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= 0284.0002.p (539 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B3KAH7.1 B3KAH7_9BACI Response regulator receiver 628 e-178 Q9KDT8.1 Q9KDT8_BACHD BH1123 protein 365 8e-99 A9U7E9.1 A9U7E9_PHYPA Predicted protein 290 3e-76 B1D595.1 B1D595_9BACL Two component transcriptional regulator, A... 202 7e-50 B8I997.1 B8I997_CLOCE Two component transcriptional regulator, A... 201 2e-49 >B3KAH7.1 B3KAH7_9BACI Response regulator receiver Length = 540 Score = 628 bits (1619), Expect = e-178, Method: Compositional matrix adjust. Identities = 304/544 (55%), Positives = 395/544 (72%), Gaps = 10/544 (1%) Query: 1 MWKIAIIDDERQVLKGMKGAIPWDELGAEWVGEAMNGEDGLEVIRRTQPDIVITDLYMPV 60 MWKI I+DD+R VL+G++ AIPWDEL AEW GEA+NGE+GLE+I PDIVITDLYMPV Sbjct: 1 MWKIGIVDDDRAVLQGIRKAIPWDELNAEWAGEALNGEEGLEMIESANPDIVITDLYMPV 60 Query: 61 MSGLDMMEQLRKE-GFQGKIIILSGYSDFEHARAALRFHVTDYVSKPISLPTLKSILSNV 119 M+GLDM+EQLRK G+ GK+IILSGYSDFE+AR ALR +V+DY+SKPISLPTLKS+L+ Sbjct: 61 MNGLDMIEQLRKNTGYSGKVIILSGYSDFEYARQALRLNVSDYLSKPISLPTLKSVLNEA 120 Query: 120 VXXXXXXXXXXXXXXXXXFKITLYEPFVEKEWVRSAAVGTLDHAYKDSTRLPPSYLYWQE 179 + K+ LYEPFVEKEWV+SAA G L H+ T +P Y YW + Sbjct: 121 ISDLEEQEEQRMKQDELLQKLQLYEPFVEKEWVKSAAAGALLHS-GLQTEIPEPYRYWSD 179 Query: 180 RKHVTVGIELIRDERARCLSVSDWNLFRFAVSNIACEVARKLFPEMEYTELHSTRALLII 239 H VGIELI D+RA LS+ DW+L RFA+SN+ CE+ + FP ++T+LH+ R+++II Sbjct: 180 FDHTVVGIELIYDQRAANLSLPDWSLLRFAISNMVCEITQAAFPRFDHTDLHTNRSVVII 239 Query: 240 HPG-SGHPEQLEGKLEELGIRLNESIGGYLKLVTRIGIGGVKDTWTKLSDSTEEAFRAMD 298 H + E++ +LE+LG+RL + + YLKL RIGIG K + ++ STEEAFRA+D Sbjct: 240 HHDRTESAERVRQQLEQLGVRLIDCVQNYLKLKLRIGIGDRKSSIREIGISTEEAFRAID 299 Query: 299 QRALRVASAHEVYMYRENSSSEPGNV----ALFPVKFSYKLATAMKASQEAEAHQLVLDY 354 +E+Y Y + EPGN + PVK +LA +++ SQE +A ++ DY Sbjct: 300 VNTQPAVPEYELYFY---CAQEPGNAEAKSPVRPVKLYLELAGSIRTSQEHQAQTIIRDY 356 Query: 355 ITEMNKQEGLSQGYVQMLGSELWGIITYSLYESGLVLDDLFTNDQIAKEISSLIVPDQLA 414 + + +QEG+++ YV ML ELWGII ++ YE+G V+DD F ND I E++ L P +LA Sbjct: 357 MKRLEQQEGITKPYVSMLAGELWGIIAFAFYETGTVVDDFFPNDSITHEMAKLQRPYELA 416 Query: 415 RWLMDKITRICSSRQWKGSSKHRQVVDFMTSYIHEHYAEELTLAELSDKVFISRNHLSII 474 WL+ KI + SR+W G+ KHRQ VDFM YIHEHYAE+LTL L+DKV+ISRN+LS+I Sbjct: 417 EWLITKIGLVFGSREWGGNGKHRQAVDFMIEYIHEHYAEDLTLGGLADKVYISRNYLSMI 476 Query: 475 FKNITGETFNNYLTRVRIEKARELLMERNMLVYEVAERVGYKNIPYFSTLFKKITGMNPT 534 FKN+TGETFNNYLTRVR+EKARELLME+N LVY+VAE+VGYKN+PYFST+FKK TGMNPT Sbjct: 477 FKNMTGETFNNYLTRVRVEKARELLMEKNALVYQVAEQVGYKNVPYFSTVFKKFTGMNPT 536 Query: 535 ELIK 538 EL+K Sbjct: 537 ELVK 540 >Q9KDT8.1 Q9KDT8_BACHD BH1123 protein Length = 526 Score = 365 bits (936), Expect = 8e-99, Method: Compositional matrix adjust. Identities = 197/545 (36%), Positives = 323/545 (59%), Gaps = 28/545 (5%) Query: 1 MWKIAIIDDERQVLKGMKGAIPWDELGAEWVGEAMNGEDGLEVIRRTQPDIVITDLYMPV 60 MWK+ IIDDE V++G+K I W LG E VGEA NG GL+++R T P IV+TD+YMP+ Sbjct: 1 MWKVVIIDDEEHVVRGLKKIISWKALGCECVGEAANGRRGLDIVRETSPHIVLTDIYMPI 60 Query: 61 MSGLDMMEQLRKEGFQGKIIILSGYSDFEHARAALRFHVTDYVSKPISLPTLKSILSNVV 120 M GLDM++ LR++GF G+++ILSGYS+FEHAR A++ ++TDY+SKP S+ T++++L V+ Sbjct: 61 MYGLDMIQILREDGFDGEVVILSGYSEFEHARKAMQLNITDYLSKPASVDTIETVLKRVI 120 Query: 121 XXXXXXXXXXXXXXXXXFKITLYEPFVEKEWVRSAAVGTLDHAYKDSTRLPPSYLY---- 176 K+ YEP VE EW++S G L + +P +L Sbjct: 121 NKLEEKQRQQGYLQELTNKVKRYEPLVETEWMKSLLTGRLRNG-----EIPEEFLAKITK 175 Query: 177 WQERKHVTVGIELIRDERARCLSVSDWNLFRFAVSNIACEVARKLFPEMEYTELHSTRAL 236 W++++H+ + + + L +DW LFR++V + EV + Y E+ + R+ Sbjct: 176 WKDQQHIACSLTY-DGPQNKELKPADWYLFRYSVHKMIREVLNGYPIDFRYLEMDAYRSA 234 Query: 237 LIIHPGSGHPEQ-LEGKLEELGIRLNESIGGYLKLVTRIGIGGVKDTWTKLSDSTEEAFR 295 L +H E L L E+ ++ + I + T + G VK+ WT LS+S EA Sbjct: 235 LCLHVNKSVSEPVLSCMLMEIKDQVEQGIYSSFNVKTTVHYGRVKEDWTDLSESFHEA-- 292 Query: 296 AMDQRALRVASAHEVYMYRENSSSEPGNVALFPVKFSYKLATAMKASQEAEAHQLVLDYI 355 M+ ++ + + + E G A FP++ S KL A++ + A +++ + + Sbjct: 293 CMESQSFPLGNPY-----------EDGTRATFPMESSQKLYDAIRYADATRAKEVLEEAV 341 Query: 356 TEMNK-QEGLSQGYVQMLGSELWGIITYSLYESGLVLDDLFTND-QIAKEISSLIVPDQL 413 + + GY +G E+W IITYSLY+ G+++ ++F D +A+ ++ + Sbjct: 342 GVLGEVPYSTLVGY--KVGIEIWTIITYSLYDIGILIQEMFDEDFDLAQHLTKQGNWQEW 399 Query: 414 ARWLMDKITRICSSRQWKGSSKHRQVVDFMTSYIHEHYAEELTLAELSDKVFISRNHLSI 473 R+L ++I IC +QW + KH+Q+++ + YI +H AE +TL +++D+++ISRN+L Sbjct: 400 IRFLCEQIEHICYHQQWDENIKHKQLIEQVMIYIEKHLAENITLQDIADELYISRNYLGQ 459 Query: 474 IFKNITGETFNNYLTRVRIEKARELLMERNMLVYEVAERVGYKNIPYFSTLFKKITGMNP 533 IFK + GE+F NY+TR+R+EKA++++ E N L+YEV+E+VGY N YF+T+FKK TG P Sbjct: 460 IFKKVVGESFKNYVTRLRMEKAKKMIQEGNFLIYEVSEKVGYVNPAYFTTMFKKYTGYTP 519 Query: 534 TELIK 538 +LI+ Sbjct: 520 RDLIQ 524 >A9U7E9.1 A9U7E9_PHYPA Predicted protein Length = 399 Score = 290 bits (742), Expect = 3e-76, Method: Compositional matrix adjust. Identities = 157/404 (38%), Positives = 242/404 (59%), Gaps = 16/404 (3%) Query: 143 YEPFVEKEWVRSAAVGTLDHAYKDSTRLPPSYLY-------WQERKHVTVGIELIRDERA 195 YEP++E+EWV+SA G T PP+ Y W+ + + + +E+ R R Sbjct: 3 YEPYLEREWVKSALTG--------GTFSPPTGPYRMLDRLGWKGAQFMMLALEIKRQGRT 54 Query: 196 RCLSVSDWNLFRFAVSNIACEVARKLFPEMEYTELHSTR-ALLIIHPGSGHPEQLEGKLE 254 +S DW+LFRFAV N E+AR+ + ELHS LL+ P S E ++ Sbjct: 55 EGISARDWHLFRFAVGNTVEELARQDGLRSYFLELHSHHMTLLLYKPLSWPAEAFRSEVL 114 Query: 255 ELGIRLNESIGGYLKLVTRIGIGGVKDTWTKLSDSTEEAFRAMDQRALRVASAHEVYMYR 314 L R+ ES+ YL++ RIG G KD WT ++DSTEEAF+A+ +R A+ VY+Y Sbjct: 115 ALAGRIIESVDRYLQVKLRIGAGLRKDDWTAIADSTEEAFQALAERREPDANHPCVYVYT 174 Query: 315 ENSSSEPGNVALFPVKFSYKLATAMKASQEAEAHQLVLDYITEMNKQEGLSQGYVQMLGS 374 E P + PV+F ++A A++ E A + D+ + + LS G + LG+ Sbjct: 175 EAGFRHPAARNVRPVRFFQEMADAVRTFDEPRALLALEDFASSDSGVAQLSPGELAALGT 234 Query: 375 ELWGIITYSLYESGLVLDDLFTNDQIAKEISSLIVPDQLARWLMDKITRICSSRQWKGSS 434 +L I++++LY+SG LDD ++KE+ + Q W+ +K+ RIC + Sbjct: 235 QLIAILSFTLYDSGHKLDDELPPADLSKELGLIENAQQWKAWVAEKVKRICRRFTPNENL 294 Query: 435 KHRQVVDFMTSYIHEHYAEELTLAELSDKVFISRNHLSIIFKNITGETFNNYLTRVRIEK 494 KH++ V+F+ YIHEHYAE + L +++D+V+IS+N+LS +F+ TGETF +YLTRVR+EK Sbjct: 295 KHKETVEFIIQYIHEHYAENIHLQDVADQVYISKNYLSTLFRQFTGETFGDYLTRVRMEK 354 Query: 495 ARELLMERNMLVYEVAERVGYKNIPYFSTLFKKITGMNPTELIK 538 A+ +++E+ +L+ E+AERVGY+N+PYF+TLFKK TG +PTE + Sbjct: 355 AKSMVLEKKLLIAEIAERVGYRNVPYFTTLFKKHTGRSPTEFYR 398 >B1D595.1 B1D595_9BACL Two component transcriptional regulator, AraC family Length = 421 Score = 202 bits (514), Expect = 7e-50, Method: Compositional matrix adjust. Identities = 106/311 (34%), Positives = 173/311 (55%), Gaps = 10/311 (3%) Query: 1 MWKIAIIDDERQVLKGMKGAIPWDELGAEWVGEAMNGEDGLEVIRRTQPDIVITDLYMPV 60 MWKI IIDD+ QV++G++ AIPW+EL AE+ G+A++GE GL++I PDIV+TD+YMP Sbjct: 1 MWKIVIIDDDFQVVRGLRKAIPWEELDAEFAGDAIDGEAGLKLIEEVNPDIVLTDIYMPE 60 Query: 61 MSGLDMMEQLRKEGFQGKIIILSGYSDFEHARAALRFHVTDYVSKPISLPTLKSILSNVV 120 M+G+ M+E L+ + F G+ +ILSGY+DFE+AR ALR V DY++KP+++ ++ +L+ + Sbjct: 61 MNGIQMIEALKHQSFTGRFVILSGYNDFEYARTALRLGVDDYLTKPVTVDQIRQVLAETI 120 Query: 121 XXXXXXXXXXXXXXXXXFKITLYEP-FVEKEWVRSAAVGTLDHAYKDSTRLPPSYLYWQE 179 EP + K W + ++ + LP + W++ Sbjct: 121 HKLEETYLQRLEQTE--------EPSYPAKNWRQEEWTASILNGLTQPEELPAALSEWRD 172 Query: 180 RKHVTVGIELIRDERARCLSVSDWNLFRFAVSNIACEVARKLFPEMEYTELHSTRALLII 239 ++ + +E+ ER R +S++DWNLFRFAV+NI+ EV + + L A +++ Sbjct: 173 KQFTVMVLEVAWTERTRNISIADWNLFRFAVANISEEVLLGEWRTASFVWLFGNYAAVLL 232 Query: 240 HPGSGHPE-QLEGKLEELGIRLNESIGGYLKLVTRIGIGGVKDTWTKLSDSTEEAFRAMD 298 G E LG + + Y+ L R G+G KD+W ++ S +EA + + Sbjct: 233 RSEPGTDALHTASAAERLGGLIINYLKSYIGLDARFGLGRTKDSWQEIKASCDEALQGLL 292 Query: 299 QRALRVASAHE 309 + R A E Sbjct: 293 EDPDREQQAEE 303 Score = 138 bits (348), Expect = 1e-30, Method: Compositional matrix adjust. Identities = 59/105 (56%), Positives = 85/105 (80%) Query: 435 KHRQVVDFMTSYIHEHYAEELTLAELSDKVFISRNHLSIIFKNITGETFNNYLTRVRIEK 494 KHR+ V +M Y+H HYAE++TL +L+ +++IS+N+L+ +FK +TGETF NY+ RVRIEK Sbjct: 317 KHRKAVQYMIEYVHTHYAEDITLEQLASQLYISKNYLNQLFKKVTGETFTNYVIRVRIEK 376 Query: 495 ARELLMERNMLVYEVAERVGYKNIPYFSTLFKKITGMNPTELIKN 539 A+ LL+E L+YEV+E VGY+N+PYF+TLFKK G+ P+EL+K Sbjct: 377 AKVLLLEGKHLIYEVSEMVGYQNVPYFTTLFKKYCGVTPSELMKQ 421 >B8I997.1 B8I997_CLOCE Two component transcriptional regulator, AraC family Length = 542 Score = 201 bits (510), Expect = 2e-49, Method: Compositional matrix adjust. Identities = 145/552 (26%), Positives = 271/552 (49%), Gaps = 27/552 (4%) Query: 1 MWKIAIIDDERQVLKGMKGAIPWDELGAEWVGEAMNGEDGLEVIRRTQPDIVITDLYMPV 60 M KI IIDDE + +K +IPW E G E GEA NG+D LE + PDI+I D+ MP+ Sbjct: 1 MLKIMIIDDEFYFREALKVSIPWKEYGFEICGEAKNGKDALERVADLNPDIMIVDINMPI 60 Query: 61 MSGLDMMEQLRKEGFQGKIIILSGYSDFEHARAALRFHVTDYVSKPISLPTLKSILSNVV 120 + GL+ ++ ++++G + K IIL+G+S+F +A+ A++ V +Y+ KP++ LKS L + Sbjct: 61 IDGLEFIQSVKEKGIESKFIILTGHSEFNYAKQAVQLGVNNYILKPVNEEELKSSLFEIK 120 Query: 121 XXXXXXXXXXXXXXXXXFKITLYEPFVEKEWVRSAAVGTLDHAYKDSTRLPPSYLYWQER 180 ++ P ++ +++ G+L +P ++ Sbjct: 121 EVISKERNVKFEFEGLKQQVRDSLPLLKDKFLNELIQGSL---------IPKENETLKKM 171 Query: 181 KHVTVGIE----LIRDERARCLSVSDWN-----LFRFAVSNIACEV-ARKLFPEMEYTEL 230 +++ + I L+ C + W+ L++FAVSNI+ E+ K ++ Y ++ Sbjct: 172 EYLKININSDYYLVITIELDCDESTGWDNEEKQLWKFAVSNISSEIMGEKFIFDICY-DI 230 Query: 231 HSTRALLIIHPGSGHPEQLEGKLEELGIRLNESIGGYLKLVTRIGIGGVKDTWTKLSDST 290 +++ G+ + LE + +I +L +G+G K + S Sbjct: 231 DDRICIIVGIDGAQNIGDFLTLLESRLELIRSAICKHLDFTVTMGVGSEKTELFDIPISY 290 Query: 291 EEAFRAMDQRALRVASAHEVYMYRENSSSEPGNVALFPVKFSYKLATAMKASQEAEAHQL 350 +E+ A+ + + + +Y + S A F ++ KL ++ + E E ++L Sbjct: 291 KESIIALKNKL--TLGKNRIILYSLVAESGIKGTA-FSGEYRNKLLMNIRTADEEEVNKL 347 Query: 351 VLDYITEMNKQEGLSQGYVQMLGSELWGIITYSLYESGLVLDDLFTND--QIAKEISSLI 408 + + + E + + ++ E+ ++ E GL ++D+ T + I +EI S Sbjct: 348 ISQIFMRV-RGENIHHQILFVVCIEMVAACMEAIVEMGLHIEDIITGNSFNIIEEIQSKK 406 Query: 409 VPDQLARWLMDKITRICSSRQWKGSSKHRQVVDFMTSYIHEHY-AEELTLAELSDKVFIS 467 D++ W+ D + + SK ++++ + +YI +Y + EL++ E++ +F++ Sbjct: 407 SIDEMENWIKDIFKHTLETIKRNKISKASRLIEEVKNYISSNYQSSELSIDEIARNLFVN 466 Query: 468 RNHLSIIFKNITGETFNNYLTRVRIEKARELLMERNMLVYEVAERVGYKNIPYFSTLFKK 527 HL IFK TG T N YLT RI+KA+EL N L+ +VA +VGY + YF FKK Sbjct: 467 YAHLCFIFKRDTGFTINEYLTEFRIKKAKELFDSGNTLILDVASKVGYADASYFGKCFKK 526 Query: 528 ITGMNPTELIKN 539 G+ P++ I+N Sbjct: 527 YYGLAPSKFIEN 538 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 0.319 0.135 0.395 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: 3,011,851,128 Number of extensions: 118195834 Number of successful extensions: 389451 Number of sequences better than 1.0e-05: 6850 Number of HSP's gapped: 399025 Number of HSP's successfully gapped: 7522 Length of query: 539 Length of database: 3,060,696,203 Length adjustment: 141 Effective length of query: 398 Effective length of database: 1,732,333,088 Effective search space: 689468569024 Effective search space used: 689468569024 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)