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= 0128.0004.p (536 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B1D5Y1.1 B1D5Y1_9BACL Two component transcriptional regulator, A... 284 2e-74 B3KF78.1 B3KF78_9BACI Response regulator receiver 272 7e-71 B1D5Z5.1 B1D5Z5_9BACL Two component transcriptional regulator, A... 251 1e-64 B3KJG1.1 B3KJG1_9BACI Response regulator receiver 248 2e-63 C4IM91.1 C4IM91_CLOBU Response regulator receiver protein 246 6e-63 >B1D5Y1.1 B1D5Y1_9BACL Two component transcriptional regulator, AraC family Length = 545 Score = 284 bits (726), Expect = 2e-74, Method: Compositional matrix adjust. Identities = 168/541 (31%), Positives = 290/541 (53%), Gaps = 11/541 (2%) Query: 1 MIVADDEPFIRRSLIQVFNWQEEFGIEIIGEASDGQEAYELCMELQPDILFTDIMMPMLG 60 +++ DDE +R L FNW FGIEI+GEA DG A+E+ PD++ TD+ MP + Sbjct: 4 LLIVDDETTVRMGLQSYFNWSS-FGIEIMGEADDGDVAFEMIGREAPDLVLTDVRMPNMD 62 Query: 61 GLEVAEKLKAGQCRTRIIIISGAQDFSYAQSALKVNAEGYILKPVKLPELREVFQEVVSR 120 G+ +A + +II +SG D Y +SA+K++A YI KPV L EL V + VVS Sbjct: 63 GITLARLINEHYPHVKIIFVSGHDDADYLKSAMKLSAVDYIFKPVNLEELSSVLRHVVSD 122 Query: 121 LRGEKDQQMNVEQLRRQVQTHMPLIREKFLQN-WAAGLYRDEGELWEKIGYFQLPFRPGD 179 L ++ +Q E+L+ +++ MP++REKFL + +G+ R ++ E++ + +L Sbjct: 123 LDEQRAEQQRKEELQVRLKEGMPVLREKFLLSLMGSGVQRQ--DIRERVQFLELSLPEEA 180 Query: 180 VLTAGVLQLDDYQSAVDKFSEDDKQLLYFSIQNIISECLEHPPGGVSFAASENEFMIIFG 239 V+ +DD + SE D+QLL++SI NI E ++ GG F EF I Sbjct: 181 SYWVIVISVDDLPEVMSTRSERDRQLLWYSINNICQELIDSHMGGYVFEYQTGEFAGILR 240 Query: 240 PDEGASPGEGAIAGFCE---KIIGSIHKYLRLDASIGVGRACTRVSELEDSYKDALAALV 296 + A G E +I ++ ++L++ +IG+ T + L + YK A A+ Sbjct: 241 RGAESEVSGDAAEGLLELTSRIRDNLERWLKISVTIGISDRVTGLGNLGNCYKQAREAVN 300 Query: 297 HTFYTGSRSILHIRDIQPGTETLQSAFFYKF--HARLMNELKAGHTEQVMELLEKLFDRL 354 H +Y G I+ + ++ + SA Y+F L + LKA + E++ E+L+ +F L Sbjct: 301 HKWYLGKNRIITMDSLESSEQASLSAGRYEFVYDEELTSALKAANPEKLREVLDAIFADL 360 Query: 355 TAPKLQ-IDYVQSICAEMIFTSARALYELDEDIERVLQDRLTIMDTLYRHKNLSGLKAYV 413 + + Y +++C ++ + + L EL+ E + + ++L + L ++ + Sbjct: 361 NRNRPDGLKYGRNVCMQIFLAAGQLLLELNMQSEELESAEAAVWESLLDRETLGEMRLIL 420 Query: 414 LSLFYDLSAYMAGKNSSRNSKTINRIRAIVQEGYAQ-ELSIARIAEEVFLTPNYISLIFK 472 + + K + + + + R+RAI+ Y+ L++ I EVFLTP Y+SL++K Sbjct: 421 EAYLLAACERIGEKRTGKVANLVERVRAIIDRDYSNGSLTVTDIGREVFLTPTYVSLLYK 480 Query: 473 KETGETLTDYITRIRIDKAKELLSTTDLKVMEISGLVGYENPHYFSTVFKKSVGVHPLKY 532 +ETG+T+ +Y+T++R++KAKE+L K +I +GY +P YF+ +FKK GV P Y Sbjct: 481 QETGQTVGEYMTQVRMEKAKEMLRDPQYKFYDICYAIGYTDPSYFTKLFKKMTGVTPSGY 540 Query: 533 R 533 R Sbjct: 541 R 541 >B3KF78.1 B3KF78_9BACI Response regulator receiver Length = 546 Score = 272 bits (695), Expect = 7e-71, Method: Compositional matrix adjust. Identities = 169/550 (30%), Positives = 299/550 (54%), Gaps = 28/550 (5%) Query: 1 MIVADDEPFIRRSLIQVFNWQEEFGIEIIGEASDGQEAYELCMELQPDILFTDIMMPMLG 60 +++ DDEP +R L F+W +GIE+ GEA DG A E+ QPD++ TD+ MP + Sbjct: 4 LLIVDDEPAVRAGLRAYFDWAA-YGIEVAGEADDGDVALEMIARDQPDLILTDVRMPNMD 62 Query: 61 GLEVAEKLKAGQCRTRIIIISGAQDFSYAQSALKVNAEGYILKPVKLPELREVFQEVVSR 120 G+ +++ + + +II +SG D Y +SA+KV+A YI KPV L EL V + VV+ Sbjct: 63 GITMSQCISSEYPAMKIIFVSGHDDADYLKSAMKVSAVDYIFKPVNLQELSTVIKRVVAD 122 Query: 121 LRGEKDQQMNVEQLRRQVQTHMPLIREKFLQNWAAGLYRD---EGELWEKIGYFQLPFRP 177 L E +++ ++L +++ MPL+REKFL + + R+ + EL E++ + L Sbjct: 123 LDAESSERIYKQELLVKLKEGMPLLREKFLLS----MIREGAPKSELAERVSFLGLDLPV 178 Query: 178 GDVLTAGVLQLDDYQSAVDKFSEDDKQLLYFSIQNIISECLEHPPGGVSFAASENEFMII 237 V+ +DD + SE D+QLL++S+ NI E L+ G +F EF+ + Sbjct: 179 NASYWVMVVCVDDLADVMASRSERDRQLLWYSVLNIYEELLDAHLRGYAFEQRTGEFVGV 238 Query: 238 FGPDEGASPGEGAIAGFCE-------KIIGSIHKYLRLDASIGVGRACTRVSELEDSYKD 290 E PG +++ E + ++ ++L++ +IG+ +S L +YK Sbjct: 239 LKVSE---PGGDSVSEAAEALFALAGDLRSNLERWLKIGVTIGISDMAGGLSGLAPAYKQ 295 Query: 291 ALAALVHTFYTGSRSILHIRDIQPG--TETLQSAFFYKFHARLMNELKAGHTEQVMELLE 348 A A+ + +Y G I+ + ++ E + Y+ + +L++ LKA +++ E +E Sbjct: 296 AREAVDYKWYLGKNRIITMDSLESAEPEEGAMRKYDYELNEKLISALKADDEDKISEAVE 355 Query: 349 KLFDRLTAPKLQ-IDYVQSICAEMIFTSARALYEL---DEDIERVLQDRLTIMDTLYRHK 404 +F L+ + + Y +++C +++ + L EL D ++E V++ LT + LY + Sbjct: 356 MIFASLSYTRPDGLKYGRNLCMQLVLAIGQLLMELGAGDPELE-VMEGELT--EALYAKE 412 Query: 405 NLSGLKAYVLSLFYDLSAYMAGKNSSRNSKTINRIRAIVQEGYAQ-ELSIARIAEEVFLT 463 L ++ + S + ++ K + R + I R+R + + YA L++A I + V+L+ Sbjct: 413 TLKDMRGLIESYLATVGEHIREKRTGRVANVIERVRGYIDQNYANGGLTVADIGKAVYLS 472 Query: 464 PNYISLIFKKETGETLTDYITRIRIDKAKELLSTTDLKVMEISGLVGYENPHYFSTVFKK 523 Y+SL+FK+ETG+T+ +Y+T++R+DKAKELL K +I +GY +P YFS +FKK Sbjct: 473 STYVSLLFKQETGQTVGEYLTKVRVDKAKELLRDPQYKFYDICYAIGYTDPSYFSKLFKK 532 Query: 524 SVGVHPLKYR 533 GV P YR Sbjct: 533 VTGVTPSAYR 542 >B1D5Z5.1 B1D5Z5_9BACL Two component transcriptional regulator, AraC family Length = 535 Score = 251 bits (642), Expect = 1e-64, Method: Compositional matrix adjust. Identities = 148/536 (27%), Positives = 274/536 (51%), Gaps = 5/536 (0%) Query: 1 MIVADDEPFIRRSLIQVFNWQEEFGIEIIGEASDGQEAYELCMELQPDILFTDIMMPMLG 60 +++ DDEP IR+ + +W E++GIE++GEA+DG E E ++L+P I TDI MP++ Sbjct: 4 LLIVDDEPNIRKGIRTSIDW-EDYGIEVVGEAADGVEGLEKALKLKPHITVTDIRMPLMD 62 Query: 61 GLEVAEKLKAGQCRTRIIIISGAQDFSYAQSALKVNAEGYILKPVKLPELREVFQEVVSR 120 GLE++ LK TRI+I+SG +DFS+A+ AL + + Y+LKPV EL ++ ++ Sbjct: 63 GLELSRHLKNQLPDTRIVILSGYEDFSFAKEALAIGVQDYLLKPVGAEELVDLMLKLSEE 122 Query: 121 LRGEKDQQMNVEQLRRQVQTHMPLIREKFLQNWAAGLYRDEGELWEKIGYFQLPFRPGDV 180 ++ + + N + L + + I+ F+ G D +++K ++ G Sbjct: 123 IKLAEADKRNRQSLNMMINENYQTIKSDFINRILQGGVTDSSAIFDKAELLKIRL-SGPE 181 Query: 181 LTAGVLQLDDYQSAVDKFSEDDKQLLYFSIQNIISECLEHPPGGVSFAASENEFMIIFGP 240 + + +DD+ + E+ ++L+ FS+ NI E L G+ ++F + G Sbjct: 182 YSILAIDIDDFALMTEDLPENKRELIRFSVMNIAEEVLLSRTQGL---VCYSQFDHLIGM 238 Query: 241 DEGASPGEGAIAGFCEKIIGSIHKYLRLDASIGVGRACTRVSELEDSYKDALAALVHTFY 300 G + CE+I ++ YL+L SIG+ R CT ++ L SY +A +AL + Sbjct: 239 MSGGGLRADFVDHVCEEIQQAVKTYLKLSISIGISRNCTDIAVLSTSYAEAFSALKAKIH 298 Query: 301 TGSRSILHIRDIQPGTETLQSAFFYKFHARLMNELKAGHTEQVMELLEKLFDRLTAPKLQ 360 G S++ ++ TE + + ++ LK ++ ++ ++++FDR A + Sbjct: 299 KGKGSLIRYQESMMSTEMQNVLYPSEEEKVIIGCLKTLNSSELHSAIDQIFDRFAAGQTD 358 Query: 361 IDYVQSICAEMIFTSARALYELDEDIERVLQDRLTIMDTLYRHKNLSGLKAYVLSLFYDL 420 ++SIC ++ + + E+ D+ ++ + R L L+ ++ + + L Sbjct: 359 APVIRSICGRLLLMAVSGVEEMSVDVGSIIGTNFNPYREMERFDTLGDLRKWMNDVLHRL 418 Query: 421 SAYMAGKNSSRNSKTINRIRAIVQEGYAQELSIARIAEEVFLTPNYISLIFKKETGETLT 480 S + + + I ++E Y + +S+A +A V++TPNY+S IFK+E G Sbjct: 419 SELVQENKNQKFKGVIKTALRYMEENYNRAVSLADVAAIVYVTPNYLSRIFKEEIGVNFV 478 Query: 481 DYITRIRIDKAKELLSTTDLKVMEISGLVGYENPHYFSTVFKKSVGVHPLKYRSGK 536 +++ R RI+KAK LLS K ++ VGY + YFS +FK+ P +Y+ K Sbjct: 479 EWLNRYRIEKAKLLLSEPGAKTYAVAEKVGYSDYKYFSQMFKRFADCSPKEYKELK 534 >B3KJG1.1 B3KJG1_9BACI Response regulator receiver Length = 539 Score = 248 bits (632), Expect = 2e-63, Method: Compositional matrix adjust. Identities = 153/542 (28%), Positives = 280/542 (51%), Gaps = 23/542 (4%) Query: 1 MIVADDEPFIRRSLIQVFNWQEEFGIEIIGEASDGQEAYELCMELQPDILFTDIMMPMLG 60 +++ DDEP +R + W E G E IG+ +G++A E QPD++ TDI MP + Sbjct: 4 ILIVDDEPIVREGIRNRIQWSEH-GYECIGDCENGRDALEAVTRHQPDVVLTDINMPYMD 62 Query: 61 GLEVAEKLKAGQCRTRIIIISGAQDFSYAQSALKVNAEGYILKPVKLPELREVFQEVVSR 120 GLE++ + +T+III++G DF YAQ A+K+ +ILKPV ELR++ ++ Sbjct: 63 GLELSRHITERFPKTKIIILTGFDDFEYAQQAVKLQVTDFILKPVTAAELRDMLDKLKLE 122 Query: 121 LRGEKDQQMNVEQLRRQVQTHMPLIREKFLQNWAAGLYRDEGELWEKIGYFQLPFRPGDV 180 + E+ ++++L++Q+ + L+RE+FL+ A+ + E+ ++ YF +P R G + Sbjct: 123 MDEERGHTEHLKRLKKQLNESLVLLRERFLERLASSPMK-RSEMESRLDYFDIPLR-GPL 180 Query: 181 LTAGVLQLDDYQSAVDKFSEDDKQLLYFSIQNIISECLEHPPGGVSFAASENEFMIIF-G 239 A +D+ +S D +L F++ NI+ E L PG F EN+ M I G Sbjct: 181 YIAMAADMDELRS---DEQHADNELHAFALYNIMQEILAGEPGAAVFRYKENKVMTILSG 237 Query: 240 PDEGASPGEGAIAGFCEKIIGSIHKYLRLDASIGVGRACTRVSELEDSYKDALAALVHTF 299 DE E I GS ++++ ++G+G C + ++ S K + AAL + Sbjct: 238 SDEKDLHARA--QELAEDIRGSTKQFMKFTVTVGIGTICRELQDIRYSCKASEAALEYRL 295 Query: 300 YTGSRSILHIRDIQP-GTETLQSAFFYKFHARLMNELKAGHTEQVMELLEKLFDRLTAPK 358 G ++HI D++ G+ L + L++ ++AG +V + +L + + + Sbjct: 296 LIGRDQVVHITDLEKRGSGPLLDGI--ETETALVSAIRAGTGSEVKACIRRLINEIGSAS 353 Query: 359 LQIDYVQSICAEMIFTSARALYELDEDIERVLQDRLTIMDTLYRHKNLSGLKAYVLSLFY 418 + I+ ++ + L E+ + ++ ++ LY ++L ++ ++ + Sbjct: 354 ISIELCYVRVLRVMLAVLQTLMEIGSNGNELIGKEKRLLSDLYSFRSLDEIERWLNEV-- 411 Query: 419 DLSAYMAGKNSSRNSKTINRIRAI-----VQEGYA-QELSIARIAEEVFLTPNYISLIFK 472 A ++ ++ K I R + + +Q Y +ELSI + +F++ +Y S +FK Sbjct: 412 ---CEQALRDVAKTRKDIARSQMLEAVDFIQRHYEDEELSIKTVCSRIFMSTSYFSALFK 468 Query: 473 KETGETLTDYITRIRIDKAKELLSTTDLKVMEISGLVGYENPHYFSTVFKKSVGVHPLKY 532 TG+T +Y+T +R++KAKELL + LK EI+ GY++P YFS +FKK G P +Y Sbjct: 469 SHTGKTFVEYVTEVRMEKAKELLKHSLLKTYEIAAKTGYQDPQYFSVLFKKHTGDTPTEY 528 Query: 533 RS 534 R+ Sbjct: 529 RN 530 >C4IM91.1 C4IM91_CLOBU Response regulator receiver protein Length = 534 Score = 246 bits (627), Expect = 6e-63, Method: Compositional matrix adjust. Identities = 153/537 (28%), Positives = 283/537 (52%), Gaps = 9/537 (1%) Query: 1 MIVADDEPFIRRSLIQVFNWQEEFGIEIIGEASDGQEAYELCMELQPDILFTDIMMPMLG 60 +++ DDE IR +I+ W E++G I+G+A +GQEA E +LQPD++ TDI MP + Sbjct: 6 VMIVDDEEEIRLGIIKKIKW-EDYGFVIVGDAENGQEALEKAEKLQPDVIMTDIRMPFMN 64 Query: 61 GLEVAEKLKAGQCRTRIIIISGAQDFSYAQSALKVNAEGYILKPVKLPELREVFQEVVSR 120 GLE+ EKL A ++II SG DF +AQ A+++N Y+LKP+ E+ EV + + Sbjct: 65 GLELGEKLAAIMPSVKMIIFSGCDDFEFAQKAIRINVIEYVLKPINSIEVIEVLKRLKIN 124 Query: 121 LRGEKDQQMNVEQLRRQVQTHMPLIREKFLQNWAAGLYRDEGELWEKIGYFQLPFRPGDV 180 L E D++ NVE L + +P+I+E+FL G R + W+ + Sbjct: 125 LDKEYDEKRNVEILYKYYIDSLPVIKEQFLVGAIEG--RISEQQWDDMTKKLKLDINSRY 182 Query: 181 LTAGVLQLDDYQSAVDKFSEDDKQLLYFSIQNIISECLEHPPGGVSFAASENEFMIIFGP 240 L+ GV++LD Q + + F E+D L+ SI+ ++ + +E+ +SF + +I+ G Sbjct: 183 LSIGVIRLDYEQMSSNVFREED-SLMQISIKKVVDDNMENFCSFISFLYLDK--VIVIGN 239 Query: 241 DEGASPGEGAIAGFCEKIIGSIHKYLRLDASIGVGRACTRVSELEDSYKDALAALVHTFY 300 + + + G E + S ++ + L S G+G C ++ SYK+A +AL + Sbjct: 240 FDEKQHVQSFVNGLNE-VCRSFNRIVGLSISAGIGNICKVFGDITQSYKNAQSALEYRII 298 Query: 301 TGSRSILHIRDIQPGTETLQSAFFYKFHARLMNELKAGHTEQVMELLEKLFDRLTAPKLQ 360 G+ ++I D++P T ++Q ++N +K ++++ +++ KLFD + Sbjct: 299 VGTGKAIYIEDVEPNT-SMQLHLDENTERLMINAIKIESSKKISQIVTKLFDVYEISFVS 357 Query: 361 IDYVQSICAEMIFTSARALYELDEDIERVLQDRLTIMDTLYRHKNLSGLKAYVLSLFYDL 420 + + E+I + R + + ++ + + + L ++ +K +++ + Sbjct: 358 FNEYKMYITEIIISLLRLIQSYNLNVNDIFKVNFNLYTFLDNFNSIDSIKEWIVDKALKI 417 Query: 421 SAYMAGKNSSRNSKTINRIRAIVQEGYAQ-ELSIARIAEEVFLTPNYISLIFKKETGETL 479 + + + + + I + + + E Y ELS+ +I + ++ Y S +FKKETG++ Sbjct: 418 NDCIKKERVNSSKILIEKAKLYITENYMDYELSVEKICSVLHVSSTYFSTMFKKETGKSF 477 Query: 480 TDYITRIRIDKAKELLSTTDLKVMEISGLVGYENPHYFSTVFKKSVGVHPLKYRSGK 536 +++T +R+++A LL+TTD K I+ VGY +YFS VFKK G+ P KYR + Sbjct: 478 VNFLTELRLEQAITLLNTTDYKTYIIAENVGYSEANYFSYVFKKKFGMSPSKYRKSR 534 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 0.137 0.392 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: 3,042,892,158 Number of extensions: 123758229 Number of successful extensions: 384703 Number of sequences better than 1.0e-05: 9971 Number of HSP's gapped: 391112 Number of HSP's successfully gapped: 10501 Length of query: 536 Length of database: 3,060,696,203 Length adjustment: 141 Effective length of query: 395 Effective length of database: 1,732,333,088 Effective search space: 684271569760 Effective search space used: 684271569760 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: 134 (56.2 bits)