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= 0184.0007.p (251 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B3K431.1 B3K431_9BACI Helix-turn-helix-domain containing protein... 317 4e-85 C1PAU9.1 C1PAU9_BACCO Transcriptional regulator, AraC family 215 3e-54 C2ZYB4.1 C2ZYB4_BACCE Transcriptional regulator, AraC 135 4e-30 C2Z9K1.1 C2Z9K1_BACCE Transcriptional regulator, AraC 135 4e-30 A9VK28.1 A9VK28_BACWK Transcriptional regulator, AraC family 134 7e-30 >B3K431.1 B3K431_9BACI Helix-turn-helix-domain containing protein AraC type Length = 247 Score = 317 bits (813), Expect = 4e-85, Method: Compositional matrix adjust. Identities = 149/229 (65%), Positives = 188/229 (82%) Query: 19 YWSTRSEDLNRGFVHPPLDYEQELLEAIRMGNESKALEALHKINTLEAATLAGYPLRSKK 78 Y S+R L F+HPP DYE ELLEAIR G+E++A++ L KIN LEAA LA YPLRSKK Sbjct: 13 YLSSRMFYLRENFIHPPFDYEHELLEAIRFGDENRAMDMLRKINELEAAVLATYPLRSKK 72 Query: 79 NSLIASCTLFTRAIIRGGVNPETAFQLSDTIIRDIENTAGLEQLLLFEYEMVLQFIAIMK 138 N+LIASCTLFTRAII+GGV+PE AF LSDT+I +IE + +E+L+ FEYEM++QF+++++ Sbjct: 73 NALIASCTLFTRAIIKGGVDPEIAFHLSDTLILEIERMSDVERLVHFEYEMLVQFVSMIR 132 Query: 139 REKEILHYSHIVNLSIYYIREHICRELTLGRIARHAGVHPSYLSDRFKRETGMALTEFIN 198 EKE + +SHIVNL+I+YIREHI ELTL R+A + VHPSYLSDRFKRETG A+T FIN Sbjct: 133 SEKEDVSFSHIVNLAIFYIREHIFEELTLQRVAEYLKVHPSYLSDRFKRETGEAITTFIN 192 Query: 199 RRRIEESKSILIHSNQSISDISLMFKLCSQSYYTQLFKKYTGKTPGQYR 247 RR+IEESK +L ++NQSIS+I+ FK CSQSYYTQLFK +TG TP ++R Sbjct: 193 RRKIEESKHLLANTNQSISEIAFTFKFCSQSYYTQLFKNFTGMTPRKFR 241 >C1PAU9.1 C1PAU9_BACCO Transcriptional regulator, AraC family Length = 248 Score = 215 bits (548), Expect = 3e-54, Method: Compositional matrix adjust. Identities = 110/235 (46%), Positives = 156/235 (66%), Gaps = 1/235 (0%) Query: 16 VSSYWSTRSEDLNRGFVHPPLDYEQELLEAIRMGNESKALEALHKINTLEAATLAGYPLR 75 + Y S R E F+HPP E++LL A++ G A L INTLE A LA P+R Sbjct: 11 IERYLSYRVEHQREYFLHPPYMMEKQLLNAVKEGRVEAAESVLKTINTLERAKLAEEPIR 70 Query: 76 SKKNSLIASCTLFTRAIIRGGVNPETAFQLSDTIIRDIENTAGLEQLLLFEYEMVLQFI- 134 S +NSLI CTLFTRA I GV PETAF +SD I +IE E+L EY M+ F Sbjct: 71 SLRNSLICICTLFTRAAIEAGVPPETAFNISDAHILEIERLKTQEKLFELEYSMLRNFTE 130 Query: 135 AIMKREKEILHYSHIVNLSIYYIREHICRELTLGRIARHAGVHPSYLSDRFKRETGMALT 194 A+ + K+ YSH +++++ YI E+I + +TL +A+H ++PSYLS FK+ETG+++T Sbjct: 131 AVQQARKQENRYSHAIHMAVAYIHENILQVITLESLAKHVYLNPSYLSHLFKKETGVSVT 190 Query: 195 EFINRRRIEESKSILIHSNQSISDISLMFKLCSQSYYTQLFKKYTGKTPGQYRKE 249 ++IN++RIEES L+H+N +IS+I+L+F C+QSYYT LFKKY G TP ++R++ Sbjct: 191 DYINKKRIEESIYFLLHTNITISEIALLFHFCNQSYYTSLFKKYMGLTPKEFREQ 245 >C2ZYB4.1 C2ZYB4_BACCE Transcriptional regulator, AraC Length = 416 Score = 135 bits (339), Expect = 4e-30, Method: Compositional matrix adjust. Identities = 82/225 (36%), Positives = 128/225 (56%), Gaps = 5/225 (2%) Query: 29 RGFV-HPPLDYEQELLEAIRMG--NESKALEALHKINTLEAATLAGYP-LRSKKNSLIAS 84 R F+ H L YE+ LL+ ++ G N+ K + + E L+ LRS+KN +I Sbjct: 185 RNFIFHSNLSYERVLLDYVKKGQINKIKDIFDYSIVGEAELGLLSKRNRLRSEKNLMITG 244 Query: 85 CTLFTRAIIRGGVNPETAFQLSDTIIRDIENTAGLEQLLLFEYEMVLQFIAIMKREKEIL 144 L RA I GG+N ETAF LSD I+ +E L+ +L E ++ F + + I Sbjct: 245 IALVCRAAIEGGLNNETAFTLSDFYIQQLEELRSLKGILKLMEEAIMDFTNRV-HQLNIE 303 Query: 145 HYSHIVNLSIYYIREHICRELTLGRIARHAGVHPSYLSDRFKRETGMALTEFINRRRIEE 204 YS + +YI +H+ ++ L +A+ + P+YLS FK+E G L+E+I R+R++E Sbjct: 304 KYSATITACQHYIYDHLYDDIKLDHLAQLCHLSPNYLSSLFKKEVGTPLSEYIQRQRVDE 363 Query: 205 SKSILIHSNQSISDISLMFKLCSQSYYTQLFKKYTGKTPGQYRKE 249 +K +L+ +N SI DIS+ QSY+ ++FKKYTG TP Q+R + Sbjct: 364 AKKLLLLTNYSILDISMWLNFNDQSYFIKIFKKYTGLTPRQFRND 408 >C2Z9K1.1 C2Z9K1_BACCE Transcriptional regulator, AraC Length = 416 Score = 135 bits (339), Expect = 4e-30, Method: Compositional matrix adjust. Identities = 82/225 (36%), Positives = 128/225 (56%), Gaps = 5/225 (2%) Query: 29 RGFV-HPPLDYEQELLEAIRMG--NESKALEALHKINTLEAATLAGYP-LRSKKNSLIAS 84 R F+ H L YE+ LL+ ++ G N+ K + + E L+ LRS+KN +I Sbjct: 185 RNFIFHSNLSYERVLLDYVKKGQINKIKDIFDYSIVGEAELGLLSKRNRLRSEKNLMITG 244 Query: 85 CTLFTRAIIRGGVNPETAFQLSDTIIRDIENTAGLEQLLLFEYEMVLQFIAIMKREKEIL 144 L RA I GG+N ETAF LSD I+ +E L+ +L E ++ F + + I Sbjct: 245 IALVCRAAIEGGLNNETAFTLSDFYIQQLEELRSLKGILKLMEEAIMDFTNRV-HQLNIE 303 Query: 145 HYSHIVNLSIYYIREHICRELTLGRIARHAGVHPSYLSDRFKRETGMALTEFINRRRIEE 204 YS + +YI +H+ ++ L +A+ + P+YLS FK+E G L+E+I R+R++E Sbjct: 304 KYSATITACQHYIYDHLYDDIKLDHLAQLCHLSPNYLSSLFKKEVGTPLSEYIQRQRVDE 363 Query: 205 SKSILIHSNQSISDISLMFKLCSQSYYTQLFKKYTGKTPGQYRKE 249 +K +L+ +N SI DIS+ QSY+ ++FKKYTG TP Q+R + Sbjct: 364 AKKLLLLTNYSILDISMWLNFNDQSYFIKIFKKYTGLTPRQFRND 408 >A9VK28.1 A9VK28_BACWK Transcriptional regulator, AraC family Length = 411 Score = 134 bits (337), Expect = 7e-30, Method: Compositional matrix adjust. Identities = 80/213 (37%), Positives = 127/213 (59%), Gaps = 7/213 (3%) Query: 39 EQELLEAIRMGNESKALEALHKINTLEAATLAGYP----LRSKKNSLIASCTLFTRAIIR 94 E+++ E I+ G + ++ L K+ E+ L LRS+KNS IA+ TL TR+ I Sbjct: 197 ERKIFECIKEGKKDDLIKNLRKLP--ESGDLGVLSKTSHLRSQKNSAIAAITLATRSAID 254 Query: 95 GGVNPETAFQLSDTIIRDIENTAGLEQLLLFEYEMVLQFIAIMKREKEILHYSHIVNLSI 154 GG+ PE A+ LSD +I+ +E E + F +L+F +K K H I N+ Sbjct: 255 GGLFPEIAYTLSDLLIQKLEEIKKSEAISPFLENALLEFSEQVKNGKMQKHLKPI-NICQ 313 Query: 155 YYIREHICRELTLGRIARHAGVHPSYLSDRFKRETGMALTEFINRRRIEESKSILIHSNQ 214 YI H+ ++TL +A ++PSYLS FK+E G++L E+I R +I+ESKS++ ++ Sbjct: 314 NYIFTHLYEDITLSHLAEIVALNPSYLSSLFKKEVGISLGEYIQRAKIDESKSLMTYTKH 373 Query: 215 SISDISLMFKLCSQSYYTQLFKKYTGKTPGQYR 247 SIS+IS + QSY+T++FKK+TG +P Q++ Sbjct: 374 SISEISTLLNFHDQSYFTKVFKKHTGISPKQFK 406 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 0.320 0.134 0.380 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: 1,338,662,971 Number of extensions: 47673810 Number of successful extensions: 152527 Number of sequences better than 1.0e-05: 3042 Number of HSP's gapped: 152984 Number of HSP's successfully gapped: 3042 Length of query: 251 Length of database: 3,060,696,203 Length adjustment: 132 Effective length of query: 119 Effective length of database: 1,817,122,223 Effective search space: 216237544537 Effective search space used: 216237544537 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: 129 (54.3 bits)