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= 0352.0001.p (604 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value C0FTA1.1 C0FTA1_9FIRM Putative uncharacterized protein 100 8e-19 B1D986.1 B1D986_9BACL Two component transcriptional regulator, A... 99 9e-19 C1I2X3.1 C1I2X3_9CLOT Response regulator receiver protein 97 6e-18 B3KH91.1 B3KH91_9BACI Helix-turn-helix-domain containing protein... 95 2e-17 Q9KFJ6.1 Q9KFJ6_BACHD Transcriptional regulator (AraC/XylS family) 94 5e-17 >C0FTA1.1 C0FTA1_9FIRM Putative uncharacterized protein Length = 536 Score = 99.8 bits (247), Expect = 8e-19, Method: Compositional matrix adjust. Identities = 55/167 (32%), Positives = 91/167 (54%), Gaps = 1/167 (0%) Query: 434 FELSRTAELNADVQQSGFLDNYQRIWQLQSYDKLLHWIVDSCYTALKRIASMSAVQTKSI 493 F ++N D D Y + QL+S D L W+ ++C +++ + TKS Sbjct: 371 FRFGSNNQINMDEVFGNNSDLYNQALQLESTDALGAWLKENCMKMQRQVTNERQDTTKSF 430 Query: 494 AVEAICYIRDHYDDSRLSLNALADKLSLSPAYLSRLIADEVNCSFPDFVNLLRLEQAQML 553 A+ Y+++HY D LS+ + L++S AY S + E +F +++ R+EQA L Sbjct: 431 VTRAVEYVKEHYADQELSIETICSYLNVSAAYFSTVFKKETGKTFINYLTDYRMEQAVDL 490 Query: 554 LVTELDLDIREIAEKVGYNSSTYFTTQFKKRFGITPSKWRMNHILQK 600 L+T+ D IAEKVGY+ YF+ FKK+FG++PSK++ + +K Sbjct: 491 LLTK-DEKTYIIAEKVGYSDPNYFSYVFKKQFGMSPSKYKAGKLGEK 536 >B1D986.1 B1D986_9BACL Two component transcriptional regulator, AraC family Length = 501 Score = 99.4 bits (246), Expect = 9e-19, Method: Compositional matrix adjust. Identities = 59/144 (40%), Positives = 84/144 (58%), Gaps = 5/144 (3%) Query: 456 QRIWQLQSYDKLLHWIVDSCY---TALKRIASMSAVQTKSIAVEAICYIRDHYDDSRLSL 512 Q I QL +L W +C T L R + SI +AI YI +HY DS LS+ Sbjct: 360 QTIDQLPGSMELKSWFKAACQDFETRLDRWKQQANPYVNSIQ-QAIDYIEEHYLDSDLSI 418 Query: 513 NALADKLSLSPAYLSRLIADEVNCSFPDFVNLLRLEQAQMLLVTELDLDIREIAEKVGYN 572 +A+ + L+P+YLS L E +F +VN L+L++AQ+LL D+ I EI + VG+ Sbjct: 419 KQVAENIHLNPSYLSTLFKKETGETFTGYVNKLKLQKAQVLL-RNTDMKISEICQTVGFE 477 Query: 573 SSTYFTTQFKKRFGITPSKWRMNH 596 STYF++ FKK F I+PS++R NH Sbjct: 478 DSTYFSSVFKKHFQISPSEFRQNH 501 >C1I2X3.1 C1I2X3_9CLOT Response regulator receiver protein Length = 536 Score = 96.7 bits (239), Expect = 6e-18, Method: Compositional matrix adjust. Identities = 73/272 (26%), Positives = 130/272 (47%), Gaps = 15/272 (5%) Query: 334 SCALGISGLTDDLHLLRAKYNEAADSLQYIKFHVQQNIIFADD-----TIHLNSSPMPDS 388 + + G+ + DD+ +R Y+ A +L Y I+ DD +I L + Sbjct: 270 TISAGVGRICDDISKIRFSYSTAQSALNYRPILGNGKTIYIDDVEPDNSIQLQFDEQDEV 329 Query: 389 ALEPVLQAVRQTELSGHIPQAVERLLAVAC----SYRAESATIALARLAFELSRTAELNA 444 ++ ++E+ + + +++ +C YR I + L + E+N Sbjct: 330 KFLNTIKLSTESEIQ-EVVNGIFKVVEESCIPLEKYRIYIMEILTSMLKLTQTYNIEIN- 387 Query: 445 DVQQSGFLDNYQRIWQLQSYDKLLHWIVDSCYTALKRIASMSAVQTKSIAVE-AICYIRD 503 DV F + Y + +L S +++ W ++ L ++ V + + VE A YI++ Sbjct: 388 DVFGENF-NCYMGLDRLDSIEEIKGWFINKS-IKLNKLIKKERVNSSMLLVEKAKSYIKE 445 Query: 504 HYDDSRLSLNALADKLSLSPAYLSRLIADEVNCSFPDFVNLLRLEQAQMLLVTELDLDIR 563 +Y+D +S+ L +L +SP Y S + E + SF +++ +RLE+A LL T D Sbjct: 446 NYNDFEISVEKLCSELHVSPTYFSTIFKKETDMSFVNYLTSVRLEEAVKLLNT-TDDKTY 504 Query: 564 EIAEKVGYNSSTYFTTQFKKRFGITPSKWRMN 595 IA KVGY + YF+ FKK+FGI PS++R N Sbjct: 505 MIATKVGYQEANYFSYVFKKKFGIAPSRYRKN 536 >B3KH91.1 B3KH91_9BACI Helix-turn-helix-domain containing protein AraC type Length = 759 Score = 95.1 bits (235), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 127/591 (21%), Positives = 247/591 (41%), Gaps = 48/591 (8%) Query: 42 GAVALTVNLGKLQNNLFTQKEGEITRYAVLDGNASVLMHSALS---GTPLEEDMLKQVVA 98 GA+ + ++ +Q+ + + + V+D +++ HS S +E ++ ++ Sbjct: 187 GAIVINMSTDTIQDLIGGYRNEAVDSLHVIDDKGTIITHSDRSRFMEDVSQESYVQSILE 246 Query: 99 SSPERGSFVYRGSGEPQLITYVYSAADKLWFVSETSYKDSIRDISNARTLMTGXXXXXXX 158 S E G F G L+TYV S F+S + Y++ + ++ RT Sbjct: 247 SDAESGYFTRSIDGRKSLVTYVKSKDMNWTFISVSQYQNLLFNMQALRTSALVLALACFV 306 Query: 159 XXXXXXXXXSRRMYKPIGRLFGNIVHLSGNEEALKTGGDFDTVSQELEQIGVKLEQLKKE 218 + Y PI L + + +E + +F + ++ K++ ++ E Sbjct: 307 VSMFLSIWLTHHAYNPIRHLLEKMSAIPKMKENRRQINEFAILDTTYAEMTEKMKSMESE 366 Query: 219 SDDSALMRWLLSPRGTPENSSTPMMSIAASG-GAYCVCVLTLLESGQSEGSGQTFGEGIE 277 + + L +G E T +A G G Y + + L++S G+ E ++ Sbjct: 367 ASVARQAHVLQLLKGGDE---TAFRRLAREGKGPYFLAAVLLIDSLDGSPGGE--DEELQ 421 Query: 278 QIELAFSELAAVQSFRPH--------QGTAVLILSELRSGSFDDYALFRGKWEDIAARLQ 329 A AA Q P GT +IL ++ + L G E++ + Sbjct: 422 SYTCAAVAQAAQQMLEPEGANVATVGDGTIAIILP-MKQSRLPLHVL--GMLEELQGEML 478 Query: 330 HS-DVSCALGISGLTDDLHLLRAKYNEAADSLQYIKFHVQQNIIFADDTIHLNS----SP 384 + VS +GI LR ++ A Q F + + D I S + Sbjct: 479 RTLRVSVTVGIGTAAQTYEELRESFDCAQSCFQQRFFAGKGKMFHGDPVIAAESEHSEAQ 538 Query: 385 MPDSALEPVLQAVR---QTELSGHIPQAVERLLAVACSYRAESATIALARLAFELSRTAE 441 PD + +++A++ + +L I Q ++ + Y + + L + + Sbjct: 539 YPDKREKRIIEAIKLQQRDKLEKEIDQWIKEIR----EYNYHEVMFFINQFIGGLYK--Q 592 Query: 442 LNADVQQSG-----FLDNYQRIWQLQSYDKLLHWIVDSCYTALKRIASMS----AVQTKS 492 LN ++ FLD +RI + Q+ L D+ R+ S+S AV+ Sbjct: 593 LNVHTVKNRESADLFLDFTRRITRFQT----LQETADALKDLALRLCSLSEESGAVRHAE 648 Query: 493 IAVEAICYIRDHYDDSRLSLNALADKLSLSPAYLSRLIADEVNCSFPDFVNLLRLEQAQM 552 + Y+R HY +SL +A ++ LS +Y+ +L SF D++N +RLE+A+ Sbjct: 649 VVDFIQMYVRKHYARPDMSLEQVAGEVKLSRSYVGKLFKAHCELSFNDYLNAVRLEKARE 708 Query: 553 LLVTELDLDIREIAEKVGYNSSTYFTTQFKKRFGITPSKWRMNHILQKQES 603 LL + + ++ I+E+VG ++TYF T FKK + I+P+++R H ++ +++ Sbjct: 709 LLAST-EESVQSISEQVGILNTTYFYTLFKKHYQISPAQFRSQHAIETKKA 758 >Q9KFJ6.1 Q9KFJ6_BACHD Transcriptional regulator (AraC/XylS family) Length = 769 Score = 93.6 bits (231), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 81/295 (27%), Positives = 150/295 (50%), Gaps = 25/295 (8%) Query: 318 RGKWEDIAARL-QHSDVSCALGISGLTDDLHLLRAKYNEAADSLQY-IKFHVQQNIIFAD 375 R K E I + Q D+S ++G+S DD+ + Y+E ++L+Y IK Q I F++ Sbjct: 484 REKAEAIMNEVRQQLDISVSIGVSLPYDDITKTQEAYDEGIEALKYRIKLGCQSVIFFSN 543 Query: 376 ----DTIHLNSSPMPDSALEPVLQAVRQTELSGHIPQAVERLLAVACSYRAESATIALAR 431 + H ++ L L+ ++ + H+ ++ + I+L R Sbjct: 544 LAHTHSFHTYYPKQQENELFDALKLGDKSNVKDHLDALIDGIFQKDL--HPSQYQISLLR 601 Query: 432 L---AFELSRTAELNA-DVQQSGFLDNYQRIWQLQSYDKLLHW-----IVDSCYTALKRI 482 L +L +T +++ DV L + +++ LQ+ D++ W I S +T +R+ Sbjct: 602 LLNNTIQLLQTLGIDSVDVYDKKTL--FDQLFSLQTIDEVKQWFFTKLIAPSVHTVAERM 659 Query: 483 ASMSAVQTKSIAVEAICYIRDHYDDSRLSLNALADKLSLSPAYLSRLIADEVNCSFPDFV 542 S Q ++I+ + I I++ +D L+L ++A++L +P YLS + E N SF +++ Sbjct: 660 DS----QYRTISDQIIHIIQNEFD-MELTLESIAERLHYNPNYLSSIFRKETNISFSEYL 714 Query: 543 NLLRLEQAQMLLVTELDLDIREIAEKVGYNSSTYFTTQFKKRFGITPSKWRMNHI 597 + RL A+ L+ E + IREIAE++ Y +S F FKK+ G+TP K+R + + Sbjct: 715 SSYRLAMAKKWLL-ETSMPIREIAERLCYGNSQNFIRSFKKKEGMTPGKYRQSKV 768 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 0.318 0.132 0.376 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: 3,310,284,864 Number of extensions: 130977712 Number of successful extensions: 361414 Number of sequences better than 1.0e-05: 1872 Number of HSP's gapped: 366046 Number of HSP's successfully gapped: 1872 Length of query: 604 Length of database: 3,060,696,203 Length adjustment: 142 Effective length of query: 462 Effective length of database: 1,722,912,073 Effective search space: 795985377726 Effective search space used: 795985377726 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 134 (56.2 bits)