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= 0291.0006.p (319 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B3KFN9.1 B3KFN9_9BACI CAT RNA-binding domain protein 210 2e-52 C2P346.1 C2P346_BACCE Transcription antiterminator 182 4e-44 B7IWG3.1 B7IWG3_BACC2 Transcription antiterminator GlcT 182 4e-44 Q3EKY5.1 Q3EKY5_BACTI Transcription antiterminator, BglG family 182 4e-44 C3INQ9.1 C3INQ9_BACTU Transcription antiterminator 182 4e-44 >B3KFN9.1 B3KFN9_9BACI CAT RNA-binding domain protein Length = 285 Score = 210 bits (534), Expect = 2e-52, Method: Compositional matrix adjust. Identities = 101/148 (68%), Positives = 122/148 (82%) Query: 26 ITVAKVLNNNVIIAQHPQYAEVVVIGKGIGFNRKVRDMINLSSVEKMFILRNQEEQEQYK 85 + VAKVLNNNVIIA+HPQ+ EVVVIGKGIGFNRK +D I ++ EKMFIL EEQEQYK Sbjct: 4 LQVAKVLNNNVIIAKHPQHGEVVVIGKGIGFNRKNKDRIPAAAAEKMFILTKPEEQEQYK 63 Query: 86 QLVPQVDEKLIEVVQEIVLHILQNSRQPLNEHIHIALTDHISFAIRRNEQNIAIHNPFLY 145 QLVP +DEKLIE + +I+++ ++S PLNEHIHIALTDHI+FAI+R+ Q + IHNPFLY Sbjct: 64 QLVPHIDEKLIEAMNDIIMNAAKSSDAPLNEHIHIALTDHIAFAIKRHAQGLYIHNPFLY 123 Query: 146 ETKEIYPEEYSLAEYAVGRINEAMGVKL 173 ETKE+YPEEY +AEYAV I E +GV L Sbjct: 124 ETKEMYPEEYEMAEYAVRTIREKLGVDL 151 >C2P346.1 C2P346_BACCE Transcription antiterminator Length = 282 Score = 182 bits (461), Expect = 4e-44, Method: Compositional matrix adjust. Identities = 84/148 (56%), Positives = 116/148 (78%) Query: 26 ITVAKVLNNNVIIAQHPQYAEVVVIGKGIGFNRKVRDMINLSSVEKMFILRNQEEQEQYK 85 + + KVLNNNVIIA HP++ EVVVIGKGIGF +K +D++ +EKMF+L+N+ ++EQYK Sbjct: 5 LEIKKVLNNNVIIASHPEHEEVVVIGKGIGFGKKAKDVLEQEQIEKMFVLKNERDREQYK 64 Query: 86 QLVPQVDEKLIEVVQEIVLHILQNSRQPLNEHIHIALTDHISFAIRRNEQNIAIHNPFLY 145 LVP + EKLIE++ +I+L+I + ++ PLNEHIHIALTDHISFAI+R +Q + I NPFL Sbjct: 65 LLVPHISEKLIELMNDIMLYIQEKAKSPLNEHIHIALTDHISFAIKRLKQGLTIDNPFLV 124 Query: 146 ETKEIYPEEYSLAEYAVGRINEAMGVKL 173 ETK +YPEEY++AE V +N + + L Sbjct: 125 ETKMLYPEEYAIAEGVVQLLNSRLQITL 152 >B7IWG3.1 B7IWG3_BACC2 Transcription antiterminator GlcT Length = 282 Score = 182 bits (461), Expect = 4e-44, Method: Compositional matrix adjust. Identities = 85/148 (57%), Positives = 115/148 (77%) Query: 26 ITVAKVLNNNVIIAQHPQYAEVVVIGKGIGFNRKVRDMINLSSVEKMFILRNQEEQEQYK 85 + + KVLNNNVIIA HP++ EVVVIGKGIGF +K +D++ +EKMF+L+N+ ++EQYK Sbjct: 5 LEIKKVLNNNVIIASHPEHEEVVVIGKGIGFGKKAKDVLEQEQIEKMFVLKNERDREQYK 64 Query: 86 QLVPQVDEKLIEVVQEIVLHILQNSRQPLNEHIHIALTDHISFAIRRNEQNIAIHNPFLY 145 LVP V EKLIE++ +I+L+I + ++ PLNEHIHIALTDHISFAI+R +Q + I NPFL Sbjct: 65 LLVPHVSEKLIELMNDIMLYIQEKAKSPLNEHIHIALTDHISFAIKRLKQGLTIDNPFLV 124 Query: 146 ETKEIYPEEYSLAEYAVGRINEAMGVKL 173 ETK +YPEEY +AE V +N + + L Sbjct: 125 ETKMLYPEEYEIAEGVVELLNSRLQITL 152 >Q3EKY5.1 Q3EKY5_BACTI Transcription antiterminator, BglG family Length = 282 Score = 182 bits (461), Expect = 4e-44, Method: Compositional matrix adjust. Identities = 85/148 (57%), Positives = 115/148 (77%) Query: 26 ITVAKVLNNNVIIAQHPQYAEVVVIGKGIGFNRKVRDMINLSSVEKMFILRNQEEQEQYK 85 + + KVLNNNVIIA HP++ EVVVIGKGIGF +K +D++ +EKMF+L+N+ ++EQYK Sbjct: 5 LEIKKVLNNNVIIASHPEHEEVVVIGKGIGFGKKAKDVLEQEQIEKMFVLKNERDREQYK 64 Query: 86 QLVPQVDEKLIEVVQEIVLHILQNSRQPLNEHIHIALTDHISFAIRRNEQNIAIHNPFLY 145 LVP V EKLIE++ +I+L+I + ++ PLNEHIHIALTDHISFAI+R +Q + I NPFL Sbjct: 65 LLVPHVSEKLIELMNDIMLYIQEKAKSPLNEHIHIALTDHISFAIKRLKQGLTIDNPFLV 124 Query: 146 ETKEIYPEEYSLAEYAVGRINEAMGVKL 173 ETK +YPEEY +AE V +N + + L Sbjct: 125 ETKMLYPEEYEIAEGVVELLNSRLQITL 152 >C3INQ9.1 C3INQ9_BACTU Transcription antiterminator Length = 282 Score = 182 bits (461), Expect = 4e-44, Method: Compositional matrix adjust. Identities = 85/148 (57%), Positives = 115/148 (77%) Query: 26 ITVAKVLNNNVIIAQHPQYAEVVVIGKGIGFNRKVRDMINLSSVEKMFILRNQEEQEQYK 85 + + KVLNNNVIIA HP++ EVVVIGKGIGF +K +D++ +EKMF+L+N+ ++EQYK Sbjct: 5 LEIKKVLNNNVIIASHPEHEEVVVIGKGIGFGKKAKDVLEQEQIEKMFVLKNERDREQYK 64 Query: 86 QLVPQVDEKLIEVVQEIVLHILQNSRQPLNEHIHIALTDHISFAIRRNEQNIAIHNPFLY 145 LVP V EKLIE++ +I+L+I + ++ PLNEHIHIALTDHISFAI+R +Q + I NPFL Sbjct: 65 LLVPHVSEKLIELMNDIMLYIQEKAKSPLNEHIHIALTDHISFAIKRLKQGLTIDNPFLV 124 Query: 146 ETKEIYPEEYSLAEYAVGRINEAMGVKL 173 ETK +YPEEY +AE V +N + + L Sbjct: 125 ETKMLYPEEYEIAEGVVELLNSRLQITL 152 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 0.320 0.136 0.413 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: 1,722,710,252 Number of extensions: 67467993 Number of successful extensions: 182307 Number of sequences better than 1.0e-05: 677 Number of HSP's gapped: 181883 Number of HSP's successfully gapped: 677 Length of query: 319 Length of database: 3,060,696,203 Length adjustment: 135 Effective length of query: 184 Effective length of database: 1,788,859,178 Effective search space: 329150088752 Effective search space used: 329150088752 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 (21.8 bits) S2: 131 (55.1 bits)