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= 0057.0009.p (250 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 ref|ZP_00062008.1| COG2176: DNA polymerase III, alpha subunit (g... 126 4e-28 ref|NP_979849.1| exonuclease family protein [Bacillus cereus ATC... 96 6e-19 ref|ZP_00112126.1| COG5018: Inhibitor of the KinA pathway to spo... 96 7e-19 ref|NP_833271.1| DNA polymerase III, epsilon chain [Bacillus cer... 91 3e-17 ref|ZP_00083400.1| COG5018: Inhibitor of the KinA pathway to spo... 89 1e-16 >ref|ZP_00062008.1| COG2176: DNA polymerase III, alpha subunit (gram-positive type) [Clostridium thermocellum ATCC 27405] Length = 215 Score = 126 bits (317), Expect = 4e-28, Method: Compositional matrix adjust. Identities = 72/184 (39%), Positives = 109/184 (59%), Gaps = 7/184 (3%) Query: 1 VDYIILDIEFNGRKFASEHPMEVIEIGAVRLDASLQYKDEFSALIRPIYFSTLNSFIKKK 60 ++YI+ D+E N + F S P E+IEIGA++L+ +LQ FS+ I+P YF L S +K+K Sbjct: 1 MNYIVYDLELNSKPFKSSIPNEIIEIGAIKLNENLQEIGMFSSFIKPKYFKKLFSVVKQK 60 Query: 61 TGIPQEDIDVADRFPKVITAFRAWLDQSVDGVLLLTWGGEDMKRIIQDVRMHKMDDAYWL 120 T I QE I+ AD F VI F W+ D LL++WG +D+ +I + + +++ WL Sbjct: 61 TKITQEQINSADSFRNVIKQFIRWIG---DDYLLISWGHDDVLNLILNCKFNRI-KIDWL 116 Query: 121 AATYFDLLKGVLRARGLTND--ISVEGAMALLGLEPSGSAHRALDDAKMTADIFRAVFPD 178 D+ K L + S+E A+AL+G+E + HRAL DA+ TA IF+++F Sbjct: 117 KRN-IDIQKQFSAIYHLPSGQRYSLENALALIGVEIDENLHRALTDAQYTAKIFKSIFDK 175 Query: 179 LDFE 182 LD E Sbjct: 176 LDLE 179 >ref|NP_979849.1| exonuclease family protein [Bacillus cereus ATCC 10987] gb|AAS42457.1| exonuclease family protein [Bacillus cereus ATCC 10987] Length = 281 Score = 96.3 bits (238), Expect = 6e-19, Method: Compositional matrix adjust. Identities = 59/181 (32%), Positives = 100/181 (55%), Gaps = 8/181 (4%) Query: 3 YIILDIEFNGRKFASEHPMEVIEIGAVRLDAS-LQYKDEFSALIRPIYFSTLNSFIKKKT 61 +I+ DIE N R + S+ P E+++IGAV+++AS ++ EFS L++P + L K T Sbjct: 7 FIVFDIERNFRPYKSDDPSEIVDIGAVKIEASTMKVIGEFSELVKP--GARLTRHTTKLT 64 Query: 62 GIPQEDIDVADRFPKVITAFRAWLDQSVDGVLLLTWGGEDMKRIIQDVRMHKMDDAYWLA 121 GI ++D+ ++FP++I F ++ + + +TWG ED + ++ D +H +D Sbjct: 65 GITKKDLMNVEKFPQIIERFIQFIGED---SIFVTWGKEDYRFLVHDCTLHGVDCPCMEK 121 Query: 122 ATYFDLLKGVLRARG--LTNDISVEGAMALLGLEPSGSAHRALDDAKMTADIFRAVFPDL 179 DL K V +A + S++ A+ LGL G HRAL DA+ TA+I + + Sbjct: 122 ERRIDLQKFVFQAYEELFEHTPSLQSAVEQLGLTWEGKQHRALADAENTANILLKAYSER 181 Query: 180 D 180 D Sbjct: 182 D 182 >ref|ZP_00112126.1| COG5018: Inhibitor of the KinA pathway to sporulation, predicted exonuclease [Nostoc punctiforme] Length = 159 Score = 95.9 bits (237), Expect = 7e-19, Method: Compositional matrix adjust. Identities = 52/156 (33%), Positives = 82/156 (52%), Gaps = 4/156 (2%) Query: 21 MEVIEIGAVRLD-ASLQYKDEFSALIRPIYFSTLNSFIKKKTGIPQEDIDVADRFPKVIT 79 ME+IEIGAV L+ A+ + EF I+P+ L F K T I Q+D+D A +F + I+ Sbjct: 1 MEIIEIGAVMLNRATWEIDSEFQQFIQPVRHPQLTDFCTKLTSIQQQDVDEAPKFIEAIS 60 Query: 80 AFRAWLDQSVDGVLLLTWGGEDMKRIIQDVRMHKMDDAYWLAATYFDLLKGVLRARGLTN 139 F+ W+ S + +WG D K+ IQD H AY + + ++ + G++ Sbjct: 61 RFKEWIC-SFPNHIFCSWGNYDKKQFIQDCAFHNF--AYPFTSEHINIKEEFSEYLGVSK 117 Query: 140 DISVEGAMALLGLEPSGSAHRALDDAKMTADIFRAV 175 + A+ LG+E G+ HR +DDA A I+R + Sbjct: 118 RFGMAQALNELGIELKGTHHRGIDDAHNIASIYRQI 153 >ref|NP_833271.1| DNA polymerase III, epsilon chain [Bacillus cereus ATCC 14579] gb|AAP10472.1| DNA polymerase III, epsilon chain [Bacillus cereus ATCC 14579] Length = 281 Score = 90.5 bits (223), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 56/184 (30%), Positives = 101/184 (54%), Gaps = 8/184 (4%) Query: 3 YIILDIEFNGRKFASEHPMEVIEIGAVRLD-ASLQYKDEFSALIRPIYFSTLNSFIKKKT 61 +I+ DIE N R + SE P E+++IGAV+++ +++ +EFS L++P + L K T Sbjct: 7 FIVFDIERNFRPYKSEDPSEIVDIGAVKIEIGTMKIIEEFSELVKPS--ARLTRHTTKLT 64 Query: 62 GIPQEDIDVADRFPKVITAFRAWLDQSVDGVLLLTWGGEDMKRIIQDVRMHKMDDAYWLA 121 GI ++D+ ++FP++I F ++ +G + ++WG ED + + D ++ ++ Sbjct: 65 GITKKDLMGVEKFPQIIEKFIQFIG---EGSIFVSWGKEDYRFLSHDCTLYGVECPSIEK 121 Query: 122 ATYFDLLKGVLRA--RGLTNDISVEGAMALLGLEPSGSAHRALDDAKMTADIFRAVFPDL 179 DL K V +A + S++ A+ L L G HRAL DA+ TA+I V+ + Sbjct: 122 ENRIDLQKFVFQAYEELFEHTPSLQFAVEQLALTWEGKQHRALADAENTANILLRVYSER 181 Query: 180 DFER 183 D + Sbjct: 182 DINK 185 >ref|ZP_00083400.1| COG5018: Inhibitor of the KinA pathway to sporulation, predicted exonuclease [Pseudomonas fluorescens PfO-1] Length = 180 Score = 88.6 bits (218), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 52/160 (32%), Positives = 86/160 (53%), Gaps = 6/160 (3%) Query: 21 MEVIEIGAVRLDASLQYKDEFSALIRPIYFSTLNSFIKKKTGIPQEDIDVADRFPKVITA 80 ME+IEIGA +D + + +D F ++P L F ++ T I Q +ID A +V A Sbjct: 23 MEIIEIGATLVDRAGREQDHFQRFVKPTRRPLLTPFCRELTHITQANIDAAQPLSEVWPA 82 Query: 81 FRAWLDQS---VDGVLLLTWGGEDMKRIIQDVRMHKMDDAYWLAATYFDLLKGVLRARGL 137 F WL Q ++G +WG D K+++Q+ + ++D A + +L + +AR L Sbjct: 83 FERWLGQHQTRLEG--WASWGDYDRKQLLQEWQRLQLDSAL-SRVPHMNLKQRFAKARRL 139 Query: 138 TNDISVEGAMALLGLEPSGSAHRALDDAKMTADIFRAVFP 177 + + GA+ L G++ +G HRAL+DA+ TA + V P Sbjct: 140 ERPLGLNGALQLAGMQFTGQQHRALEDARNTARLLPLVLP 179 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 0.322 0.138 0.409 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: 336,397,945 Number of extensions: 12391218 Number of successful extensions: 26499 Number of sequences better than 1.0e-05: 27 Number of HSP's gapped: 26475 Number of HSP's successfully gapped: 27 Length of query: 250 Length of database: 757,237,578 Length adjustment: 123 Effective length of query: 127 Effective length of database: 423,280,401 Effective search space: 53756610927 Effective search space used: 53756610927 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 (21.9 bits) S2: 124 (52.4 bits)