sbjct: 349 L-----HQISRDRIETQLKRWIAEEDPAIPLDDEQLALRFQNEGVVLSRRRIADVRKRLN 403 Query: 467 IPPSNQRK 474 IP S QR+ Sbjct: 404 IPNSYQRR 411 >UniRef50_C5CDZ9 Sigma-54 DNA-binding domain protein n=1 Tax=Kosmotoga olearia TBF 19.5.1 RepID=C5CDZ9_KOSOT Length = 387 Score = 234 bits (597), Expect = 6e-60, Method: Composition-based stats. Identities = 104/466 (22%), Positives = 192/466 (41%), Gaps = 88/466 (18%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 ++ L +L Q+L ++ ++Q ++LLQL++LEL EL++ ++ NPLLE E Sbjct: 3 LEHKLSQKLEQKLHLSLKVQHVLKLLQLNSLELMTELREIVDGNPLLEL----------E 52 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 +D + +D D E PEE ++ D+ Y + + + L Q + L Sbjct: 53 GEDYKLIDENDI----ETPEEENYESKSDSPYFPKHYNPDFDGWDFERLEGPQPSFEEML 108 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 +++ D + I ++D ++E G + I+E+ + Sbjct: 109 RNF-----AFYILEDDEFKIFEILMDNMNE--------------FGLLKRSIEEISREVA 149 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 + + + D L L Sbjct: 150 V--------------------------NERDIRKVIKKLRDSGFDGLFAEKLEEL----- 178 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEP-EYVIPDVLVRKHNGHWTVELNSDSIPRLQI 299 L E + L P G P Y+ P++ + + + V + +++ Sbjct: 179 ---KELGEGIVL-------PSSGYNDGNPIMYIEPELYIDFVDNRFIVTAKDYGL-AIRV 227 Query: 300 NQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE 359 ++ Y + N +++ F++ Q+A++ + +LE R TL+ + +V F Sbjct: 228 DEVYRELLKNEKDEAGK-FLKEKFQEAEFYVNALEKRRSTLITIGEELVRTNPDFLLGYC 286 Query: 360 EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTA 419 + ++P+ + DIA+ +++ STISR K++ +P G F L+YFF G E + Sbjct: 287 KTLRPLKMTDIAEKLDVVVSTISRAVKGKFVQTPIGTFPLRYFF--------GSEQTREQ 338 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESL 465 ++ KL+ ENP LSDS + L+E GI +ARRTV KYR L Sbjct: 339 AMEIIAKLLK-ENPK--LSDSAIAKKLNEIGIKIARRTVNKYRNVL 381 >UniRef50_A7TBU8 Predicted protein n=1 Tax=Nematostella vectensis RepID=A7TBU8_NEMVE Length = 410 Score = 232 bits (591), Expect = 3e-59, Method: Composition-based stats. Identities = 72/234 (30%), Positives = 119/234 (50%), Gaps = 11/234 (4%) Query: 221 SDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGE--PEYVIPDVLV 278 + D ++ LM + E+ LKE + I L+P+PG S E ++PD + Sbjct: 175 ENSFDHFVKKHYKKLMEKFAISEEELKEVIQEISKLNPKPGSSYAGNNKVAEQIVPDFNI 234 Query: 279 RKHNGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQ--------FIRSNLQDAKWLI 330 + +G+ + LN+ + P L I++ Y +M + + FI+ L AKW I Sbjct: 235 KIIDGNLDLTLNARNAPELHISKEYNNMLKGYQESKEKSKSQKDAVLFIKQKLDAAKWFI 294 Query: 331 KSLESRNDTLLRVSRCIVEQQQAFFEQG-EEYMKPMVLADIAQAVEMHESTISRVTTQKY 389 ++ R TLL I+ Q +F G E +KPM+L DIA + M ST+SRV KY Sbjct: 295 DAIRQRQQTLLITMNAIMHYQYDYFLTGDERKLKPMILKDIADQIGMDISTVSRVANSKY 354 Query: 390 LHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLT 443 + +P G +K FFS + + G + S+ I+ +++ +I+ E+ KPL+D KL+ Sbjct: 355 VATPYGTKLIKDFFSESMKNDQGEDVSTKEIKKILETVISEEDKRKPLTDDKLS 408 >UniRef50_B4U9T0 Sigma-54 DNA-binding domain protein n=1 Tax=Hydrogenobaculum sp. Y04AAS1 RepID=B4U9T0_HYDS0 Length = 395 Score = 225 bits (573), Expect = 4e-57, Method: Composition-based stats. Identities = 86/399 (21%), Positives = 175/399 (43%), Gaps = 40/399 (10%) Query: 76 KEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSD 135 ++ +EL ++ + +I+ E + + +++L+ + Sbjct: 36 TDLEQELKVEEELNPFLKLKVLKPPKKFFINKEDYTQNIAYSYSYKEHLIKAINE-ELEG 94 Query: 136 TDRAIATSIVDAVDETGYLT-VPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKD 194 ++ IA IV ++D +G+++ LEDI G +D D V+ + +P+G A + Sbjct: 95 IEKEIAKEIVYSLDSSGFISLETLEDIKNHFG---VDWDIVDDARAFVMEIEPIGHGALN 151 Query: 195 LRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRLKEDVLKEAVNLIQ 254 + + +Q+ + K +L L + KEA+ Sbjct: 152 PFEYMELQIRTYYKDKKEY-------IKYLKDLEERK------------KIPKEAMEFFS 192 Query: 255 SLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARNDG 314 SL P I D+++ G ++ + ++I+Q ++ + + Sbjct: 193 SLKKTP-IQIDKTNLLPSKVDIVIEIDQGEILYDIFDNY---VEISQE--NIEESLEDKE 246 Query: 315 DSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAV 374 ++++ Q A+ ++++ R + +++ +VE+QQ FF + ++ +K ++L D+A Sbjct: 247 LERYLK---QRARRFVEAINLRRKFMKELTKIVVERQQDFFLK-DKPLKSLMLKDVAGEF 302 Query: 375 EMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPA 434 + ST+SR+ KY+ +P+G+F+L+ FF E S I ++KKLI E Sbjct: 303 GISISTVSRLVNSKYVKTPKGVFKLRSFFVR----ESVSSKSQEEILNMIKKLIQNE--E 356 Query: 435 KPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQR 473 +D + +L GI ++RRTVAKYR L I S +R Sbjct: 357 TVYTDKDIEEILRNYGINISRRTVAKYRAKLGIGSSRKR 395 >UniRef50_C4L5I1 Sigma-54 DNA-binding domain protein n=1 Tax=Exiguobacterium sp. AT1b RepID=C4L5I1_EXISA Length = 381 Score = 219 bits (559), Expect = 2e-55, Method: Composition-based stats. Identities = 82/367 (22%), Positives = 149/367 (40%), Gaps = 46/367 (12%) Query: 111 VYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEI 170 + + + ++ L Q+ S++++A+ +V +D G L E + E +G + Sbjct: 54 DWIADAASSFEEKLFTQIHEGSGSESEKALRRQLVLLLDHRGLLPEANEVLAERLG---V 110 Query: 171 DIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQ-FDKTTPWLEEARLIISDHLDLLAN 229 D+ +VE + + +P G+ ++ R+C Q + P + D + + + Sbjct: 111 DVTQVEQARQTLLFLEPTGIGSRTEREC---QYRHAIEHEDPR-------VVDVFEAIES 160 Query: 230 H-DFRTLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVE 288 + + + + L ++ +L RP E +V P++ VR G Sbjct: 161 GVSPQQMTTALAISNEELARLERIVATLPKRPLLY---EETGHVFPELEVRYEEGTLVTT 217 Query: 289 LNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIV 348 S + ++ ++AKW + SL RN+TL + I Sbjct: 218 WLSPELDETRVGND---------------------REAKWWMTSLSMRNETLREIWSVIE 256 Query: 349 EQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVN 408 +Q + QGE + P+ +AQ + HEST+ R K+ + GI E ++FF + Sbjct: 257 SRQTEWL-QGELVLHPLTRRTVAQLIGKHESTVGRAIQGKFAKTESGIMEWRHFFVRSTS 315 Query: 409 TEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIP 468 S I+ + +LI E P SD L + L G V RRTV YRE L Sbjct: 316 ----RGHSPFMIKRALAELIQRE--KAPQSDQALANELIRYGYQVTRRTVTNYREELGFG 369 Query: 469 PSNQRKQ 475 S +R++ Sbjct: 370 NSRERER 376 >UniRef50_C1TNP1 DNA-directed RNA polymerase specialized sigma subunit, sigma24 n=1 Tax=Dethiosulfovibrio peptidovorans DSM 11002 RepID=C1TNP1_9BACT Length = 391 Score = 215 bits (549), Expect = 2e-54, Method: Composition-based stats. Identities = 94/476 (19%), Positives = 182/476 (38%), Gaps = 93/476 (19%) Query: 2 KQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRET 61 L ++ +L P L Q +RLL + EL L NPL E ++ Sbjct: 7 SPRLTQQVRTELLHLPVLIQNLRLLTMPVQELVDTAIGELADNPLYEVNPPRSWQESGIL 66 Query: 62 QDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQ 121 D +L+ Sbjct: 67 DD--------------------------------------------------LSEEPSLE 76 Query: 122 DYLMWQV-ELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 + L+ Q+ + P + ++ +V +D GYLT E I + + E+ + ++ +L+ Sbjct: 77 ENLIRQMAQCRPLREERDSLPYELVRYLDHRGYLTDTQEAIADQL---ELTAERLDLLLE 133 Query: 181 RIQRF-DPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVT 239 R++ +P G+ A+DL CL +QL + K I+ +DLL D + M Sbjct: 134 RVRDIVEPPGLFARDLIHCLSLQLIRSGKEESDGA---KILEMAVDLLGKGDPKDAMERL 190 Query: 240 RLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQI 299 A+ + LDP PG+ + VIP++ + V L ++++PR+ + Sbjct: 191 GWSRSRFDRAMEELSHLDPAPGRR---TTAQVVIPELELYPDPDRPAVVL-AENLPRIYM 246 Query: 300 NQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE 359 +D + L +I+S+ RN + L ++ + ++Q+ + E Sbjct: 247 TPL------TWEDDRVTSMKGRGLH----IIQSIARRNASKLSLAIEVAKKQKDYLMSRE 296 Query: 360 EYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTA 419 PM + ++A+ + ST+ R+ + + +P G + FS + + + S Sbjct: 297 GAPYPMTMTEMAEKLNRSVSTVQRIASTTWAVTPVGTVPMDRLFSRPLKSR--PDMSVAQ 354 Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 +R+ + E K +SDS+L+ + + V RRT+ +R QR++ Sbjct: 355 LRSRI-----EEASRKGMSDSELS-----RNLGVPRRTITWHR---------QRRR 391 >UniRef50_B1YLE5 Sigma-54 DNA-binding domain protein n=1 Tax=Exiguobacterium sibiricum 255-15 RepID=B1YLE5_EXIS2 Length = 380 Score = 207 bits (528), Expect = 7e-52, Method: Composition-based stats. Identities = 95/422 (22%), Positives = 173/422 (40%), Gaps = 51/422 (12%) Query: 57 DTRETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELP---VYQ 113 + R+ Q + +A L Q + EE + + +Y +G S +P Sbjct: 2 EQRQEQAQRLVMSAAQLYQLTVLEETQAELE-ERLYRIIRRAGRSEHNGRKMIPPDLEQV 60 Query: 114 GETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDID 173 + + + L+ Q+ L R +A ++ +D G L E + + EE Sbjct: 61 ADRIDSFEAELLQQIRLESVRQEIRYMAEQLIMYLDADGLLRTTDERLAVLLDSEE---P 117 Query: 174 EVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFR 233 + + +Q+ +P G+AA+ +C L+ + + + D L L++ Sbjct: 118 MIRQARQLLQQCEPTGIAARSEAECRLLHAIELEDDR---------LMDLLTALSDGQP- 167 Query: 234 TLMRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDS 293 + D E + Q ++ P + IP+ + + V++ S Sbjct: 168 -----LKAVLDDETERRQMKQKMERLPKTPVLPVSTTMTIPEADISWSDDQ--VQIQWSS 220 Query: 294 IPRLQINQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQA 353 +P I+ + L +AK + + E R +TL + IVE+Q Sbjct: 221 LP---IDTSWTD-----------------LAEAKPFLSAYERRRNTLRAILDVIVERQIR 260 Query: 354 FFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGG 413 +F +GE +++P+ ++A+ H ST+ R K + + G EL+ FF S + Sbjct: 261 WF-KGELHLEPLTKKEVAKQTGYHPSTVGRAIVHKTIRTIHGTLELENFFVSKTQS---- 315 Query: 414 EASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQR 473 SS I+A + +LI PLSD ++ + L +GI VARRTVAKYR L + S+ Sbjct: 316 GTSSFLIKARIAQLIQE--ATSPLSDQQIVNRLDLEGIRVARRTVAKYRAGLYLTRSDMT 373 Query: 474 KQ 475 K+ Sbjct: 374 KR 375 >UniRef50_C6S982 RNA polymerase sigma-54 factor n=22 Tax=Neisseria RepID=C6S982_NEIML Length = 283 Score = 180 bits (458), Expect = 9e-44, Method: Composition-based stats. Identities = 76/272 (27%), Positives = 124/272 (45%), Gaps = 38/272 (13%) Query: 5 LQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDS 64 L ++L Q + +LQQ++R+LQ+S +EL++E++ L NPLLE+ DT Sbjct: 4 LGIKLKQTQQLNQRLQQSLRVLQMSGIELEREVENWLSDNPLLERKDT------------ 51 Query: 65 ETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYL 124 D D ++ T + E + Q + YL Sbjct: 52 --------------------DEFSDAEFSHYTAPARQIGGDEGEDMLSNIAGEQDFKQYL 91 Query: 125 MWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDE-EIDIDEVEAVLKRIQ 183 QV P SD + A ++D +DE GYLT +EDIL+ E +D ++ L +Q Sbjct: 92 HAQVCEHPLSDQESACVHILIDFLDEQGYLTDSIEDILDHTPLEWMLDEAMLKQALTALQ 151 Query: 184 RFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR--- 240 +FDP GVAA DL + L++Q+ + + A I+ + LD + + +TL R+ + Sbjct: 152 KFDPAGVAAADLNESLILQIERLGECA-AKPAALHIVRNALDSIDGNRSQTLARIKKHLP 210 Query: 241 -LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEY 271 L+ A++LI SL+P P + P Sbjct: 211 QTDSGTLEAALDLIASLNPFPAAGFASSTPTP 242 Score = 83.7 bits (206), Expect = 1e-14, Method: Composition-based stats. Identities = 39/123 (31%), Positives = 57/123 (46%), Gaps = 19/123 (15%) Query: 356 EQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPR---GIFELKYFFSSHVNT-EG 411 GE KP L + A++ + S+ + H P+ G E + +N Sbjct: 173 RLGECAAKPAALHIVRNALDSIDGNRSQTLARIKKHLPQTDSGTLEAALDLIASLNPFPA 232 Query: 412 GGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSN 471 G ASST P SD L +LL+ +G+ V+RRT+AKYRESL IP ++ Sbjct: 233 AGFASST---------------PTPYSDEALANLLAFRGMEVSRRTIAKYRESLEIPAAH 277 Query: 472 QRK 474 +RK Sbjct: 278 KRK 280 >UniRef50_UPI00006DCE7B hypothetical protein CdifQ_04003678 n=1 Tax=Clostridium difficile QCD-32g58 RepID=UPI00006DCE7B Length = 218 Score = 171 bits (435), Expect = 4e-41, Method: Composition-based stats. Identities = 62/245 (25%), Positives = 125/245 (51%), Gaps = 31/245 (12%) Query: 2 KQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRET 61 L+L SQ+L MT QL+Q++ +L +S LEL++E+++ E+NPL+E ++ EI+ E Sbjct: 4 NNSLELTQSQKLIMTTQLKQSLSILNMSKLELEEEIKREAENNPLVE-VEKSGEINWEEY 62 Query: 62 QDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQ 121 + +D + L++ E+ + + + + + L Sbjct: 63 --IKDMDRSRRLDRTEISYNPDNEVNLENLVKYSS----------------------NLY 98 Query: 122 DYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLKR 181 + L +Q+ L +D + + I+D++DE GYL + I++++ +ID + E L Sbjct: 99 EDLKFQISLYKLTDKELEVCEYIIDSLDEDGYLRTEEKVIVDTL---KIDEELFEKCLIS 155 Query: 182 IQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTRL 241 +Q+ +P GV A+ L +CL+IQ++ LEE I++ L+L+AN+ ++ + + + Sbjct: 156 VQQLEPSGVGARSLSECLMIQMASLGIYNEILEE---IVTKDLNLIANNKYKEISKKYNM 212 Query: 242 KEDVL 246 + Sbjct: 213 SLQKM 217 >UniRef50_A7HM99 Sigma-54 DNA-binding domain protein n=1 Tax=Fervidobacterium nodosum Rt17-B1 RepID=A7HM99_FERNB Length = 264 Score = 160 bits (405), Expect = 1e-37, Method: Composition-based stats. Identities = 65/322 (20%), Positives = 120/322 (37%), Gaps = 73/322 (22%) Query: 154 LTVPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWL 213 L P+ + E G EI I E+E I DL L + + Sbjct: 2 LEAPIYLLFEKYGQREISI-EIEDSYYPIHE---------DLHQRLEMMIPFLGLEDEDE 51 Query: 214 EEARLIISDHLDLLANHDF--RTLMRVTRLKEDVLKEAVN--------LIQSLDPRPGQS 263 + A +I ++D + + + + + +E ++ I L Sbjct: 52 KIAEYVI-YNIDSKGKLRVSAQEVAQKFGVSVEKAREIIDTIYEAFSDEINQLS------ 104 Query: 264 IQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNL 323 E Y++PDV + Y + D Sbjct: 105 -SEDEENYILPDVAIM---------------------PDYVEVRKIEVKDPV-------- 134 Query: 324 QDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISR 383 ++K++E R +TL ++ + + + F +Y + + +A V +H ST+SR Sbjct: 135 -----VMKAIEMREETLRKICEIVRKINEPFLRGYRKYPHVVTMKYVANLVGLHVSTVSR 189 Query: 384 VTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLT 443 +KY+++P G+ L+ FF +N + + +K+L+ ++ L+D +L Sbjct: 190 AVNRKYVNTPIGVLPLRIFFGRLLNPK--------LVMNEIKELLKIDSK---LTDKQLV 238 Query: 444 SLLSEQGIMVARRTVAKYRESL 465 LL GI ++RRTV KYR L Sbjct: 239 ILLKSLGINISRRTVNKYRNLL 260 Score = 54.5 bits (130), Expect = 8e-06, Method: Composition-based stats. Identities = 23/151 (15%), Positives = 60/151 (39%), Gaps = 15/151 (9%) Query: 108 ELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGD 167 E+ + L L + D D IA ++ +D G L V +++ + G Sbjct: 21 EIEDSYYPIHEDLHQRLEMMIPFLGLEDEDEKIAEYVIYNIDSKGKLRVSAQEVAQKFG- 79 Query: 168 EEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLD-L 226 + +++ ++ I + ++ QLS D+ L + I+ D+++ Sbjct: 80 --VSVEKAREIIDTIYEA-----FSDEIN-----QLSSEDEENYILPDV-AIMPDYVEVR 126 Query: 227 LANHDFRTLMRVTRLKEDVLKEAVNLIQSLD 257 +M+ ++E+ L++ +++ ++ Sbjct: 127 KIEVKDPVVMKAIEMREETLRKICEIVRKIN 157 >UniRef50_A8F4Z2 Sigma-54 DNA-binding domain protein n=1 Tax=Thermotoga lettingae TMO RepID=A8F4Z2_THELT Length = 318 Score = 133 bits (336), Expect = 1e-29, Method: Composition-based stats. Identities = 70/318 (22%), Positives = 128/318 (40%), Gaps = 52/318 (16%) Query: 153 YLTVPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPW 212 YL + + E + VE V+ K L + ++ + + Sbjct: 32 YLQNSFSGVSLDVQIPEKNESFVETVVDY----------EKSLPEEIMENIIFANLDDET 81 Query: 213 LEEARLIISDHLDLLANH--DFRTLMRVTRLKEDVLKEAVNLIQS------LDPRPGQSI 264 + A I + +LD + + + E ++K A++ I+ LD + Sbjct: 82 EKVAEYI-AYNLDNKGKMLVSVQEICEKFGVSEQIVKRAIDAIRESGPEGILDGKVAG-- 138 Query: 265 QTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIRSNLQ 324 YV PD+++ + +V IPR ++ L+ Sbjct: 139 YGDASIYVEPDIIIT-EDLSVSVRSFEMKIPR--------------------NATKTQLK 177 Query: 325 DAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRV 384 +L ++L R + LL + + ++++ F Y K + DIA + + ST+S+ Sbjct: 178 IISFLNEALNHRKELLLFLGKTLLKENALFILGKSTYPKKTKMTDIANTMNISISTVSKA 237 Query: 385 TTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTS 444 + KY+ +P IFELK FF HV + + A + K+I K ++D ++T Sbjct: 238 ISGKYVKTPFRIFELKTFFGRHVAGD--------YLTAEIAKIILE--KGKSITDREITI 287 Query: 445 LLSEQGIMVARRTVAKYR 462 +L+ QGI V+RRTV YR Sbjct: 288 ILNSQGIEVSRRTVNNYR 305 Score = 60.6 bits (146), Expect = 1e-07, Method: Composition-based stats. Identities = 15/87 (17%), Positives = 34/87 (39%), Gaps = 3/87 (3%) Query: 104 YIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILE 163 ++ + ++L + +M + D +A I +D G + V +++I E Sbjct: 48 EKNESFVETVVDYEKSLPEEIMENIIFANLDDETEKVAEYIAYNLDNKGKMLVSVQEICE 107 Query: 164 SIGDEEIDIDEVEAVLKRIQRFDPVGV 190 G + V+ + I+ P G+ Sbjct: 108 KFG---VSEQIVKRAIDAIRESGPEGI 131 >UniRef50_B5Y8H8 DNA-directed RNA polymerase sigma-54 factor, putative n=1 Tax=Coprothermobacter proteolyticus DSM 5265 RepID=B5Y8H8_COPPD Length = 314 Score = 130 bits (327), Expect = 1e-28, Method: Composition-based stats. Identities = 62/350 (17%), Positives = 126/350 (36%), Gaps = 97/350 (27%) Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 D + QV++ F D + IA ++ ++D GYL + L D+ + + E +D+V L Sbjct: 49 WDMVEAQVDML-FDDEELNIANELLGSLDHLGYLGIDLSDLAKQLKVNEEYVDQVRKKL- 106 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR 240 ++ +P G+ + R+ F+ L++ Sbjct: 107 -MREVEPFGLGSVSQRE----------------------------------FKQLLKELN 131 Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQIN 300 L P + PD + +G V ++ Sbjct: 132 LDSRD-------------HP-IDLPEERLRVTTPDFALELVDGKLEV----------NVS 167 Query: 301 QHYASMCNNARNDGDSQFIRSNLQDAKWLIKSL-ESRNDTLLRVSRCIVEQQQAFFEQGE 359 + Y + N + + + + E R D ++R++ +V+ GE Sbjct: 168 EKYEYLIQNTQG----------------IPRMVAEYRKDLIMRLANFLVQH------CGE 205 Query: 360 EYM--KPM--VLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEA 415 + + KP L AQ + + +ST+SR+ K ++ +++FF V Sbjct: 206 KILEHKPCFVTLDHAAQELGVSKSTVSRLVRSKAFTFGGRVYPVEHFFGRSVK-----GV 260 Query: 416 SSTAIRALVKKLIAAENPAKPLSDSKLTSLLS-EQGIMVARRTVAKYRES 464 + + ++ + A +D++++ LL +G +RRTV KYR Sbjct: 261 PQEELMLEIIDILKSMPTA---TDAQVSQLLRLRRGWKFSRRTVNKYRHM 307 >UniRef50_D0R1X8 Putative uncharacterized protein n=1 Tax=Lactobacillus johnsonii FI9785 RepID=D0R1X8_LACJF Length = 203 Score = 122 bits (306), Expect = 3e-26, Method: Composition-based stats. Identities = 47/230 (20%), Positives = 93/230 (40%), Gaps = 57/230 (24%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M +Q +L +L ++ +L+Q +R+L + +L +Q+ + NP +E + +E+ Sbjct: 1 MSLKVQEKLVTRLFLSTKLKQNLRILSYNAHDLSIVIQEFAQENPFVELKNPSKELQ--- 57 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 L Q T+ L Sbjct: 58 -----------------------------------------------NLDWIQDNETENL 70 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 D+L+ QV ++ +S+ + + ++ +D GYL LE++ + + E+ A Sbjct: 71 IDHLLSQVRISDWSNKSKRVVIFLIYQLDNDGYLRKSLENLKSKV---IFSLQELNAGKD 127 Query: 181 RIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDH-LDLLAN 229 ++Q+ DP G+ AKDL +CLL+Q ++ H L++LA+ Sbjct: 128 KLQKLDPAGIGAKDLNECLLLQARDKKDFNSIE---ISLLEKHELEVLAD 174 >UniRef50_D0R1X9 Putative uncharacterized protein n=2 Tax=Lactobacillus johnsonii RepID=D0R1X9_LACJF Length = 156 Score = 114 bits (285), Expect = 1e-23, Method: Composition-based stats. Identities = 32/156 (20%), Positives = 64/156 (41%), Gaps = 2/156 (1%) Query: 241 LKEDVLKEAVNLIQSLDPRPGQSIQ-TGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQI 299 + + A+ IQ+L+P P + +Y+IP + +G + ++P + Sbjct: 1 MNMKKIITALKAIQTLNPAPASEYELGEPTQYLIPGLKFYFEDGKLLISSARSNLPEMIF 60 Query: 300 NQHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQ-G 358 + D + +D L ++ R +TLL + + + +Q+ + Sbjct: 61 DDEKFVELQKDSEIKDKDYFIKQKKDFTDLHYAIRQREETLLNLGKFLGRRQEKYLSSLN 120 Query: 359 EEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPR 394 E+ + + L D A + + STISR KY+ PR Sbjct: 121 EQDLVSIKLEDAATELNLAISTISRAIKDKYVEVPR 156 >UniRef50_B1CB69 Putative uncharacterized protein n=1 Tax=Anaerofustis stercorihominis DSM 17244 RepID=B1CB69_9FIRM Length = 171 Score = 108 bits (269), Expect = 7e-22, Method: Composition-based stats. Identities = 43/195 (22%), Positives = 74/195 (37%), Gaps = 33/195 (16%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 M + +SQ ++ ++ +L + +LEL + L + NPLLE Sbjct: 10 MDIKQEHNISQVQTLSQAQVMSLNILSMDSLELNEFLYKEYLENPLLE------------ 57 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTL 120 + E ++ LD I PS D + + Sbjct: 58 -------------NKCENNRDITLDIKNMDI-----PSKRQHSKDDIKYLETPNTDEINI 99 Query: 121 QDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLEDILESIGDEEIDIDEVEAVLK 180 + Y+++Q+ +S D I ++D +D GY L +I E DI++ VLK Sbjct: 100 KHYILYQLNYDDYSKNDLVIMEFLIDCLDNNGYFNYELTEISEISDYNIGDIEKCINVLK 159 Query: 181 RIQRFDPVGVAAKDL 195 +Q P G+ +KDL Sbjct: 160 NLQ---PYGIFSKDL 171 >UniRef50_UPI0001912E87 hypothetical protein Salmonellaentericaenterica_06648 n=2 Tax=Salmonella enterica subsp. enterica serovar Typhi RepID=UPI0001912E87 Length = 123 Score = 102 bits (254), Expect = 4e-20, Method: Composition-based stats. Identities = 66/76 (86%), Positives = 71/76 (93%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALE+NPLLEQ D H+EIDT++ Sbjct: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALENNPLLEQTDLHDEIDTQQ 60 Query: 61 TQDSETLDTADALEQK 76 QD + LDTADALEQK Sbjct: 61 PQDDDPLDTADALEQK 76 >UniRef50_C6I101 Putative uncharacterized protein n=2 Tax=Leptospirillum ferrodiazotrophum RepID=C6I101_9BACT Length = 387 Score = 99.5 bits (247), Expect = 3e-19, Method: Composition-based stats. Identities = 40/195 (20%), Positives = 78/195 (40%), Gaps = 20/195 (10%) Query: 291 SDSIPRLQIN-----QHYASMCNNARNDGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSR 345 + P + + + Y + D + I +L ++ + SRN + R Sbjct: 72 EEGHPEIFWHSPSFAREYRMDDAVIDHMRDHEEIGEDLGRIVRRLRLVNSRNRLTDHIVR 131 Query: 346 CIVEQQQAFFEQGE-EYMKPMVLADIAQAV--------EMHESTISRVTTQKYLHSPRGI 396 I+ Q + E G+ ++P+ +++ + + + ISR+ + L G Sbjct: 132 FILHVQAGYLETGDLLQLRPLSYVRLSEKLPFTPWFPNGIDSTRISRILRRFPLVFSDGT 191 Query: 397 F-ELKYFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSE--QGIMV 453 EL + + I++ K LI + PLSDS++ + + I++ Sbjct: 192 IRELSEL-CPKIRATCCHFV-NDVIKSE-KILIQEGSIQGPLSDSEIARRVEDVFGTIII 248 Query: 454 ARRTVAKYRESLSIP 468 +RRTVA R +L IP Sbjct: 249 SRRTVAHIRRTLGIP 263 >UniRef50_C5V070 Putative uncharacterized protein n=1 Tax=Gallionella ferruginea ES-2 RepID=C5V070_9PROT Length = 422 Score = 97.2 bits (241), Expect = 1e-18, Method: Composition-based stats. Identities = 35/199 (17%), Positives = 75/199 (37%), Gaps = 30/199 (15%) Query: 291 SDSIPRLQINQHYASMCNNARN--DGDSQFIRSNLQDAKWLIKSLESRNDTLLRVSRCIV 348 + + ++ S+ + + + +R ++ + +RN + + ++ Sbjct: 102 DSYVREYRFDEEGVSLMMSRPDFPAELAGVLRR--------LRLINTRNRLTHALMQAVL 153 Query: 349 EQQQAFFEQGEE-YMKPMVLADIAQAVEM--------HESTISRVTTQKYLHSPRG-IFE 398 Q A+ G+ + PM A+I+ + + ISR+ + P G Sbjct: 154 VSQAAYLRSGQALALLPMTQAEISARLRLESNLSVVADPGRISRLVRVLSIALPNGETVP 213 Query: 399 LKYFFSSHVNTEGGGEASSTAIRALVKK---LIAAENPAKPLSDSKLTSLLS-EQGIMVA 454 + F + + ++K + E +PL+D + ++L E G+ + Sbjct: 214 MGGLF------PKPRQVHCHFVDHVIKMEKVWMLQEELREPLTDGAIVAILECEYGLRLL 267 Query: 455 RRTVAKYRESLSIPPSNQR 473 RRTVA R L+IP R Sbjct: 268 RRTVANIRHDLAIPDYRSR 286 >UniRef50_B5SFM8 Putative rna polymerase sigma n (Sigma 54) factor protein (Fragment) n=1 Tax=Ralstonia solanacearum IPO1609 RepID=B5SFM8_RALSO Length = 161 Score = 94.1 bits (233), Expect = 9e-18, Method: Composition-based stats. Identities = 47/109 (43%), Positives = 58/109 (53%) Query: 1 MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60 MKQ LQLRLSQ LA+TPQLQQ+IRLLQLST+ELQQE++QAL NPLLE+ + + R Sbjct: 1 MKQSLQLRLSQHLALTPQLQQSIRLLQLSTIELQQEVEQALTENPLLERENEWLDTSARI 60 Query: 61 TQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDEL 109 D E P A+ S +G D + Sbjct: 61 GADGSVSALQSNSATPPPTESPPPAANGSDHADTAEASYENGSDFDSDF 109 >UniRef50_A8ESG9 Putative uncharacterized protein n=1 Tax=Arcobacter butzleri RM4018 RepID=A8ESG9_ARCB4 Length = 365 Score = 86.8 bits (214), Expect = 1e-15, Method: Composition-based stats. Identities = 26/161 (16%), Positives = 59/161 (36%), Gaps = 20/161 (12%) Query: 317 QFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGE------EYMKPMVLADI 370 ++ + + + ++ +++TL + + Q+ F + G K + + Sbjct: 81 EYKKEIKNNYHLKLLNINIKHETLFNLITMLFSSQKLFLDTGHYPNINFLDRKVFIETYV 140 Query: 371 AQAVE-MHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVKKLIA 429 + + S +S++ + I++L + F S I+ L+ I Sbjct: 141 KEYNSYLDLSVLSKILNNTHYEQDGYIYKLSHLFPKKT------FIYSLYIKILLSTKID 194 Query: 430 AENPAKPLSDSKLTSLLSE-QGIMVARRTVAKYRESLSIPP 469 +N D ++ L E + ++RRTV R IP Sbjct: 195 LKN------DLEIAKQLFEIYNVKISRRTVCDIRNKYLIPN 229 >UniRef50_D0R1Y0 Putative uncharacterized protein n=2 Tax=Lactobacillus johnsonii RepID=D0R1Y0_LACJF Length = 71 Score = 69.9 bits (170), Expect = 2e-10, Method: Composition-based stats. Identities = 24/63 (38%), Positives = 36/63 (57%) Query: 413 GEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQ 472 + + ++K I E+P KPLSD KL + E+ I ++RR ++KYR+ L I S Q Sbjct: 8 SNLTQNQLERMLKDFIKLEDPQKPLSDEKLVNKFKEKEISISRRIISKYRKKLGIKNSYQ 67 Query: 473 RKQ 475 R Q Sbjct: 68 RNQ 70 >UniRef50_B0K7D9 PTS system transcriptional activator n=12 Tax=Clostridia RepID=B0K7D9_THEP3 Length = 979 Score = 64.5 bits (156), Expect = 8e-09, Method: Composition-based stats. Identities = 14/54 (25%), Positives = 29/54 (53%), Gaps = 5/54 (9%) Query: 422 ALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 + ++I E+ PL+D ++ S+L + R V ++R +IP S +R++ Sbjct: 3 DRIFEIIQKEDKKNPLTDDQIASIL-----NIKREDVTQFRLKNNIPDSRERRK 51 >UniRef50_Q18CC4 Putative transcription antiterminator n=5 Tax=Clostridium difficile RepID=Q18CC4_CLOD6 Length = 982 Score = 64.5 bits (156), Expect = 8e-09, Method: Composition-based stats. Identities = 19/57 (33%), Positives = 28/57 (49%), Gaps = 5/57 (8%) Query: 421 RALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQLV 477 R +K LI E+ PL+D ++S L + R V R L I S QR+++V Sbjct: 2 RQRIKNLIENEDKKNPLTDEAISSRL-----NIRREDVTFLRNELKIEDSRQRRKVV 53 >UniRef50_A6LPX9 Sigma-54 factor, interaction domain-containing protein n=1 Tax=Clostridium beijerinckii NCIMB 8052 RepID=A6LPX9_CLOB8 Length = 974 Score = 61.8 bits (149), Expect = 6e-08, Method: Composition-based stats. Identities = 16/55 (29%), Positives = 27/55 (49%), Gaps = 5/55 (9%) Query: 421 RALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 + +LI +E+ P +D +L LS + R V + R L+IP S R++ Sbjct: 1 MQRLIELINSEDKKNPYTDQELAEFLS-----IPRLKVIQKRNELNIPDSRDRRK 50 >UniRef50_D0GPK3 Transcriptional regulatory protein LevR n=1 Tax=Leptotrichia goodfellowii F0264 RepID=D0GPK3_9FUSO Length = 964 Score = 61.4 bits (148), Expect = 8e-08, Method: Composition-based stats. Identities = 14/52 (26%), Positives = 26/52 (50%), Gaps = 5/52 (9%) Query: 422 ALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQR 473 +++++I E+ PL+D +++ L ++R V K R IP S R Sbjct: 5 EMIEEIIKKEDKKSPLTDEEISEKLG-----ISREIVTKIRNEKEIPNSRDR 51 >UniRef50_A6LQU8 Sigma-54 factor, interaction domain-containing protein n=9 Tax=Clostridium RepID=A6LQU8_CLOB8 Length = 960 Score = 59.9 bits (144), Expect = 2e-07, Method: Composition-based stats. Identities = 16/55 (29%), Positives = 27/55 (49%), Gaps = 5/55 (9%) Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRK 474 + + +I EN PL+D ++ L VAR ++ R+ L+I S QR+ Sbjct: 3 LENKLINIINTENKKNPLTDVQMAKFLG-----VARESITNLRKELNIANSRQRR 52 >UniRef50_A6LWC3 Sigma-54 factor, interaction domain-containing protein n=4 Tax=Clostridia RepID=A6LWC3_CLOB8 Length = 995 Score = 59.9 bits (144), Expect = 2e-07, Method: Composition-based stats. Identities = 16/56 (28%), Positives = 27/56 (48%), Gaps = 5/56 (8%) Query: 420 IRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 + + LI E+ KPL+DS + L + R + ++R +I S QRK+ Sbjct: 2 LENKILDLIENEDKRKPLTDSDIAKL-----VNTTREYITQFRTEKNINNSRQRKE 52 >UniRef50_UPI0001854675 RNA polymerase factor sigma-54 n=1 Tax=Helicobacter pylori HPKX_438_CA4C1 RepID=UPI0001854675 Length = 71 Score = 59.1 bits (142), Expect = 3e-07, Method: Composition-based stats. Identities = 20/73 (27%), Positives = 35/73 (47%), Gaps = 4/73 (5%) Query: 149 DETGYLTVPLEDILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDK 208 + GY +E+ + +G ++ + E V KR +P G+ A+D+++ L QL + Sbjct: 1 NNEGYFEENIEERAKILG---VESEVYEKVRKRFSYLNPAGIGARDVKEGFLFQLESREL 57 Query: 209 T-TPWLEEARLII 220 EE R II Sbjct: 58 DNNKLYEETRKII 70 >UniRef50_Q185K2 Putative sigma-54 interacting transcription antiterminator n=9 Tax=Clostridium difficile RepID=Q185K2_CLOD6 Length = 979 Score = 57.5 bits (138), Expect = 1e-06, Method: Composition-based stats. Identities = 14/55 (25%), Positives = 25/55 (45%), Gaps = 5/55 (9%) Query: 421 RALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 + + I E+ P +D +L +L VAR V R+ +I S +R++ Sbjct: 6 MDKILREIQREDKKNPYTDQELAEML-----NVARSEVISVRKKNNILDSRERRK 55 >UniRef50_B6FWC4 Putative uncharacterized protein n=2 Tax=Clostridium RepID=B6FWC4_9CLOT Length = 985 Score = 57.2 bits (137), Expect = 1e-06, Method: Composition-based stats. Identities = 12/55 (21%), Positives = 27/55 (49%), Gaps = 5/55 (9%) Query: 421 RALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQ 475 + I E+ P +D +L+ +L ++R + ++R+ +IP S R++ Sbjct: 1 MKKILLEIQNEDKKNPYTDKELSEILG-----ISRGDIVQFRKINNIPNSRDRRK 50 >UniRef50_Q92ZL5 Putative uncharacterized protein n=1 Tax=Sinorhizobium meliloti RepID=Q92ZL5_RHIME Length = 155 Score = 54.1 bits (129), Expect = 1e-05, Method: Composition-based stats. Identities = 14/31 (45%), Positives = 22/31 (70%) Query: 437 LSDSKLTSLLSEQGIMVARRTVAKYRESLSI 467 L D + +L + G+ +ARRTVAKYR +++I Sbjct: 2 LLDDDIVDVLKKTGVDIARRTVAKYRGAMNI 32 >UniRef50_B4RR56 Putative RNA polymerase sigma-54 factor RpoN n=2 Tax=Neisseria RepID=B4RR56_NEIG2 Length = 78 Score = 46.0 bits (108), Expect = 0.003, Method: Composition-based stats. Identities = 11/35 (31%), Positives = 25/35 (71%) Query: 5 LQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQ 39 + ++L Q + +LQQ++R+LQ+ +EL++E++ Sbjct: 44 IGIKLKQTQQLDQRLQQSLRVLQMPGIELEREVEN 78 >UniRef50_B3N145 GF15945 n=1 Tax=Drosophila ananassae RepID=B3N145_DROAN Length = 1026 Score = 45.6 bits (107), Expect = 0.004, Method: Composition-based stats. Identities = 27/150 (18%), Positives = 62/150 (41%), Gaps = 23/150 (15%) Query: 13 LAMTPQLQQAIRL---LQLSTLELQQ---ELQQAL-ESNPLLEQIDTHEEI-------DT 58 ++ Q+Q AIR+ LQ+++ +L+Q EL++ L ++N LL+++ I +T Sbjct: 10 QILSVQVQNAIRMHEVLQMTSHDLRQQRRELEEQLMDNNFLLDEMRRRGPICGRIRITET 69 Query: 59 RETQDSETLDTADALEQKEMPEELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQ 118 E + + D + E+ L ++ + + + ++ V + Sbjct: 70 GELEWEDDPDGEEDFERSCRDVALRIETITEELRATDRLLERTRLDLEKNKEVLIVYEEE 129 Query: 119 TLQDYLMWQVELTPFSDTDRAIATSIVDAV 148 LQ +L Q+ + I++ + Sbjct: 130 -LQRHL--QL------TRILVVLQYILEFI 150 >UniRef50_Q16925 Transposase n=3 Tax=Anopheles albimanus RepID=Q16925_ANOAL Length = 341 Score = 43.3 bits (101), Expect = 0.018, Method: Composition-based stats. Identities = 25/111 (22%), Positives = 51/111 (45%), Gaps = 14/111 (12%) Query: 366 VLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNTEGGGEASSTAIRALVK 425 +IA ++ +T++RV R +E + S++ +G + +R +K Sbjct: 24 SYTEIAMLTNINRNTVARVIQ-------RYKYEGR---VSNLPRKGRPSVCTDRMRRAIK 73 Query: 426 KLIAAENPAKPLSDSKLTSLLSEQ-GIMVARRTVAKYRESLSIPPSNQRKQ 475 +L+ AE +S + +L+E+ GI ++ TV +Y N+RK+ Sbjct: 74 RLVDAEPE---ISAQSVAIVLNERHGIAISCETVRRYIHKFGYKAYNRRKK 121 >UniRef50_B1ZRE2 Glycosyl hydrolase family 88 n=1 Tax=Opitutus terrae PB90-1 RepID=B1ZRE2_OPITP Length = 473 Score = 43.3 bits (101), Expect = 0.019, Method: Composition-based stats. Identities = 23/110 (20%), Positives = 39/110 (35%), Gaps = 4/110 (3%) Query: 47 LEQIDTHEEIDTRETQDSETLDTADALEQKEMPEELPLDASWDTIYTAG-TPSGTSGDYI 105 LE + ID Q L A + E + L W Y + +GD Sbjct: 77 LEGASSVRVIDAATKQPVTDLAQLPAQPRLERTDFLLTSYEWGVTYAGMVQTAAATGDNR 136 Query: 106 DDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIA-TSIVD--AVDETG 152 + + + TL +L Q +R IA ++D ++D++G Sbjct: 137 YRDYVATRLQAITTLAAHLKQQTAPADLPPRERGIALRQVIDPRSLDDSG 186 >UniRef50_B8D051 Transcriptional regulator, LacI family n=1 Tax=Halothermothrix orenii H 168 RepID=B8D051_HALOH Length = 338 Score = 43.3 bits (101), Expect = 0.023, Method: Composition-based stats. Identities = 11/25 (44%), Positives = 15/25 (60%) Query: 364 PMVLADIAQAVEMHESTISRVTTQK 388 P+ L DIA+ + EST+SR K Sbjct: 2 PLTLKDIAKIAGVAESTVSRAINNK 26 >UniRef50_UPI0001854ADA RNA polymerase factor sigma-54 n=1 Tax=Helicobacter pylori HPKX_438_CA4C1 RepID=UPI0001854ADA Length = 116 Score = 42.1 bits (98), Expect = 0.044, Method: Composition-based stats. Identities = 13/68 (19%), Positives = 31/68 (45%) Query: 5 LQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDS 64 L+ LS + + L+ + +LQ +L++ L+Q NPL++ + + + Sbjct: 4 LRANLSPKNKLNATLKGWLPILQSELEDLEEVLKQNALDNPLIKIENKRIKNFSDRFSAK 63 Query: 65 ETLDTADA 72 ++ D + Sbjct: 64 KSSDHLEN 71 Database: uniref50.fasta Posted date: Mar 8, 2010 10:38 AM Number of letters in database: 1,040,396,356 Number of sequences in database: 3,077,464 Lambda K H 0.312 0.157 0.470 Lambda K H 0.267 0.0481 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Hits to DB: 3,339,312,120 Number of Sequences: 3077464 Number of extensions: 168767990 Number of successful extensions: 680104 Number of sequences better than 1.0e-01: 250 Number of HSP's better than 0.1 without gapping: 818 Number of HSP's successfully gapped in prelim test: 243 Number of HSP's that attempted gapping in prelim test: 673014 Number of HSP's gapped (non-prelim): 3080 length of query: 477 length of database: 1,040,396,356 effective HSP length: 133 effective length of query: 344 effective length of database: 631,093,644 effective search space: 217096213536 effective search space used: 217096213536 T: 11 A: 40 X1: 16 ( 7.2 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 42 (21.6 bits) S2: 96 (41.4 bits)