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= 0427.0001.p (655 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B3KH91.1 B3KH91_9BACI Helix-turn-helix-domain containing protein... 286 3e-75 B1DHF8.1 B1DHF8_9BACL Transcriptional regulator, AraC family 184 4e-44 A4XN10.1 A4XN10_CALS8 Transcriptional regulator, AraC family 181 2e-43 A9KRK4.1 A9KRK4_CLOPH Transcriptional regulator, AraC family 177 4e-42 B3K5J2.1 B3K5J2_9BACI Helix-turn-helix-domain containing protein... 172 1e-40 >B3KH91.1 B3KH91_9BACI Helix-turn-helix-domain containing protein AraC type Length = 759 Score = 286 bits (733), Expect = 3e-75, Method: Compositional matrix adjust. Identities = 190/630 (30%), Positives = 325/630 (51%), Gaps = 26/630 (4%) Query: 20 YMEFYPRSL---TIAGRNNDAPLQLLTFLLYPDFSFRTSDNPLIYINVEEKSILTTIRKI 76 Y +PR + T R+ D +LTF+L P + S I IN+ +I I Sbjct: 150 YFHLFPRKISSSTSTKRSED----VLTFVLLPSYYSPLSSKGAIVINMSTDTIQDLIGGY 205 Query: 77 SKADAASNVFVINNEGKVLSHTDSNLFLEDLSKEQYVQRILNQDKEENSFTANIHNKKHL 136 + +A ++ VI+++G +++H+D + F+ED+S+E YVQ IL D E FT +I +K L Sbjct: 206 -RNEAVDSLHVIDDKGTIITHSDRSRFMEDVSQESYVQSILESDAESGYFTRSIDGRKSL 264 Query: 137 VTYVKSEKMDWYFVSVSPYSGLISNIDQLRSVTLLVTAGIVLAGLLVSIFLTKNIYSPLS 196 VTYVKS+ M+W F+SVS Y L+ N+ LR+ L++ + + +SI+LT + Y+P+ Sbjct: 265 VTYVKSKDMNWTFISVSQYQNLLFNMQALRTSALVLALACFVVSMFLSIWLTHHAYNPIR 324 Query: 197 TLFEKIMPGTNVPASGSPFIDEYKIMAEVFHSLEERDKSMQFVISSSSRTIRELYLHSLL 256 L EK M I+E+ I+ + + E+ KSM+ S + R+ ++ LL Sbjct: 325 HLLEK-MSAIPKMKENRRQINEFAILDTTYAEMTEKMKSME----SEASVARQAHVLQLL 379 Query: 257 QGHPLEYSVPSELIRDIDEEVSGPYFCVLVFKINELEQTKGRIEAVQRPLLRFALGNITK 316 +G R + E GPYF V I+ L+ + G + + A+ + Sbjct: 380 KGGD------ETAFRRLAREGKGPYFLAAVLLIDSLDGSPGGEDEELQSYTCAAVAQAAQ 433 Query: 317 EMLAHIGACDYLNIGENETAAILQCAKNQTPEELKPALRNIQSFLNRYFKATVSIGVGDI 376 +ML GA + +G+ A IL +++ P + L +Q + R + +V++G+G Sbjct: 434 QMLEPEGA-NVATVGDGTIAIILPMKQSRLPLHVLGMLEELQGEMLRTLRVSVTVGIGTA 492 Query: 377 SYGRKNIPSSYTSAQQYVKYRMIYGKESIL--DAVATRPHMMTALSYPSAYEKKLIDAVQ 434 + + + S+ AQ + R GK + D V + YP EK++I+A++ Sbjct: 493 AQTYEELRESFDCAQSCFQQRFFAGKGKMFHGDPVIAAESEHSEAQYPDKREKRIIEAIK 552 Query: 435 SGKPEPIREAIGQFVEQISNGSINQVITYSIQLMLSLLKHFDYLQHVPDSNFNEYLVAVT 494 + + + + I Q++++I + ++V+ + Q + L K + + + +L Sbjct: 553 LQQRDKLEKEIDQWIKEIREYNYHEVMFFINQFIGGLYKQLNVHTVKNRESADLFLDFTR 612 Query: 495 EIESAEQLTEINGIFNRYCFNICALIEEKNLWMNAQKHNVIIEKVQNYIQEQYAQPNLSL 554 I + L E +C+L EE A +H +++ +Q Y+++ YA+P++SL Sbjct: 613 RITRFQTLQETADALKDLALRLCSLSEESG----AVRHAEVVDFIQMYVRKHYARPDMSL 668 Query: 555 ELVSNIAGLSPSYLGKLFKGATRQSFSEYLNHTRLEKAKDLLASTHETAAKISESVGMYN 614 E V+ LS SY+GKLFK SF++YLN RLEKA++LLAST E+ ISE VG+ N Sbjct: 669 EQVAGEVKLSRSYVGKLFKAHCELSFNDYLNAVRLEKARELLASTEESVQSISEQVGILN 728 Query: 615 ITYFSTLFKKKYGLTPSAYREQEALKSPDS 644 TYF TLFKK Y ++P+ +R Q A+++ + Sbjct: 729 TTYFYTLFKKHYQISPAQFRSQHAIETKKA 758 >B1DHF8.1 B1DHF8_9BACL Transcriptional regulator, AraC family Length = 775 Score = 184 bits (466), Expect = 4e-44, Method: Compositional matrix adjust. Identities = 141/538 (26%), Positives = 254/538 (47%), Gaps = 57/538 (10%) Query: 128 ANIHNKKHLVTYVKSEKMDWYFVSVSPYSGLISNIDQLRSVTLLVTAGIVLAGLLVSIFL 187 N +K ++TY+ DW + + PY ++ + +R+ +T +L + +SI+L Sbjct: 268 GNSGGQKVMITYLHGIG-DWTILYIQPYKEIMKAVSDMRARNFALTGAFILLSIGISIWL 326 Query: 188 TKNIYSPLSTLFEKIMPGTNVPASGSPFIDEYKIMAEVFHSLEERDKSMQFVISSSSRTI 247 + +Y P+ + +I+P A S +E M +++ L S Q SS + + Sbjct: 327 SYKLYGPIEAMLRRILPHMRNTAPDSGKRNELDAMGDLYEQL-----SGQLQEISSEQIV 381 Query: 248 RELYLHSLL-QGHPLEYSVPSELIRDIDEEV--SGPYF-CVLVFKINELEQTKGRIEAVQ 303 R+ Y+ L L +LIR + ++ SGPY C L F + ++ R + Sbjct: 382 RKYYIRKFLTDNRSLSELDMRQLIRKHELQLAPSGPYMNCTLRF--DRYDEYDRRTSSAM 439 Query: 304 RPLLRFALGNITKEMLAHIGACDYLNIGENETAAILQCAKNQT--PEELKPALRNIQSFL 361 + L FA+ NITKE+L+ C+ +++ E+ IL K +T P +KPA+ +IQ L Sbjct: 440 KKLHSFAVTNITKEVLSRAFRCEMIDMQEDH-FTILLSGKEETLDPAAVKPAIADIQQIL 498 Query: 362 NRYFKATVSIGVGDISYGRKNIPSSYTSAQQYVKYRMIYGKESILDAVATRPHMMTAL-S 420 RY+ +++ G+G+ + +SY + Q +Y ++ G ++I++ R ++ S Sbjct: 499 ERYYNLSLTCGIGEAVTQLTQLSASYYQSYQLSQYSILMGYKAIIEEQDIRTNLENKQKS 558 Query: 421 YPSAYEKKLIDAVQSGK-------------------PEPIREAIGQFVEQISNGSINQVI 461 P EKKL +A++ GK E +R AI I N + Sbjct: 559 LPDDVEKKLSEAIKKGKLTEAGSELERAFALLAALQLEDMRRAIADMAWIIKNAAAEITS 618 Query: 462 TYSIQLMLSLLKHFDYLQHVPDSNFNEYLVAVTEIESAEQLTEINGIFNRYCFNICALIE 521 QL + + + + +P + L E++ F C IC + Sbjct: 619 NRITQLSVDI----ERIPLLPQDYYT--------------LDELHLAFLSLCTAICEEAK 660 Query: 522 EKNLWMNAQKHNVIIEKVQNYIQEQYAQPNLSLELVSNIAGLSPSYLGKLFKGATRQSFS 581 ++ +++ +IIE V+ I ++Y+ NLS + +++ LS +Y+GKLFK + + + Sbjct: 661 PSSM----ERNEMIIETVKELIWQKYSDYNLSQQSIASTVKLSSAYVGKLFKDSCGMTIT 716 Query: 582 EYLNHTRLEKAKDLLASTHETAAKISESVGMYNITYFSTLFKKKYGLTPSAYREQEAL 639 EYLN RL +A++LL T +I E VG N +YF LFK K+G TP +R ++++ Sbjct: 717 EYLNDVRLRRAQELLLKEDSTITEIMEKVGYGNQSYFFRLFKSKFGTTPKEFRIKKSI 774 >A4XN10.1 A4XN10_CALS8 Transcriptional regulator, AraC family Length = 789 Score = 181 bits (458), Expect = 2e-43, Method: Compositional matrix adjust. Identities = 151/603 (25%), Positives = 287/603 (47%), Gaps = 34/603 (5%) Query: 55 SDNPLIYINVEEKSILTTIRKISKADAASNVFVINNEGKVLSHTDSNLFLEDLSKEQYVQ 114 SD+ I IN ++ I T+ K D VF+I+ EG V+SH D + + + +E++++ Sbjct: 201 SDSAFI-INFKQADIQKTLTS-GKIDDQFQVFIIDKEGYVISHNDERMIGKSMGEEKFIK 258 Query: 115 RILNQDKEENSFTANIHNKKHLVTYVKSEKMDWYFVSVSPYSGLISNIDQLRSVTLLVTA 174 RI+ + F ++KK V+YV+SE + W V V Y+ L++ + +L+T Sbjct: 259 RIITSSTKAGDFVGEYNSKKIFVSYVRSENLGWTIVGVGEYNRLLNVSTIAKKQMILITI 318 Query: 175 GIVLAGLLVSIFLTKNIYSPLSTLFEKIMPGTNVPASGSPFIDEYKIMAEVFH----SLE 230 +L G+ ++ T+ +Y P+ L +I S +DEY + F+ +L Sbjct: 319 VFLLVGIFIAFLFTQKMYLPIGRLVNEIRQKKVASVSE---MDEYTFLNFAFNNLIDNLR 375 Query: 231 ERDKSMQFVISSSSRTIRELYLHSLLQGHPLEYSVPSE-----LIRDIDEEVSG-PYFCV 284 + + + ++S+ + I + LL G EY +E L++ + +++ F V Sbjct: 376 KLTRDVDIMVSAKKKEI----ILRLLNG---EYVSTNEGKVKQLMKQYEIKLANSSSFAV 428 Query: 285 LVFKINELEQTKGRIEAVQRPLLRFALGNITKEMLAHIGACDYLNIGENETAAIL---QC 341 ++ ++ + A L +F++ N+ +E L+ + + G N + I+ + Sbjct: 429 IIIALDNFKNLCMMYRAKDISLFKFSILNVAEETLSERYVTESVENGLNYVSIIVGNDKH 488 Query: 342 AKNQTPEELKPALRNIQSFLNRYFKATVSIGVGDISYGRKNIPSSYTSAQQYVKYRMIYG 401 + EL +++ +N++ +V++ VG+I + I +SY A + YR++ G Sbjct: 489 GRELDMNELVEYANKVKNNINKFLNLSVTVTVGNIVHSINLINNSYERAMNLLSYRLLKG 548 Query: 402 KESILDAVATRPHMMTALSYPSAYEKKLIDAVQSGKPEPIREAIGQFVEQISNGSINQVI 461 ++ T + + YP E ++I A++S P I EA+ F + ISN + + V Sbjct: 549 FNQVISVFDT-VNEDSKREYPYDIENQIIKAIKSKCPSKIEEAVNMFFDYISNFTPDDVF 607 Query: 462 TYSIQLMLSLLKHFD----YLQHVPDSNFNEYLVAVTEIESAEQLTEINGIFNRYCFNIC 517 IQL + L + F+ + V ++ + T+I+ E L EI + + Sbjct: 608 QSIIQLSIMLNRTFNVSSLVSKEVKVTSLYNFKSLFTQIQEYETLEEIKKLMLTISTELA 667 Query: 518 ALIEEKNLWMNAQKHNVIIEKVQNYIQEQYAQPNLSLELVSNIAGLSPSYLGKLFKGATR 577 E + L K + ++V+ YI E Y++P++++ +++ LSP+Y+ +FK Sbjct: 668 KTFENETL----VKKKEVAQQVKEYIDENYSRPDITIYTLADKVNLSPNYVRLIFKEIYN 723 Query: 578 QSFSEYLNHTRLEKAKDLLASTHETAAKISESVGMYNITYFSTLFKKKYGLTPSAYREQE 637 S S+YL R+ KAK+LL T T KI+E VG + YF FK+ G T +R++ Sbjct: 724 ISPSDYLLEVRMNKAKELLIQTDYTVKKIAELVGFSDNRYFYITFKRYTGKTAEEFRKEH 783 Query: 638 ALK 640 K Sbjct: 784 RQK 786 >A9KRK4.1 A9KRK4_CLOPH Transcriptional regulator, AraC family Length = 778 Score = 177 bits (448), Expect = 4e-42, Method: Compositional matrix adjust. Identities = 173/635 (27%), Positives = 312/635 (49%), Gaps = 56/635 (8%) Query: 32 GRNNDAPLQLLTFLLYPDFSFRTSDN-PLIYINVEEKSILTTIRKISKADA--ASNVFVI 88 G+ N A L L D+ F T DN I I ++ + + + I+KADA +F++ Sbjct: 172 GKKNTAFLFGL-----KDWKFITPDNQTTIGILIKPEWLFDNLEIINKADANQEKEIFIL 226 Query: 89 NNEGKVLSHTDSNLFLEDLSKEQYVQRILNQDKEENSFTANIHNKKHLVTYVKSEKMDWY 148 +N+G++ S +D+ L ++D S + ++NQ + + F IHN K+ TY+K+E W Sbjct: 227 DNKGELYS-SDAKL-VKDESLNELKNIVMNQPQNSDYFDVYIHNVKYKATYIKNEMCKWK 284 Query: 149 FVSVSPYSGLISNIDQLRSVTLLVTAGIVLAGLLVSIFLTKNIYSPLSTLFEKIMPGTNV 208 +S+ PY+ +S + ++ + + +T I+L L ++ TK+IY P++ + ++ + Sbjct: 285 IISIQPYNVFMSQLYKITGIFIAITFTIILIALGLAFIFTKHIYVPVNKVVKQFIHKNKN 344 Query: 209 PASGSPFIDEYKIMAEVFHSLEERDKSMQFVISSSSRTIRELYLHSLLQGHPLEYSVPSE 268 ++ DE + + + + + Q + SS + IR ++ LL + S+ Sbjct: 345 ISNDLKIEDELGFIVKSYENAVSQISIQQSDLKSSKKYIRSYWIKRLLMESKM-LSLEEL 403 Query: 269 LIRDIDEEVSGPY---FCVLVFKINELEQTKGRIEAVQRPLLRFALGNITKEMLAHIGAC 325 D++E ++ F +++ I+E + QR + R+A+ NI++E++ C Sbjct: 404 KKNDVEELLNVNLLEEFIIIILNIDENGEFNRHTIENQR-IYRYAIENISQEVIGESFPC 462 Query: 326 DYLNIGENETAAILQCAKNQ--TPEELKPALRNIQSFLNRYFKATVSIGVGDISYGRKNI 383 + +++GE E +L K+ +++ +R IQ + Y++ ++S + D +I Sbjct: 463 NIVDMGE-ENLVVLVSLKDTKGVVAQIEECVRKIQQTVVTYYEFSLSAAISDKIENYSDI 521 Query: 384 PSSYTSAQQYVKYRMIYG-----KESILDAVATRPHMMTALSYPSAYEKKLIDAVQSGKP 438 SY A + Y++IYG KES+L+ + M L E+KL S K Sbjct: 522 SKSYKKALHLLSYKLIYGNECMIKESMLEEIFESNKEMFILQK----EQKLEGLFISDKE 577 Query: 439 EPIREAIGQFVEQISNGSINQVITYSIQLMLSLLKHFDYLQHVPDSNFNEYLVAVTEIES 498 E R I + E I N +++++ SI LS L + NF ++ Sbjct: 578 ELFRTEINEIFETIKNMKYSEIMS-SIN-YLSFL-----FYKIIKINF--------PMQF 622 Query: 499 AEQLTEINGIFNRYCFNICALIEEK--------NLWMNAQKH-----NVIIEKVQNYIQE 545 EQ+ ++N I N+ FN +L E K N+ N Q++ N+++ + I+E Sbjct: 623 NEQIKQMN-ILNKNIFNSASLEEIKEIFIEIYINIHKNPQENISTTNNMLVSTIIQIIEE 681 Query: 546 QYAQPNLSLELVSNIAGLSPSYLGKLFKGATRQSFSEYLNHTRLEKAKDLLASTHETAAK 605 Y PNLS E +++ LS S +GK+FK + S +EY+N RL+ A +LL +T+ + Sbjct: 682 NYKDPNLSQEWIASTLKLSYSNVGKVFKLVEKVSIAEYVNKVRLKYACELLENTNYSIND 741 Query: 606 ISESVGMYNITYFSTLFKKKYGLTPSAYREQEALK 640 I SVG N +YF TLFKK +G TP Y+ Q+ K Sbjct: 742 IFNSVGFVNQSYFFTLFKKYFGCTPKQYQLQKKFK 776 >B3K5J2.1 B3K5J2_9BACI Helix-turn-helix-domain containing protein AraC type Length = 769 Score = 172 bits (435), Expect = 1e-40, Method: Compositional matrix adjust. Identities = 148/645 (22%), Positives = 298/645 (46%), Gaps = 68/645 (10%) Query: 28 LTIAGRNNDAPLQLLTFLLYPDFSFRTSDNPLIYINVEEKSILTTIRKISKADAASN--V 85 L + G N + + F +Y S + + ++ + V+ +L ++ +++ N + Sbjct: 158 LDLDGENE--GIDVFAFFIYDGPSLGSVNRNVLILTVKPGWMLDNVKALNRVAERENDVL 215 Query: 86 FVINNEGKVLSHTDSNLFLEDLSKEQYVQRILNQDKEENSFTANIHNKKHLVTYVKSEKM 145 FV + G+VL D L K + R+ + + +SF +KK+ VTY+ Sbjct: 216 FVTDGNGQVLMAGDRKLPPGLDIKRDLLGRMGSANHAPDSFIHQQGDKKYKVTYLSKGLN 275 Query: 146 DWYFVSVSPYSGLISNIDQLRSVTLLVTAGIVLAGLLVSIFLTKNIYSPLSTLFEKIMPG 205 DW +S+ Y ++ ++ Q+R + VT + + LL+S+ ++ +Y P+ L Sbjct: 276 DWQIISLQDYDDVLGSVRQMRWTEMAVTLSVAMLALLLSVLISLRLYKPVGRLL------ 329 Query: 206 TNVPASG---SPFIDEYKIMAEVFHSL------EERDKSMQFVIS---------SSSRTI 247 T VP G + DE ++ E + E++++ Q+ I+ +S ++ Sbjct: 330 TLVPYDGRGDAKAKDELSLITENVTEMIGKLRGLEQERATQWNIAKLYHLRSLIGTSDSM 389 Query: 248 RELYLHSLLQGHPLEYSVPSELIRDIDEEVSGPYFCVLVFKINELEQTKGRIEAVQRP-- 305 E + + + ++ + PS P LV ++++L+ ++ V R Sbjct: 390 DEDAFMRMKEQYGIDIAHPS------------PLRLALV-QLDDLQSQV--LQPVPRAEE 434 Query: 306 LLRFALGNITKEMLAHIGACDYLNIGENETAAILQCAKNQTPEELKPALRNIQSFLNRYF 365 L FA+ NI +E+L H G+C+ ++ ++ E L R +Q + R++ Sbjct: 435 LYSFAIANIGQELLRHGGSCEAADMKSGHLVFVVGGDSGHL-ESLDERFRELQQTILRFY 493 Query: 366 KATVSIGVGDISYGRKNIPSSYTSAQQYVKYRMIYGKESILDAVATRPHMMT------AL 419 + T ++ + D + + Y A ++ YRMI+GK +++ RP M+ +L Sbjct: 494 RITFTVTLSDAFEDYRQLSKHYNLALRHSNYRMIFGKGAVI-----RPEMIRRNERNESL 548 Query: 420 SYPSAYEKKLIDAVQSGKPEPIREAIGQFVEQISNGSINQVITYSIQLMLSLLKHFDYLQ 479 + P E++L + ++ G E +AI + E ++ S + + + + L ++L H L Sbjct: 549 TIPKELERRLTEGLKGGNSEETEQAIRSWREHLAEFSFDGMFSALLHLTMTL-SH--TLG 605 Query: 480 HVPDSNFNEYLVAVTEIE----SAEQLTEINGIFNRYCFNICALIEEKNLWMNAQKHNVI 535 + ++N N V + I E L EI + ++ + E+ K+ ++ Sbjct: 606 EMNNNNLNPVSVNLQAINRRILEKETLDEIECVL----LDVVREVFEQRRSGREDKNRLL 661 Query: 536 IEKVQNYIQEQYAQPNLSLELVSNIAGLSPSYLGKLFKGATRQSFSEYLNHTRLEKAKDL 595 + V+ I + YA P+L+++ ++++ +S YLG++FK + + +N TRL +A+ Sbjct: 662 ADTVKEMIDKHYADPDLNVQKIADMLKMSSVYLGQVFKAQEGTTVVDQINATRLARAQQY 721 Query: 596 LASTHETAAKISESVGMYNITYFSTLFKKKYGLTPSAYREQEALK 640 L T A+I E VG N +YF LFK++YG TP YR + A++ Sbjct: 722 LEQQQLTVAEIMEKVGFGNESYFYRLFKRRYGTTPKEYRLKCAIE 766 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 0.316 0.132 0.369 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: 3,639,821,246 Number of extensions: 148322841 Number of successful extensions: 447459 Number of sequences better than 1.0e-05: 2987 Number of HSP's gapped: 448189 Number of HSP's successfully gapped: 2993 Length of query: 655 Length of database: 3,060,696,203 Length adjustment: 142 Effective length of query: 513 Effective length of database: 1,722,912,073 Effective search space: 883853893449 Effective search space used: 883853893449 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 (21.6 bits) S2: 135 (56.6 bits)