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= 0440.0013.p (521 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value Q2B7V3.1 Q2B7V3_9BACI LicR 346 3e-93 P46321.1 LICR_BACSU Probable licABCH operon regulator Putative p... 340 2e-91 A7ZA83.1 A7ZA83_BACA2 LicR 327 1e-87 Q65DG1.1 Q65DG1_BACLD Transcriptional regulator 317 3e-84 Q5WKS9.1 Q5WKS9_BACSK Transcriptional antiterminator of lichenan... 312 4e-83 >Q2B7V3.1 Q2B7V3_9BACI LicR Length = 646 Score = 346 bits (888), Expect = 3e-93, Method: Compositional matrix adjust. Identities = 190/477 (39%), Positives = 294/477 (61%), Gaps = 14/477 (2%) Query: 12 RIVLILQYLLHTDSSVTGEQLAIEIGVTSRTIRSDIKVLHDLISSHGAEVQSLRGIGYEL 71 R+ IL+ L+ TD +T E LA I VTSRTIR+ IK L+ L++ +GAE++S+RG GY+L Sbjct: 5 RMSSILKALIETDDVITSEYLANIIQVTSRTIRNSIKELNMLLAENGAEIKSVRGTGYKL 64 Query: 72 KISDRSAFDAWLKKHMSSAAVATGTFM----DRVGFVMRTLLLAEGYVKLEKLADQMYVS 127 + D + F L + ++ +G DRV F+++ LL A+ YVKL+ LA+++++S Sbjct: 65 TVGDDAKFQNLLAQVAGEDSLKSGHIPNLPEDRVQFLIKRLLFADKYVKLDDLAEELFIS 124 Query: 128 KSTVQNVLKSVRQRLNVYGLQITTKPGYGLKISGEEYQLRLCIADSFREDVNQTGVDDAE 187 KS++QN L+ ++ L Y + + +P YGLK+ G+E +LR C++ + + +T +D E Sbjct: 125 KSSIQNDLREAKRILQQYAITVEKRPNYGLKLKGDEVKLRFCMS-QYIYNREKTVLDLFE 183 Query: 188 DNGYPLFFSRDEFIEVRDIIIGNMRRHGLFFSDRGLHNLAIHIMIAVRRIREGYLILSLP 247 L ++E +R II+ +R G+ SD GL+NL HI IA RIR ++ P Sbjct: 184 SRMSIL--PKEEVQLIRKIILDQVRVSGISLSDMGLNNLITHIAIACCRIRCEKYVMIFP 241 Query: 248 REYMWSANSKEATAAQDIAAALVSRSALMFYPEYEVEYLTMHLMGTEL--SIELGDTQRM 305 ++ N KE A +I +++ + +PE E+ Y+ +HLMG + L +T+ Sbjct: 242 KDMHEIINQKEYIVASEIVQE-INKHLFVEFPESEIAYIAIHLMGIRMIAHFHLNETEIR 300 Query: 306 ALTESDQEYRMYVKSMIEEMEALLELGIMHDSELEWGLTLHLKHALSRIRFGMGFNNPML 365 +L D+E K ++ +E L+LGI +D EL + LHLK AL+R RFGM NPML Sbjct: 301 SLV--DEEVFNLAKKILSMIEQKLKLGIKNDKELFVSMCLHLKPALNRFRFGMNIRNPML 358 Query: 366 DSIKMEYPLAFQAAIVGAAKLQKLSGLHISEQEIGYIALHIGAALERLEERYAVKKCIIV 425 D+IK YP+AFQA ++ +++ G I E E+ Y+ALH GAA+ER++ ++VK+C+IV Sbjct: 359 DAIKANYPVAFQAGVLAGICIKEEYGYQIGESEVAYLALHFGAAMERVKANHSVKRCLIV 418 Query: 426 CSTGLGSARLLYHKINRHFGSKLEVVGTYGYYNLDQAPLEIIDFIVSXXXXPFLSRL 482 C++G+GSARLLYHK+ FGS+LE+ GT YY +++ PL+ IDFIVS P S L Sbjct: 419 CASGVGSARLLYHKLESQFGSRLELAGTTEYYKINEIPLDTIDFIVS--TVPIASEL 473 >P46321.1 LICR_BACSU Probable licABCH operon regulator Putative phosphotransferase enzyme IIB component Putative phosphotransferase enzyme IIA component EC=2.7.1.69 EC=2.7.1.- Length = 641 Score = 340 bits (871), Expect = 2e-91, Method: Compositional matrix adjust. Identities = 185/466 (39%), Positives = 289/466 (62%), Gaps = 10/466 (2%) Query: 9 MYPRIVLILQYLLHTDSSVTGEQLAIEIGVTSRTIRSDIKVLHDLISSHGAEVQSLRGIG 68 ++ R+ IL+ L+ ++ VT A ++ VT+RT+R+DIK L ++S HGA VQS+RG G Sbjct: 2 LHGRLRDILRLLMAAEAPVTSSFFAAQLNVTTRTVRNDIKELQGVLSGHGAFVQSVRGSG 61 Query: 69 YELKISDRSAFDAWLKKHMSSAAVATGTFMDRVGFVMRTLLLAEGYVKLEKLADQMYVSK 128 Y+L+I D F L+ +R+ ++M+ LLLA+ Y+KL++LA+++++SK Sbjct: 62 YKLRIDDEQVFRTLLQDEFQQKKGLPVLPEERMAYLMKRLLLADHYLKLDELAEELFISK 121 Query: 129 STVQNVLKSVRQRLNVYGLQITTKPGYGLKISGEEYQLRLCIADSFREDVNQTGVDDAED 188 ST+Q LK V++RL Y + + T+P YG K+ G+E Q+R C+A+ + D +T +D + Sbjct: 122 STLQTDLKEVKKRLLPYRIVMETRPNYGFKLRGDEVQMRYCMAE-YIVDERETEIDVLNE 180 Query: 189 NGYPLFFSRDEFIEVRDIIIGNMRRHGLFFSDRGLHNLAIHIMIAVRRIREGYLILSLPR 248 ++E +R I+ M+ + S+ GL+NL IHI IA +RIR + P+ Sbjct: 181 KAD--ILPKEEIEIIRSAILKKMKNDRIPLSNMGLNNLIIHIAIACKRIRTENYVSLFPK 238 Query: 249 EYMWSANSKEATAAQDIAAALVSRSALMFYPEYEVEYLTMHLMGTE--LSIELGDTQRMA 306 + + KE AA+ I L S+ ++ F P+ E Y+TMHL+GT+ + G+ Sbjct: 239 DMDHILHQKEYQAAEAIVKELESKLSVTF-PKDETAYITMHLLGTKRMTQSQCGEDTFSI 297 Query: 307 LTESDQEYRMYVKSMIEEMEALLELGIMHDSELEWGLTLHLKHALSRIRFGMGFNNPMLD 366 E+DQ +MI+ ++ L+LGI+HD EL+ GL LH+K A+SR R+GM NPML Sbjct: 298 EEETDQ----LTLAMIKAVDRELKLGILHDKELKIGLALHMKPAISRNRYGMNLRNPMLA 353 Query: 367 SIKMEYPLAFQAAIVGAAKLQKLSGLHISEQEIGYIALHIGAALERLEERYAVKKCIIVC 426 +IK YPLAF+A I+ +++ +G+ I E EIGY+ALH GAA+ER + K+CIIVC Sbjct: 354 AIKEHYPLAFEAGIIAGIVIKEQTGIEIHENEIGYLALHFGAAIERKKTESPPKRCIIVC 413 Query: 427 STGLGSARLLYHKINRHFGSKLEVVGTYGYYNLDQAPLEIIDFIVS 472 ++G GSA+LL K+ HFG +L+++GT YY+LDQ E IDF++S Sbjct: 414 ASGAGSAQLLREKLRSHFGKRLDILGTAEYYSLDQMSYESIDFVIS 459 >A7ZA83.1 A7ZA83_BACA2 LicR Length = 651 Score = 327 bits (839), Expect = 1e-87, Method: Compositional matrix adjust. Identities = 177/457 (38%), Positives = 272/457 (59%), Gaps = 22/457 (4%) Query: 25 SSVTGEQLAIEIGVTSRTIRSDIKVLHDLISSHGAEVQSLRGIGYELKISDRSAFDAWLK 84 + VT +A + VT+RT+R+DIK L ++ HGA +QS+RG GY+L I + F WL+ Sbjct: 18 TPVTSSVIAANVKVTTRTVRNDIKELQTIVEKHGASIQSVRGSGYKLLIRNEQPFKNWLQ 77 Query: 85 KHMSSAAVATGTFMDRVGFVMRTLLLAEGYVKLEKLADQMYVSKSTVQNVLKSVRQRLNV 144 + + +R+ ++M+ +LLA+GY+KL+ LA+++++SKST+Q+ LK V++RL Sbjct: 78 DNFQQNSTVPIFPDERIDYLMKRMLLADGYLKLDDLAEELFISKSTLQSDLKEVKKRLRP 137 Query: 145 YGLQITTKPGYGLKISGEEYQLRLCIADSFREDVNQTGVDDAEDNGYPLFFSRDEFIEVR 204 Y + + T+P YG K+ GEE +LR C+A+ +D +E G +D+ +R Sbjct: 138 YDIILETRPNYGFKLRGEELRLRYCMAEYLVDDREPEPDLLSEKAG---ILPKDDIHVIR 194 Query: 205 DIIIGNMRRHGLFFSDRGLHNLAIHIMIAVRRIREGYLILSLPREYMWSANSKEATAAQD 264 I+ +R H + S GL+NL IHI IA +RIR + +P + E +A+ Sbjct: 195 TAIMKQVRNHKIPLSFFGLNNLIIHIAIACKRIRTENYVSLIPEDLHDIKLETEYQSAEA 254 Query: 265 IAAALVSRSALMFYPEYEVEYLTMHLMGTELSIELGDTQRMALTE---------SDQEYR 315 I L S ++ F PE E Y+ +HL+GT +RMA ++ D E Sbjct: 255 IVKELESALSVTF-PEQETAYIAIHLLGT---------KRMAQSQLEGKELTRLIDGETS 304 Query: 316 MYVKSMIEEMEALLELGIMHDSELEWGLTLHLKHALSRIRFGMGFNNPMLDSIKMEYPLA 375 ++MIE +E L+LGI D+EL+ GL LH+K A++R R+GM NPML +IK YPLA Sbjct: 305 RLTEAMIEAIERELKLGITDDNELKAGLALHIKPAINRNRYGMNLRNPMLSAIKENYPLA 364 Query: 376 FQAAIVGAAKLQKLSGLHISEQEIGYIALHIGAALERLEERYAVKKCIIVCSTGLGSARL 435 F+A ++ +++ +G+ I E EIGY+ALH GAA+ER + K+C+IVC++G GSA+L Sbjct: 365 FEAGVIAGIVIKEQTGIDIHENEIGYLALHFGAAIERRKTERPPKRCLIVCASGAGSAQL 424 Query: 436 LYHKINRHFGSKLEVVGTYGYYNLDQAPLEIIDFIVS 472 L K+ F +LE+VGT Y +LDQ E IDF+VS Sbjct: 425 LREKLRSRFAKRLEIVGTADYCSLDQLSFESIDFVVS 461 >Q65DG1.1 Q65DG1_BACLD Transcriptional regulator Length = 649 Score = 317 bits (811), Expect = 3e-84, Method: Compositional matrix adjust. Identities = 188/466 (40%), Positives = 275/466 (59%), Gaps = 13/466 (2%) Query: 12 RIVLILQYLLHTDSSVTGEQLAIEIGVTSRTIRSDIKVLHDLISSHGAEVQSLRGIGYEL 71 R+ LIL L+ +S +T LA E+ VTSRTIRSD+K L L+S +GA VQS+RG GY L Sbjct: 5 RLKLILGELIGAESPLTSAYLANELNVTSRTIRSDVKELDRLLSKNGAAVQSIRGAGYRL 64 Query: 72 KISDRSAFDAWLKKHMSSAAVATGTFMD-RVGFVMRTLLLAEGYVKLEKLADQMYVSKST 130 I + F L+ H ++T F + R+ ++++ LLL E YVKLE LA +MY+SKST Sbjct: 65 SIKNDRLFRQLLQ-HTFHQELSTPVFPNERILYLLKRLLLTEEYVKLEDLAAEMYISKST 123 Query: 131 VQNVLKSVRQRLNVYGLQITTKPGYGLKISGEEYQLRLCIADSFREDVNQTGVDDAEDNG 190 VQN ++ V++RL Y +++ KP YG K+ G+E +LR CIA+ +T +D N Sbjct: 124 VQNDMRDVKKRLKPYDIELKIKPNYGFKLKGDEMKLRSCIAEHLFPK-RETDIDIM--NT 180 Query: 191 YPLFFSRDEFIEVRDIIIGNMRRHGLFFSDRGLHNLAIHIMIAVRRIREGYLILSLPREY 250 ++E +R I+ + + SD GL+NL IH+ IA +RIR G + ++ Sbjct: 181 RISILPKEELAMIRQTILEKISEDQISLSDIGLNNLLIHVAIACKRIRSGKHVSLYSKDV 240 Query: 251 MWSANSKEATAAQDIAAALVSRSALMFYPEYEVEYLTMHLMGTE----LSIELGDTQRMA 306 N KE A+ I L + + F PE E Y+ +HL+G + +I G + M Sbjct: 241 KEIMNHKEYEVARAIVRTLEQKLHVAF-PEKETAYIAIHLLGAKRTVMAAIRSGAIESMM 299 Query: 307 LTESDQEYRMYVKSMIEEMEALLELGIMHDSELEWGLTLHLKHALSRIRFGMGFNNPMLD 366 ++E + +++ ++ LGI D EL+ GL LHLK AL+R R+GM NPMLD Sbjct: 300 ---DEEETDRLTQLIMKTIDQKFTLGIGDDKELKIGLGLHLKPALNRCRYGMNIRNPMLD 356 Query: 367 SIKMEYPLAFQAAIVGAAKLQKLSGLHISEQEIGYIALHIGAALERLEERYAVKKCIIVC 426 +IK YPLAF+A I +++ +G I E E+GY+ALHIGAA+ER K+C+IVC Sbjct: 357 AIKANYPLAFEAGIQAGEVIKRETGFDIQESEVGYLALHIGAAMERRNMNRPSKRCMIVC 416 Query: 427 STGLGSARLLYHKINRHFGSKLEVVGTYGYYNLDQAPLEIIDFIVS 472 ++G GSA LL ++ FGSKLE++GT YY L+Q L +DF++S Sbjct: 417 ASGAGSAMLLQDRLRATFGSKLEILGTVDYYKLNQMSLHALDFVIS 462 >Q5WKS9.1 Q5WKS9_BACSK Transcriptional antiterminator of lichenan operon Length = 649 Score = 312 bits (800), Expect = 4e-83, Method: Compositional matrix adjust. Identities = 186/469 (39%), Positives = 279/469 (59%), Gaps = 5/469 (1%) Query: 5 EESRMYPRIVLILQYLLHTDSSVTGEQLAIEIGVTSRTIRSDIKVLHDLISSHGAEVQSL 64 +E M R+ IL+ LL T VT LA VT RT+R D+K L +++ A ++S+ Sbjct: 7 KEGIMNQRLQSILRELLGTQGYVTSRYLASVNQVTPRTVREDVKQLQTELANIHAGIESV 66 Query: 65 RGIGYELKISDRSAFDAWLKKHMSSAAVATGTFMDRVGFVMRTLLLAEGYVKLEKLADQM 124 G GY+L I D + F +L++ + A + +RV ++++ LLLAE Y+KL+ LAD + Sbjct: 67 PGKGYKLTIEDEAQFRQFLQRETTGNHGAPISPEERVTWLIQKLLLAEEYIKLDDLADDL 126 Query: 125 YVSKSTVQNVLKSVRQRLNVYGLQITTKPGYGLKISGEEYQLRLCIADSFREDVNQTGVD 184 ++SKS++QN LK+ + L YGLQ+ T+P YGL + G+E + R C+A+ E N Sbjct: 127 FISKSSLQNDLKNAKLILARYGLQVATRPNYGLYLKGDELKRRFCMAEYVFERKNVAA-- 184 Query: 185 DAEDNGYPLFFSRDEFIEVRDIIIGNMRRHGLFFSDRGLHNLAIHIMIAVRRIREGYLIL 244 D F ++ ++ DI++ M+ +G+ SD ++NL IHI+IA +RI G+ I Sbjct: 185 DLTSLQLTAFMKEEQLADIWDILVTTMQENGVTLSDIAINNLFIHIVIAFKRIEAGHHI- 243 Query: 245 SLPREYMWSANSK-EATAAQDIAAALVSRSALMFYPEYEVEYLTMHLMGTELSIELGDTQ 303 SL R+ M S+ E AQ + A L + + F PE E+ Y+ +HL+GT L E Sbjct: 244 SLYRKDMSDICSQHEYYVAQKMIARLNTHLGVSF-PEMEIAYIAIHLLGTRLVAENEQAN 302 Query: 304 RMALTESDQEYRMYVKSMIEEMEALLELGIMHDSELEWGLTLHLKHALSRIRFGMGFNNP 363 D EY K+++E++E L+L I +D EL L LHLK A++R R+GM NP Sbjct: 303 DNLKKVFDDEYYKLAKAIVEKVERELDLNIANDQELLVSLMLHLKPAINRYRYGMNIRNP 362 Query: 364 MLDSIKMEYPLAFQAAIVGAAKLQKLSGLHISEQEIGYIALHIGAALERLEERYAVKKCI 423 ML IK Y LAF+AA++G A ++ G+ I E EIGY+ALHIGAALER ++ K+ + Sbjct: 363 MLADIKQHYTLAFEAAVIGQAVIKDKLGISIDENEIGYLALHIGAALERRNQQKEPKRIL 422 Query: 424 IVCSTGLGSARLLYHKINRHFGSKLEVVGTYGYYNLDQAPLEIIDFIVS 472 IVC++G GSA+LL +K+ +F +L +V T YY +DQA L ID IV+ Sbjct: 423 IVCASGRGSAQLLKYKLEANFKKRLFIVDTTEYYQIDQADLTNIDLIVT 471 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 0.323 0.138 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: 2,829,153,177 Number of extensions: 111538222 Number of successful extensions: 273966 Number of sequences better than 1.0e-05: 906 Number of HSP's gapped: 271572 Number of HSP's successfully gapped: 931 Length of query: 521 Length of database: 3,060,696,203 Length adjustment: 140 Effective length of query: 381 Effective length of database: 1,741,754,103 Effective search space: 663608313243 Effective search space used: 663608313243 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.5 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (22.0 bits) S2: 134 (56.2 bits)