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= 0377.0027.p (778 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B3KH98.1 B3KH98_9BACI Helix-turn-helix-domain containing protein... 812 0.0 B3K7Y6.1 B3K7Y6_9BACI Helix-turn-helix-domain containing protein... 698 0.0 B1D742.1 B1D742_9BACL Transcriptional regulator, AraC family 598 e-169 A9U8E0.1 A9U8E0_PHYPA Predicted protein (Fragment) 252 1e-64 B3KH97.1 B3KH97_9BACI Putative uncharacterized protein 220 4e-55 >B3KH98.1 B3KH98_9BACI Helix-turn-helix-domain containing protein AraC type Length = 602 Score = 812 bits (2098), Expect = 0.0, Method: Compositional matrix adjust. Identities = 390/599 (65%), Positives = 472/599 (78%), Gaps = 2/599 (0%) Query: 174 LVRPAESVTVN-SRKEPMLAMLVPVKPNDPFPYGTVLYLMKESKLTGVMDSILSDFSGSS 232 ++RPAE+VT+N SR+E ML ++VP+KPN P+PYG+V+Y++KES LTGVMDSILSDF+GSS Sbjct: 2 VIRPAENVTINNSRQETMLTIIVPIKPNAPYPYGSVVYMVKESNLTGVMDSILSDFTGSS 61 Query: 233 YIFGAGGEVLTANSHGVSLPREELSTLSALEPGIHNLVLDGEQYSVVSVQSDENGWTYVT 292 YI EVLTA++HGV+L +E L TL+AL+ GIHNL L+ ++YSVVSV+S ENGW Y+T Sbjct: 62 YILNPDDEVLTASNHGVTLSQEHLGTLAALDAGIHNLSLNNDKYSVVSVKSGENGWNYMT 121 Query: 293 TMPSYQFFSRVAHVQTLILIVFCITVVTGIAAALLLAKRQYHPIKDLMEFARLGSSGNDA 352 MPSYQFFSRVAHVQTLIL+VF I V+TG+ AA +LA+RQYHPIKDLMEFA+L S Sbjct: 122 IMPSYQFFSRVAHVQTLILLVFGIAVITGVLAAFVLARRQYHPIKDLMEFAKLRVSDTPE 181 Query: 353 LKTRNEWEWIRQTLHDYSARIDLQEPFVRNQCMLLLLKHGKPDDPEIEQMILSAGFRHPQ 412 KTRNEWEWIRQTLHDYS RID+QEPFVRNQCMLLLLKHGKPDDPEIE+MI G PQ Sbjct: 182 PKTRNEWEWIRQTLHDYSTRIDMQEPFVRNQCMLLLLKHGKPDDPEIERMIAEVGLESPQ 241 Query: 413 EQGLYFSAILSWDDAAPGGKPWHERHLLQEILSNLCLPGPDAQIFGVEFSAKDQFALIIS 472 EQ +YF ILSW++ + +R + EILS++ G A I+GVEFSA +QFALI+S Sbjct: 242 EQVIYFCVILSWEENDAAEELQKDRQQVHEILSHVEPSGLQATIYGVEFSADNQFALIVS 301 Query: 473 LPGHEAGSVQSRMEQVVEAIQTVIRDHSQLVPNIGVGMAYRDLARVNQSFIEAAAALEHR 532 LP S++ RMEQ++ +Q +I ++++L P++GVG YRDL ++NQSFIEAA ALEHR Sbjct: 302 LPDPGQDSLKLRMEQIIRTVQGLISENTRLDPSMGVGTPYRDLGQLNQSFIEAATALEHR 361 Query: 533 MIRRSGYVTYFEQLAERNAPAADNFWIPRKSMLKLEQSLKQGNESVAVQMIADTIDTIKD 592 M+ S +TYF+QLAE+N P A W+PRKS+LKLEQSLKQGNESVAVQMIA+ ++TI+ Sbjct: 362 MV-GSSRITYFDQLAEQNHPVAKGVWLPRKSLLKLEQSLKQGNESVAVQMIAEMMETIRS 420 Query: 593 EPLQIHLLRCICFDLLNAFLRIASELGMDGVFADMPGXXXXXXXXXXXXXXXXXXXXICG 652 EPLQIHLLRCICFDLLNA LR ASE+GM+ F+ + +C Sbjct: 421 EPLQIHLLRCICFDLLNALLRSASEVGMNEAFSSISDYTSFETLEEFEDKLLSLTTEVCE 480 Query: 653 QVERNTETGESSLMDDILAYVDQQFADYTLSLEHVALKFAISTSYLSRSFKEKTGTNFSQ 712 +VERN E L+DDI+ YV+QQFADYTLSLEHVALKF++STSYLSRSFKEKTG +FSQ Sbjct: 481 KVERNHEQAAPKLIDDIVHYVNQQFADYTLSLEHVALKFSVSTSYLSRSFKEKTGISFSQ 540 Query: 713 YIWQRRVDEVIRLLENTSAPLKEIIEQVGYLDAPNFIRKFKKETGLTPGQYRKDHSLKR 771 YIW+RR +EVIRLL TSAPLKEIIEQVGYLDAPNFIRKFKKETGLTPGQYRK H R Sbjct: 541 YIWKRRTEEVIRLLVTTSAPLKEIIEQVGYLDAPNFIRKFKKETGLTPGQYRKQHRSNR 599 >B3K7Y6.1 B3K7Y6_9BACI Helix-turn-helix-domain containing protein AraC type Length = 765 Score = 698 bits (1802), Expect = 0.0, Method: Compositional matrix adjust. Identities = 378/759 (49%), Positives = 501/759 (66%), Gaps = 16/759 (2%) Query: 16 LNWNHFKSKLLLKYAFSYILMFLIPLTGVTIFVYENAVKGLRVEIEQSNVNQLNQVKSTI 75 + WNHFKSKLLLKY SYI +FLIPL +TI +Y NAV LR EIEQ+NVNQL Q K+ I Sbjct: 1 MKWNHFKSKLLLKYTLSYISIFLIPLVILTIIIYHNAVDTLRSEIEQTNVNQLTQAKTVI 60 Query: 76 DARMTELQEISGRIAYDKHLTPYMVRHPYYSLEAIQALANYKASSSIVEDLFLYFHDDAN 135 D RM ELQ+I+ RIAYD+ LT Y HPYYS E+I AL YKA+SSI+++LFL+F D + Sbjct: 61 DERMKELQDIAFRIAYDEQLTRYWTHHPYYSRESIGALVKYKATSSIIDELFLFFRGDNS 120 Query: 136 IYSYRGLADLHVTFDTLYQFEHWTPEDLRQALNETRQPLVRPAESVTVNSRKE-PMLAML 194 IYS +G +L+V F Y+F W ++ + LN + P +RPAE V ++ + MLA L Sbjct: 121 IYSSQGFENLNV-FTDRYKFNSWNETEMVRDLNSVQIPTMRPAEQVVQGTKTQNSMLAYL 179 Query: 195 VPVKPNDPFPYGTVLYLMKESKLTGVMDSILSDFSGSSYIFGAGGEVLTANSHGVSLPRE 254 VP+ PN+ +GTV+Y + ES LTG++DSILSD+ G +YIF G+VL AN G ++ + Sbjct: 180 VPIAPNNTPAHGTVMYFIHESNLTGLIDSILSDYHGMTYIFDNYGQVLAANYKGETITEQ 239 Query: 255 ELSTLSALEPGIHNLVLDGEQYSVVSVQSDENGWTYVTTMPSYQFFSRVAHVQTLILIVF 314 E++ L +LEPG H+L L+ E +SVVSV+SD GWTYVT MPS QFF R+ H++T I++VF Sbjct: 240 EVNALFSLEPGTHSLSLNQEPHSVVSVKSD-TGWTYVTAMPSNQFFGRIVHIRTFIVLVF 298 Query: 315 CITVVTGIAAALLLAKRQYHPIKDLMEFARLGSSGNDALKTRNEWEWIRQTLHDYSARID 374 V+ G A++LA+RQYHPI DLMEF RL + + + NE EWI++TLHDYS R+D Sbjct: 299 SFVVMMGTILAIMLARRQYHPISDLMEFIRLKNDPEPSTPS-NELEWIKKTLHDYSQRVD 357 Query: 375 LQEPFVRNQCMLLLLKHGKPDDPEIEQMILSAGFRHPQEQGLYFSAILSWDDAA--PGGK 432 LQEP+ RN +L+LLKHG + E G R + YF + W+ A G Sbjct: 358 LQEPYARNHILLMLLKHGHTGEFPAE-YTEKLGIRFSRSH--YFVVTMGWESHALPIGDN 414 Query: 433 PWHERHLLQEILSNLCLPGPDAQIFGVEFSAKDQFALIISL---PGHEAGSVQSRMEQVV 489 P ER + ++++++ L A +GVE DQ ALI+ GHEA S+ +RME + Sbjct: 415 P--ERRPVMQLMNDVELTAFSAYAYGVELPQPDQLALIVGFDAETGHEA-SLNARMEPIA 471 Query: 490 EAIQTVIRDHSQLVPNIGVGMAYRDLARVNQSFIEAAAALEHRMIRRSGYVTYFEQLAER 549 A+Q++ +H+ + P IGVG Y ++NQSFIEA ALE M+ G T+F L+ Sbjct: 472 LALQSIAAEHTGVSPAIGVGNRYSYPEQLNQSFIEATTALEASMLHGQGSSTFFNALSGS 531 Query: 550 NAPAADNFWIPRKSMLKLEQSLKQGNESVAVQMIADTIDTIKDEPLQIHLLRCICFDLLN 609 A + +FW+P+ +LKL QSLKQG+ VAVQM++ ++ +K E + LLRCICFD+LN Sbjct: 532 GAQDS-SFWVPKDVLLKLVQSLKQGSYDVAVQMVSTALNNLKAEMPSVPLLRCICFDILN 590 Query: 610 AFLRIASELGMDGVFADMPGXXXXXXXXXXXXXXXXXXXXICGQVERNTETGESSLMDDI 669 L+ ASELG+ V +P IC VE +ET ESSLMD+I Sbjct: 591 TMLKTASELGIHHVVNQLPRVTSYDSLEDLEKKLAGLAAEICAHVEAKSETEESSLMDEI 650 Query: 670 LAYVDQQFADYTLSLEHVALKFAISTSYLSRSFKEKTGTNFSQYIWQRRVDEVIRLLENT 729 +AY+D F DY LSL ++ KF+IS+SY SRSFKEK G NF+QYIWQ+R+DEVIR L +T Sbjct: 651 VAYIDGNFTDYDLSLGTISSKFSISSSYFSRSFKEKIGMNFTQYIWQKRMDEVIRQLLHT 710 Query: 730 SAPLKEIIEQVGYLDAPNFIRKFKKETGLTPGQYRKDHS 768 S PLK+II +VGYLD PNFIRKFKKETG TPGQYRK HS Sbjct: 711 SDPLKDIITRVGYLDTPNFIRKFKKETGYTPGQYRKMHS 749 >B1D742.1 B1D742_9BACL Transcriptional regulator, AraC family Length = 752 Score = 598 bits (1541), Expect = e-169, Method: Compositional matrix adjust. Identities = 337/761 (44%), Positives = 479/761 (62%), Gaps = 26/761 (3%) Query: 16 LNWNHFKSKLLLKYAFSYILMFLIPLTGVTIFVYENAVKGLRVEIEQSNVNQLNQVKSTI 75 +N N+FKSKL LKY +SY+ + LIPL +IF+YENA LR EIE+S+++QL Q ++ I Sbjct: 1 MNRNYFKSKLFLKYTWSYLFILLIPLIFTSIFIYENASHRLRSEIERSHLDQLTQAETII 60 Query: 76 DARMTELQEISGRIAYDKHLTPYMVRHPYYSLEAIQALANYKASSSIVEDLFLYFHDDAN 135 D RM EL EI+ RI+YD L Y+V P +S EAI+AL YKA+SSI+ +L+LYFH D Sbjct: 61 DGRMKELSEIAVRISYDHRLASYLVHDPIHSGEAIEALDQYKATSSIIGELYLYFHKDDR 120 Query: 136 IYSYRGLADLHVTFDTLYQFEHWTPEDLRQALNETRQPLVRPAESVTVNS-RKEPMLAML 194 IYS G+ V F + F++W + Q LN+ + P +RPA+ + +S RK+ MLA L Sbjct: 121 IYSSEGMNHFDV-FTSNLLFQNWDKNAVYQDLNDVKFPTMRPADIASNSSGRKQSMLAYL 179 Query: 195 VPVKPNDPFPYGTVLYLMKESKLTGVMDSILSDFSGSSYIFGAGGEVLTANSHGVSLPRE 254 +P+KPN+P PYGTV+YL+++S+LT ++DSIL ++ G SYI G++L N G +L Sbjct: 180 IPIKPNNPNPYGTVMYLIQKSELTSLIDSILGNYQGQSYILDNQGQILVDNLQGETLSDT 239 Query: 255 ELSTL-SALEPGIHNLVLDGEQYSVVSVQSDENGWTYVTTMPSYQFFSRVAHVQTLILIV 313 + +L L PGI VL+G+++S+VSVQS NGWTYVT MPS QFFS V HV++ I+++ Sbjct: 240 DTRSLFGHLAPGIQKHVLNGKEHSIVSVQSPVNGWTYVTIMPSEQFFSSVLHVRSFIIML 299 Query: 314 FCITVVTGIAAALLLAKRQYHPIKDLMEFAR------LGSSGNDALKTRNEWEWIRQTLH 367 V G A ALLLA+ QY PI L+EFA LG G ++RNE + IR TL Sbjct: 300 LIFVVAAGAAIALLLARMQYQPISTLVEFAASKSCKPLGRPG----ESRNELDRIRTTLL 355 Query: 368 DYSARIDLQEPFVRNQCMLLLLKHGKPD--DPEIEQMILSAGFRHPQEQGLYFSAILSWD 425 +YSAR+DLQEPF R+ + LL+ G PE+ + +L F ++ L+F ++ W Sbjct: 356 EYSARVDLQEPFARHHLLSTLLRFGSSRILTPELRE-VLDLRF----DRSLHFVMVIGWI 410 Query: 426 DAAPGGKPWHERHLLQEILSNLCLPGPDAQIFGVEFSAKDQFALIISLPGHEAGSVQSRM 485 G H+ L E+L+++ LP +++ +GVE S Q +++S EA Sbjct: 411 SNEKNGVLEHQEIL--ELLTHIELPNLNSRGYGVELSQLGQIGVLVSFDPDEAADEFEHK 468 Query: 486 EQVVEAIQTVIRDHSQLVPNIGVGMAYRDLARVNQSFIEAAAALEHRMIRRSGYVTYFEQ 545 + +VEA+++ + + Q+ P IGVG +Y ++NQS+IEA +A + R+ +G V YFE+ Sbjct: 469 QLIVEALRSHLLESCQIQPVIGVGTSYSGPDQLNQSYIEACSAYDLRVSSNAGSVNYFEK 528 Query: 546 LAERNAPAADNFWIPRKSMLKLEQSLKQGNESVAVQMIADTIDTIKDEPLQIHLLRCICF 605 ++ FWIP ++LKL QSLKQG+ VA QMI I +++ L L+RCI Sbjct: 529 ---QSVATDQTFWIPNNTLLKLSQSLKQGSFEVASQMIQSAILSLRQSELSTLLIRCIGI 585 Query: 606 DLLNAFLRIASELGMDGVFADM-PGXXXXXXXXXXXXXXXXXXXXICGQVERNTETGESS 664 DLLN L+ ASEL + ++ P +C QVE+ ++ E S Sbjct: 586 DLLNTILKTASELENQRLIQEIAPQMISGQSLDELERNLLHLASRLCEQVEQESQKEEQS 645 Query: 665 LMDDILAYVDQQFADYTLSLEHVALKFAISTSYLSRSFKEKTGTNFSQYIWQRRVDEVIR 724 L D ++AY+++ FAD LSLE VA +F++S S++SRSFKEK G NF QYIWQ+R++EV+ Sbjct: 646 LTDRMIAYIEEHFADNALSLETVASEFSLSPSHVSRSFKEKMGVNFIQYIWQKRLEEVMH 705 Query: 725 LLENTSAPLKEIIEQVGYLDAPNFIRKFKKETGLTPGQYRK 765 L+ T LK+II +VGYLDAPNFIRKFKKETG TPGQYRK Sbjct: 706 QLKTTDDSLKDIIIRVGYLDAPNFIRKFKKETGYTPGQYRK 746 >A9U8E0.1 A9U8E0_PHYPA Predicted protein (Fragment) Length = 299 Score = 252 bits (643), Expect = 1e-64, Method: Compositional matrix adjust. Identities = 140/305 (45%), Positives = 194/305 (63%), Gaps = 11/305 (3%) Query: 209 LYLMKESKLTGVMDSILSDFSGSSYIFGAGGEVLTANSHGVSLPREELSTLSALEPGIHN 268 +YL+ ES LTG++DSILSD+ G +YIF G+VL AN G + +E+S L LEPG H+ Sbjct: 1 MYLIHESNLTGLIDSILSDYHGMTYIFDNYGQVLAANYKGEIITDQEVSALFELEPGTHS 60 Query: 269 LVLDGEQYSVVSVQSDENGWTYVTTMPSYQFFSRVAHVQTLILIVFCITVVTGIAAALLL 328 + L+ E +SVVSV+SD GWTYVT MPS QFFSR+ H++T I++VF VV G A++L Sbjct: 61 ISLNQEPHSVVSVKSDA-GWTYVTAMPSNQFFSRIVHIRTFIILVFSFMVVMGTFLAIML 119 Query: 329 AKRQYHPIKDLMEFARLGSSGNDALKTRNEWEWIRQTLHDYSARIDLQEPFVRNQCMLLL 388 A+RQYHPI DLMEF RL + D T NE EWI++TLHDYS R+DLQEP+ RN +L+L Sbjct: 120 ARRQYHPISDLMEFIRL-KNDPDTSSTTNELEWIKKTLHDYSQRVDLQEPYARNHILLML 178 Query: 389 LKHGKPDDPEIEQMILSAGFRHPQEQGLYFSAILSWD-DAAP-GGKPWHERHLLQEILSN 446 LK+G D E G R + YF I+ W+ A P E+ + +++++ Sbjct: 179 LKYGHTGDFPSE-FTDKLGIRFNRSH--YFVMIMGWEMHAFPIVDNDNAEQITIMQLMND 235 Query: 447 LCLPGPDAQIFGVEFSAKDQFALIISLP---GHEAGSVQSRMEQVVEAIQTVIRDHSQLV 503 + L A +GVE DQ ALI+ GHE GS+ +RME +VE +Q ++ +H+ + Sbjct: 236 VELSELSAYAYGVELPQADQLALIVGFDAEIGHE-GSLNNRMEPIVEKLQGMVTEHTGVA 294 Query: 504 PNIGV 508 P IG+ Sbjct: 295 PAIGI 299 >B3KH97.1 B3KH97_9BACI Putative uncharacterized protein Length = 168 Score = 220 bits (561), Expect = 4e-55, Method: Compositional matrix adjust. Identities = 101/133 (75%), Positives = 120/133 (90%) Query: 13 TFRLNWNHFKSKLLLKYAFSYILMFLIPLTGVTIFVYENAVKGLRVEIEQSNVNQLNQVK 72 TFR+NWNHFKSKLLL+Y SYIL+FLIPLTGVTIFVY++AV GLR EIEQSN+NQLNQVK Sbjct: 15 TFRINWNHFKSKLLLRYVLSYILIFLIPLTGVTIFVYDSAVSGLRTEIEQSNINQLNQVK 74 Query: 73 STIDARMTELQEISGRIAYDKHLTPYMVRHPYYSLEAIQALANYKASSSIVEDLFLYFHD 132 TID+R+ EL+E+SGRIAYD+ LTPYMVR YY +EAIQALANYKA+SSI+ED+FLY+H+ Sbjct: 75 MTIDSRIAELRELSGRIAYDRRLTPYMVRDDYYRVEAIQALANYKANSSIIEDIFLYYHN 134 Query: 133 DANIYSYRGLADL 145 D IYSYRGL ++ Sbjct: 135 DPIIYSYRGLTNV 147 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 0.135 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: 4,305,021,298 Number of extensions: 173563009 Number of successful extensions: 462618 Number of sequences better than 1.0e-05: 2248 Number of HSP's gapped: 464083 Number of HSP's successfully gapped: 2268 Length of query: 778 Length of database: 3,060,696,203 Length adjustment: 144 Effective length of query: 634 Effective length of database: 1,704,070,043 Effective search space: 1080380407262 Effective search space used: 1080380407262 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: 135 (56.6 bits)