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= 0564.0003.p (800 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B3KKC0.1 B3KKC0_9BACI Helix-turn-helix-domain containing protein... 326 6e-87 B1DB60.1 B1DB60_9BACL Transcriptional regulator, AraC family 127 6e-27 B3KJV7.1 B3KJV7_9BACI Helix-turn-helix-domain containing protein... 116 8e-24 B3KFU0.1 B3KFU0_9BACI Helix-turn-helix-domain containing protein... 105 1e-20 B1DHC5.1 B1DHC5_9BACL Two component transcriptional regulator, A... 103 6e-20 >B3KKC0.1 B3KKC0_9BACI Helix-turn-helix-domain containing protein AraC type Length = 757 Score = 326 bits (836), Expect = 6e-87, Method: Compositional matrix adjust. Identities = 228/752 (30%), Positives = 375/752 (49%), Gaps = 24/752 (3%) Query: 35 LKYLLNNKQNRXXXXXXXXXXXXXXXXXXFSYREYRNALDTELNTPNIELLQINLDVTNR 94 LKY L + Q R SY ++ L EL+ P ++LQI++ + Sbjct: 9 LKYTLAHTQARLVLILTVSVFMIILAVSLTSYYTSKSVLQEELSEPQHQMLQISMKYIDD 68 Query: 95 AFRESDNKAVDLSFHQAVLKYMDADTEDA-GFAAGLQDVLKTLVTEPD-IHAISVIKFKD 152 RESD AV ++ + + ++ ++ +++ + L +L T ++ I++I V + Sbjct: 69 LIRESDKIAVQVAVNDYIYDFLTSENQNSVSNISTLYRLLSTWISNSKYINSIYVYDVER 128 Query: 153 HSVISSGYGYKASWEEAPEHAWTPWIGQIKEKPLLI-KRRVYTGTDPRLSATELLSLARP 211 S IS GY +S + WT + + ++I KR V G + S L+L R Sbjct: 129 GSFISLPQGYSSSKLTFVDSEWTGIADEFGDDTMMIRKRHVPEGAGNKGSE---LTLFRK 185 Query: 212 IVRNGEVAGAVWIDLDYDMLFSKM----YSHLSSYQFVYDLEGELIYPKLNLPFPLAEMD 267 I+ G + G V ++L LF+K+ S L S +++ D ++Y N F + Sbjct: 186 IMIQGRLRGVVAVNLLDAELFAKLNPPSLSQLDSMRYIVDQHNNILYSVSNSEFQPEAVR 245 Query: 268 KVLKEIDVSPFAHVKIEGKAYMANQTFSNVTGWRMLSLVPMEQLLKNVTTARNMMLMLSL 327 + L E+ F EG+ + NQ S +TGW+ +S+V + LL R+ +L +S+ Sbjct: 246 QALHELKEDHFGDFFHEGRKLLVNQIESPLTGWKYVSIVSQDSLLAQSKKVRDTVLYVSV 305 Query: 328 ISIAVGCSAIYYYNFAAFRPLKRINKLLTPDMAAAGQGNLYDLEPVIGKLVGDFQSKSLV 387 ++A+G I Y N AAFRP++R+ +L + A + DLE + G+L+ + S + Sbjct: 306 AALALGVLTILYVNSAAFRPVRRLKQLFSAYNGKATSPDRIDLEKLAGELLSNHAHLSQL 365 Query: 388 ADWSLPELRSKYVNDLISRSM-GTQEMRTKWEHYFSDWREGSFQLLIISIDRYSQWAASF 446 ++ + SK++ D+ S M G +E+R KW YFS+W + + ++SIDRY W+ F Sbjct: 366 IRETISDAASKFLYDIHSGHMSGRREIREKWRRYFSEWTDAPVTVAVLSIDRYDSWSRRF 425 Query: 447 VEEDQMLLKYAMNNIVLEYFEPAWRVVTTAPQRDSLAXXXXXXXXXXXXXXXXXXXXXXX 506 D LLK+A+ NI+ E EP WRV D +A Sbjct: 426 PASDHSLLKFALANIMAELHEPEWRVACADFGADRMAILFQPRSGETRPPLAEAIETV-- 483 Query: 507 XQEVLKISVSIGAGSTASGVAQAARSYDESMHALSCRLYEGYSLVHAYPEAESKYTESFG 566 +LK SVS G S V + ++ E+ +AL+ RLY+GY + + + S Sbjct: 484 -SRLLKFSVSAGVSMPQSEVVRLKQAMLEAENALTYRLYKGYGQLVPFQDVSSHEVTDMQ 542 Query: 567 AADEAWRQEVLHALKSSDGETALKRVRRGTGEIRKLGIQPQKVFRSINDLLEEIMSIATA 626 ++ R E++ A+++ DGE A++ + R G+IR P + + LLE + I Sbjct: 543 PQEDGVR-ELMTAVETGDGERAIELLGRIIGDIRSRYWYPSEALALLQGLLERLKGICPE 601 Query: 627 GGYPL--PAELADYTWHQVTTMDLAEIEDMLCRIVIHMADVLGAHRQSKEYLLVQNLIAY 684 G P PA ++ T+ + +IE L ++ +AD SK++L+ Q +I + Sbjct: 602 GDGPEGDPA-------GRLGTLYIEDIEAELSGLISVLADRYRRLIGSKDFLMCQRMIEF 654 Query: 685 MESHLQENIGLQDIAAHVNMGVSSVSTIFKEETGSTVYDYLTNLRIDKACGLLQDSGLKI 744 ME HL + IG+ +IA + S S +FK+ET T+Y+YLT LR+++A LL + KI Sbjct: 655 MEQHLADPIGIPEIAESTGISSSLASQLFKQETNETIYNYLTRLRMERASELLVKTDRKI 714 Query: 745 ADIALQVGYQNENSFIRAFRKIKSTTPGKFRE 776 +DIA VGYQ+ENSFIR+FRK K TPGK+R+ Sbjct: 715 SDIAQMVGYQHENSFIRSFRKFKDITPGKYRD 746 >B1DB60.1 B1DB60_9BACL Transcriptional regulator, AraC family Length = 788 Score = 127 bits (318), Expect = 6e-27, Method: Compositional matrix adjust. Identities = 164/756 (21%), Positives = 318/756 (42%), Gaps = 68/756 (8%) Query: 67 REYRNALDTELNTPNIELLQINLDVTNRAFRESDNKAVDLSFHQAVLKYMDADTEDAGFA 126 R ++ + E+ + ++L+ + + + D + L+ ++A + M+A ED Sbjct: 42 RHSQDVVKNEVKQSSFQMLEQTRRLMDTILNDVDQITIRLAQNRAFSEAMEAG-EDGPSE 100 Query: 127 AGLQDV----LKTLVTEPDIHAISVIKFKDHSVISSGYGYKASWEEAPEHAWTPWIGQIK 182 A + ++ L + +T P I +I V V S+ G S E + W P+ + Sbjct: 101 ADVDEIKSYLLDSYITSPYIESIYVYYAASDKVQSALIGPVKSGE-TEDLNWLPFYRGMS 159 Query: 183 EKPLLIKRRVYTGTDPRLSATELLSLARPIVRNGEVAGAVWIDLDYDMLFSKMYSHLSSY 242 R Y + LS T++ + + V GA+ ++++ LF + S+ Sbjct: 160 RTEGKWFVRNYPDENKNLSETQVTLIRTTPWASSPVRGAIVVNMNQQALF-----QIPSF 214 Query: 243 QFVYDLEGELIY---PKLNLPF--------PLAEMDKVLKEI--DVSPFAHVKIEGKAYM 289 + + +GE I+ P L F P E + ++ D+S F G + Sbjct: 215 RLMR--QGEEIWMVSPDSTLAFNSNTGGQVPSDEFAIIQNKLGSDISAFT-THFRGSEFS 271 Query: 290 ANQTFSNVTGWRMLSLVPMEQLLKNVTTARNMMLMLSLISIAVGCSAIYYYNFAAFRPLK 349 S TGW+ + L+P L K+ +N ML+L SI A +Y + P+ Sbjct: 272 FTAVSSPYTGWKYVDLIPTSSLYKSSKEIQNFMLILMAFSILAAVLAAFYLTLRIYSPIH 331 Query: 350 RINKLL---------TPDMAAAGQGNLYDLEPVIGKLVGDFQSKSLVADWSLPELRSKYV 400 + +++ P + L+ + + + +S+ L +W P L+ ++ Sbjct: 332 SLVQMVNNKKDWRSAVPLHEQSEMAMLFSAFITMKEQGAEMESQ-LKENW--PVLQQSFL 388 Query: 401 NDLISRSMGTQEMR-TKWEHY-FSDWREGSFQLLIISIDRYSQWAASFVEEDQMLLKYAM 458 LI E R K+E+Y REG F +++I ID Y + ++ DQ L++Y + Sbjct: 389 QQLIHERTNLHEERFAKFEYYQLPVSREGFF-VMVIRIDNYHGYINAYGSFDQSLIRYFI 447 Query: 459 NNIVLE-----------YFEPAWRVVTTAPQRDSLAXXXXXXXXXXXXXXXXXXXXXXXX 507 + E + E ++ P+R + Sbjct: 448 AKLAGELTGQLCLSYPLHTESRDIILICNPERSMV------QEDFFRETPELAGRIQAAV 501 Query: 508 QEVLKISVSIGAGSTASGVAQAARSYDESMHALSCRLYEGY-SLVHAYPEAESKYTESFG 566 E L ++VSIG G + SY E+ L R ++GY S+ ++ +E K + Sbjct: 502 NEYLNLTVSIGIGQLKPDAGDISESYREAFEGLESRAFKGYGSIAPSWLASEKKPGDQLL 561 Query: 567 AADEA-WRQEVLHALKSSDGETALKRVRRGTGEIRK--LGIQPQKVFRSINDLLEEIMSI 623 A ++E+L ++ E + +R+ E+ + G+ + + L+ E+ Sbjct: 562 IRKLAELKREILLLIREEPSEKFEEELRK-LEEVAEGAEGLPFPLIQHAYFQLMIEVYHR 620 Query: 624 ATAGGYPLPAELADYTWHQVTTMDLAEIEDMLCRIVIHMADV---LGAHRQSKEYLLVQN 680 + G PL + + Q T + + ++D+ + ++ + A ++S + + Sbjct: 621 SVDLGLPLHND-NELAMLQETLLRMETVDDVALAVQDYIRETNRRFCAEKRSGPESVAKQ 679 Query: 681 LIAYMESHLQENIGLQDIAAHVNMGVSSVSTIFKEETGSTVYDYLTNLRIDKACGLLQDS 740 ++AY++++ + I L IA + + S S +FK+E T DY+ +LR++K LL+ S Sbjct: 680 ILAYIQNNFDKEISLGGIADQLQLDPSYASRLFKQEISVTFMDYVISLRLEKTKELLKTS 739 Query: 741 GLKIADIALQVGYQNENSFIRAFRKIKSTTPGKFRE 776 L + DI VGY N+ SF R F+K + TPG++R+ Sbjct: 740 ELTVKDIGASVGYANQRSFNRIFKKYEGMTPGEYRD 775 >B3KJV7.1 B3KJV7_9BACI Helix-turn-helix-domain containing protein AraC type Length = 789 Score = 116 bits (291), Expect = 8e-24, Method: Compositional matrix adjust. Identities = 120/520 (23%), Positives = 223/520 (42%), Gaps = 34/520 (6%) Query: 283 IEGKAYMANQTFSNVTGWRMLSLVPMEQLLKNVTTARNMMLMLSLISIAVGCSAIYYYNF 342 + G M T S GW +S++PM+ +++ V + M L + + S+ G + ++ + Sbjct: 277 LNGTDSMVTFTESKEAGWHYVSVMPMDSVMERVAQLKRMALTVFVASLVAGAAVACWFAY 336 Query: 343 AAFRPLKRINKLL-----TPDMAAAGQGNLYD--LEPVIGKLVGD-------FQSKSLVA 388 + P+KR+ + D AA N YD L+ + G LV F+ ++ Sbjct: 337 RQYSPVKRVVDAILQGKPIQDKPAA---NEYDFILQTIEGSLVEQRHLRERLFRQTPVIR 393 Query: 389 DWSLPELRSKYVNDLISRSMGTQEMRTKWEHYFSDWREGSFQLLIISIDRYSQWAASFVE 448 L L Y++ + G + T H+ SD F ++I+ ++ + E Sbjct: 394 ADFLSRLIRGYIDPDHAGDQGGPTLATMGIHFASD----KFAVIIVQAVDITRLSPEPSE 449 Query: 449 EDQMLLKYAMNNIVLEYFEPAWRVVTTAPQRDSLAXXXXXXXXXXXXXXXXXXXXXXXXQ 508 + +++ ++NI + + +RD +A Sbjct: 450 QGWTQIRFIISNIGTDIANSGHQGFAVDMERDRVAILVNFHPVEEAEAQLFLHEIAERLL 509 Query: 509 EVLK----ISVSIGAGSTASGVAQAARSYDESMHALSCRLYEGY-SLVHAYPEAESKYTE 563 VL+ ISV+I S +G +Y E+M AL R++ G S++H + K+ Sbjct: 510 RVLEDRFHISVTIAVSSVHTGNGTIGSAYLEAMAALDYRMFSGRNSIIHFGHVRDIKHHY 569 Query: 564 SFGAADEAWRQEVLHALKSSDGETALKRVRR-GTGEIRKLGIQPQ---KVFRSINDLLEE 619 + E ++++ ++S D E K + T + G+ P+ +F +I + Sbjct: 570 YYPIEFET---QLVNHVRSGDTENVAKLLDNIYTMNFKSAGMTPELGRCLFFNIISTFLK 626 Query: 620 IMSIATAGGYPLPAELADYTWHQVTTMDLAEIEDMLCRIVIHMADVLGAHRQSKEYLLVQ 679 I+++ L D H E++ R+ + + L Q Sbjct: 627 ILNLTNTDHESLLGPSFDPVKHIFGCSTSDEMQAETKRLYDKLTCLFHTEHSDHSIQLQQ 686 Query: 680 NLIAYMESHLQE-NIGLQDIAAHVNMGVSSVSTIFKEETGSTVYDYLTNLRIDKACGLLQ 738 +++A+++ +L + N+GL IA H M +S+ FK+ + DY+T RI+KA L++ Sbjct: 687 DMMAFIDRNLTDYNLGLGMIADHFGMTPQYISSFFKKMNRCNITDYITRARIEKAKTLME 746 Query: 739 DSGLKIADIALQVGYQNENSFIRAFRKIKSTTPGKFRESS 778 S L A +A VGY N+ FIRAF+K++ TPGK+R S+ Sbjct: 747 QSELTNAQLAQLVGYTNDVVFIRAFKKLEGVTPGKYRVSA 786 >B3KFU0.1 B3KFU0_9BACI Helix-turn-helix-domain containing protein AraC type Length = 770 Score = 105 bits (263), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 113/529 (21%), Positives = 219/529 (41%), Gaps = 43/529 (8%) Query: 281 VKIEGKAYMANQTFSNVTGWRMLSLVPMEQLLKNVTTARNMMLMLSLISIAVGCSAIYYY 340 KI+ + S+ GW S M + K + L + L+ I ++ Sbjct: 258 TKIDNRQVSVTYVRSDFNGWLYASFTEMSAITKESRSIGWFTLYICLLMIGFSVLIVWLG 317 Query: 341 NFAAFRPLKRINKLLT---PDMAAAGQGNLYDLEPVIGKLVGDFQSKSLVADWSLPELRS 397 + P++ I + + P++ A + L ++ I + + ++R+ Sbjct: 318 TRKMYTPIRHIFENIVERLPEIQANKKSELQVIDEHIRDMFNSNTKLRSELRQTSQQVRT 377 Query: 398 KYVNDLISRSMGTQEMRTKWEHY-----FSDWRE-GSFQLLIISIDRYSQWAASFVEEDQ 451 +++ L + E + E + S W + F L I +D + +D+ Sbjct: 378 FFLHKLFLGKINPPEAMEQIEMFGFKEQVSTWEQLAVFTLQIDMLDE-----TRYERKDR 432 Query: 452 MLLKYAMNNIVLEYFEPAWR---VVTTAPQRDSLAXXXXXXXXXXXXXXXXXXXXXXXXQ 508 LL +A+NNI+ E + R V+ Q + + Sbjct: 433 DLLLFAVNNIIEEMIPSSHRLPSVIIDLTQVTLIGRGDITPEAFNDYVYTLSEEIQKTTR 492 Query: 509 EVLKISVSIGAGSTASGVAQAARSYDESMHALSCRLYEGYSLVHAYPEAES-KYTESFGA 567 L + VSIG +++ +R+Y E + AL R+ G ++ Y S K+T + Sbjct: 493 SFLDLEVSIGISLPYDNLSKTSRAYQEGLEALKHRIKLGTGVIVPYFSLNSGKHTRVYFY 552 Query: 568 ADEAWRQEVLHALKSSDGETALKRVRRGTGEIRKLGIQPQKVFRSINDLLEEIMSIATAG 627 + E++ A+K +D E A++ +R+ E+ + P + S+ LL ++M + Sbjct: 553 PMQV-ENELIDAIKLADEERAVELLRQWLDEVFRKDRTPHEYQISLIRLLNDLMIVMQEN 611 Query: 628 GYPLPAELADYTWHQVTTMDLAEIEDML-------------CRIVIHMADVLGAHRQSKE 674 G L Q+ D + +E++L RI+ M V + S+ Sbjct: 612 GIML---------EQLDIRDSSLVEELLRLYTNPDIESWFKSRIIRPMVSVFRDRQDSQY 662 Query: 675 YLLVQNLIAYMESHLQENIGLQDIAAHVNMGVSSVSTIFKEETGSTVYDYLTNLRIDKAC 734 L + +I + NI L++ A+ ++ +S++FK+ET + +YL+ R + Sbjct: 663 QNLSEQMIEMIRKEFDRNITLEECASRLHYNNFYLSSVFKKETNMSFSEYLSQYRFKMSK 722 Query: 735 GLLQDSGLKIADIALQVGYQNENSFIRAFRKIKSTTPGKFRESSKYASG 783 L ++ + I DIA ++ Y N +FIR+FRK++ TPG++R SKY +G Sbjct: 723 KWLVETDMPIKDIAEKLSYNNSQNFIRSFRKLEGMTPGQYR--SKYKTG 769 >B1DHC5.1 B1DHC5_9BACL Two component transcriptional regulator, AraC family Length = 532 Score = 103 bits (258), Expect = 6e-20, Method: Compositional matrix adjust. Identities = 93/363 (25%), Positives = 153/363 (42%), Gaps = 31/363 (8%) Query: 429 FQLLIISIDRYSQWAASFVEEDQMLLKYAMNNIVLEYFEPAWRVVTTAPQRDSLAXXXXX 488 F LI+ ID F D L KYA+ NI E F P R D + Sbjct: 182 FGALIVQIDNLHLVQQRFGSVDIELFKYALKNIAEETFAPLCRCAAFEHNDDVVLLMNAE 241 Query: 489 XXXXXXXXXXXXXXXXXXXQEVLKISVSIGAGSTASGVAQAARSYDESMHALSCRLYEGY 548 + LK +VS+G GS + S+ E+ AL+ + YEG Sbjct: 242 EWLDAKLLLPYAEAVQHNAEGYLKFTVSVGIGSFDRDIRHFRPSFQEAEKALNAKFYEGS 301 Query: 549 SLVHAYPEAESKYTESFGAADEAWRQEVLHALKSSDGETALKRVRRGTGEIRKLGIQPQK 608 + + Y EA + + + + VL A+ GE AL R G+ + +QP+ Sbjct: 302 AKITDYLEAAEEEDFTHTSYPLESEKAVLQAI--VKGEEALIR---GSLQDFLASLQPES 356 Query: 609 -------------VFRSINDLLEE---IMSIATAGGYPLPAELADYTWHQVTTMDLAEIE 652 F D +E +M + +G +P +A L I Sbjct: 357 SSKENVSNSIYALYFALYRDCIERNVNVMEVFGSGLNEIPRMMA--------RSGLEHIV 408 Query: 653 DMLCRIVIHMADVLGAHRQSKEYLLVQNLIAYMESHLQENIGLQDIAAHVNMGVSSVSTI 712 L + +AD L A + + L ++++AY+ H + +I + +A V + +S + Sbjct: 409 ATLTDTALKIADQLSARKNGNK--LFESILAYVHEHFRLDISRESVAREVYVTPGYISYL 466 Query: 713 FKEETGSTVYDYLTNLRIDKACGLLQDSGLKIADIALQVGYQNENSFIRAFRKIKSTTPG 772 FK++ ++ +YL +RI+ A LL+D L+I+DIA + GYQ+E F + F+K TP Sbjct: 467 FKQQMQTSFIEYLHRIRIEYASRLLKDPSLRISDIAHESGYQDEKYFFQVFKKHTGMTPT 526 Query: 773 KFR 775 ++R Sbjct: 527 QYR 529 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 0.318 0.133 0.387 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: 4,423,109,070 Number of extensions: 175397062 Number of successful extensions: 448259 Number of sequences better than 1.0e-05: 3054 Number of HSP's gapped: 449862 Number of HSP's successfully gapped: 3056 Length of query: 800 Length of database: 3,060,696,203 Length adjustment: 144 Effective length of query: 656 Effective length of database: 1,704,070,043 Effective search space: 1117869948208 Effective search space used: 1117869948208 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 136 (57.0 bits)