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____ (158 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_P76062 Rac prophage repressor n=17 Tax=Escherichia coli... 325 2e-88 UniRef50_B4EVH7 Prophage repressor n=2 Tax=Proteus mirabilis Rep... 174 1e-42 UniRef50_Q9PG02 Phage-related repressor protein n=2 Tax=Xylella ... 97 2e-19 UniRef50_C7HY20 Putative phage repressor n=1 Tax=Thiomonas inter... 79 3e-14 UniRef50_A5W5W4 Putative phage repressor n=1 Tax=Pseudomonas put... 75 1e-12 UniRef50_A6V3X6 Transcriptional regulator, Cro/CI family n=2 Tax... 73 3e-12 UniRef50_C1HWP1 Predicted protein n=10 Tax=Neisseria gonorrhoeae... 70 3e-11 >UniRef50_P76062 Rac prophage repressor n=17 Tax=Escherichia coli RepID=RACR_ECOLI Length = 158 Score = 325 bits (834), Expect = 2e-88, Method: Compositional matrix adjust. Identities = 158/158 (100%), Positives = 158/158 (100%) Query: 1 MLSGKDLGRAIEQAINKKIASGSVKSKAEVARHFKVQPPSIYDWIKKGSISKDKLPELWR 60 MLSGKDLGRAIEQAINKKIASGSVKSKAEVARHFKVQPPSIYDWIKKGSISKDKLPELWR Sbjct: 1 MLSGKDLGRAIEQAINKKIASGSVKSKAEVARHFKVQPPSIYDWIKKGSISKDKLPELWR 60 Query: 61 FFSDVVGPEHWGLNEYPIPTPTNSDTKSELLDINNLYQAASDEIRAIVAFLLSGNATEPD 120 FFSDVVGPEHWGLNEYPIPTPTNSDTKSELLDINNLYQAASDEIRAIVAFLLSGNATEPD Sbjct: 61 FFSDVVGPEHWGLNEYPIPTPTNSDTKSELLDINNLYQAASDEIRAIVAFLLSGNATEPD 120 Query: 121 WVDHDVRAYIAAMEMKVGKYLKALESERKSQNITKTGT 158 WVDHDVRAYIAAMEMKVGKYLKALESERKSQNITKTGT Sbjct: 121 WVDHDVRAYIAAMEMKVGKYLKALESERKSQNITKTGT 158 >UniRef50_B4EVH7 Prophage repressor n=2 Tax=Proteus mirabilis RepID=B4EVH7_PROMH Length = 160 Score = 174 bits (440), Expect = 1e-42, Method: Compositional matrix adjust. Identities = 88/146 (60%), Positives = 108/146 (73%), Gaps = 5/146 (3%) Query: 1 MLSGKDLGRAIEQAINKKIASGSVKSKAEVARHFKVQPPSIYDWIKKGSISKDKLPELWR 60 ML+GKDLGRAIEQAINKK++SGSVKSK E+ARHF V+ PSIYDWIKKGSISKDKLPELW Sbjct: 1 MLNGKDLGRAIEQAINKKLSSGSVKSKTEIARHFNVKLPSIYDWIKKGSISKDKLPELWS 60 Query: 61 FFSDVVGPEHWGLNEYPIPT-PTNSDTKSELLDINNL---YQAASDEIRAIVAFLLSGNA 116 +FSDVVGPEHWGL E+ +P S + +N+L Y +AS E + I+ +LL N Sbjct: 61 YFSDVVGPEHWGLKEFHLPVNKAESRCTHDEHQLNSLIHAYMSASAERKEIIKYLLLQNN 120 Query: 117 T-EPDWVDHDVRAYIAAMEMKVGKYL 141 T EP WV+ D RAYI +E + ++L Sbjct: 121 TKEPSWVNSDTRAYIITLERQASEWL 146 >UniRef50_Q9PG02 Phage-related repressor protein n=2 Tax=Xylella fastidiosa RepID=Q9PG02_XYLFA Length = 143 Score = 97.1 bits (240), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 58/115 (50%), Positives = 71/115 (61%), Gaps = 13/115 (11%) Query: 1 MLSGKDLGRAIEQAINKKIASGSVKSKAEVARHFKVQPPSIYDWIKKGSISKDKLPELWR 60 ML+G+ LGRAI+QA+ K G +K +A HF V+ PS+Y WIK+G ISK+KLP LW Sbjct: 1 MLTGEQLGRAIKQAMQLK---GVTPTK--MAEHFGVKAPSVYGWIKEGRISKEKLPSLWS 55 Query: 61 FFSDVVGPEHWGLNEYP---IPTPTNSDTKSELLDINNLYQAASDEIRAIVAFLL 112 +FSDVVGP HWGL +P +P P T DI Y AAS RA V LL Sbjct: 56 YFSDVVGPTHWGLEAWPSGGVPAPPMKGT-----DITEAYHAASAATRAAVDLLL 105 >UniRef50_C7HY20 Putative phage repressor n=1 Tax=Thiomonas intermedia K12 RepID=C7HY20_THIIN Length = 224 Score = 79.3 bits (194), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 38/75 (50%), Positives = 52/75 (69%), Gaps = 5/75 (6%) Query: 1 MLSGKDLGRAIEQAINKKIASGSVKSKAEVARHFKVQPPSIYDWIKKGSISKDKLPELWR 60 ML+GK+LG AIE A KK S K +AR +++PPS+ DWI G ++K +L L++ Sbjct: 1 MLTGKELGAAIEAARLKKGVS-----KVTLARAMEIKPPSVQDWIHHGRVAKSRLGALFQ 55 Query: 61 FFSDVVGPEHWGLNE 75 +FSDVVGPEHWG+ E Sbjct: 56 YFSDVVGPEHWGVRE 70 >UniRef50_A5W5W4 Putative phage repressor n=1 Tax=Pseudomonas putida F1 RepID=A5W5W4_PSEP1 Length = 280 Score = 74.7 bits (182), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 38/73 (52%), Positives = 51/73 (69%), Gaps = 5/73 (6%) Query: 1 MLSGKDLGRAIEQAINKKIASGSVKSKAEVARHFKVQPPSIYDWIKKGSISKDKLPELWR 60 ML+G +LG AI+ A +IA G SK ++A F+V+PPS+ W+K G I K KL ++ Sbjct: 1 MLTGPELGAAIDAA---RIAKGV--SKKQLADDFQVKPPSVQGWVKNGRIDKSKLMDVIA 55 Query: 61 FFSDVVGPEHWGL 73 +FSDVVGPEHWGL Sbjct: 56 YFSDVVGPEHWGL 68 >UniRef50_A6V3X6 Transcriptional regulator, Cro/CI family n=2 Tax=Pseudomonas aeruginosa RepID=A6V3X6_PSEA7 Length = 283 Score = 72.8 bits (177), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 40/75 (53%), Positives = 47/75 (62%), Gaps = 5/75 (6%) Query: 1 MLSGKDLGRAIEQAINKKIASGSVKSKAEVARHFKVQPPSIYDWIKKGSISKDKLPELWR 60 ML+G LG AIE A ++A SK +A F V+PPS+ WI G I K KL EL Sbjct: 1 MLTGPQLGAAIEAA---RLAKN--MSKKALAEQFGVKPPSVQGWINTGRIDKAKLIELIS 55 Query: 61 FFSDVVGPEHWGLNE 75 FFSDVVG EHWGL+E Sbjct: 56 FFSDVVGAEHWGLSE 70 >UniRef50_C1HWP1 Predicted protein n=10 Tax=Neisseria gonorrhoeae RepID=C1HWP1_NEIGO Length = 238 Score = 69.7 bits (169), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 35/78 (44%), Positives = 48/78 (61%), Gaps = 5/78 (6%) Query: 1 MLSGKDLGRAIEQAINKKIASGSVKSKAEVARHFKVQPPSIYDWIKKGSISKDKLPELWR 60 M SG+ LG+AI +AI +K S + EVA HF V+ PS+ WIK G I K L +L Sbjct: 19 MFSGEQLGQAISEAIKRKNVS-----QKEVADHFGVKQPSVSGWIKNGRIDKKHLDKLID 73 Query: 61 FFSDVVGPEHWGLNEYPI 78 +FSDVV P H+G+ + + Sbjct: 74 YFSDVVTPSHFGIETFRV 91 Searching..................................................done Results from round 2 Score E Sequences producing significant alignments: (bits) Value Sequences used in model and found again: UniRef50_P76062 Rac prophage repressor n=17 Tax=Escherichia coli... 270 8e-72 UniRef50_B4EVH7 Prophage repressor n=2 Tax=Proteus mirabilis Rep... 220 1e-56 UniRef50_Q9PG02 Phage-related repressor protein n=2 Tax=Xylella ... 141 8e-33 UniRef50_C1HWP1 Predicted protein n=10 Tax=Neisseria gonorrhoeae... 117 8e-26 UniRef50_A5W5W4 Putative phage repressor n=1 Tax=Pseudomonas put... 117 1e-25 UniRef50_C7HY20 Putative phage repressor n=1 Tax=Thiomonas inter... 115 4e-25 UniRef50_A6V3X6 Transcriptional regulator, Cro/CI family n=2 Tax... 115 6e-25 Sequences not found previously or not previously below threshold: CONVERGED! >UniRef50_P76062 Rac prophage repressor n=17 Tax=Escherichia coli RepID=RACR_ECOLI Length = 158 Score = 270 bits (691), Expect = 8e-72, Method: Composition-based stats. Identities = 158/158 (100%), Positives = 158/158 (100%) Query: 1 MLSGKDLGRAIEQAINKKIASGSVKSKAEVARHFKVQPPSIYDWIKKGSISKDKLPELWR 60 MLSGKDLGRAIEQAINKKIASGSVKSKAEVARHFKVQPPSIYDWIKKGSISKDKLPELWR Sbjct: 1 MLSGKDLGRAIEQAINKKIASGSVKSKAEVARHFKVQPPSIYDWIKKGSISKDKLPELWR 60 Query: 61 FFSDVVGPEHWGLNEYPIPTPTNSDTKSELLDINNLYQAASDEIRAIVAFLLSGNATEPD 120 FFSDVVGPEHWGLNEYPIPTPTNSDTKSELLDINNLYQAASDEIRAIVAFLLSGNATEPD Sbjct: 61 FFSDVVGPEHWGLNEYPIPTPTNSDTKSELLDINNLYQAASDEIRAIVAFLLSGNATEPD 120 Query: 121 WVDHDVRAYIAAMEMKVGKYLKALESERKSQNITKTGT 158 WVDHDVRAYIAAMEMKVGKYLKALESERKSQNITKTGT Sbjct: 121 WVDHDVRAYIAAMEMKVGKYLKALESERKSQNITKTGT 158 >UniRef50_B4EVH7 Prophage repressor n=2 Tax=Proteus mirabilis RepID=B4EVH7_PROMH Length = 160 Score = 220 bits (560), Expect = 1e-56, Method: Composition-based stats. Identities = 88/146 (60%), Positives = 108/146 (73%), Gaps = 5/146 (3%) Query: 1 MLSGKDLGRAIEQAINKKIASGSVKSKAEVARHFKVQPPSIYDWIKKGSISKDKLPELWR 60 ML+GKDLGRAIEQAINKK++SGSVKSK E+ARHF V+ PSIYDWIKKGSISKDKLPELW Sbjct: 1 MLNGKDLGRAIEQAINKKLSSGSVKSKTEIARHFNVKLPSIYDWIKKGSISKDKLPELWS 60 Query: 61 FFSDVVGPEHWGLNEYPIPT-PTNSDTKSELLDINNL---YQAASDEIRAIVAFLLSGNA 116 +FSDVVGPEHWGL E+ +P S + +N+L Y +AS E + I+ +LL N Sbjct: 61 YFSDVVGPEHWGLKEFHLPVNKAESRCTHDEHQLNSLIHAYMSASAERKEIIKYLLLQNN 120 Query: 117 T-EPDWVDHDVRAYIAAMEMKVGKYL 141 T EP WV+ D RAYI +E + ++L Sbjct: 121 TKEPSWVNSDTRAYIITLERQASEWL 146 >UniRef50_Q9PG02 Phage-related repressor protein n=2 Tax=Xylella fastidiosa RepID=Q9PG02_XYLFA Length = 143 Score = 141 bits (354), Expect = 8e-33, Method: Composition-based stats. Identities = 58/116 (50%), Positives = 71/116 (61%), Gaps = 13/116 (11%) Query: 1 MLSGKDLGRAIEQAINKKIASGSVKSKAEVARHFKVQPPSIYDWIKKGSISKDKLPELWR 60 ML+G+ LGRAI+QA+ K G +K +A HF V+ PS+Y WIK+G ISK+KLP LW Sbjct: 1 MLTGEQLGRAIKQAMQLK---GVTPTK--MAEHFGVKAPSVYGWIKEGRISKEKLPSLWS 55 Query: 61 FFSDVVGPEHWGLNEYP---IPTPTNSDTKSELLDINNLYQAASDEIRAIVAFLLS 113 +FSDVVGP HWGL +P +P P T DI Y AAS RA V LL Sbjct: 56 YFSDVVGPTHWGLEAWPSGGVPAPPMKGT-----DITEAYHAASAATRAAVDLLLL 106 >UniRef50_C1HWP1 Predicted protein n=10 Tax=Neisseria gonorrhoeae RepID=C1HWP1_NEIGO Length = 238 Score = 117 bits (294), Expect = 8e-26, Method: Composition-based stats. Identities = 35/78 (44%), Positives = 48/78 (61%), Gaps = 5/78 (6%) Query: 1 MLSGKDLGRAIEQAINKKIASGSVKSKAEVARHFKVQPPSIYDWIKKGSISKDKLPELWR 60 M SG+ LG+AI +AI +K S + EVA HF V+ PS+ WIK G I K L +L Sbjct: 19 MFSGEQLGQAISEAIKRKNVS-----QKEVADHFGVKQPSVSGWIKNGRIDKKHLDKLID 73 Query: 61 FFSDVVGPEHWGLNEYPI 78 +FSDVV P H+G+ + + Sbjct: 74 YFSDVVTPSHFGIETFRV 91 >UniRef50_A5W5W4 Putative phage repressor n=1 Tax=Pseudomonas putida F1 RepID=A5W5W4_PSEP1 Length = 280 Score = 117 bits (293), Expect = 1e-25, Method: Composition-based stats. Identities = 36/74 (48%), Positives = 48/74 (64%), Gaps = 5/74 (6%) Query: 1 MLSGKDLGRAIEQAINKKIASGSVKSKAEVARHFKVQPPSIYDWIKKGSISKDKLPELWR 60 ML+G +LG AI+ A K S K ++A F+V+PPS+ W+K G I K KL ++ Sbjct: 1 MLTGPELGAAIDAARIAKGVS-----KKQLADDFQVKPPSVQGWVKNGRIDKSKLMDVIA 55 Query: 61 FFSDVVGPEHWGLN 74 +FSDVVGPEHWGL Sbjct: 56 YFSDVVGPEHWGLR 69 >UniRef50_C7HY20 Putative phage repressor n=1 Tax=Thiomonas intermedia K12 RepID=C7HY20_THIIN Length = 224 Score = 115 bits (288), Expect = 4e-25, Method: Composition-based stats. Identities = 38/75 (50%), Positives = 52/75 (69%), Gaps = 5/75 (6%) Query: 1 MLSGKDLGRAIEQAINKKIASGSVKSKAEVARHFKVQPPSIYDWIKKGSISKDKLPELWR 60 ML+GK+LG AIE A KK S K +AR +++PPS+ DWI G ++K +L L++ Sbjct: 1 MLTGKELGAAIEAARLKKGVS-----KVTLARAMEIKPPSVQDWIHHGRVAKSRLGALFQ 55 Query: 61 FFSDVVGPEHWGLNE 75 +FSDVVGPEHWG+ E Sbjct: 56 YFSDVVGPEHWGVRE 70 >UniRef50_A6V3X6 Transcriptional regulator, Cro/CI family n=2 Tax=Pseudomonas aeruginosa RepID=A6V3X6_PSEA7 Length = 283 Score = 115 bits (287), Expect = 6e-25, Method: Composition-based stats. Identities = 40/75 (53%), Positives = 45/75 (60%), Gaps = 5/75 (6%) Query: 1 MLSGKDLGRAIEQAINKKIASGSVKSKAEVARHFKVQPPSIYDWIKKGSISKDKLPELWR 60 ML+G LG AIE A K SK +A F V+PPS+ WI G I K KL EL Sbjct: 1 MLTGPQLGAAIEAARLAKN-----MSKKALAEQFGVKPPSVQGWINTGRIDKAKLIELIS 55 Query: 61 FFSDVVGPEHWGLNE 75 FFSDVVG EHWGL+E Sbjct: 56 FFSDVVGAEHWGLSE 70 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 0.304 0.122 0.330 Lambda K H 0.267 0.0379 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Hits to DB: 539,964,832 Number of Sequences: 3077464 Number of extensions: 19029109 Number of successful extensions: 41972 Number of sequences better than 1.0e-01: 7 Number of HSP's better than 0.1 without gapping: 14 Number of HSP's successfully gapped in prelim test: 0 Number of HSP's that attempted gapping in prelim test: 41945 Number of HSP's gapped (non-prelim): 14 length of query: 158 length of database: 1,040,396,356 effective HSP length: 118 effective length of query: 40 effective length of database: 677,255,604 effective search space: 27090224160 effective search space used: 27090224160 T: 11 A: 40 X1: 16 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 42 (21.4 bits) S2: 87 (38.2 bits)