BLASTP 2.2.18 [Mar-02-2008] 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. Query= 0523.0005.p (299 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value C3B4B3.1 C3B4B3_BACMY YwqM (Probable transcriptional regulator Y... 278 6e-73 C3AM26.1 C3AM26_BACMY YwqM (Probable transcriptional regulator Y... 278 6e-73 C3BL46.1 C3BL46_9BACI YwqM (Probable transcriptional regulator Y... 274 7e-72 Q65FY0.1 Q65FY0_BACLD YwqM 267 1e-69 C2W6S9.1 C2W6S9_BACCE YwqM (Probable transcriptional regulator Y... 252 2e-65 >C3B4B3.1 C3B4B3_BACMY YwqM (Probable transcriptional regulator YwqM) Length = 304 Score = 278 bits (710), Expect = 6e-73, Method: Compositional matrix adjust. Identities = 136/285 (47%), Positives = 184/285 (64%), Gaps = 2/285 (0%) Query: 1 VETGSFTRAAQKLDYAQSSITAQIQALEAELGQPLFDRISKKIILTDAGRRLLPYAQEIS 60 VE G +TRAA L YAQS++T IQA+E E+GQPLF+R+ KK++LTD G+ LLPYA E+ Sbjct: 13 VELGGYTRAADYLGYAQSTVTGHIQAIEQEMGQPLFNRLGKKMVLTDVGKHLLPYANEMI 72 Query: 61 RMHTLAEVALRSDTELSGALRIGAPESLAAFRLPGIIKEFRGRYPQVQITLKPGACWELT 120 + A+ D E++G + IGAPESL +RLP I+ E++ +YP+V+ITLK C EL Sbjct: 73 ALSEKAKQIPSVDNEITGKIVIGAPESLTIYRLPSILHEYKKKYPKVKITLKASTCRELR 132 Query: 121 EFVRSGELDLVFLLQPETEYKDLHTETLIQEAMALVAPLGHPLLELAEVLPHHLKDETIL 180 ++SG +D+ FLL E +DLH E L+ E MA V P + + + ++ET L Sbjct: 133 NDLKSGNIDIAFLLDTERHEEDLHIEQLVMEQMAFVFPKDYTVTQTDSQDVQFSQEETFL 192 Query: 181 HTETGCTYRTLFERHLNSHGVFPDPKLEFWSVEAIKQCVTAGLGLSFLPMITVQSELAEG 240 +TE GC+YR FE +L G+ + EFWS+EAIKQCV GLG+S LP+ITV E + Sbjct: 193 YTERGCSYRAFFEHYLQRQGIQHESTFEFWSIEAIKQCVMCGLGISLLPIITVGQEQKDK 252 Query: 241 KLARLHWNDESQRVATQIAYHHKKWKSPALAEFLSTIQKHAAEWR 285 KL + N+ + ATQ+ YH KW SPAL EFL I+KHA WR Sbjct: 253 KLQAVILNE--AKFATQLVYHKNKWFSPALHEFLMIIRKHAKGWR 295 >C3AM26.1 C3AM26_BACMY YwqM (Probable transcriptional regulator YwqM) Length = 304 Score = 278 bits (710), Expect = 6e-73, Method: Compositional matrix adjust. Identities = 136/285 (47%), Positives = 184/285 (64%), Gaps = 2/285 (0%) Query: 1 VETGSFTRAAQKLDYAQSSITAQIQALEAELGQPLFDRISKKIILTDAGRRLLPYAQEIS 60 VE G +TRAA L YAQS++T IQA+E E+GQPLF+R+ KK++LTD G+ LLPYA E+ Sbjct: 13 VELGGYTRAADYLGYAQSTVTGHIQAIEQEMGQPLFNRLGKKMVLTDVGKHLLPYANEMI 72 Query: 61 RMHTLAEVALRSDTELSGALRIGAPESLAAFRLPGIIKEFRGRYPQVQITLKPGACWELT 120 + A+ D E++G + IGAPESL +RLP I+ E++ +YP+V+ITLK C EL Sbjct: 73 ALSEKAKQIPSVDNEITGKIVIGAPESLTIYRLPSILHEYKKKYPKVKITLKASTCRELR 132 Query: 121 EFVRSGELDLVFLLQPETEYKDLHTETLIQEAMALVAPLGHPLLELAEVLPHHLKDETIL 180 ++SG +D+ FLL E +DLH E L+ E MA V P + + + ++ET L Sbjct: 133 NDLKSGNIDIAFLLDTERHEEDLHIEQLVMEQMAFVFPKDYTVTQTDSQDVQFSQEETFL 192 Query: 181 HTETGCTYRTLFERHLNSHGVFPDPKLEFWSVEAIKQCVTAGLGLSFLPMITVQSELAEG 240 +TE GC+YR FE +L G+ + EFWS+EAIKQCV GLG+S LP+ITV E + Sbjct: 193 YTERGCSYRAFFEHYLQRQGIQHESTFEFWSIEAIKQCVMCGLGISLLPIITVGQEQKDK 252 Query: 241 KLARLHWNDESQRVATQIAYHHKKWKSPALAEFLSTIQKHAAEWR 285 KL + N+ + ATQ+ YH KW SPAL EFL I+KHA WR Sbjct: 253 KLQAVILNE--AKFATQLVYHKNKWFSPALHEFLMIIRKHAKGWR 295 >C3BL46.1 C3BL46_9BACI YwqM (Probable transcriptional regulator YwqM) Length = 304 Score = 274 bits (701), Expect = 7e-72, Method: Compositional matrix adjust. Identities = 134/285 (47%), Positives = 183/285 (64%), Gaps = 2/285 (0%) Query: 1 VETGSFTRAAQKLDYAQSSITAQIQALEAELGQPLFDRISKKIILTDAGRRLLPYAQEIS 60 VE G +TRAA L YAQS++T IQA+E E+GQPLF+R+ KK++LTD G+ LLPYA E+ Sbjct: 13 VELGGYTRAADYLGYAQSTVTGHIQAIEQEMGQPLFNRLGKKMVLTDVGKHLLPYANEMI 72 Query: 61 RMHTLAEVALRSDTELSGALRIGAPESLAAFRLPGIIKEFRGRYPQVQITLKPGACWELT 120 + A+ D E++G + IGAPESL +RLP I+ E++ +YP+V+ITLK C EL Sbjct: 73 ALSEKAKQIPSVDNEITGKIVIGAPESLTIYRLPSILHEYKKKYPKVKITLKASTCRELR 132 Query: 121 EFVRSGELDLVFLLQPETEYKDLHTETLIQEAMALVAPLGHPLLELAEVLPHHLKDETIL 180 ++SG +D+ FLL E +DL+ E L+ E MA V P + + + ++ET L Sbjct: 133 NDLKSGNIDIAFLLDTERHEEDLNIEQLVMEQMAFVFPKDYTVTQTDSQDVQFSQEETFL 192 Query: 181 HTETGCTYRTLFERHLNSHGVFPDPKLEFWSVEAIKQCVTAGLGLSFLPMITVQSELAEG 240 +TE GC+YR FE +L G+ + EFWS+EAIKQCV GLG+S LP+ITV E + Sbjct: 193 YTERGCSYRAFFEHYLQRQGIQHESTFEFWSIEAIKQCVMCGLGISLLPIITVGQEQKDK 252 Query: 241 KLARLHWNDESQRVATQIAYHHKKWKSPALAEFLSTIQKHAAEWR 285 KL + N+ + ATQ+ YH KW SPAL EFL I+KH WR Sbjct: 253 KLQAVILNE--AKFATQLVYHKNKWFSPALHEFLMIIRKHVKGWR 295 >Q65FY0.1 Q65FY0_BACLD YwqM Length = 297 Score = 267 bits (682), Expect = 1e-69, Method: Compositional matrix adjust. Identities = 132/284 (46%), Positives = 181/284 (63%), Gaps = 2/284 (0%) Query: 1 VETGSFTRAAQKLDYAQSSITAQIQALEAELGQPLFDRISKKIILTDAGRRLLPYAQEIS 60 V+ G FTRAA L YAQS++T+ +QA+E EL +PLF R+ KK++LT+AG+ LLPYA E+ Sbjct: 13 VDIGGFTRAADYLGYAQSTVTSHVQAIEQELRKPLFYRLGKKMMLTEAGKHLLPYAAEMV 72 Query: 61 RMHTLAEVALRSDTELSGALRIGAPESLAAFRLPGIIKEFRGRYPQVQITLKPGACWELT 120 ++ A +D E SG L IGA ESL +RLP I+ EF +YPQV +TLK CW+L Sbjct: 73 ELYEKARHIPENDQEPSGNLIIGASESLTVYRLPAILHEFTSKYPQVTVTLKSSTCWQLR 132 Query: 121 EFVRSGELDLVFLLQPETEYKDLHTETLIQEAMALVAPLGHPLLELAEVLPHHLKDETIL 180 + ++ G++D+ FLL + + DLH E L+ E M + P HP + A +ET L Sbjct: 133 DELKQGKIDVAFLLDNDRKENDLHVEKLVNEPMVFIFPKEHPAGQKALDDLTFNANETFL 192 Query: 181 HTETGCTYRTLFERHLNSHGVFPDPKLEFWSVEAIKQCVTAGLGLSFLPMITVQSELAEG 240 +TE GC+YR FE +L GV D +EFWSVEAIKQCV GLG+S LP+IT ++++ EG Sbjct: 193 YTEHGCSYRDFFEEYLRQRGVIADHTMEFWSVEAIKQCVMCGLGVSLLPLITTRTDIEEG 252 Query: 241 KLARLHWNDESQRVATQIAYHHKKWKSPALAEFLSTIQKHAAEW 284 KL D +TQ+ YH KW SPA+A F +++ A EW Sbjct: 253 KLQGTLVRD--ALFSTQMVYHKNKWLSPAMAAFTDIVRRKAREW 294 >C2W6S9.1 C2W6S9_BACCE YwqM (Probable transcriptional regulator YwqM) Length = 298 Score = 252 bits (644), Expect = 2e-65, Method: Compositional matrix adjust. Identities = 125/287 (43%), Positives = 181/287 (63%), Gaps = 2/287 (0%) Query: 2 ETGSFTRAAQKLDYAQSSITAQIQALEAELGQPLFDRISKKIILTDAGRRLLPYAQEISR 61 E+G FTRA ++L Y QS+IT I++LE E+G PLFDR+ KK++LTD G +L YA +I Sbjct: 14 ESGGFTRAGEQLGYTQSTITNHIRSLEEEIGNPLFDRLGKKVVLTDVGEHMLSYAHKILE 73 Query: 62 MHTLAEVALRSDTELSGALRIGAPESLAAFRLPGIIKEFRGRYPQVQITLKPGACWELTE 121 + A + + + + SG +RIGA ESL +RLP ++ EF+ +YPQV I L+P EL Sbjct: 74 LSNEALESSQMNGKFSGTIRIGANESLMIYRLPAVLYEFKRKYPQVHIILQPSESQELHN 133 Query: 122 FVRSGELDLVFLLQPETEYKDLHTETLIQEAMALVAPLGHPLLELAEVLPHHLKDETILH 181 ++SG+ D PE D+ T +L+QE + L+AP HPL + V P L+ E +L Sbjct: 134 ELKSGKFDFALFTHPEQLGTDIVTHSLVQEKIVLIAPPKHPLTKKVSVSPADLEGEMLLL 193 Query: 182 TETGCTYRTLFERHLNSHGVFPDPKLEFWSVEAIKQCVTAGLGLSFLPMITVQSELAEGK 241 TE G +YR L ER + G+ + FWS+EAIKQ V GLG+S+LP ITV+ E+ +GK Sbjct: 194 TEPG-SYRDLLERRIKEDGINCS-DIHFWSIEAIKQTVMCGLGISYLPFITVKEEIEQGK 251 Query: 242 LARLHWNDESQRVATQIAYHHKKWKSPALAEFLSTIQKHAAEWRNGA 288 L+ L W V T++AYH KW +PA+ + ++ I+KHA +W+ A Sbjct: 252 LSVLPWTYSEDFVTTELAYHKSKWLNPAMKKLINMIEKHAEKWKEFA 298 Database: pfamseq Posted date: Aug 5, 2010 3:22 PM Number of letters in database: 3,060,696,203 Number of sequences in database: 9,421,015 Lambda K H 0.319 0.133 0.391 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 9421015 Number of Hits to DB: 1,676,582,599 Number of extensions: 65682178 Number of successful extensions: 216127 Number of sequences better than 1.0e-05: 18109 Number of HSP's gapped: 203903 Number of HSP's successfully gapped: 18109 Length of query: 299 Length of database: 3,060,696,203 Length adjustment: 135 Effective length of query: 164 Effective length of database: 1,788,859,178 Effective search space: 293372905192 Effective search space used: 293372905192 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.8 bits) S2: 131 (55.1 bits)