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____ (121 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_P76334 Inner membrane protein yedR n=43 Tax=Enterobacte... 247 7e-65 UniRef50_C8T7L4 Inner membrane protein YedR n=4 Tax=Klebsiella R... 105 5e-22 UniRef50_B5F2P4 Outer membrane protein N n=31 Tax=Salmonella ent... 88 7e-17 >UniRef50_P76334 Inner membrane protein yedR n=43 Tax=Enterobacteriaceae RepID=YEDR_ECOLI Length = 121 Score = 247 bits (631), Expect = 7e-65, Method: Compositional matrix adjust. Identities = 121/121 (100%), Positives = 121/121 (100%) Query: 1 MEKCDFYHIIVLSLNFPGYLKMEYGSTKMEERLSRSPGGKLALWAFYTWCGYFVWAMARY 60 MEKCDFYHIIVLSLNFPGYLKMEYGSTKMEERLSRSPGGKLALWAFYTWCGYFVWAMARY Sbjct: 1 MEKCDFYHIIVLSLNFPGYLKMEYGSTKMEERLSRSPGGKLALWAFYTWCGYFVWAMARY 60 Query: 61 IWVMSRIPDAPVSGFESDLGSTAGKWLGALVGFLFMALVGALLGSIAWYTRPRPARSRRY 120 IWVMSRIPDAPVSGFESDLGSTAGKWLGALVGFLFMALVGALLGSIAWYTRPRPARSRRY Sbjct: 61 IWVMSRIPDAPVSGFESDLGSTAGKWLGALVGFLFMALVGALLGSIAWYTRPRPARSRRY 120 Query: 121 E 121 E Sbjct: 121 E 121 >UniRef50_C8T7L4 Inner membrane protein YedR n=4 Tax=Klebsiella RepID=C8T7L4_KLEPR Length = 93 Score = 105 bits (261), Expect = 5e-22, Method: Compositional matrix adjust. Identities = 47/84 (55%), Positives = 61/84 (72%) Query: 29 MEERLSRSPGGKLALWAFYTWCGYFVWAMARYIWVMSRIPDAPVSGFESDLGSTAGKWLG 88 MEE+ RS GGKLALWA Y +CGY VW + RY WV+ +I P + E D G+TAGKWLG Sbjct: 1 MEEQAKRSSGGKLALWALYAFCGYCVWVIVRYWWVVGKIHSVPGASVEGDFGTTAGKWLG 60 Query: 89 ALVGFLFMALVGALLGSIAWYTRP 112 AL+G L + +G++LG++ WYTRP Sbjct: 61 ALLGMLVLGGIGSILGAVVWYTRP 84 >UniRef50_B5F2P4 Outer membrane protein N n=31 Tax=Salmonella enterica RepID=B5F2P4_SALA4 Length = 92 Score = 88.2 bits (217), Expect = 7e-17, Method: Compositional matrix adjust. Identities = 47/79 (59%), Positives = 54/79 (68%), Gaps = 4/79 (5%) Query: 38 GGKLALWAFYTWCGYFVWAMARYIWVMSRIPDAPVSGFESDLGSTAGKWLGALVGFLFMA 97 GGKLALW FYT+CGYF+WAMAR +W+MS I PV G S GS KWL AL + Sbjct: 2 GGKLALWVFYTFCGYFIWAMARCVWLMSAIQTEPVLGPISTPGSATEKWLNALS----LG 57 Query: 98 LVGALLGSIAWYTRPRPAR 116 +V +LGSIAWYTRPR R Sbjct: 58 VVWLILGSIAWYTRPRKNR 76 Searching..................................................done Results from round 2 Score E Sequences producing significant alignments: (bits) Value Sequences used in model and found again: UniRef50_P76334 Inner membrane protein yedR n=43 Tax=Enterobacte... 203 1e-51 UniRef50_C8T7L4 Inner membrane protein YedR n=4 Tax=Klebsiella R... 130 1e-29 UniRef50_B5F2P4 Outer membrane protein N n=31 Tax=Salmonella ent... 115 5e-25 Sequences not found previously or not previously below threshold: CONVERGED! >UniRef50_P76334 Inner membrane protein yedR n=43 Tax=Enterobacteriaceae RepID=YEDR_ECOLI Length = 121 Score = 203 bits (517), Expect = 1e-51, Method: Composition-based stats. Identities = 121/121 (100%), Positives = 121/121 (100%) Query: 1 MEKCDFYHIIVLSLNFPGYLKMEYGSTKMEERLSRSPGGKLALWAFYTWCGYFVWAMARY 60 MEKCDFYHIIVLSLNFPGYLKMEYGSTKMEERLSRSPGGKLALWAFYTWCGYFVWAMARY Sbjct: 1 MEKCDFYHIIVLSLNFPGYLKMEYGSTKMEERLSRSPGGKLALWAFYTWCGYFVWAMARY 60 Query: 61 IWVMSRIPDAPVSGFESDLGSTAGKWLGALVGFLFMALVGALLGSIAWYTRPRPARSRRY 120 IWVMSRIPDAPVSGFESDLGSTAGKWLGALVGFLFMALVGALLGSIAWYTRPRPARSRRY Sbjct: 61 IWVMSRIPDAPVSGFESDLGSTAGKWLGALVGFLFMALVGALLGSIAWYTRPRPARSRRY 120 Query: 121 E 121 E Sbjct: 121 E 121 >UniRef50_C8T7L4 Inner membrane protein YedR n=4 Tax=Klebsiella RepID=C8T7L4_KLEPR Length = 93 Score = 130 bits (327), Expect = 1e-29, Method: Composition-based stats. Identities = 47/84 (55%), Positives = 61/84 (72%) Query: 29 MEERLSRSPGGKLALWAFYTWCGYFVWAMARYIWVMSRIPDAPVSGFESDLGSTAGKWLG 88 MEE+ RS GGKLALWA Y +CGY VW + RY WV+ +I P + E D G+TAGKWLG Sbjct: 1 MEEQAKRSSGGKLALWALYAFCGYCVWVIVRYWWVVGKIHSVPGASVEGDFGTTAGKWLG 60 Query: 89 ALVGFLFMALVGALLGSIAWYTRP 112 AL+G L + +G++LG++ WYTRP Sbjct: 61 ALLGMLVLGGIGSILGAVVWYTRP 84 >UniRef50_B5F2P4 Outer membrane protein N n=31 Tax=Salmonella enterica RepID=B5F2P4_SALA4 Length = 92 Score = 115 bits (287), Expect = 5e-25, Method: Composition-based stats. Identities = 47/79 (59%), Positives = 54/79 (68%), Gaps = 4/79 (5%) Query: 38 GGKLALWAFYTWCGYFVWAMARYIWVMSRIPDAPVSGFESDLGSTAGKWLGALVGFLFMA 97 GGKLALW FYT+CGYF+WAMAR +W+MS I PV G S GS KWL AL + Sbjct: 2 GGKLALWVFYTFCGYFIWAMARCVWLMSAIQTEPVLGPISTPGSATEKWLNALS----LG 57 Query: 98 LVGALLGSIAWYTRPRPAR 116 +V +LGSIAWYTRPR R Sbjct: 58 VVWLILGSIAWYTRPRKNR 76 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 0.320 0.136 0.459 Lambda K H 0.267 0.0415 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Hits to DB: 565,059,886 Number of Sequences: 3077464 Number of extensions: 21124944 Number of successful extensions: 79936 Number of sequences better than 1.0e-01: 4 Number of HSP's better than 0.1 without gapping: 6 Number of HSP's successfully gapped in prelim test: 2 Number of HSP's that attempted gapping in prelim test: 79927 Number of HSP's gapped (non-prelim): 8 length of query: 121 length of database: 1,040,396,356 effective HSP length: 88 effective length of query: 33 effective length of database: 769,579,524 effective search space: 25396124292 effective search space used: 25396124292 T: 11 A: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.3 bits) S2: 87 (38.1 bits)