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= 0249.0009.p (587 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B3K3A4.1 B3K3A4_9BACI Histidine kinase internal region 860 0.0 B1D7W7.1 B1D7W7_9BACL Histidine kinase internal region 413 e-113 B1RIM8.1 B1RIM8_CLOPE Sensor histidine kinase 168 1e-39 B1R7E0.1 B1R7E0_CLOPE Sensor histidine kinase 168 1e-39 Q0SVI4.1 Q0SVI4_CLOPS Sensor histidine kinase 167 3e-39 >B3K3A4.1 B3K3A4_9BACI Histidine kinase internal region Length = 594 Score = 860 bits (2222), Expect = 0.0, Method: Compositional matrix adjust. Identities = 418/586 (71%), Positives = 485/586 (82%), Gaps = 1/586 (0%) Query: 1 MRLLIPQKLKYRLFAAFVFLILLPFCALNLYNYQRIESLVQKKISQQSHYQLEQMYRTLE 60 +R L P KLKYRLFAAFV +ILLPF LNLYNYQRIE+LVQ+KISQQSH QLEQMYRTLE Sbjct: 5 IRSLFPHKLKYRLFAAFVLVILLPFGILNLYNYQRIETLVQEKISQQSHSQLEQMYRTLE 64 Query: 61 DQISIAFKTLIFLKQDETVKSVLTHPEQQSGLENKRRIENIFKNLNNSFFLYNPSVYFMI 120 DQ+S+AFKTLIFL+QD TV SVLTHP Q+ GLENK +E FKNLNNSFFLYNPSVYF I Sbjct: 65 DQLSVAFKTLIFLEQDSTVASVLTHPGQRQGLENKNLMEEKFKNLNNSFFLYNPSVYFTI 124 Query: 121 LDLNESAYTSYPPRESLIYKDLRESPGFDRKLMNPSSYHWVPNDSNYVLRDVSTXXXXXX 180 LD +AYTSY PRE+L Y+ LR++PGFDR M SYHWV +D+NYVLRD+ST Sbjct: 125 LDFYGNAYTSYSPREALDYRKLRDNPGFDRDQMEGVSYHWVSSDANYVLRDISTSPYLLS 184 Query: 181 XXXXXENTQNKPYGMARISIDYSYWLESIHKQSDLQQQYFIISHTGEDISQSVPKSSLPE 240 E +NKPYGMARISIDYS+W +S+ KQS L+Q+YF+I+ GE++SQS+ SSL Sbjct: 185 LYAYMETPRNKPYGMARISIDYSFWFQSVLKQSTLRQEYFLITSAGENVSQSILNSSLTG 244 Query: 241 QVKARIAEHPQQQYFIDKASNSLINYIYVESLDWYIVNRIPQSVLFVEIEELKRQYFITF 300 +VKARIA P+Q+YFIDKASN+L+NYIYVESLDWYIVNRIP +VLF EIEELKRQYF+TF Sbjct: 245 EVKARIAAEPRQKYFIDKASNTLVNYIYVESLDWYIVNRIPLTVLFNEIEELKRQYFMTF 304 Query: 301 FALMGIFLMMTFVIATTITRPLSHLQNKMKAAVQKSLKIRLPEHKFRGEILDLTRTFNTM 360 F L G FL+MTF+IA TITRPLSHLQNKMKA V+ +LKIRLPEHKFRGEIL+LT+TFN+M Sbjct: 305 FLLTGAFLIMTFIIAATITRPLSHLQNKMKAVVRNNLKIRLPEHKFRGEILELTQTFNSM 364 Query: 361 LDDTNLLIQKLKAEERQKEAVHFQMLLAQTNPHFLLNTLNTIKWIAIREQNEDITNMTLS 420 L+D ++LIQ+LKAEERQKEAVHF MLLAQ NPHFLLNTLNT+KW AIR NEDITN+TLS Sbjct: 365 LNDMDVLIQRLKAEERQKEAVHFHMLLAQMNPHFLLNTLNTVKWSAIRHGNEDITNITLS 424 Query: 421 LGKLLEASLNTDKDLIYLKDEIGLVQAYVHIQQVRYRHKFEVTCEYDEDILYALVPKLSL 480 LGKLLEASLNT+KDL++LKDEI LVQAYVHIQQVRY H+F+VT YDEDILYALVPKL L Sbjct: 425 LGKLLEASLNTEKDLVHLKDEIELVQAYVHIQQVRYNHRFDVTFAYDEDILYALVPKLCL 484 Query: 481 QPLVENAIIHGIGPLP-GNGLIEIKVYREGPGTLIVEIKDNGVGIEQSKLKRTERRRPGI 539 QPLVENAIIHGIGPL GLIEI V REGP L VEIKDNGVG+EQS+ R+RPGI Sbjct: 485 QPLVENAIIHGIGPLSEQEGLIEITVTREGPNRLAVEIKDNGVGMEQSRQAGGMRKRPGI 544 Query: 540 GLSNIXXXXXXXXXXXGSMDILSSDQGVTVRFTLPFLLSTPYGTEH 585 GL+N+ GSM+I+SS++G +RF++P L+STPY +H Sbjct: 545 GLNNVQELLRLLFKEEGSMEIISSERGTRIRFSIPLLISTPYQNDH 590 >B1D7W7.1 B1D7W7_9BACL Histidine kinase internal region Length = 603 Score = 413 bits (1062), Expect = e-113, Method: Compositional matrix adjust. Identities = 233/592 (39%), Positives = 353/592 (59%), Gaps = 14/592 (2%) Query: 2 RLLIPQKLKYRLFAAFVFLILLPFCALNLYNYQRIESLVQKKISQQSHYQLEQMYRTLED 61 RLL P K R+ + + +L+P L LYN++ E L+Q+ S ++ QLE + L D Sbjct: 7 RLLTPATFKNRILLSLLIFLLVPIALLFLYNFRETEELLQRNASDKNIEQLEGLKTDLVD 66 Query: 62 QISIAFKTLIFLKQDETVKSVLTHPEQQSGLENKRRIENIFKNLNNSFFLYNPSVYFMIL 121 +S+ KT + L+QD ++ V+ PEQ + K+ +EN F + NSFFL +VY+ ++ Sbjct: 67 LMSLVMKTGMLLEQDSVLRQVMQKPEQYDAINRKKIVENKFAGIENSFFLTGATVYYTLI 126 Query: 122 DLNESAYTSYPPRESLIYKDLRESPGFDRKLMNPSS--YHWVPNDSNYVLRDVSTXXXXX 179 DL +AYTSY P SL Y+++ S + R+L Y W ND + +R+V Sbjct: 127 DLKGNAYTSYTPENSLNYEEI-SSEAWVRELKREGGQRYIWRTNDQSTEIREVKGNRMLS 185 Query: 180 XXXXXXENTQNKPYGMARISIDYSYWLESIHKQSDLQQQYFIISHTGEDISQSVPKSSLP 239 ++ KP+ R SIDY W + S + YF++ G I QS P+ S+P Sbjct: 186 LFELLRDDGL-KPFAYGRFSIDYEAWFAEKTQGSGGEGAYFLLDAGGNTILQSSPEESVP 244 Query: 240 EQVKARIAEHPQQQYFIDKASNSLIN------YIYVESLDWYIVNRIPQSVLFVEIEELK 293 V A IA + D +S S++N Y V+ LD Y+V ++P S+LF E+++ K Sbjct: 245 PAVAASIASAGRSGES-DASSTSILNNRIMYTYSNVQELDGYLVKKVPLSLLFNEVDKQK 303 Query: 294 RQYFITFFALMGIFLMMTFVIATTITRPLSHLQNKMKAAVQKSLKIRLPEHKFRGEILDL 353 ++ F + ++ +F++M + I++T+T PL LQ KM+ V+ +LK +LPE RGEIL L Sbjct: 304 KRSFALYITILILFMLMIYFISSTVTGPLKLLQRKMETTVKSNLKAKLPEQG-RGEILAL 362 Query: 354 TRTFNTMLDDTNLLIQKLKAEERQKEAVHFQMLLAQTNPHFLLNTLNTIKWIAIREQNED 413 TR+FN+M+ D N L+++LK EERQK+ V FQ+LL Q NPHFLLNTLNTIK IA+ + +D Sbjct: 363 TRSFNSMITDINGLLERLKLEERQKQYVRFQVLLGQMNPHFLLNTLNTIKSIALDKDEDD 422 Query: 414 ITNMTLSLGKLLEASLNTDKDLIYLKDEIGLVQAYVHIQQVRYRHKFEVTCEYDEDILYA 473 I ++ ++LGK+LE +LNT+ DLI LK+EI L+++Y+ IQ+ R+ H EV E + ++ +A Sbjct: 423 IYDICVALGKILETTLNTEADLILLKEEIVLIESYMDIQRKRFGHGIEVQYEVEGELEFA 482 Query: 474 LVPKLSLQPLVENAIIHGIGPLPGNGLIEIKVYREGPGTLIVEIKDNGVGIEQSKLKRTE 533 L+PK SLQPLVEN+++HG G G I I+ G LI+E+ DNGVGIE++K ++ Sbjct: 483 LIPKFSLQPLVENSLLHGFGQSQRGGRIVIRAASRGK-QLILEVIDNGVGIEKAKNNQSA 541 Query: 534 RRRPGIGLSNIXXXXXXXXXXXGS-MDILSSDQGVTVRFTLPFLLSTPYGTE 584 R+R IG+ N+ S + + SS++G V P LLS PY E Sbjct: 542 RKRKSIGIQNLRESLELMFKNQPSGLQVESSEEGTRVTMNCPLLLSKPYTEE 593 >B1RIM8.1 B1RIM8_CLOPE Sensor histidine kinase Length = 583 Score = 168 bits (426), Expect = 1e-39, Method: Compositional matrix adjust. Identities = 117/377 (31%), Positives = 199/377 (52%), Gaps = 9/377 (2%) Query: 203 SYWLESIHKQSDL----QQQYFIISHTGEDISQSVPKSSLPEQVKARIAEHPQQQYFIDK 258 S+ L +I K S++ ++ IIS + S + + L + +K + +++ + ++ Sbjct: 208 SFSLFNIGKGSEIFIIDEKNNIIISENNLNSSFILEEPDLNKFLKNKDSKNTARSIMVN- 266 Query: 259 ASNSLINYIYVESLDWYIVNRIPQSVLFVEIEELKRQYFITFFALMGIFLMMTFVIATTI 318 N + Y ++ +WYI + P + +I+ L+++ I + L+ ++ + ++I Sbjct: 267 GKNYVATYRKLKGFNWYIASMTPYDFINADIQSLRKEMTIIGLLFTLVVLIFSYFLYSSI 326 Query: 319 TRPLSHLQNKMKAAVQKSLKIRLPEHKFRGEILDLTRTFNTMLDDTNLLIQKLKAEERQK 378 PL +L NKMK + LK+ L + EI ++ F++ML N LI+K K +E +K Sbjct: 327 KVPLYNLLNKMKRVSEGDLKV-LVNDTYEDEIGVISDNFDSMLKRVNELIEKTKLQEVEK 385 Query: 379 EAVHFQMLLAQTNPHFLLNTLNTIKWIAIREQNEDITNMTLSLGKLLEASLNTDKDLIYL 438 + +ML AQ NPHFL NTLN++KW A+ Q+ ++ SL +LL ++ +L+ + Sbjct: 386 RDLEIRMLQAQINPHFLFNTLNSLKWTALMNQDYTVSEGLSSLAELLRNTIIDKNELVTI 445 Query: 439 KDEIGLVQAYVHIQQVRYRHKFEVTCEYDEDILYALVPKLSLQPLVENAIIHGIGPLPGN 498 ++E+ ++ YV IQ++RY + F+V E DE +L V K LQP+VEN+IIHGI N Sbjct: 446 REELENIKNYVVIQKIRYGNSFDVQYEVDELLLENKVIKFILQPIVENSIIHGIDENKEN 505 Query: 499 GLIEIKVYREGPGTLIVEIKDNGVGIEQSKLKRTERRRPGIGLSNIXXXXXXXXXXXGSM 558 I IK+ E LI IKDNG G SK K + + GIG +N+ Sbjct: 506 QKIIIKIMSEEENILI-SIKDNGKGF-NSKEKVKDNKLSGIGWNNVDERIKLTFGLGYGT 563 Query: 559 DILSS-DQGVTVRFTLP 574 I S ++G V+ +P Sbjct: 564 TIYSEVNKGTIVKIVIP 580 >B1R7E0.1 B1R7E0_CLOPE Sensor histidine kinase Length = 583 Score = 168 bits (426), Expect = 1e-39, Method: Compositional matrix adjust. Identities = 110/343 (32%), Positives = 184/343 (53%), Gaps = 5/343 (1%) Query: 233 VPKSSLPEQVKARIAEHPQQQYFIDKASNSLINYIYVESLDWYIVNRIPQSVLFVEIEEL 292 + ++ L + +K + A+ + ++ N + Y ++ +WYI + P + +I+ L Sbjct: 242 LEETDLNKFLKDKGAKDTARSIVVN-GENYVATYRKLKGFNWYIASMTPYDFINADIQSL 300 Query: 293 KRQYFITFFALMGIFLMMTFVIATTITRPLSHLQNKMKAAVQKSLKIRLPEHKFRGEILD 352 +++ I + L+ ++ + ++I PL +L NKMK + LK+ L + EI Sbjct: 301 RKEMTIIGLLFTLVVLIFSYFLYSSIKVPLYNLLNKMKRVSEGDLKV-LVNDTYEDEIGV 359 Query: 353 LTRTFNTMLDDTNLLIQKLKAEERQKEAVHFQMLLAQTNPHFLLNTLNTIKWIAIREQNE 412 ++ F++ML N LI+K K +E +K + +ML AQ NPHFL NTLN++KW A+ Q+ Sbjct: 360 ISDNFDSMLKRVNELIEKTKLQEVEKRDLEIRMLQAQINPHFLFNTLNSLKWTALMNQDY 419 Query: 413 DITNMTLSLGKLLEASLNTDKDLIYLKDEIGLVQAYVHIQQVRYRHKFEVTCEYDEDILY 472 +++ SL +LL ++ +L+ +++E+ ++ YV IQ++RY + FEV E DE +L Sbjct: 420 TVSDGLSSLAELLRNTIIDKNELVTIREELENIKNYVVIQKIRYGNSFEVQYEVDELLLE 479 Query: 473 ALVPKLSLQPLVENAIIHGIGPLPGNGLIEIKVYREGPGTLIVEIKDNGVGIEQSKLKRT 532 V K LQP+VEN+IIHGI N I IK+ E LI IKDNG G SK K Sbjct: 480 NKVIKFILQPIVENSIIHGIDENKENQKIIIKIMSEEENILI-SIKDNGKGF-NSKEKVK 537 Query: 533 ERRRPGIGLSNIXXXXXXXXXXXGSMDILSS-DQGVTVRFTLP 574 + + GIG +N+ I S ++G V+ +P Sbjct: 538 DNKLSGIGWNNVDERIKLTFGLGYGTTIYSEVNKGTIVKIVIP 580 >Q0SVI4.1 Q0SVI4_CLOPS Sensor histidine kinase Length = 583 Score = 167 bits (423), Expect = 3e-39, Method: Compositional matrix adjust. Identities = 109/343 (31%), Positives = 184/343 (53%), Gaps = 5/343 (1%) Query: 233 VPKSSLPEQVKARIAEHPQQQYFIDKASNSLINYIYVESLDWYIVNRIPQSVLFVEIEEL 292 + +++L + +K + A+ + ++ N + Y ++ +WYI + IP + +I+ L Sbjct: 242 LEETNLNKFLKDKGAKDTARSIVVN-GENYVATYRKLKGFNWYIASMIPYDFINADIQSL 300 Query: 293 KRQYFITFFALMGIFLMMTFVIATTITRPLSHLQNKMKAAVQKSLKIRLPEHKFRGEILD 352 K++ I + L+ ++ + ++I PL +L NKMK + LK+ L + EI Sbjct: 301 KKEMTIIGLLFTLVVLIFSYFLYSSIKVPLYNLLNKMKRVSEGDLKV-LVNDTYEDEIGV 359 Query: 353 LTRTFNTMLDDTNLLIQKLKAEERQKEAVHFQMLLAQTNPHFLLNTLNTIKWIAIREQNE 412 ++ F++ML N LI+K K +E +K + +ML AQ NPHFL NTLN++KW A+ Q+ Sbjct: 360 ISDNFDSMLKRVNELIEKTKLQEVEKRDLEIRMLQAQINPHFLFNTLNSLKWTALMNQDY 419 Query: 413 DITNMTLSLGKLLEASLNTDKDLIYLKDEIGLVQAYVHIQQVRYRHKFEVTCEYDEDILY 472 ++ SL +LL ++ + + +++E+ ++ Y IQ++RY + F+V E DE +L Sbjct: 420 TVSEGLSSLAELLRNTIIDKNEFVTIREELENIKNYFVIQKIRYGNSFDVQYEVDELLLE 479 Query: 473 ALVPKLSLQPLVENAIIHGIGPLPGNGLIEIKVYREGPGTLIVEIKDNGVGIEQSKLKRT 532 V K LQP+VEN+IIHGI N I IK+ E LI IKDNG G SK K Sbjct: 480 NKVIKFILQPIVENSIIHGIDENKENQKIIIKIMSEEENILI-SIKDNGKGF-NSKEKIK 537 Query: 533 ERRRPGIGLSNIXXXXXXXXXXXGSMDILSS-DQGVTVRFTLP 574 + + GIG +N+ +I S ++G V+ +P Sbjct: 538 DNKLSGIGWNNVDESIKLTFGLDYGTNIYSEVNKGTIVKIVIP 580 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: 3,190,928,196 Number of extensions: 126140985 Number of successful extensions: 356058 Number of sequences better than 1.0e-05: 1993 Number of HSP's gapped: 353918 Number of HSP's successfully gapped: 1993 Length of query: 587 Length of database: 3,060,696,203 Length adjustment: 142 Effective length of query: 445 Effective length of database: 1,722,912,073 Effective search space: 766695872485 Effective search space used: 766695872485 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)