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= 0320.0006.p (278 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value A6LYH3.1 A6LYH3_CLOB8 Transcriptional antiterminator, BglG 405 e-111 Q97J80.1 Q97J80_CLOAB Transcriptional antiterminator (BglG family) 377 e-103 Q46128.2 Q46128_CLOLO Regulatory protein 359 2e-97 C4IJA6.1 C4IJA6_CLOBU Transcription antiterminator 358 3e-97 B1QUW9.1 B1QUW9_CLOBU Transcription antiterminator LicT 358 3e-97 >A6LYH3.1 A6LYH3_CLOB8 Transcriptional antiterminator, BglG Length = 276 Score = 405 bits (1042), Expect = e-111, Method: Compositional matrix adjust. Identities = 192/276 (69%), Positives = 236/276 (85%), Gaps = 1/276 (0%) Query: 1 MIIQKIFNNNAIVAKDSQRQELVVMGRGIGFKKNMGDEVEKELIEKVFILKQKEASEKFK 60 MII+KIFNNNAI+AKD +QE+V+MGRG+GFKK++GD+V++ LIEK FILKQK+ASEKFK Sbjct: 1 MIIKKIFNNNAILAKDLSKQEIVIMGRGVGFKKSVGDQVDENLIEKTFILKQKDASEKFK 60 Query: 61 LLLEDVPSEYVSLCYDIIEYGKNMLGVPLSDYIYVTLTDHIFNTFKMHDDGIRNPNPLLW 120 LLLED+P+E+VSLCYDIIEY KNML V L+DYIY+TLTDHI K+ D+G+ PN L+W Sbjct: 61 LLLEDIPTEHVSLCYDIIEYAKNMLSVELNDYIYITLTDHISYALKLFDEGLNRPNALIW 120 Query: 121 EIKKIYPKEFAVGLKALEFIEDSAGKKLPEDEAGNIALHLINAQLSSSNSRTSDVAGQTQ 180 EIKK YPKEF +GLKAL+ I+ KKLPEDEAGNIALHLINAQ ++S ++ D+A QT+ Sbjct: 121 EIKKFYPKEFEIGLKALDLIQSETNKKLPEDEAGNIALHLINAQTNNSGNKVEDIAHQTK 180 Query: 181 KIQDILNIIKYTYNNNLDEQSISFERFITHLRFFFQRIHQKKKMEL-EDDFLLRQVKAKY 239 IQDILNIIKYTYN L+E+S+++ERF+THLRFFFQR+ + +KME EDDFLL+QVK KY Sbjct: 181 MIQDILNIIKYTYNIALNEKSLNYERFVTHLRFFFQRLSKNEKMEKEEDDFLLKQVKTKY 240 Query: 240 KKAYSCMLKIEKYLNTGLSDEEKLYLTIHVHRVTER 275 KKAY CMLKI+KYL LSDEE+LYLTIH+ RVT+R Sbjct: 241 KKAYECMLKIQKYLEKELSDEEQLYLTIHIQRVTQR 276 >Q97J80.1 Q97J80_CLOAB Transcriptional antiterminator (BglG family) Length = 277 Score = 377 bits (968), Expect = e-103, Method: Compositional matrix adjust. Identities = 181/276 (65%), Positives = 227/276 (82%), Gaps = 1/276 (0%) Query: 1 MIIQKIFNNNAIVAKDSQRQELVVMGRGIGFKKNMGDEVEKELIEKVFILKQKEASEKFK 60 M I+KIFNNNAI+A++S + E VVMG GI FKKN+G++V++ LIEK FILK K+ASEKFK Sbjct: 1 MTIKKIFNNNAIIAENSDKHEFVVMGCGIAFKKNIGEKVDERLIEKTFILKGKDASEKFK 60 Query: 61 LLLEDVPSEYVSLCYDIIEYGKNMLGVPLSDYIYVTLTDHIFNTFKMHDDGIRNPNPLLW 120 +LLEDVP+EYVS+CYDIIEY KN+L L+D+IYVTLTDH+ N FKM + GI NPL+W Sbjct: 61 MLLEDVPTEYVSVCYDIIEYAKNVLDAKLNDHIYVTLTDHVSNCFKMIESGIIIHNPLIW 120 Query: 121 EIKKIYPKEFAVGLKALEFIEDSAGKKLPEDEAGNIALHLINAQLSSSNSRTSDVAGQTQ 180 EIKK YPKEF VGLKA++FI+D GK LPEDEA NIALHLINAQ+++S + D A Q + Sbjct: 121 EIKKFYPKEFKVGLKAIDFIKDELGKDLPEDEAANIALHLINAQINNSLNNVEDAAKQAK 180 Query: 181 KIQDILNIIKYTYNNNLDEQSISFERFITHLRFFFQRIHQKKKMEL-EDDFLLRQVKAKY 239 IQDILNI+KYTYN LDE+SIS+ERF+THLRFFF RI + + ++ E+DFLL+QV+ KY Sbjct: 181 MIQDILNIVKYTYNIVLDEKSISYERFVTHLRFFFHRIDKSETVDTAEEDFLLKQVREKY 240 Query: 240 KKAYSCMLKIEKYLNTGLSDEEKLYLTIHVHRVTER 275 K AY CMLK++KYL LSDEEKLYLT+H+ RV+++ Sbjct: 241 KDAYQCMLKVQKYLGKELSDEEKLYLTVHIQRVSKK 276 >Q46128.2 Q46128_CLOLO Regulatory protein Length = 278 Score = 359 bits (921), Expect = 2e-97, Method: Compositional matrix adjust. Identities = 174/274 (63%), Positives = 218/274 (79%) Query: 3 IQKIFNNNAIVAKDSQRQELVVMGRGIGFKKNMGDEVEKELIEKVFILKQKEASEKFKLL 62 I+KIFNNN+++A DS+++E+V++G GI FKK + D+V ++ +EK FILKQK+ASEKFKLL Sbjct: 4 IKKIFNNNSVLALDSEKREIVILGCGIAFKKKVNDKVSEDNVEKTFILKQKDASEKFKLL 63 Query: 63 LEDVPSEYVSLCYDIIEYGKNMLGVPLSDYIYVTLTDHIFNTFKMHDDGIRNPNPLLWEI 122 LED+ +EY+SLCYDIIEY KN+L L+DYIYVTLTDHI + GI PN L+WEI Sbjct: 64 LEDISAEYISLCYDIIEYAKNILDKELNDYIYVTLTDHINYVIEACKQGISKPNILIWEI 123 Query: 123 KKIYPKEFAVGLKALEFIEDSAGKKLPEDEAGNIALHLINAQLSSSNSRTSDVAGQTQKI 182 KK YPKEFAVGLKA+EFIED G KL EDEAGNIALHLINAQ++ + DV T+KI Sbjct: 124 KKFYPKEFAVGLKAIEFIEDELGYKLHEDEAGNIALHLINAQVNEKSDTVEDVYNITKKI 183 Query: 183 QDILNIIKYTYNNNLDEQSISFERFITHLRFFFQRIHQKKKMELEDDFLLRQVKAKYKKA 242 DILNI+KYTYN LDE+++++ERFITHLRFFF+R+ +K+ E ED+FLL QVK KY A Sbjct: 184 NDILNIVKYTYNLELDEKTLNYERFITHLRFFFKRLERKEITESEDNFLLEQVKNKYTDA 243 Query: 243 YSCMLKIEKYLNTGLSDEEKLYLTIHVHRVTERQ 276 Y CMLKIEKYL LS+EE+LYL +H+ RVT R+ Sbjct: 244 YECMLKIEKYLGQELSNEEQLYLMLHIQRVTTRE 277 >C4IJA6.1 C4IJA6_CLOBU Transcription antiterminator Length = 276 Score = 358 bits (919), Expect = 3e-97, Method: Compositional matrix adjust. Identities = 172/276 (62%), Positives = 219/276 (79%), Gaps = 1/276 (0%) Query: 1 MIIQKIFNNNAIVAKDSQRQELVVMGRGIGFKKNMGDEVEKELIEKVFILKQKEASEKFK 60 M I KIFNNNA++AKD+ +E+V++G G+ FKK +GDE+++ LIEK F LK+K+ EKFK Sbjct: 1 MKIGKIFNNNAVMAKDNNNREIVLIGCGLAFKKKVGDEIDEALIEKTFTLKEKDTFEKFK 60 Query: 61 LLLEDVPSEYVSLCYDIIEYGKNMLGVPLSDYIYVTLTDHIFNTFKMHDDGIRNPNPLLW 120 +LLED+P+E +SLCYDIIEY KN L ++DYIYVTLTDHI T K+ D+GI PN L+W Sbjct: 61 MLLEDIPTEQISLCYDIIEYAKNNLKCNINDYIYVTLTDHISYTLKLFDEGIERPNVLIW 120 Query: 121 EIKKIYPKEFAVGLKALEFIEDSAGKKLPEDEAGNIALHLINAQLSSSNSRTSDVAGQTQ 180 EIKK+YPKEF +G+KALEFIE GKKL E+EAGNIALHLI AQ + SR D+ T+ Sbjct: 121 EIKKLYPKEFNIGIKALEFIESETGKKLNEEEAGNIALHLITAQFNDETSRNHDIYRMTK 180 Query: 181 KIQDILNIIKYTYNNNLDEQSISFERFITHLRFFFQRIHQKKKMELE-DDFLLRQVKAKY 239 KI DILNI+KYTY+ LDE+S+++ERF+THLRFFF+R++ K+ E E +DF+L QVK KY Sbjct: 181 KINDILNIVKYTYDIELDEKSLNYERFVTHLRFFFKRVYNKEFYEDESEDFILSQVKKKY 240 Query: 240 KKAYSCMLKIEKYLNTGLSDEEKLYLTIHVHRVTER 275 KAY CMLKIEKYL LS+EE+LYLT+H+ RVT R Sbjct: 241 TKAYRCMLKIEKYLKITLSEEEQLYLTLHIQRVTSR 276 >B1QUW9.1 B1QUW9_CLOBU Transcription antiterminator LicT Length = 276 Score = 358 bits (919), Expect = 3e-97, Method: Compositional matrix adjust. Identities = 172/276 (62%), Positives = 219/276 (79%), Gaps = 1/276 (0%) Query: 1 MIIQKIFNNNAIVAKDSQRQELVVMGRGIGFKKNMGDEVEKELIEKVFILKQKEASEKFK 60 M I KIFNNNA++AKD+ +E+V++G G+ FKK +GDE+++ LIEK F LK+K+ EKFK Sbjct: 1 MKIGKIFNNNAVMAKDNNNREIVLIGCGLAFKKKVGDEIDEALIEKTFTLKEKDTFEKFK 60 Query: 61 LLLEDVPSEYVSLCYDIIEYGKNMLGVPLSDYIYVTLTDHIFNTFKMHDDGIRNPNPLLW 120 +LLED+P+E +SLCYDIIEY KN L ++DYIYVTLTDHI T K+ D+GI PN L+W Sbjct: 61 MLLEDIPTEQISLCYDIIEYAKNNLKCNINDYIYVTLTDHISYTLKLFDEGIERPNVLIW 120 Query: 121 EIKKIYPKEFAVGLKALEFIEDSAGKKLPEDEAGNIALHLINAQLSSSNSRTSDVAGQTQ 180 EIKK+YPKEF +G+KALEFIE GKKL E+EAGNIALHLI AQ + SR D+ T+ Sbjct: 121 EIKKLYPKEFNIGIKALEFIESETGKKLNEEEAGNIALHLITAQFNDETSRNHDIYRMTK 180 Query: 181 KIQDILNIIKYTYNNNLDEQSISFERFITHLRFFFQRIHQKKKMELE-DDFLLRQVKAKY 239 KI DILNI+KYTY+ LDE+S+++ERF+THLRFFF+R++ K+ E E +DF+L QVK KY Sbjct: 181 KINDILNIVKYTYDIELDEKSLNYERFVTHLRFFFKRVYNKEFYEDESEDFILSQVKKKY 240 Query: 240 KKAYSCMLKIEKYLNTGLSDEEKLYLTIHVHRVTER 275 KAY CMLKIEKYL LS+EE+LYLT+H+ RVT R Sbjct: 241 TKAYRCMLKIEKYLKITLSEEEQLYLTLHIQRVTSR 276 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 0.319 0.137 0.382 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: 1,613,473,560 Number of extensions: 69299008 Number of successful extensions: 192030 Number of sequences better than 1.0e-05: 709 Number of HSP's gapped: 189951 Number of HSP's successfully gapped: 710 Length of query: 278 Length of database: 3,060,696,203 Length adjustment: 134 Effective length of query: 144 Effective length of database: 1,798,280,193 Effective search space: 258952347792 Effective search space used: 258952347792 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 (21.7 bits) S2: 130 (54.7 bits)