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= 0307.0082.p (530 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B3K5Y7.1 B3K5Y7_9BACI Response regulator receiver 305 6e-81 B1D6F4.1 B1D6F4_9BACL Two component transcriptional regulator, A... 293 4e-77 A8VZY4.1 A8VZY4_9BACI Response regulator receiver protein 202 5e-50 C5EQ74.1 C5EQ74_9FIRM Predicted protein 123 4e-26 B1D5Z5.1 B1D5Z5_9BACL Two component transcriptional regulator, A... 120 5e-25 >B3K5Y7.1 B3K5Y7_9BACI Response regulator receiver Length = 529 Score = 305 bits (782), Expect = 6e-81, Method: Compositional matrix adjust. Identities = 192/534 (35%), Positives = 298/534 (55%), Gaps = 32/534 (5%) Query: 1 MLIDDDVPMLEYVAHLLGSLDLELKLVASASSSDQALVDFHEMLPDLVVIDIGLPGMNGL 60 MLIDDDVPML+ + ++ L++ S SS +AL F E+ PD+V+ DIGLP NG+ Sbjct: 6 MLIDDDVPMLKVLQQMIDWEANNLQIAGSTYSSAKALHMFEEVRPDIVITDIGLPQKNGM 65 Query: 61 ELAEAFRITKPEVRLIFLTCYEDFQYSKRAFQLEADDYLIKDELSPDQLKVSLGKAVDXX 120 ELAE F KPEVR+IFLTC+EDF Y+++A +L+ADDYLIKD+L+ +QL+ SLGK++ Sbjct: 66 ELAEHFIRMKPEVRIIFLTCHEDFHYAQQAVKLQADDYLIKDQLTAEQLEQSLGKSMH-- 123 Query: 121 XXXXXXXXXXXXXQAIERNKEVLRQSFLKQLISPGSDAAHTLLLGERLDISWKLPYFRQG 180 +A N ++ RQ L+++I+ GS + TL ++ ISW P+F G Sbjct: 124 --LLKTRTGLIHREAASYNSQLFRQDLLQRVIN-GSPSESTLAYAGQIGISWTYPWFMLG 180 Query: 181 FIHIDAASLTERYSYRDIPLIHFAVNNIAMELSAGAAAITPIMTE-DIGIYLIWNVSEPD 239 + I +S +R+ ++PLI +AV NIAMELS ITP M + +I I + V+ Sbjct: 181 LVTIRLSSFDQRFRKTELPLILYAVYNIAMELSESFEGITPFMEQGNIVILHNFRVNLAR 240 Query: 240 ASYQPMIDFMESVREKAKQYLKIKVLGFYLAQTVLMQHIDTVYKTLSDCRDDSFYGK--- 296 + + ++++ +R + +LKI+ ++ + + I ++Y+ + R + FY Sbjct: 241 NASLHLHNYLQQLRYQCVHFLKIQPNVIAVSDKMELSSIGSIYQEILHGRCE-FYENTDY 299 Query: 297 -ITAVTAVEPRAVFQQTPERRWDQERTRLSLALEEGNAAWIDMAVNSWIQYVTSERLLPR 355 IT V+ + R FQ P+ D + L L + + I + + P Sbjct: 300 TITEVSQIRSRW-FQSAPQGFLDGYVSELERKLIKQDLEGIRCTLQKIAGTAKELSIDP- 357 Query: 356 LVKEMCGDLVRQMVFESGGVA--------ESSFFIWLSQAVHIDEAVRLTKRELRNL--W 405 GD R + G+ + F +L+ + +D+ + L +R+L + Sbjct: 358 ------GDFARDLSSMLRGIELMMSSLKFDEDLFAYLALSRTLDDMMELVERKLTQMTGT 411 Query: 406 RQHTLAPTSAQGKDIRLLAIDQFLDEHVDRMITSLEMAEHLHLNASYFSRYFKKLAGVNF 465 RQ A + +L I Q++D+H+D ITS++MA +L LN SYFSRYFK++ G+ F Sbjct: 412 RQ---AGAGNHAHEPKLQVIQQYIDQHLDDNITSIDMARYLFLNPSYFSRYFKRMTGLTF 468 Query: 466 TDYVNQYKINLAITMLSRQHETVENVAYTLGFSDRAYFSKVFKKYSGKSPSEYK 519 TDYV+QYK+ +A ML + +E++A LG+SDR YFSKVFKKY G +PSEYK Sbjct: 469 TDYVHQYKMKMATKMLRMSGQNLESLAMGLGYSDRTYFSKVFKKYVGTTPSEYK 522 >B1D6F4.1 B1D6F4_9BACL Two component transcriptional regulator, AraC family Length = 532 Score = 293 bits (749), Expect = 4e-77, Method: Compositional matrix adjust. Identities = 187/529 (35%), Positives = 294/529 (55%), Gaps = 16/529 (3%) Query: 1 MLIDDDVPMLEYVAHLLGSLDLELKLVASASSSDQALVDFHEMLPDLVVIDIGLPGMNGL 60 MLIDDDVPML+ + ++ +L + AS SS +AL F E +PD+V+ DIGLP NG+ Sbjct: 5 MLIDDDVPMLKVLQQMMEWEQHDLHVAASTFSSVKALHLFKETMPDIVITDIGLPKKNGI 64 Query: 61 ELAEAFRITKPEVRLIFLTCYEDFQYSKRAFQLEADDYLIKDELSPDQLKVSLGKAVDXX 120 ELA F KP VR+IFLTC+E+F Y+++A +L+ADDYLIKD+L+ DQL+ SL K+V Sbjct: 65 ELAAEFTAIKPGVRIIFLTCHEEFHYAQQAVKLDADDYLIKDQLTADQLEESLRKSVARL 124 Query: 121 XXXXXXXXXXXXXQAIERNKEVLRQSFLKQLISPGSDAAHTLLLGERLDISWKLPYFRQG 180 +IE L++ L QLI G+D T R+ I W F G Sbjct: 125 KGRKAEGGTDSDAYSIE-----LQKRALFQLILDGADLEKTRAYASRVGIEWPYACFMMG 179 Query: 181 FIHIDAASLTERYSYRDIPLIHFAVNNIAMELSAGAAAITPIMTEDIGIYLI---WNVSE 237 IH+ + Y+ +I LI +A+ NIAME++ ITP + +D + L N++ Sbjct: 180 MIHLRYSDYELLYNRSNISLIRYAIYNIAMEIAQSYKGITPFIDQDHFMVLYNYRQNLAG 239 Query: 238 PDASYQPMIDFMESVREKAKQYLKIKVLGFYLAQTVLMQHIDTVYKTLSDCRDDSFY--G 295 D +Y + +++ + + YL+I + + +++Q +VY+ + + + FY G Sbjct: 240 NDQAY--LQSYLDELLRQVTAYLRITLQIVLVTDKLVLQAAGSVYQQIRSGKPE-FYRMG 296 Query: 296 KITAVTAVEPRA-VFQQTPERRWDQERTRLSLALEEGNAAWIDMAVNSWIQYVTSERLLP 354 ++ A + + +F P+ R L + E N + + + Q S R+ P Sbjct: 297 QLAAAASSQLLGQLFYPLPQDFNAAFRGGLERTILEKNTGEMRGVLVRFGQEAESRRIEP 356 Query: 355 RLVKEMCGDLVRQM-VFESGGVAESSFFIWLSQAVHIDEAVRLTKRELRNLWR-QHTLAP 412 E L+R+ + AE + ++ A +++A+ L L L + Q A Sbjct: 357 EEWTEALVQLLREAEILFPRRKAEEDVYAYIGAARTMEDALELAVGRLERLAQEQLGHAG 416 Query: 413 TSAQGKDIRLLAIDQFLDEHVDRMITSLEMAEHLHLNASYFSRYFKKLAGVNFTDYVNQY 472 +A+ ++ RL I F+D H+ ITS+++A++L+LN SYFSRYFK+L G++FTDYV+QY Sbjct: 417 GAAKSREPRLQVIQAFIDNHLSDNITSIDIAQYLYLNPSYFSRYFKRLTGLSFTDYVHQY 476 Query: 473 KINLAITMLSRQHETVENVAYTLGFSDRAYFSKVFKKYSGKSPSEYKNQ 521 K+ +A ML +T+E +A LG+SDRAYFSKVFKKY G +PS++K + Sbjct: 477 KMKIAANMLKSSGQTLETLAVGLGYSDRAYFSKVFKKYIGFTPSQFKQK 525 >A8VZY4.1 A8VZY4_9BACI Response regulator receiver protein Length = 524 Score = 202 bits (515), Expect = 5e-50, Method: Compositional matrix adjust. Identities = 154/538 (28%), Positives = 268/538 (49%), Gaps = 43/538 (7%) Query: 1 MLIDDDVPMLEYVAHLLGSLDLELKLVASASSSDQALVDFHEMLPDLVVIDIGLPGMNGL 60 MLIDDD+PML Y+ ++ DL + V S SS QAL DF PDLV+ DIG+P ++G+ Sbjct: 8 MLIDDDLPMLNYLKKMVDWTDLGCEEVRSYSSGSQALTDFRVWEPDLVISDIGMPQIDGI 67 Query: 61 ELAEAFRITKPEVRLIFLTCYEDFQYSKRAFQLEADDYLIKDELSPDQLKVSLGKAVDXX 120 LA + PE L+FLTC+E+F ++++A L+A+ Y+IKDELS +L ++ + V Sbjct: 68 TLAGKMKELNPEFMLVFLTCHEEFDFARKAIGLQAERYIIKDELSKSELG-AVFEEVCRK 126 Query: 121 XXXXXXXXXXXXXQAIERNKEVLRQSFLKQLISPGSDAAHTLLLGERLDISWKLPYFRQG 180 Q E+ K +F+K LISP E W +R Sbjct: 127 ASDMQLVSQEKAKQGFEQQK----AAFVKWLISPIDQE-------EPKQHIWYESSYRIA 175 Query: 181 FIHIDAASLTERYSYRDIPLIHFAVNNIAMELSAGAAAITPIMTEDIGIYLIWNVSEP-- 238 ++H+ + E + + ++ +V+ ++S + + D G+ I N + Sbjct: 176 YMHVKSEYDPEANTRTSLKKLYLSVSE---QISDKESV--DVFLVDEGLLFIMNYKDSIK 230 Query: 239 ---DASYQPMI-DFMESVREKAKQYLKIKVLGFYLAQTVLMQHIDTVYKTLSDCRDDSFY 294 +Q ++ D + ++ + V Q + + ++L + + ++ Sbjct: 231 QNYAGRFQRLLGDICDDIKNR-----DYSVSAKVYTQAMTFSELSESVRSLLFKKQNGYF 285 Query: 295 GK---ITAVTAVEPRAVFQQTPERRWDQERTRL-SLALEEGNAAWIDMAVNSWIQYVTSE 350 + + + ++P P Q+ L S A+ + + I+ A+ + V Sbjct: 286 TRGSLLILLQTLQPEVCH---PVNHVIQDSLNLASQAVMDDDTDRINQAMALLLDQVYDM 342 Query: 351 RLLPRLVKEMCGDLVRQMVFESGGV-AESSFFIWLSQAVHIDEAVRLTKRELRNLWRQHT 409 R+ P ++E +V Q+ + G ++ F L Q+V +EA +T+++L +L Sbjct: 343 RVHPEEIEERLIKMVYQLEIKKGTEHSDVHFAKRLKQSVTFEEAWIMTRQKLHSL----Q 398 Query: 410 LAPTSAQGKDI---RLLAIDQFLDEHVDRMITSLEMAEHLHLNASYFSRYFKKLAGVNFT 466 P S+Q + +L ID+++ H+ ITS ++A+ L+LN+SYFSRYF+K G FT Sbjct: 399 TVPESSQVLPVDTSKLKRIDEYISSHLHESITSTDVAKALYLNSSYFSRYFRKATGKRFT 458 Query: 467 DYVNQYKINLAITMLSRQHETVENVAYTLGFSDRAYFSKVFKKYSGKSPSEYKNQVST 524 DYV +YKI +A L +E++E + LGF++R YFSKVFKKY+G +PSE++ + + Sbjct: 459 DYVYEYKIKIARDYLKYSNESIEEIGAELGFTERTYFSKVFKKYTGMTPSEFRTKTQS 516 >C5EQ74.1 C5EQ74_9FIRM Predicted protein Length = 521 Score = 123 bits (309), Expect = 4e-26, Method: Compositional matrix adjust. Identities = 137/543 (25%), Positives = 240/543 (44%), Gaps = 57/543 (10%) Query: 1 MLIDDDVPMLEYVAHLLGSLDLELKLVASASSSDQALVDFHEMLPDLVVIDIGLPGMNGL 60 +LI+D+ +L+ +A +L + ++ L +A +Q L + PD+V+ DI +PG++GL Sbjct: 5 VLIEDENVVLKGMAMVL-KREPDVDLAGTAEDGNQGLELIYREHPDVVLTDIRMPGLSGL 63 Query: 61 ELAEAFRITKPEVRLIFLTCYEDFQYSKRAFQLEADDYLIKDELSPDQLKVSLGKAVDXX 120 E+ E ++ P+ I + + +F+Y ++A L YL K D L+ +L KA + Sbjct: 64 EMIEQAQMRFPDTVFIIFSGFCEFKYVQQAIGLGVLAYLEKPVTVSD-LRGALKKAANLV 122 Query: 121 XXXXXXXXXXXXXQAIERNKEVLRQSFLKQLISPGS-DAAHT---LLLGERLDISWKLPY 176 Q + N+ ++ Q+ + P + +AA+ L +GE L S +L Sbjct: 123 DYKKNYIRMKERTQQV--NRVMVEQALYDLMNQPSAMEAANMERLLEVGEYLSFSTELAV 180 Query: 177 FRQGFIHIDAASLTERYSYRDIPLIHFAVNNIAMELSAGAAAITPIMTEDIGIYLIWNVS 236 G + + + E YR LIH +IA S +T M E +Y ++ Sbjct: 181 LCAGKLSWKESGVDE---YR--KLIHAMTFSIAGNHSLDIYTLT--MEEQ--LYFVYFNQ 231 Query: 237 EPDASYQPMIDFMESVREKAKQYLKIKVLGFYLAQTVLMQHIDTVYKTLSDCRDDSFYG- 295 E + F + + + +Q L+ + + FY + + Q I + S+ R Y Sbjct: 232 ECQ-----IFPFYQEISGQ-RQALEDQGISFYGGISSIHQGIYGLKDAFSEARSAQNYAC 285 Query: 296 --KITAVTAVEPRAVFQQTPERRWDQERTRLSLALEEGNAAWIDMAVNSWIQYVTSERLL 353 + + E P D + + + N + +++ Y+ ++ Sbjct: 286 FLEAEEIVRSEDVKYRNHIPAEITDSQYS-MEFNFRLQNYSQFRKQAGAYLSYLAKAGIM 344 Query: 354 PRLVKEMCGD---LVRQMVFESGGVAE--------SSFFIWLSQAVHIDEAVRLTKREL- 401 P L++ C D LV+++ ESGGV E S S D A R+T R L Sbjct: 345 PELLRNECLDLVYLVQKLSLESGGVGEDRLPVISHSEIMDLESAEEMTDWARRMTDRFLL 404 Query: 402 -----RNLWRQHTLAPTSAQGKDIRLLAIDQFLDEHVDRMITSLEMAEHLHLNASYFSRY 456 RN R+H P S + +++D+H IT +A+ +H+N +Y S Sbjct: 405 EVEQDRNTEREH---PVS---------VVKKYIDQHYAESITLETLADQVHMNPTYLSVL 452 Query: 457 FKKLAGVNFTDYVNQYKINLAITMLSRQHETVENVAYTLGFSDRAYFSKVFKKYSGKSPS 516 FKK GV ++ Y+ Q +I A +L + E ++V +G+ D YF+K FKKY G +P Sbjct: 453 FKKEEGVAYSHYLAQVRIRQAAGLLEK-GEKAKDVCRKVGYFDYRYFNKQFKKYVGMTPD 511 Query: 517 EYK 519 YK Sbjct: 512 TYK 514 >B1D5Z5.1 B1D5Z5_9BACL Two component transcriptional regulator, AraC family Length = 535 Score = 120 bits (300), Expect = 5e-25, Method: Compositional matrix adjust. Identities = 126/547 (23%), Positives = 244/547 (44%), Gaps = 47/547 (8%) Query: 1 MLIDDDVPMLEYVAHLLGSLDLE---LKLVASASSSDQALVDFHEMLPDLVVIDIGLPGM 57 +LI DD P + + S+D E +++V A+ + L ++ P + V DI +P M Sbjct: 4 LLIVDDEPNIR--KGIRTSIDWEDYGIEVVGEAADGVEGLEKALKLKPHITVTDIRMPLM 61 Query: 58 NGLELAEAFRITKPEVRLIFLTCYEDFQYSKRAFQLEADDYLIKDELSPDQLKVSLGKAV 117 +GLEL+ + P+ R++ L+ YEDF ++K A + DYL+K + + + + L + Sbjct: 62 DGLELSRHLKNQLPDTRIVILSGYEDFSFAKEALAIGVQDYLLKPVGAEELVDLMLKLSE 121 Query: 118 DXXXXXXXXXXXXXXXQAIERNKEVLRQSFLKQLISPG-SDAAHTLLLGERLDISWKLPY 176 + I N + ++ F+ +++ G +D++ E L I P Sbjct: 122 EIKLAEADKRNRQSLNMMINENYQTIKSDFINRILQGGVTDSSAIFDKAELLKIRLSGPE 181 Query: 177 FRQGFIHIDA-ASLTERYSYRDIPLIHFAVNNIAMELSAGAAAITPIMTEDIGI------ 229 + I ID A +TE LI F+V NIA E+ +++ G+ Sbjct: 182 YSILAIDIDDFALMTEDLPENKRELIRFSVMNIAEEV---------LLSRTQGLVCYSQF 232 Query: 230 -YLIWNVSEPDASYQPMIDFMESVREKAKQYLKIKV-LGFYLAQTVLMQHIDTVYKTLSD 287 +LI +S + E +++ K YLK+ + +G T + + + S Sbjct: 233 DHLIGMMSGGGLRADFVDHVCEEIQQAVKTYLKLSISIGISRNCTDIAVLSTSYAEAFSA 292 Query: 288 CRDDSFYGKITAVTAVEPRAVFQQTPERRWDQERTRLSLALEEGNAAWIDMAVNSWIQYV 347 + GK + + E + +E + L+ N++ + A++ Sbjct: 293 LKAKIHKGKGSLIRYQESMMSTEMQNVLYPSEEEKVIIGCLKTLNSSELHSAIDQIFDRF 352 Query: 348 TSERLLPRLVKEMCGDL-------VRQMVFESGGVAESSFFIWLSQAVHIDEAVRL-TKR 399 + + +++ +CG L V +M + G + ++F + E R T Sbjct: 353 AAGQTDAPVIRSICGRLLLMAVSGVEEMSVDVGSIIGTNFNPY-------REMERFDTLG 405 Query: 400 ELRNLWRQ---HTLAPTSAQGKDIRLLAIDQ----FLDEHVDRMITSLEMAEHLHLNASY 452 +LR W H L+ + K+ + + + +++E+ +R ++ ++A +++ +Y Sbjct: 406 DLRK-WMNDVLHRLSELVQENKNQKFKGVIKTALRYMEENYNRAVSLADVAAIVYVTPNY 464 Query: 453 FSRYFKKLAGVNFTDYVNQYKINLAITMLSRQHETVENVAYTLGFSDRAYFSKVFKKYSG 512 SR FK+ GVNF +++N+Y+I A +LS VA +G+SD YFS++FK+++ Sbjct: 465 LSRIFKEEIGVNFVEWLNRYRIEKAKLLLSEPGAKTYAVAEKVGYSDYKYFSQMFKRFAD 524 Query: 513 KSPSEYK 519 SP EYK Sbjct: 525 CSPKEYK 531 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 0.321 0.135 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: 2,902,279,039 Number of extensions: 111143301 Number of successful extensions: 358572 Number of sequences better than 1.0e-05: 4338 Number of HSP's gapped: 364448 Number of HSP's successfully gapped: 4680 Length of query: 530 Length of database: 3,060,696,203 Length adjustment: 141 Effective length of query: 389 Effective length of database: 1,732,333,088 Effective search space: 673877571232 Effective search space used: 673877571232 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 (21.9 bits) S2: 134 (56.2 bits)