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= 0346.0031.p (550 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B1D5F7.1 B1D5F7_9BACL Two component transcriptional regulator, A... 657 0.0 B3KJ89.1 B3KJ89_9BACI Response regulator receiver 617 e-174 B1DGN1.1 B1DGN1_9BACL Two component transcriptional regulator, A... 284 2e-74 B3KBX5.1 B3KBX5_9BACI Response regulator receiver 259 4e-67 B1D5V7.1 B1D5V7_9BACL Two component transcriptional regulator, A... 243 3e-62 >B1D5F7.1 B1D5F7_9BACL Two component transcriptional regulator, AraC family Length = 530 Score = 657 bits (1694), Expect = 0.0, Method: Compositional matrix adjust. Identities = 326/513 (63%), Positives = 409/513 (79%) Query: 23 QKKMDWTALGIETVYTANNVAQAREIVENHSVQILISDIEMPQGSGLSLLAWIRDNDYPI 82 +KK+DW +LGIE VYTA+NVAQAREI+ H VQIL+SDIEMPQGSGL LLAWIR+ +Y + Sbjct: 17 EKKIDWASLGIEGVYTAHNVAQAREILMKHKVQILVSDIEMPQGSGLELLAWIREENYNV 76 Query: 83 QTILLTNYADFNYAQKAIELQSFEYFLKPIEFDKLMLIIQKAVARAKEQQHNEKAIQEGY 142 Q I LTNYADFNYAQKAIEL+SFEYFLKPI+FDKLMLII+KAV RA+EQQ EKAIQEGY Sbjct: 77 QAIFLTNYADFNYAQKAIELRSFEYFLKPIQFDKLMLIIRKAVERAQEQQQQEKAIQEGY 136 Query: 143 YWQKNQAKNLEHFWRRMVXXXXXXPIRPSAITYAIKEQNLAYHMDDTLQPLLFNVFPFNG 202 YWQ+NQAK LEHFWR+++ P++ S I A++EQ+L+Y +D +QP+L N+FP++G Sbjct: 137 YWQRNQAKMLEHFWRKLISGSVSFPLKASDILLAVEEQHLSYDRNDLIQPVLLNLFPYDG 196 Query: 203 SMGKEEKDLFDFALLNILYELFRHPGFGIESILEIKDYHWIAILKWNEIPDTGTLEEICA 262 SMG EEK+LFDFALLN+LYELF+HP F +E++LE Y+WIA+LKW E D TL+ +CA Sbjct: 197 SMGVEEKNLFDFALLNVLYELFQHPQFSVETVLEYSAYNWIAVLKWKEASDLQTLDGLCA 256 Query: 263 SLIQKTNPYLKCDVCCNIGLHGELGGIGTVLQSLTRMDEEITRCRNHTYTVEMYQKQSKA 322 + IQ+ N LKCD CC + + G L GI V++ L +++I + RNH + VE +Q+ Sbjct: 257 AFIQQANRSLKCDACCIVAMSGRLEGISPVIRQLLERNQDIAKRRNHIFFVEHGLRQADE 316 Query: 323 AYIPPDLAHLEELLNRNRLAAFLEEVSRYLKGLLVNRTVDTSILSLFRLDIVQLVYSFLK 382 +Y PP+L LEELL RN FL+E +RYL + TSILSLFRLD++QLVY+FLK Sbjct: 317 SYQPPELTKLEELLERNLPDEFLQETTRYLNESVHQNLFSTSILSLFRLDMMQLVYAFLK 376 Query: 383 MKGIQVHKLYSGKVNDRLQLHSLTSIEDMEEYLEYLVNTAMKYRDLTAQPKSVAEEIKQY 442 KGIQ H+LY+GK N+RL HSL SIED+E YL+YLV+TAM+YRD QPKSVA++IKQY Sbjct: 377 SKGIQAHQLYTGKTNERLLAHSLHSIEDLEAYLKYLVHTAMEYRDFAEQPKSVADDIKQY 436 Query: 443 IHAHYGDELTRNDLAEIVYLNPDYLARLFKKETGVALGSYVIQVRIAAAKQLLETTRLSV 502 IHAHYG++LTR LAEIVYL+PDYLARLFKKETGV+LG+YVI R+ AAKQLL TT LSV Sbjct: 437 IHAHYGEDLTRISLAEIVYLHPDYLARLFKKETGVSLGTYVISARMEAAKQLLRTTNLSV 496 Query: 503 YTIANKVGYTNYSYFSKLFKQEVGLSPNEYKKE 535 + +A KVGY NYSYF+K+FKQE G++PNEYK++ Sbjct: 497 FAVAKKVGYANYSYFAKVFKQEAGVTPNEYKQD 529 >B3KJ89.1 B3KJ89_9BACI Response regulator receiver Length = 540 Score = 617 bits (1591), Expect = e-174, Method: Compositional matrix adjust. Identities = 301/512 (58%), Positives = 377/512 (73%), Gaps = 2/512 (0%) Query: 23 QKKMDWTALGIETVYTANNVAQAREIVENHSVQILISDIEMPQGSGLSLLAWIRDNDYPI 82 +KK+DW AL IE V+TA +VAQAREI+++HSVQILI DIEMPQGSGL LLAWIR+ Y I Sbjct: 17 EKKIDWKALLIEQVHTAYSVAQAREILQSHSVQILICDIEMPQGSGLELLAWIREEQYGI 76 Query: 83 QTILLTNYADFNYAQKAIELQSFEYFLKPIEFDKLMLIIQKAVARAKEQQHNEKAIQEGY 142 QTI LTNYADFNYAQKAIELQSF+YFLKPIEFDKL LII KAV +AKEQQ +++AIQ+G Sbjct: 77 QTIFLTNYADFNYAQKAIELQSFDYFLKPIEFDKLSLIISKAVYKAKEQQSDQEAIQDGQ 136 Query: 143 YWQKNQAKNLEHFWRRMVXXXXXXPIRPSAITYAIKEQNLAYHMDDTLQPLLFNVFPFNG 202 W+KNQ K EHFW +++ R + Y I EQNL+Y + D PLL +FP++ Sbjct: 137 LWKKNQKKLQEHFWSKLIKEKKASSDRVAIAGY-IAEQNLSYALSDLFLPLLITIFPYDQ 195 Query: 203 SMGKEEKDLFDFALLNILYELFRHPGFGIESILEIKDYHWIAILKWNEIPDTGTLEEICA 262 S+GKE+KDLFD+A LN+L ELF+ P F +E+++E +DY W+ +LKWN PDT +E IC Sbjct: 196 SLGKEDKDLFDYAFLNVLSELFQDPLFTVETVMEYRDYEWMVVLKWNHPPDTAVIESICT 255 Query: 263 SLIQKTNPYLKCDVCCNIGLHGELGGIGTVLQSLTRMDEEITRCRNHTYTVEMYQKQSKA 322 S I+K N +L+ D CCN+ + L GI ++ L +M+E++ + RN +E + Q +A Sbjct: 256 SFIEKANRFLRSDACCNVSVSAALEGINKSIRDLLQMNEDMIKKRNQIMFLERHSLQ-EA 314 Query: 323 AYIPPDLAHLEELLNRNRLAAFLEEVSRYLKGLLVNRTVDTSILSLFRLDIVQLVYSFLK 382 AY PP L E LL N AAFLEE RYL+ L + S+L LFRLD+VQLVYS+LK Sbjct: 315 AYTPPPLQDWEALLAENNPAAFLEETRRYLQNLAKSGVHSASVLRLFRLDMVQLVYSYLK 374 Query: 383 MKGIQVHKLYSGKVNDRLQLHSLTSIEDMEEYLEYLVNTAMKYRDLTAQPKSVAEEIKQY 442 K IQ HKLY+GK ND+L L SL SIEDME+Y+ YLV TA +Y +V EEIK Y Sbjct: 375 GKEIQAHKLYTGKTNDQLFLQSLNSIEDMEKYMAYLVRTAAEYHAYAGHSHTVVEEIKHY 434 Query: 443 IHAHYGDELTRNDLAEIVYLNPDYLARLFKKETGVALGSYVIQVRIAAAKQLLETTRLSV 502 I HYG+ELTR LAEIV+LNPDYLAR+FKKETGV+LG+Y+IQ RI AAK LLE+T LSV Sbjct: 435 IGCHYGEELTRTTLAEIVFLNPDYLARVFKKETGVSLGTYIIQARIRAAKHLLESTPLSV 494 Query: 503 YTIANKVGYTNYSYFSKLFKQEVGLSPNEYKK 534 Y IA KVGY NYSYFSKLFKQ+ G +P++Y++ Sbjct: 495 YQIAAKVGYANYSYFSKLFKQDTGWAPSDYRR 526 >B1DGN1.1 B1DGN1_9BACL Two component transcriptional regulator, AraC family Length = 538 Score = 284 bits (727), Expect = 2e-74, Method: Compositional matrix adjust. Identities = 165/517 (31%), Positives = 274/517 (52%), Gaps = 9/517 (1%) Query: 26 MDWTALGIETVYTANNVAQAREIVENHSVQILISDIEMPQGSGLSLLAWIRDNDYPIQTI 85 +DW ++GI V TA N QA E+ V IL+ DIEMP+ SGL LL W+R + +TI Sbjct: 21 VDWPSIGISRVMTAYNADQAMEVFGRERVDILLCDIEMPKASGLQLLEWVRSHWSGTETI 80 Query: 86 LLTNYADFNYAQKAIELQSFEYFLKPIEFDKLMLIIQKAVARAKEQQHNEKAIQEGYYWQ 145 LT +ADF YA++AI+L S +Y LKPI +D+L +++KA+ + ++QH + Q G +W Sbjct: 81 FLTCHADFQYAKQAIQLGSLDYLLKPIPYDELKAVVEKAIRKMDKEQHMSEFSQFGKFWL 140 Query: 146 KNQAKNLEHFWRRMVXXXXXXPIRPSAITYAIKEQNLAYHMDDTLQPLLFNVFPFNGSMG 205 ++Q +E FW ++ P P AI A +E+N+ Y P+L V + Sbjct: 141 QHQPMLVERFWLDVLGQAI--PALPRAINTAAQERNIPYSDKLVFLPILLRVRRWYKEYS 198 Query: 206 KEEKDLFDFALLNILYE-LFRHPGFGIESILEIKDYHWIAILKWN-EIPDTGTLEEICAS 263 +K ++AL E + R G+ ++ D + +L E + L+ +C S Sbjct: 199 LRDKKTMEYALRKAAEEVMMRRQDSGL--LIATGDDAMLLVLNGGKEASEPAVLKALCES 256 Query: 264 LIQKTNPYLKCDVCCNIGLHGELGGIGTVLQSLTRMDEEITRCRNHTYTVEMYQKQSKAA 323 I Y CDV C +G + Q L RMD + N V + + A+ Sbjct: 257 YISACRDYFMCDVSCYVGEKVRGHEMAAAYQRLQRMDADNVASDN--CVVFLGDRTGTAS 314 Query: 324 -YIPPDLAHLEELLNRNRLAAFLEEVSRYLKGLLVNRTVDTSILSLFRLDIVQLVYSFLK 382 PD+ +L + E ++ + + +L+LF D Q+V+ L+ Sbjct: 315 PQTLPDMGMWGIMLKEGAREKVIAEAESFIGQQVDAGRLTPQLLALFIQDFQQMVHYVLQ 374 Query: 383 MKGIQVHKLYSGKVNDRLQLHSLTSIEDMEEYLEYLVNTAMKYRDLTAQPKSVAEEIKQY 442 +KGIQ H+L S ++ + S +D ++ ++V ++ Y + SV E+ K Y Sbjct: 375 IKGIQAHQLLSDSLSVERFARAGRSAKDALIWIRHIVGKSLDYMNSLEHSPSVVEQAKTY 434 Query: 443 IHAHYGDELTRNDLAEIVYLNPDYLARLFKKETGVALGSYVIQVRIAAAKQLLETTRLSV 502 IH H +E++R D+A VYLNPDYL R+FK+ETG+++ Y++Q R+ A +LL T L+V Sbjct: 435 IHQHLAEEISREDIASHVYLNPDYLTRIFKRETGMSISDYLLQQRLRIAAELLANTDLAV 494 Query: 503 YTIANKVGYTNYSYFSKLFKQEVGLSPNEYKKERHDQ 539 +A+++GY N+S+FS++FK+ +G++P EY++ + + Sbjct: 495 SAVASRIGYANFSHFSRIFKKYMGINPLEYRQSQESR 531 >B3KBX5.1 B3KBX5_9BACI Response regulator receiver Length = 539 Score = 259 bits (663), Expect = 4e-67, Method: Compositional matrix adjust. Identities = 159/513 (30%), Positives = 272/513 (53%), Gaps = 8/513 (1%) Query: 26 MDWTALGIETVYTANNVAQAREIVENHSVQILISDIEMPQGSGLSLLAWIRDNDYPIQTI 85 +DW +LGIE V+TA N QA+E+ E V +++ DIEMPQ SGL LLAW R+N +T+ Sbjct: 21 VDWQSLGIEAVFTAYNARQAKEVFEQERVDLILCDIEMPQESGLELLAWARNNYPQTETV 80 Query: 86 LLTNYADFNYAQKAIELQSFEYFLKPIEFDKLMLIIQKAVARAKEQQHNEKAIQEGYYWQ 145 +T +A+F AQ+A++L SF+Y LKPI D+L +I K V + Q ++ + G +W Sbjct: 81 FMTCHAEFKLAQRALKLGSFDYLLKPIPGDELQQVIGKVVEKIMRDQEVQQYSRIGQFWA 140 Query: 146 KNQAKNLEHFWRRMVXXXXXXPIRPSAITYAIKEQNLAYHMDDTLQPLLFNVFPFNGSMG 205 ++Q E W ++ P P I A +E+N+ + L P+L +V ++ + Sbjct: 141 RHQPLLAERLWLDVI--NHTIPSHPEHIQRAAEERNIPFDRRMRLLPILISVQRYHKTFS 198 Query: 206 KEEKDLFDFALLNILYELFRHPGFGIESILEIKDYHWIAILKWNEIPDT--GTLEEICAS 263 ++ + ++ALLN E+ G G+ + + + +A++ + ++ TL Sbjct: 199 PRDEKIIEYALLNSGEEILHVHGNGL--LFGLTEGTLLALIPFEREAESYKETLRNRSEE 256 Query: 264 LIQKTNPYLKCDVCCNIGLHGELGGIGTVLQSLTRMDEEITRCRNHTYTVEMYQKQSKAA 323 I + CDV IG + ++ L R D+ N + Q+ Sbjct: 257 FIASCTAWFYCDVSIYIGNAVYGHEVSEMVGQLVRWDKGNVTFTNKVFVWGSKQRIHDTI 316 Query: 324 YIPPDLAHLEELLNRNRLAAFLEEVSRYLKGLLVNRTVDTSILSLFRLDIVQLVYSFLKM 383 I PD+ +L + + E LK + L F + +Q+V+ LK+ Sbjct: 317 KI-PDMNAWSIMLKEGQGVQVVIEAEVVLKSWIGTEGPGAETLHRFHHNFLQMVFYVLKL 375 Query: 384 KGIQVHKLYSGKVNDRLQLHSLTSIEDMEEYLEYLVNTAMKYRDLTAQPKSVAEEIKQYI 443 KGI+ H L+ + ++RL ++ S+ DM ++ + VNTAM+ + S+ ++++Q+I Sbjct: 376 KGIEAHLLFENEASERLYQRAVRSVSDMILWVRHTVNTAMESMGTLQRTDSIIDKVEQFI 435 Query: 444 HAHY-GDELTRNDLAEIVYLNPDYLARLFKKETGVALGSYVIQVRIAAAKQLLETTRLSV 502 +EL+R +A VYLNPDYL RLFKKE G ++ Y+++ R+ AK LL T L + Sbjct: 436 QERIESEELSRETVANHVYLNPDYLDRLFKKEAGASVTEYIMRKRLDLAKDLLLKTNLPI 495 Query: 503 YTIANKVGYTNYSYFSKLFKQEVGLSPNEYKKE 535 IA++ GY+N+++FS+ FK++ G+SP +Y+K+ Sbjct: 496 GAIASQTGYSNFAHFSRRFKKQFGMSPADYRKQ 528 >B1D5V7.1 B1D5V7_9BACL Two component transcriptional regulator, AraC family Length = 534 Score = 243 bits (621), Expect = 3e-62, Method: Compositional matrix adjust. Identities = 154/525 (29%), Positives = 276/525 (52%), Gaps = 37/525 (7%) Query: 27 DWTALGIETVYTANNVAQAREIVENHSVQILISDIEMPQGSGLSLLAWIRDNDYPIQTIL 86 DW+ LGI+ V+TAN+ AR+I++ H + IL+ DIEMP GLSL+ W++++ +++ Sbjct: 22 DWSTLGIKAVFTANHADAARQIMKEHRIDILVCDIEMPDEDGLSLVRWVKEHSPHTESLF 81 Query: 87 LTNYADFNYAQKAIELQSFEYFLKPIEFDKLM----LIIQKAVARAKEQQHNEKAIQEGY 142 LT +++F YA++A+ L SF+Y LKP++ ++L+ L++Q + + QH+ + + Sbjct: 82 LTCHSEFTYAKQAVNLGSFDYLLKPVDGEELVQAVSLMLQAVREKEESVQHHAEYRKYAE 141 Query: 143 YWQKNQAKNLEHFWRRMVXXXXXXPIRPSAITYAIKEQNLAYHMDDTLQPLLFNVFPFNG 202 W+K Q E FW+ ++ + +K+ + D + P+L ++ ++ Sbjct: 142 LWRKQQPLLTERFWQDLLSRRQLS--FGDFLERGLKDAQIELQADGRVMPILISIEEWHK 199 Query: 203 SMGKEEKDLFDFALLNILYELFRHPGFGIESILEIKDYHWIAILKWNEIPDTGTLEEICA 262 + ++++ ++A+ ELF PG + I + + I G+ E Sbjct: 200 PLDARDQEIMEYAVKKAAGELFL-PGCAGDVITDRSGVMFAMIYTAGAARSAGSWTETAK 258 Query: 263 SLIQKTNPYLKCDVCCNIGLHGELGGIGTVLQSLTRMDEEITRCRNHTYTVEMY--QKQS 320 I+ Y C + C IG L + + + L D+E + + +V MY Q + Sbjct: 259 RFIEVCRTYFYCQITCYIGKFVSLQEVSGLCEGLK--DKERHNVKE-SQSVIMYVPQGGA 315 Query: 321 KAAYIPPDLAHLEE----LLNRNRLAAFLEEVSRYLKGLLVNRTVDT--------SILSL 368 A + PD ++ E +LN+ R L+NR+VD + L Sbjct: 316 SAPLLVPDNINVTEWSSYMLNKERDKVIS----------LINRSVDKLEAGQIHQNQLET 365 Query: 369 FRLDIVQLVYSFLKMKGIQVHKLYSGKVNDRLQLHSLTSIEDMEEYLEYLVNTAMKYRDL 428 F LD +Q+VY F+ +KGI ++ + + Q+ SL+ + E +V+ M Sbjct: 366 FHLDTLQVVYGFMHVKGINPSQVPNFPLWASAQIRSLSQ---YRHWAENIVSAVMDAAFT 422 Query: 429 TAQPKSVAEEIKQYIHAHYGDELTRNDLAEIVYLNPDYLARLFKKETGVALGSYVIQVRI 488 + SV ++ QYI + ++++R D+A V LNP YL+RLFKKETG L Y+I+ ++ Sbjct: 423 ALESDSVVQKSVQYIKENVEEDISREDVAAHVGLNPAYLSRLFKKETGQNLIDYLIETKM 482 Query: 489 AAAKQLLETTRLSVYTIANKVGYTNYSYFSKLFKQEVGLSPNEYK 533 A A+QLL+TT ++V IA +VGY+N+S+F+K+FK++ G++P EY+ Sbjct: 483 ARARQLLDTTGMTVSAIAQQVGYSNFSHFTKMFKKQYGINPQEYR 527 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 0.320 0.136 0.396 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: 3,056,617,369 Number of extensions: 121277363 Number of successful extensions: 378810 Number of sequences better than 1.0e-05: 5483 Number of HSP's gapped: 380046 Number of HSP's successfully gapped: 5988 Length of query: 550 Length of database: 3,060,696,203 Length adjustment: 141 Effective length of query: 409 Effective length of database: 1,732,333,088 Effective search space: 708524232992 Effective search space used: 708524232992 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)