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= 0057.0006.p (494 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value A9U743.1 A9U743_PHYPA Predicted protein 244 1e-62 B1DAF3.1 B1DAF3_9BACL Transcriptional regulator, AraC family 130 3e-28 B3KAQ9.1 B3KAQ9_9BACI Response regulator receiver 129 6e-28 B1DGV7.1 B1DGV7_9BACL Two component transcriptional regulator, A... 127 2e-27 C1PQA7.1 C1PQA7_ALIAC Response regulator containing CheY-like re... 112 1e-22 >A9U743.1 A9U743_PHYPA Predicted protein Length = 244 Score = 244 bits (624), Expect = 1e-62, Method: Compositional matrix adjust. Identities = 117/242 (48%), Positives = 165/242 (68%), Gaps = 4/242 (1%) Query: 251 ACDAGIYNPQRVHYIT--AQELAAAEVCLSDPFPALREPLIHDLQILNVPGVLERIHSLF 308 ACD G+Y+ R++Y A E V D + L LQ+LN+P VLE + F Sbjct: 3 ACDLGLYSESRLYYAAGYAGEAVGDIVEAEDAVRGMN--LAEQLQLLNIPAVLECVRQCF 60 Query: 309 SGLESQRACPEHILRACREVEDTARKELQEFEAVYRVNGEPPLEEKIGSSMSFREIEQAF 368 L+ QRA I+R C ++ED A +E+QE+ + LE ++ + MSF ++E F Sbjct: 61 ERLKEQRAGTGTIVRVCSQLEDMACREVQEYREIRGKEARARLETQLRACMSFSDMEDCF 120 Query: 369 ISSFSAALGGIRSHRLELSGTAVETVKRWVSANYNQHADLNMLAGMVFLTPSYLSKLFKQ 428 + +F +AL + R E+ G AVE VKRW++ +Y++HA+LN LA MV+LTPSYLSKLFKQ Sbjct: 121 VEAFRSALEKVYGLRSEMGGKAVEIVKRWIAEHYSEHAELNTLAAMVYLTPSYLSKLFKQ 180 Query: 429 ETGLTLTDYVIEIRIRKAKQLLKNAPDLKIHEVGAEVGYPDPAYFNKLFKKIVGVTPNEY 488 ETGLTLT+Y+ ++R++ AK+LL+ P++K+H++GAEVGY DPAYFNKLFKK+VGVTPNEY Sbjct: 181 ETGLTLTEYITDVRLKNAKRLLRTEPNMKVHQIGAEVGYADPAYFNKLFKKVVGVTPNEY 240 Query: 489 KR 490 K+ Sbjct: 241 KK 242 >B1DAF3.1 B1DAF3_9BACL Transcriptional regulator, AraC family Length = 852 Score = 130 bits (328), Expect = 3e-28, Method: Compositional matrix adjust. Identities = 93/280 (33%), Positives = 142/280 (50%), Gaps = 28/280 (10%) Query: 220 AASGGQRLHAGVSGSCSDPSKLRASYLEAKRACDAGIYNPQRVHYITAQELAAAEVCLSD 279 AA G + G+SG +Y EA AGIY + +T +E A +D Sbjct: 67 AAKG--KFAIGISGGYRGIDAAVPAYQEALALSYAGIYKREAFAVMTGKEGPNAP---AD 121 Query: 280 P--FPAL-REPLIHDLQILNVPGVLERIHSLFSGLESQRACPEHILRACREVEDTARKEL 336 P F L L+ L+ G+ + +F LE R +++ + Sbjct: 122 PAFFTGLLTGSFTQALERLDAEGIGATVQQMFVELERVRPPYSDLVQFMANLL------- 174 Query: 337 QEFEAVYRVNG--------EPP---LEEKIGSSMSFREIEQAFISSFSAALGGIRSHRLE 385 + AV +V+G PP + + + + E+++ ++ + S R E Sbjct: 175 --YTAVQKVDGLLDELVKLTPPGVGVYQSVADFFNLTELKERIQHLLELSMYRLASLRKE 232 Query: 386 LSGTAVETVKRWVSANYNQHADLNMLAGMVFLTPSYLSKLFKQETGLTLTDYVIEIRIRK 445 +ETVK+ + +Y++ +L L+ VFL PSYLS LFKQETGLT+T YV+++R+ K Sbjct: 233 GGNRVIETVKQLIQQDYDKDLELTELSEKVFLNPSYLSTLFKQETGLTITQYVLQLRMMK 292 Query: 446 AKQLLKNAPDLKIHEVGAEVGYPDPAYFNKLFKKIVGVTP 485 AK+LLK DLK++EVG +VGYPD YFNK+FKK+VG+TP Sbjct: 293 AKELLKKRLDLKVYEVGEQVGYPDSIYFNKVFKKMVGITP 332 >B3KAQ9.1 B3KAQ9_9BACI Response regulator receiver Length = 501 Score = 129 bits (324), Expect = 6e-28, Method: Compositional matrix adjust. Identities = 68/138 (49%), Positives = 86/138 (62%), Gaps = 10/138 (7%) Query: 356 GSSMSFREIEQAFISSFSAALG----GIRSHRLELSGTAVETVKRWVSANYNQHADLNML 411 G S ++R + AA G G HR AVET+K ++ +Y + +L L Sbjct: 366 GDSENWRSFAGRLKRAVEAAAGLLDQGKSEHR------AVETIKAYIQQHYTEELELQHL 419 Query: 412 AGMVFLTPSYLSKLFKQETGLTLTDYVIEIRIRKAKQLLKNAPDLKIHEVGAEVGYPDPA 471 A +V+LTPSYLSKLFK ETG T+TDY I +RI AK+LLK LK + VG VGYPDPA Sbjct: 420 ADLVYLTPSYLSKLFKTETGETITDYCIAVRIEHAKRLLKEDHGLKTYMVGERVGYPDPA 479 Query: 472 YFNKLFKKIVGVTPNEYK 489 YFNK+FKK+ G TP EY+ Sbjct: 480 YFNKVFKKMTGKTPKEYR 497 Score = 103 bits (256), Expect = 5e-20, Method: Compositional matrix adjust. Identities = 47/111 (42%), Positives = 74/111 (66%) Query: 1 VIVDDEILIREGLARMISKESRRFLVTGTYAGGKQLLDALPSLQIDVVITDIRMPQVDGL 60 +VDDE IR GL ++I ++ + GT+A G++LLD LQ D+VITDI+MPQ++GL Sbjct: 5 AVVDDEERIRLGLGKLIRDAGEQYRIVGTFASGQELLDQWHELQPDLVITDIKMPQMNGL 64 Query: 61 ELIKQLKAGYPHISTLLMSGFVEFNYAREAIRSSAVDYLLKPINKEQLFEV 111 +L+ +K ++SG+ +F YAR A+R A++YLLKP+N ++L + Sbjct: 65 QLMANIKQMASRTKFAVLSGYNDFEYARTAMRQGALEYLLKPVNMKELLRM 115 >B1DGV7.1 B1DGV7_9BACL Two component transcriptional regulator, AraC family Length = 504 Score = 127 bits (319), Expect = 2e-27, Method: Compositional matrix adjust. Identities = 95/277 (34%), Positives = 140/277 (50%), Gaps = 17/277 (6%) Query: 223 GGQRLHAGVSGSCSDPSKLRASYLEAKRACDAGIYNPQ-RVHYITAQELAAAEVCLSDPF 281 G + G SG S S+L +Y EA A YN R + + A E + + Sbjct: 235 GFTKAKIGFSGVFSGSSRLGQAYREASAAFQQAWYNSVLRGCSGVSNQTAHKE----ERY 290 Query: 282 PALR---EPLIHDLQILNVPGVLERIHSLFSGLESQRACPEHILRACREVEDTARKEL-Q 337 LR + ++ LQ+ + + + R + + C ++ +E+ Q Sbjct: 291 RLLRIIDKEVLPALQVCDFAMASRAFENWLTECAKYRFHWDELREVCSDMHVLISEEIKQ 350 Query: 338 EFEAVYRVNGEPPLEEKIGSSMSFREIEQAFISSFSAALGGIRSHRLELS---GTAVETV 394 + V GEP K+ + SF E QAF + A + R H+LE AV+T+ Sbjct: 351 RLDRQLTVGGEPS---KMIAPESF-EDWQAFAAQLRADMSD-RFHKLEQGRSENKAVDTI 405 Query: 395 KRWVSANYNQHADLNMLAGMVFLTPSYLSKLFKQETGLTLTDYVIEIRIRKAKQLLKNAP 454 K ++ +Y + +L LA +V+LTPSYLSKLFK ETG T+TDY+ RI +AK+LL++ Sbjct: 406 KAYLQKHYTEEIELQRLADLVYLTPSYLSKLFKTETGETITDYLTSERIEQAKRLLRDGH 465 Query: 455 DLKIHEVGAEVGYPDPAYFNKLFKKIVGVTPNEYKRI 491 LK + VG VGY DPAYF K+FKK+ G TP EY+ I Sbjct: 466 GLKTYMVGEMVGYADPAYFTKVFKKMTGKTPKEYRDI 502 Score = 99.0 bits (245), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 45/108 (41%), Positives = 72/108 (66%) Query: 1 VIVDDEILIREGLARMISKESRRFLVTGTYAGGKQLLDALPSLQIDVVITDIRMPQVDGL 60 ++VDDE IR GL ++I + + V G+Y G++LLD + L+ D++ITDI+MPQ+ G+ Sbjct: 4 IVVDDEERIRLGLCKLIEQAGDNYDVIGSYGSGQELLDEIEHLEPDLIITDIKMPQMTGI 63 Query: 61 ELIKQLKAGYPHISTLLMSGFVEFNYAREAIRSSAVDYLLKPINKEQL 108 +LI ++ + ++SGF +F Y REA+R DYLLKP+N ++L Sbjct: 64 QLISKVVGMRKKVKFAVLSGFNDFEYVREALRYEVKDYLLKPVNLDEL 111 >C1PQA7.1 C1PQA7_ALIAC Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain Length = 423 Score = 112 bits (279), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 51/102 (50%), Positives = 71/102 (69%), Gaps = 4/102 (3%) Query: 388 GTAVETVKRWVSANYNQHADLNMLAGMVFLTPSYLSKLFKQETGLTLTDYVIEIRIRKAK 447 G +E ++R +Y+ D+ LA VFL+PSYLSK FK ETG+T+ +++++ R+ KAK Sbjct: 308 GQVIEIIER----HYDSDLDVATLASQVFLSPSYLSKRFKSETGMTIREFIVQTRLNKAK 363 Query: 448 QLLKNAPDLKIHEVGAEVGYPDPAYFNKLFKKIVGVTPNEYK 489 LL LK +EVGA VGYPDP YFNKLFK+ VG+TP ++ Sbjct: 364 DLLLRDFHLKAYEVGAHVGYPDPTYFNKLFKRQVGLTPKAFR 405 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 0.136 0.388 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: 2,671,916,242 Number of extensions: 103325747 Number of successful extensions: 338360 Number of sequences better than 1.0e-05: 7643 Number of HSP's gapped: 348698 Number of HSP's successfully gapped: 8316 Length of query: 494 Length of database: 3,060,696,203 Length adjustment: 140 Effective length of query: 354 Effective length of database: 1,741,754,103 Effective search space: 616580952462 Effective search space used: 616580952462 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: 133 (55.8 bits)