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= 0137.0019.p (149 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B3KK43.1 B3KK43_9BACI Transcription antitermination factor NusB 229 5e-59 B1DM82.1 B1DM82_9BACL NusB antitermination factor 187 2e-46 A7Z6K0.1 NUSB_BACA2 N utilization substance protein B homolog 118 2e-25 Q65HI7.1 NUSB_BACLD N utilization substance protein B homolog 116 7e-25 C1PEP5.1 C1PEP5_BACCO NusB antitermination factor 115 2e-24 >B3KK43.1 B3KK43_9BACI Transcription antitermination factor NusB Length = 152 Score = 229 bits (585), Expect = 5e-59, Method: Compositional matrix adjust. Identities = 106/149 (71%), Positives = 133/149 (89%) Query: 1 MKRRLAREIIVQSLYQMEMNDVESADAVEMLIAEAAEENESEHVITDEVELKAYVVEHVN 60 MKRR+AREI+VQSLYQMEMN+V+S +AV ML++EAAEENE+E VI DEV++K YV++ VN Sbjct: 1 MKRRVAREIVVQSLYQMEMNEVDSMEAVSMLLSEAAEENETERVIGDEVQMKEYVLQLVN 60 Query: 61 GVWEHKMAIDDMLEHYLKGWQMSRLSRVDRQILRLATFEMVFANDVPAKVAVNEAIDLAK 120 G WE K +ID++L HYLKGWQ+SRLSRVDRQILRLA +E+ + +DVP KVAVNEAI+L+K Sbjct: 61 GTWESKDSIDELLAHYLKGWQVSRLSRVDRQILRLAVYELTYRDDVPGKVAVNEAIELSK 120 Query: 121 HFGTEDSGKFVNGVLGKMIQEIDTLKTEL 149 HFGTE+SGKFVNGVLG+MIQE+D +K +L Sbjct: 121 HFGTEESGKFVNGVLGRMIQELDQVKVKL 149 >B1DM82.1 B1DM82_9BACL NusB antitermination factor Length = 153 Score = 187 bits (476), Expect = 2e-46, Method: Compositional matrix adjust. Identities = 92/141 (65%), Positives = 111/141 (78%) Query: 1 MKRRLAREIIVQSLYQMEMNDVESADAVEMLIAEAAEENESEHVITDEVELKAYVVEHVN 60 MKRRLAREI V SLYQ+EMN+V +AV+ML+ EA ENE E + + YV E VN Sbjct: 1 MKRRLAREIAVSSLYQLEMNEVTPMEAVDMLMEEARSENEIEAEFVENDQTDNYVRELVN 60 Query: 61 GVWEHKMAIDDMLEHYLKGWQMSRLSRVDRQILRLATFEMVFANDVPAKVAVNEAIDLAK 120 GV E+K AID+ L+HYL GWQ+ RLSRVDRQILRLA FE+ + NDVP K A+NEAI+LAK Sbjct: 61 GVAENKAAIDERLQHYLTGWQVDRLSRVDRQILRLAYFEIAYRNDVPPKAAINEAIELAK 120 Query: 121 HFGTEDSGKFVNGVLGKMIQE 141 HFGTE+SGKFVNGVLGK+++E Sbjct: 121 HFGTEESGKFVNGVLGKLLKE 141 >A7Z6K0.1 NUSB_BACA2 N utilization substance protein B homolog Length = 130 Score = 118 bits (295), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 59/144 (40%), Positives = 96/144 (66%), Gaps = 14/144 (9%) Query: 1 MKRRLAREIIVQSLYQMEMNDVESADAVEMLIAEAAEENESEHVITDEVELKAYVVEHVN 60 MKRR ARE +Q+L+Q++++D+ DA+E H + E + A+ + V Sbjct: 1 MKRRTAREKALQALFQIDVSDIAPNDAIE-------------HALDGE-KTDAFFEQLVY 46 Query: 61 GVWEHKMAIDDMLEHYLKGWQMSRLSRVDRQILRLATFEMVFANDVPAKVAVNEAIDLAK 120 GV EH++ +D+M+ +L W++ R++ VDR ILRLA +EMV+++D+PA V++NEAI+LAK Sbjct: 47 GVIEHQVQLDEMISGHLVNWKLDRIANVDRAILRLAVYEMVYSDDIPANVSLNEAIELAK 106 Query: 121 HFGTEDSGKFVNGVLGKMIQEIDT 144 FG + + KFVNGVL + +I++ Sbjct: 107 RFGDDKAAKFVNGVLSNIKTDIES 130 >Q65HI7.1 NUSB_BACLD N utilization substance protein B homolog Length = 129 Score = 116 bits (290), Expect = 7e-25, Method: Compositional matrix adjust. Identities = 60/138 (43%), Positives = 91/138 (65%), Gaps = 14/138 (10%) Query: 1 MKRRLAREIIVQSLYQMEMNDVESADAVEMLIAEAAEENESEHVITDEVELKAYVVEHVN 60 MKRR ARE +QSL+Q++++D+E +A++ H + D E A+ + V Sbjct: 1 MKRRTAREKALQSLFQIDVSDIEPNEAMQ-------------HAL-DGQESDAFFEQLVY 46 Query: 61 GVWEHKMAIDDMLEHYLKGWQMSRLSRVDRQILRLATFEMVFANDVPAKVAVNEAIDLAK 120 GV E+K ID+M++ +L W++ RL+ VDR ILRL+ +EM+F +D+P V++NEAI+LAK Sbjct: 47 GVLENKEKIDEMIKRHLVNWKLDRLANVDRAILRLSAYEMIFLDDIPVNVSMNEAIELAK 106 Query: 121 HFGTEDSGKFVNGVLGKM 138 FG + S KFVNGVL + Sbjct: 107 QFGDDKSAKFVNGVLSNI 124 >C1PEP5.1 C1PEP5_BACCO NusB antitermination factor Length = 132 Score = 115 bits (287), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 59/144 (40%), Positives = 87/144 (60%), Gaps = 14/144 (9%) Query: 1 MKRRLAREIIVQSLYQMEMNDVESADAVEMLIAEAAEENESEHVITDEVELKAYVVEHVN 60 MKRR ARE +Q+L+QM+MN+ DA+ + D E Y+ + VN Sbjct: 2 MKRRTAREKALQALFQMDMNEASPEDAIRNAL--------------DGQESDDYLEKLVN 47 Query: 61 GVWEHKMAIDDMLEHYLKGWQMSRLSRVDRQILRLATFEMVFANDVPAKVAVNEAIDLAK 120 G H ID M+ +L+ W + RL++V+ ILRLA +E+++A DVPA VA+NEA+++AK Sbjct: 48 GTATHLAEIDAMISQHLENWTLDRLAKVELNILRLAAYELMYAEDVPANVAINEALEIAK 107 Query: 121 HFGTEDSGKFVNGVLGKMIQEIDT 144 F E S KF+NGVL +M I++ Sbjct: 108 RFADEKSAKFINGVLNQMKDSIES 131 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 0.317 0.132 0.361 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: 755,783,591 Number of extensions: 26391786 Number of successful extensions: 86049 Number of sequences better than 1.0e-05: 1388 Number of HSP's gapped: 85332 Number of HSP's successfully gapped: 1388 Length of query: 149 Length of database: 3,060,696,203 Length adjustment: 111 Effective length of query: 38 Effective length of database: 2,014,963,538 Effective search space: 76568614444 Effective search space used: 76568614444 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 126 (53.1 bits)