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= 0560.0039.p (505 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B3KAJ8.1 B3KAJ8_9BACI Helix-turn-helix domain protein 321 1e-85 B3KIV3.1 B3KIV3_9BACI Putative uncharacterized protein 282 4e-74 C0Z8G0.1 C0Z8G0_BREBN Putative DNA-binding protein 195 1e-47 B3KIV0.1 B3KIV0_9BACI Helix-turn-helix domain protein 189 6e-46 C0ZDG0.1 C0ZDG0_BREBN Putative DNA-binding protein 180 2e-43 >B3KAJ8.1 B3KAJ8_9BACI Helix-turn-helix domain protein Length = 467 Score = 321 bits (823), Expect = 1e-85, Method: Compositional matrix adjust. Identities = 168/406 (41%), Positives = 247/406 (60%), Gaps = 8/406 (1%) Query: 37 AILAELENYLKREAITKTQFAERSGIHSGTLSNMIRGRRPIAIQQLDRITQAMGQDEGFF 96 I EL YLK+E ++ + FA +S I+SGTLS I+G++P+++ LD +T+AM +EG+F Sbjct: 7 TISTELLRYLKKENLSISSFANKSRINSGTLSRFIKGQQPLSVSNLDLVTEAMNLEEGYF 66 Query: 97 YNLYIDNYIIDSSRDWRRIGPLLQRCADLNKLDCIQRIVQHVMDNLMYSPMLFDTXXXXX 156 Y+ Y +I SS +WRR+GP + RCA+LNKL C+ ++V +MDNL YS +LFDT Sbjct: 67 YSFYAYECMIQSSPNWRRLGPFIMRCAELNKLKCLDQLVGMMMDNLTYSSLLFDTAEALY 126 Query: 157 XXXXXXXXXXXYECVAESERSQHSERLAFCQYRLFTIALGDNQSENLRAADRFEPFVERL 216 Y+ VAESE+ QH+ERL CQYR+FT +L +Q NL +FE +V+RL Sbjct: 127 HKGNREAALIIYKKVAESEKYQHAERLGMCQYRIFTCSLNSDQEHNLDCTIQFENYVKRL 186 Query: 217 DEVDQLDALKELANTYRSLQRWDKVDELATKMGHKARIQYDLQYGPHRKSNEPHKAPGRP 276 + QLDALK+LANT SL++W+K +MG +R+ Y ++ R S+ K P +P Sbjct: 187 PDAVQLDALKDLANTLLSLRKWNKAKYYIQEMGRISRVLYSQKHKQARPSSRL-KRPAKP 245 Query: 277 LFFYIAYSDLLRGNVCDELGDYGQALAHKYAYADLGWVKEQGEAVDYWKALFMEWSEANV 336 LF YI YSDLL G++ E DY QAL + Y D WVKE EA + K F EW++ N Sbjct: 246 LFGYILYSDLLLGSIAAENDDYDQALYYVSCYEDQSWVKESDEAAEITKEQFREWAKGNR 305 Query: 337 YITRLLSGDSTVIEPYANYIDIKKGELTIGLLYILKAANKYQFNVDDILYRFRQDIETNF 396 Y+ L+ G++ V+EPY +Y+ ++ E+ L I++AAN Y F +D L +F + I Sbjct: 306 YLYELMKGNTDVLEPYIDYLSSRENEILKALFKIIQAANMYHFEIDQYLDKFEKLI---L 362 Query: 397 NELTQ----GRYSRKLALDRQANLTFELAHYFLYKKNYSNGFRFLL 438 N L + G Y+ + DR AN +L Y+++K N G +++L Sbjct: 363 NHLKRGGGVGSYTEYIIDDRFANFLTDLGKYYIWKDNIQKGSKYIL 408 >B3KIV3.1 B3KIV3_9BACI Putative uncharacterized protein Length = 414 Score = 282 bits (722), Expect = 4e-74, Method: Compositional matrix adjust. Identities = 149/362 (41%), Positives = 212/362 (58%), Gaps = 4/362 (1%) Query: 77 IAIQQLDRITQAMGQDEGFFYNLYIDNYIIDSSRDWRRIGPLLQRCADLNKLDCIQRIVQ 136 +++ QLDRIT+ MG +EG FYNLYI I ++ DWRR+ P L+RCA+L+KLDC+ R + Sbjct: 1 MSMHQLDRITEGMGLEEGHFYNLYITESIFHTTPDWRRLRPFLKRCAELDKLDCLHRTAR 60 Query: 137 HVMDNLMYSPMLFDTXXXXXXXXXXXXXXXXYECVAESERSQHSERLAFCQYRLFTIALG 196 ++N+ Y PMLF+ YECVAE E+ Q+SERLA CQYRLF I LG Sbjct: 61 MTLENINYVPMLFEMAEELFIEEKYKAAALLYECVAECEKLQYSERLALCQYRLFLIRLG 120 Query: 197 DNQSENLRAADRFEPFVERLDEVDQLDALKELANTYRSLQRWDKVDELATKMGHKARIQY 256 +NQ ENL+AA FEP+++RLDE+ QLDA +L N SLQR DK++ LA +M H ARI Y Sbjct: 121 ENQEENLQAAVYFEPYIDRLDEMYQLDAYVKLINLNISLQRMDKIEALAKRMEHHARIHY 180 Query: 257 DLQYGPHRKSNEPHKAPGRPLFFYIAYSDLLRGNVCDELGDYGQALAHKYAYADLGWVKE 316 +R E P +PL FYI YS L++ + E GDY A + Y W+ Sbjct: 181 Q----QNRSWFEGSGNPRKPLIFYILYSYLIQAYLYQERGDYDNAFYYVSLYEKPDWITN 236 Query: 317 QGEAVDYWKALFMEWSEANVYITRLLSGDSTVIEPYANYIDIKKGELTIGLLYILKAANK 376 F EW+EAN Y+ L+SG + Y +Y++ ++ E+ + L I+ AAN+ Sbjct: 237 ASNEESLIMNQFKEWAEANRYMFSLMSGQPGALHQYVDYVESREHEIFLALCNIMVAANR 296 Query: 377 YQFNVDDILYRFRQDIETNFNELTQGRYSRKLALDRQANLTFELAHYFLYKKNYSNGFRF 436 YQ +VD IL RF++ + + G+ S ++ ++R L EL Y+L K + G + Sbjct: 297 YQLHVDPILDRFKEHLHYRSQQNELGKISDQVTINRYTRLLAELGIYYLNAKQQNRGLSY 356 Query: 437 LL 438 +L Sbjct: 357 IL 358 >C0Z8G0.1 C0Z8G0_BREBN Putative DNA-binding protein Length = 443 Score = 195 bits (495), Expect = 1e-47, Method: Compositional matrix adjust. Identities = 126/400 (31%), Positives = 198/400 (49%), Gaps = 12/400 (3%) Query: 40 AELENYLKREAITKTQFAERSGIHSGTLSNMIRGRRP--IAIQQLDRITQAMGQDEGFFY 97 +E+E ++ T ++ +E +GI+ G+LS ++ G P + I QLD + G+++G+ Y Sbjct: 7 SEIEKCRRKHGYTLSKLSELTGINPGSLSEILNGNPPRAMTIGQLDAFAKVFGREQGWLY 66 Query: 98 NLYIDNYIIDSSRDWRRIGPLLQRCADLNKLDCIQRIVQHVMDNLMYSPMLFDTXXXXXX 157 LY + + + R+ P L RC ++ + DCI+ +V +++N +LF Sbjct: 67 ELYPEECLSEQRISRPRLIPYLARCVEVGRKDCIETVVSILLENPKNILILFALAEQLYE 126 Query: 158 XXXXXXXXXXYECVAESERSQHSERLAFCQYRLFTIALGDNQSENLRAADRFEPFVERLD 217 YE V E+E+ +S+ QYRLF LG N EN RF P+ RL Sbjct: 127 KGQLKESVPFYEYVIENEKDSYSDHFVMSQYRLFRAVLGTNAEENWENVIRFSPYRNRLP 186 Query: 218 EVDQLDALKELANTYRSLQRWDKVDELATKMGHKARI--QYDLQYGPHRKSNEPHKAPGR 275 E QLDAL +LA +LQ+W+K E ++ A ++L K EP K P R Sbjct: 187 ENYQLDALFQLARVCFALQKWNKSGEYGDELRLLAETVHMHELDRLKRNKKGEPLK-PER 245 Query: 276 PLFFYIAYSDLLRGNVCDELGDYGQALAHKYAYADLGWVKEQGEAVDYWKALFMEWSEAN 335 PL +Y L +G + G Y +A + YADLGW + E F W++AN Sbjct: 246 PLVYYYGMGHLYKGAALEMQGLYEEAKQYVRVYADLGWFELLDEDGRKEVERFKVWAKAN 305 Query: 336 VYITRLLSGDSTVIEPYANYID-IKKGELTIGLLYILKAANKYQFNVDDILYRFRQDIET 394 Y +LSG++ V+E Y +Y++ + EL G++ I+K+AN Y F VD+IL RF I Sbjct: 306 SYTLEVLSGNTDVLEEYVDYLESLPTNELLAGMISIMKSANTYHFCVDEILDRFSSQI-A 364 Query: 395 NFNELTQGRYSRKLALDRQANLTFELAHYFLYKKNYSNGF 434 +F++ T+ + LDR ++ A Y K G Sbjct: 365 SFDQFTEA-----IGLDRHLQFRYQTAIYEFGKGRIERGI 399 >B3KIV0.1 B3KIV0_9BACI Helix-turn-helix domain protein Length = 181 Score = 189 bits (480), Expect = 6e-46, Method: Compositional matrix adjust. Identities = 89/175 (50%), Positives = 117/175 (66%) Query: 32 LEPIPAILAELENYLKREAITKTQFAERSGIHSGTLSNMIRGRRPIAIQQLDRITQAMGQ 91 +E I ++E +L + +T +FAE S ++SGTLSN++ G RPI++QQLDRIT MG Sbjct: 1 MEMTATIREQMEEFLHKNEMTINRFAEISEVNSGTLSNILNGNRPISMQQLDRITSGMGL 60 Query: 92 DEGFFYNLYIDNYIIDSSRDWRRIGPLLQRCADLNKLDCIQRIVQHVMDNLMYSPMLFDT 151 +EG+FY LYID I ++ DWRR+GP L RCA+L KLDC+ + V+ MDN+ YSP+LF+T Sbjct: 61 EEGYFYELYIDECIFHATPDWRRLGPFLHRCAELGKLDCLDKAVRMTMDNISYSPLLFET 120 Query: 152 XXXXXXXXXXXXXXXXYECVAESERSQHSERLAFCQYRLFTIALGDNQSENLRAA 206 Y VAESER QHSERLA CQYRLFT+ L D+Q N RA+ Sbjct: 121 AELFFKEGKHEAAVLLYRSVAESERFQHSERLALCQYRLFTLGLTDDQEMNSRAS 175 >C0ZDG0.1 C0ZDG0_BREBN Putative DNA-binding protein Length = 466 Score = 180 bits (457), Expect = 2e-43, Method: Compositional matrix adjust. Identities = 116/368 (31%), Positives = 184/368 (50%), Gaps = 6/368 (1%) Query: 37 AILAELENYLKREAITKTQFAERSGIHSGTLSNMIRGRRP--IAIQQLDRITQAMGQDEG 94 ++ +E+E + + T ++ + +GI+ GTLS ++ G+ P I I QLD + + G + G Sbjct: 11 SLRSEIEQHRRARGYTLSKLGDLTGINPGTLSEILNGKPPRAITISQLDALAEVFGYEPG 70 Query: 95 FFYNLYIDNYIIDSSRDWRRIGPLLQRCADLNKLDCIQRIVQHVMDNLMYSPMLFDTXXX 154 + Y LY D + + R+ P L R A+ + DCI+ + +++N +LF Sbjct: 71 WMYELYPDECLYEGKISRPRLIPYLIRSAENGRKDCIEAVASQLLENPKNISILFTVAEQ 130 Query: 155 XXXXXXXXXXXXXYECVAESERSQHSERLAFCQYRLFTIALGDNQSENLRAADRFEPFVE 214 YE V E+E+ +S + YRLF LG N EN +A RF P+ + Sbjct: 131 LYEDGKLGKAVPFYEYVIENEKDSYSTQFVMSHYRLFQAILGTNADENEKAVIRFSPYRK 190 Query: 215 RLDEVDQLDALKELANTYRSLQRWDKVDELATKMGHKARIQYD--LQYGPHRKSNEPHKA 272 RL E DQLDAL L+ +LQ+W + + A ++ + I Y LQ ++ E K Sbjct: 191 RLPETDQLDALLNLSKVCFTLQKWSEAETYADELRGLSNIFYQDKLQKCRKNRTTELIKT 250 Query: 273 PGRPLFFYIAYSDLLRGNVCDELGDYGQALAHKYAYADLGWVKEQGEAVDYWKALFMEWS 332 RPL +Y L +G V G Y Q+ + AYADL W + + F ++ Sbjct: 251 E-RPLVYYYGMGYLYKGLVLQMQGAYSQSKEYVQAYADLHWFELLDDEGIRIVERFTVFA 309 Query: 333 EANVYITRLLSGDSTVIEPYANYIDIKKGELTIGLLYILKAANKYQFNVDDILYRFRQDI 392 AN Y +L G+ +I+ Y +Y+ + E+ GL+ I++AANKY F VD++L R DI Sbjct: 310 RANFYTLEVLMGNEKIIKEYTDYLAEQPVEILPGLVTIMEAANKYHFCVDEVLLRLSGDI 369 Query: 393 ETNFNELT 400 F+E T Sbjct: 370 -ARFHERT 376 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 0.139 0.415 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: 2,515,878,385 Number of extensions: 114216961 Number of successful extensions: 240200 Number of sequences better than 1.0e-05: 11 Number of HSP's gapped: 240164 Number of HSP's successfully gapped: 11 Length of query: 505 Length of database: 3,060,696,203 Length adjustment: 140 Effective length of query: 365 Effective length of database: 1,741,754,103 Effective search space: 635740247595 Effective search space used: 635740247595 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 (21.9 bits) S2: 133 (55.8 bits)