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= 0533.0013.p (289 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B1DB42.1 B1DB42_9BACL Transcriptional regulator, AraC family 450 e-125 B3K5J3.1 B3K5J3_9BACI Helix-turn-helix-domain containing protein... 256 1e-66 B3KHR9.1 B3KHR9_9BACI Helix-turn-helix-domain containing protein... 238 4e-61 B1D5K8.1 B1D5K8_9BACL Transcriptional regulator, AraC family 229 3e-58 C5D6R8.1 C5D6R8_9BACI Transcriptional regulator, AraC family 173 2e-41 >B1DB42.1 B1DB42_9BACL Transcriptional regulator, AraC family Length = 289 Score = 450 bits (1158), Expect = e-125, Method: Compositional matrix adjust. Identities = 209/289 (72%), Positives = 235/289 (81%) Query: 1 MNCLELAIPPLPQLVTIGHAFWPPGQKHETRSFDVYDMLFVMKGTLYMTEDEVPYEIKAG 60 M+CLEL IPPLPQL+T+GH+FW PGQ+H RSF+VYDMLFV+KGTLYMTED+VPYEIK G Sbjct: 1 MHCLELIIPPLPQLLTVGHSFWTPGQQHVARSFNVYDMLFVLKGTLYMTEDDVPYEIKEG 60 Query: 61 TMLVLEPGRRHTGHRPCEEITEIYWIHFVHPAPVRTIDSGKIPWSFPYVKGTNLDVAPQQ 120 TMLVLEP R H GHRPCEE+TEIYWIHF HPAPVR +DSG+I WS P+ KGT D+ P + Sbjct: 61 TMLVLEPNRMHIGHRPCEEVTEIYWIHFAHPAPVRAMDSGQISWSIPFAKGTVDDLTPHR 120 Query: 121 QVMYIPKFTVLHPPGVLPFLEQMVELHQALSPASSLPXXXXXXXXXXXXXXXXKMQYAPR 180 QVMY+PKFT L VLPFL+QM+ELH LSPASSLP Q+APR Sbjct: 121 QVMYLPKFTSLRATDVLPFLQQMLELHHTLSPASSLPLQTLLAGLFVELQTAVSSQFAPR 180 Query: 181 ARQLCDQTIAYLQQHLTRPFDARHMEQTLHFRFDYLARCLKTYTGMSPLQYLHDLQIKKA 240 +R LCDQ IAYLQQHLTRPFDA+HMEQTLHF FDYLARCLK YTGMSPLQYLH+LQIKKA Sbjct: 181 SRLLCDQAIAYLQQHLTRPFDAKHMEQTLHFHFDYLARCLKKYTGMSPLQYLHNLQIKKA 240 Query: 241 KSLLENMELSVSEVGRQVGIENANYFIRLFRKQTGVTPGSYRQIRNGKA 289 KSLLE+ ELSVSE+G+QVGIEN NYFIRLFRKQ +TPG YR IR G+ Sbjct: 241 KSLLESTELSVSEIGQQVGIENTNYFIRLFRKQADITPGQYRSIRIGRV 289 >B3K5J3.1 B3K5J3_9BACI Helix-turn-helix-domain containing protein AraC type Length = 298 Score = 256 bits (655), Expect = 1e-66, Method: Compositional matrix adjust. Identities = 128/286 (44%), Positives = 170/286 (59%), Gaps = 2/286 (0%) Query: 1 MNCLELAIPPLPQLVTIGHAFWPPGQKHETRSFDVYDMLFVMKGTLYMTEDEVPYEIKAG 60 M CLE AIPPLPQ VT GHA W PG +H R+FDVYD+L V KGTLYMTE++ YE+ AG Sbjct: 1 MLCLEFAIPPLPQFVTAGHAVWKPGDRHFARTFDVYDLLLVTKGTLYMTEEQTEYEVGAG 60 Query: 61 TMLVLEPGRRHTGHRPCEEITEIYWIHFVHPAPVRTIDSGKIPWSFPYVKGTNLDVAPQ- 119 +LVLE G H GHR C E TEIYW+HF+H P I +IPWS KGT DV P Sbjct: 61 KLLVLEAGLAHVGHRACSEHTEIYWVHFIHGHPAAHIRREEIPWSNLLSKGTVEDVEPSP 120 Query: 120 QQVMYIPKFTVLHPPGVLPFLEQMVELHQALSPASSLPXXXXXXXXXXXXXXXXKMQYAP 179 QQ MY+PKF + P L + + H L+ ++L P Sbjct: 121 QQRMYLPKFAPFEVQTLEPMLRGLNDTHNRLNGENALRLHLMLTELFAALQAGCARTSEP 180 Query: 180 R-ARQLCDQTIAYLQQHLTRPFDARHMEQTLHFRFDYLARCLKTYTGMSPLQYLHDLQIK 238 + +L AYL +H PF+ +E+ LHF+ Y+ARC+K + G +PLQY+ L+++ Sbjct: 181 EPSVRLAQAAAAYLNEHWKEPFERAALEEKLHFQASYIARCMKRHIGKTPLQYVLHLRLE 240 Query: 239 KAKSLLENMELSVSEVGRQVGIENANYFIRLFRKQTGVTPGSYRQI 284 +AK LL L +SE+ +VGI ++NY RLF + G+TPG+YRQ+ Sbjct: 241 EAKKLLGGTVLGISEIAERVGIRDSNYMTRLFTAKVGMTPGAYRQM 286 >B3KHR9.1 B3KHR9_9BACI Helix-turn-helix-domain containing protein AraC type Length = 292 Score = 238 bits (608), Expect = 4e-61, Method: Compositional matrix adjust. Identities = 123/285 (43%), Positives = 168/285 (58%), Gaps = 3/285 (1%) Query: 1 MNCLELAIPPLPQLVTIGHAFWPPGQKHETRSFDVYDMLFVMKGTLYMTEDEVPYEIKAG 60 M LEL +PP P L T+GH G S DV+D++ + GTLYM E+ + YEIK G Sbjct: 1 MLVLELKVPPFPLLATVGHTLMAAGNCPCKASIDVFDIIICVSGTLYMEENGIQYEIKKG 60 Query: 61 TMLVLEPGRRHTGHRPCEEITEIYWIHFVHPAPVRTIDSGKIPWSFPYVKGTNLDVAPQQ 120 +LVLEPG+ H G+RP + TE+YWIHF +P + + K W P + T+ D Sbjct: 61 MVLVLEPGKMHRGYRPTDTNTEVYWIHFEYPLLSKPVLVDKNNWQQPLLNRTDQDTEAPP 120 Query: 121 QVMYIPKFTVLHPPGVLPFLEQMVELHQALSPASSLPXXXXXXXXXXXXXXXXKMQYAPR 180 ++YIPKFT + V+P L++M+++H LS S K + +P+ Sbjct: 121 GMVYIPKFTGIDLRTVVPLLKEMIKVHSILSAYRSYELQILFGRFLIEIQSSMK-KSSPQ 179 Query: 181 ARQLC--DQTIAYLQQHLTRPFDARHMEQTLHFRFDYLARCLKTYTGMSPLQYLHDLQIK 238 AR L ++ +YL L PFD+ ME LH+ FDYLARCLK Y+GMSPLQY H LQI+ Sbjct: 180 ARSLLLGEKVASYLADCLEDPFDSVQMENDLHYHFDYLARCLKQYSGMSPLQYRHRLQIE 239 Query: 239 KAKSLLENMELSVSEVGRQVGIENANYFIRLFRKQTGVTPGSYRQ 283 +AK LL N E+ + +VG Q G + NYF RLF++QT TPG YR+ Sbjct: 240 RAKQLLANSEIPLIQVGEQCGFRDNNYFTRLFKRQTSFTPGEYRK 284 >B1D5K8.1 B1D5K8_9BACL Transcriptional regulator, AraC family Length = 292 Score = 229 bits (583), Expect = 3e-58, Method: Compositional matrix adjust. Identities = 114/285 (40%), Positives = 167/285 (58%), Gaps = 3/285 (1%) Query: 1 MNCLELAIPPLPQLVTIGHAFWPPGQKHETRSFDVYDMLFVMKGTLYMTEDEVPYEIKAG 60 M ++L +PP P L T+G+ W G H R FDVYD++ +KGTLYM ED + Y++K G Sbjct: 1 MYSVQLPVPPFPLLATVGYTHWQSGITHARRQFDVYDLIICIKGTLYMEEDGILYDVKQG 60 Query: 61 TMLVLEPGRRHTGHRPCEEITEIYWIHFVHPAPVRTIDSGKIPWSFPYVKGTNLDVAPQQ 120 ML+LEP + H+G+RP + TE+YWIHF +P + + K P ++ T+ D Sbjct: 61 MMLLLEPEKTHSGYRPTDTETEVYWIHFQYPTSLSISLNEKNSSPQPLLQTTDQDTVSHP 120 Query: 121 QVMYIPKFTVLHPPGVLPFLEQMVELHQALSPASSLPXXXXXXXXXXXXXXXXKMQ--YA 178 + IPKFT + +P L +M++LH L+ + S + YA Sbjct: 121 STIEIPKFTTVDIRKTVPLLSEMLKLHSVLTLSRSFELQILFCQLLIQLQNGMRKSSPYA 180 Query: 179 PRARQLCDQTIAYLQQHLTRPFDARHMEQTLHFRFDYLARCLKTYTGMSPLQYLHDLQIK 238 RA ++ ++ AYL L +PFD++ ME L++ FDYLARCLK Y+GMSP+QY H LQI Sbjct: 181 -RAYEIGEKAAAYLADRLEQPFDSKRMESELNYHFDYLARCLKEYSGMSPMQYRHHLQID 239 Query: 239 KAKSLLENMELSVSEVGRQVGIENANYFIRLFRKQTGVTPGSYRQ 283 +AK LL + L +S++G Q G ++ YF RL ++ T TPG YR+ Sbjct: 240 RAKRLLAHSTLPLSKIGEQCGFQDMTYFSRLLKRHTTFTPGEYRK 284 >C5D6R8.1 C5D6R8_9BACI Transcriptional regulator, AraC family Length = 287 Score = 173 bits (438), Expect = 2e-41, Method: Compositional matrix adjust. Identities = 90/284 (31%), Positives = 146/284 (51%), Gaps = 3/284 (1%) Query: 1 MNCLELAIPPLPQLVTIGHAFWPPGQKHETRSFDVYDMLFVMKGTLYMTEDEVPYEIKAG 60 M + + PP P + + +P GQKH R+F V+D+L+V KG LYMTE+ + +K G Sbjct: 1 MEYITFSFPPFPIFIKGAESVFPKGQKHFRRTFSVFDLLYVKKGCLYMTEENKEFAVKEG 60 Query: 61 TMLVLEPGRRHTGHRPCEEITEIYWIHFVHPAPVRTIDSGKIPWSFPYVKGTNLDVAPQQ 120 L+L PGR H GH PC E T++ W+HF + + W ++ V P Q Sbjct: 61 EYLILIPGREHYGHYPCTEETQLVWLHFTIEGGYDIVPKQSLSWH-NVIEREATYVEPVQ 119 Query: 121 QVMYIPKFT-VLHPPGVLPFLEQMVELHQALSPASSLPXXXXXXXXXXXXXXXXKMQYAP 179 +I ++ V + L+Q+VEL++ P SL ++ Sbjct: 120 YRFWIRQYAKVKQRERIEQLLQQLVELNEERDPDRSLK-QLLYFVEFIWQLQKQELHIPS 178 Query: 180 RARQLCDQTIAYLQQHLTRPFDARHMEQTLHFRFDYLARCLKTYTGMSPLQYLHDLQIKK 239 + ++C + +AY+++H P + + Q+L F DY+ RC++ GMS +QYL+ ++ K Sbjct: 179 ASEKVCAEAVAYIERHYAEPITIQQLAQSLRFHPDYITRCMQKTIGMSFVQYLNYYRLSK 238 Query: 240 AKSLLENMELSVSEVGRQVGIENANYFIRLFRKQTGVTPGSYRQ 283 AK L ++ + ++ GIE+ YF RLF+K GVTP YR+ Sbjct: 239 AKKWLAETNETIEAIAKRAGIEDGAYFSRLFKKIEGVTPTEYRR 282 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 0.432 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: 1,676,157,309 Number of extensions: 63569124 Number of successful extensions: 137764 Number of sequences better than 1.0e-05: 2256 Number of HSP's gapped: 138138 Number of HSP's successfully gapped: 2268 Length of query: 289 Length of database: 3,060,696,203 Length adjustment: 134 Effective length of query: 155 Effective length of database: 1,798,280,193 Effective search space: 278733429915 Effective search space used: 278733429915 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: 130 (54.7 bits)