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= 0520.0003.p (119 letters) Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF 2,715,099 sequences; 757,237,578 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gb|AAC38661.1| replication terminator protein [Bacillus atrophaeus] 117 7e-26 ref|NP_389731.1| replication terminator protein [Bacillus subtil... 117 8e-26 gb|AAC38660.1| replication terminator protein [Bacillus mojavensis] 117 1e-25 gb|AAC38662.1| replication terminator protein [Bacillus amyloliq... 117 1e-25 pdb|1F4K|A Chain A, Crystal Structure Of The Replication Termina... 114 1e-24 >gb|AAC38661.1| replication terminator protein [Bacillus atrophaeus] Length = 122 Score = 117 bits (294), Expect = 7e-26, Method: Compositional matrix adjust. Identities = 58/118 (49%), Positives = 81/118 (68%), Gaps = 5/118 (4%) Query: 2 AFMIAQRAFIKVYLITMVEQHKGYGYQMLEDLRRDFKAHGYSPPQSEIYRALHELVQQGI 61 F++ QRAF+K+Y+ITM EQ + YG ++LE LR +FK G+ P +E+YR+LHEL+ GI Sbjct: 10 GFLVKQRAFLKLYMITMTEQERLYGLKLLEVLRSEFKQIGFKPNHTEVYRSLHELLDDGI 69 Query: 62 LYRTKQLKGNDPKVDFQEIVLYHFTADGEEKARLYKKQVKTDLDRCLGILNKAVADNF 119 L KQ+K QE+VLY F E A+LYKKQ+K +LDRC ++ KA++DNF Sbjct: 70 L---KQIKVKKEGAKLQEVVLYQFK--DYEAAKLYKKQLKIELDRCKNLIEKALSDNF 122 >ref|NP_389731.1| replication terminator protein [Bacillus subtilis] sp|P14382|RTP_BACSU Replication termination protein (Replication terminator protein) pir||A32807 replication terminator protein rtp - Bacillus subtilis pdb|1BM9|A Chain A, Replication Terminator Protein From Bacillus Subtilis pdb|1BM9|B Chain B, Replication Terminator Protein From Bacillus Subtilis emb|CAA29534.1| unnamed protein product [Bacillus subtilis] gb|AAA22721.1| replication terminator protein (rtp; terC) emb|CAB13742.1| replication terminator protein [Bacillus subtilis subsp. subtilis str. 168] gb|AAC38659.1| replication terminator protein [Bacillus vallismortis] Length = 122 Score = 117 bits (293), Expect = 8e-26, Method: Compositional matrix adjust. Identities = 58/118 (49%), Positives = 81/118 (68%), Gaps = 5/118 (4%) Query: 2 AFMIAQRAFIKVYLITMVEQHKGYGYQMLEDLRRDFKAHGYSPPQSEIYRALHELVQQGI 61 F++ QRAF+K+Y+ITM EQ + YG ++LE LR +FK G+ P +E+YR+LHEL+ GI Sbjct: 10 GFLVKQRAFLKLYMITMTEQERLYGLKLLEVLRSEFKEIGFKPNHTEVYRSLHELLDDGI 69 Query: 62 LYRTKQLKGNDPKVDFQEIVLYHFTADGEEKARLYKKQVKTDLDRCLGILNKAVADNF 119 L KQ+K QE+VLY F E A+LYKKQ+K +LDRC ++ KA++DNF Sbjct: 70 L---KQIKVKKEGAKLQEVVLYQFK--DYEAAKLYKKQLKVELDRCKKLIEKALSDNF 122 >gb|AAC38660.1| replication terminator protein [Bacillus mojavensis] Length = 122 Score = 117 bits (292), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 58/118 (49%), Positives = 81/118 (68%), Gaps = 5/118 (4%) Query: 2 AFMIAQRAFIKVYLITMVEQHKGYGYQMLEDLRRDFKAHGYSPPQSEIYRALHELVQQGI 61 F++ QRAF+K+Y+ITM EQ + YG ++LE LR +FK G+ P +E+YR+LHEL+ GI Sbjct: 10 GFLVKQRAFLKLYMITMTEQKRLYGLKLLEVLRSEFKEIGFKPNHTEVYRSLHELLDDGI 69 Query: 62 LYRTKQLKGNDPKVDFQEIVLYHFTADGEEKARLYKKQVKTDLDRCLGILNKAVADNF 119 L KQ+K QE+VLY F E A+LYKKQ+K +LDRC ++ KA++DNF Sbjct: 70 L---KQIKVKKEGAKLQEVVLYQFK--DYEAAKLYKKQLKVELDRCKKLIEKALSDNF 122 >gb|AAC38662.1| replication terminator protein [Bacillus amyloliquefaciens] Length = 122 Score = 117 bits (292), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 58/118 (49%), Positives = 81/118 (68%), Gaps = 5/118 (4%) Query: 2 AFMIAQRAFIKVYLITMVEQHKGYGYQMLEDLRRDFKAHGYSPPQSEIYRALHELVQQGI 61 F++ QRAF+K+Y+ITM EQ + YG ++LE LR +FK G+ P +E+YR+LHEL+ GI Sbjct: 10 GFLVKQRAFLKLYMITMTEQERLYGLKLLEVLRSEFKPIGFKPNHTEVYRSLHELLDDGI 69 Query: 62 LYRTKQLKGNDPKVDFQEIVLYHFTADGEEKARLYKKQVKTDLDRCLGILNKAVADNF 119 L KQ+K QE+VLY F E A+LYKKQ+K +LDRC ++ KA++DNF Sbjct: 70 L---KQVKVKKEGAKLQEVVLYQFK--DYEAAKLYKKQLKVELDRCKKLIEKALSDNF 122 >pdb|1F4K|A Chain A, Crystal Structure Of The Replication Terminator ProteinB- Site Dna Complex pdb|1F4K|B Chain B, Crystal Structure Of The Replication Terminator ProteinB- Site Dna Complex pdb|1J0R|A Chain A, Crystal Structure Of The Replication Termination Protein Mutant C110s pdb|1J0R|B Chain B, Crystal Structure Of The Replication Termination Protein Mutant C110s Length = 122 Score = 114 bits (284), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 57/118 (48%), Positives = 80/118 (67%), Gaps = 5/118 (4%) Query: 2 AFMIAQRAFIKVYLITMVEQHKGYGYQMLEDLRRDFKAHGYSPPQSEIYRALHELVQQGI 61 F++ QRAF+K+Y+ITM EQ + YG ++LE LR +FK G+ P +E+YR+LHEL+ GI Sbjct: 10 GFLVKQRAFLKLYMITMTEQERLYGLKLLEVLRSEFKEIGFKPNHTEVYRSLHELLDDGI 69 Query: 62 LYRTKQLKGNDPKVDFQEIVLYHFTADGEEKARLYKKQVKTDLDRCLGILNKAVADNF 119 L KQ+K QE+VLY F E A+LYKKQ+K +LDR ++ KA++DNF Sbjct: 70 L---KQIKVKKEGAKLQEVVLYQFK--DYEAAKLYKKQLKVELDRSKKLIEKALSDNF 122 Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF Posted date: Mar 24, 2004 1:53 AM Number of letters in database: 757,237,578 Number of sequences in database: 2,715,099 Lambda K H 0.324 0.140 0.406 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 2715099 Number of Hits to DB: 170,632,282 Number of extensions: 6202230 Number of successful extensions: 14204 Number of sequences better than 1.0e-05: 5 Number of HSP's gapped: 14196 Number of HSP's successfully gapped: 5 Length of query: 119 Length of database: 757,237,578 Length adjustment: 84 Effective length of query: 35 Effective length of database: 529,169,262 Effective search space: 18520924170 Effective search space used: 18520924170 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (22.0 bits) S2: 120 (50.8 bits)