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= 0370.0038.p (320 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value C0ZFR4.1 C0ZFR4_BREBN Putative ATP-dependent DNA ligase EC=6.5.1.1 333 1e-89 C1PT86.1 C1PT86_ALIAC ATP dependent DNA ligase-like protein 243 2e-62 B7DPT6.1 B7DPT6_9BACL ATP dependent DNA ligase 237 1e-60 C0GF58.1 C0GF58_9FIRM DNA polymerase LigD, ligase domain protein 197 1e-48 Q0AXX1.1 Q0AXX1_SYNWW DNA ligase, putative 188 6e-46 >C0ZFR4.1 C0ZFR4_BREBN Putative ATP-dependent DNA ligase EC=6.5.1.1 Length = 311 Score = 333 bits (854), Expect = 1e-89, Method: Compositional matrix adjust. Identities = 153/311 (49%), Positives = 204/311 (65%), Gaps = 1/311 (0%) Query: 3 LQPVVPFEPVLASQLPEGGQWIAQIKWDGVRMLSYCDGSEAELINRRGNRRTLQYPEIAD 62 + P++P EP+ +P+G WIAQ+KWDGVR+L+Y DG L NRR N RT QYPE+AD Sbjct: 1 MNPIIPMEPISCEVIPQGDDWIAQVKWDGVRILTYFDGQRTHLYNRRINERTHQYPELAD 60 Query: 63 PRAYCRAGSVILDGEVIAL-SGGKPSFHEVMRRDSLKNAAAIKAVSPQVPVLYMVFDILY 121 + YC+A SVILDGEVIAL + GKPSFHEVMRRD ++ + VP+ YM+FD+L+ Sbjct: 61 IQTYCKARSVILDGEVIALGADGKPSFHEVMRRDGIRRLEKVSQAQKAVPITYMIFDVLF 120 Query: 122 CNGTWLLDQPLSRRQQMLGEMLLPHPHVQAVPSYADPAELYAAAVRQGLEGIVCKDSGST 181 N W++D L R +L E+++P+ HVQ V + D +Y + G+EGIV K+ S Sbjct: 121 TNNEWVIDLTLRERLNLLSEIIIPNDHVQLVEGHDDGNAMYEVIKQHGMEGIVMKNLNSK 180 Query: 182 YALGGKDKRWLKRKIIFDVTAVAGGVTFRDGTVNAVLLGLYDNEGKLHYIGHAGAGRMTV 241 Y +GGK+K+W K+K D AV GGVT RD VN++LLGLYD +G+L YIGHAG G++T Sbjct: 181 YVIGGKEKQWQKKKYYRDTIAVVGGVTLRDNVVNSLLLGLYDPQGRLFYIGHAGTGKLTR 240 Query: 242 QDWRDLTEQAHTLASETMPFAELPERSKGAFWIKPQLVFKVHYLEWNASGTLRHPSIQAR 301 DW LTE+ L PFA P R KGA W++P + KV + EW TLR PSIQA Sbjct: 241 NDWVTLTEKIVPLIQNDRPFANTPARFKGAVWLRPSVTVKVQFAEWTEGYTLRQPSIQAV 300 Query: 302 VELAPQHCLLS 312 V++ +C+L Sbjct: 301 VDIPVDYCVLE 311 >C1PT86.1 C1PT86_ALIAC ATP dependent DNA ligase-like protein Length = 314 Score = 243 bits (619), Expect = 2e-62, Method: Compositional matrix adjust. Identities = 125/310 (40%), Positives = 183/310 (59%), Gaps = 4/310 (1%) Query: 8 PFEPVLASQLPEGGQWIAQIKWDGVRMLSYCDGSEAELINRRGNRRTLQYPEIADPRAYC 67 PFEP+ ++++P G WIAQ+KWDGVR ++ G ++ NR G RT +YPEIA Sbjct: 6 PFEPISSTEVPVGDAWIAQVKWDGVRAVAEVSGDGVQIWNRHGRLRTDRYPEIASALRPF 65 Query: 68 RAGSVILDGEVIALSGGKPSFHEVMRRDSLKNAAAIKAVSPQVPVLYMVFDILYCNGTWL 127 R + DGEV+AL+ G+P F+ V+RRD + I+ + ++PV Y VFD++ G W+ Sbjct: 66 RGCA--FDGEVVALTQGRPDFYRVLRRDRAVASHEIEQLVREIPVWYAVFDVVRMGGEWV 123 Query: 128 LDQPLSRRQQMLGEMLLPHPHVQAVPSYADPAELYAAAVRQGLEGIVCKDSGSTYALGGK 187 D PL++R + E L HV D L+AA + GLEGIVCK STYA GGK Sbjct: 124 GDWPLAKRLDWMLEHLSGVEHVLTSEGEVDTEALFAATKQLGLEGIVCKRVDSTYAPGGK 183 Query: 188 DKRWLKRKIIFDVTAVAGGVTFRDGTVNAVLLGLYDNEGKLHYIGHAGAGRMTVQDWRDL 247 D RW+K K + A GGV +RDG NA++LGL+D++ +L ++G+AGAGR+ + WR L Sbjct: 184 DGRWVKVKHERNAIAAVGGVVYRDGAPNALMLGLFDDKARLFHVGNAGAGRLPRRAWRQL 243 Query: 248 TEQAHTLASETMPFAELPERSKGAFWIKPQLVFKVHYLEWNASGTLRHPSIQARVEL--A 305 E+ + + PFA P+ + + P + KV + EW GT+RHP + A +++ Sbjct: 244 VERVLSHETSLQPFARAPKAVRTCRFAHPVVAVKVRFAEWTPKGTMRHPVLLAELDIPAT 303 Query: 306 PQHCLLSQRD 315 P C +Q D Sbjct: 304 PAACSFAQAD 313 >B7DPT6.1 B7DPT6_9BACL ATP dependent DNA ligase Length = 314 Score = 237 bits (604), Expect = 1e-60, Method: Compositional matrix adjust. Identities = 126/310 (40%), Positives = 180/310 (58%), Gaps = 4/310 (1%) Query: 8 PFEPVLASQLPEGGQWIAQIKWDGVRMLSYCDGSEAELINRRGNRRTLQYPEIADPRAYC 67 PFEP+ ++++P G WIAQ+KWDGVR ++ G + NR G RT ++PEIA + Sbjct: 6 PFEPISSAEVPVGDAWIAQVKWDGVRAVAEVSGDGVRIWNRHGRLRTDRFPEIASALSPF 65 Query: 68 RAGSVILDGEVIALSGGKPSFHEVMRRDSLKNAAAIKAVSPQVPVLYMVFDILYCNGTWL 127 R + DGEV+ALS G P+F+ V+RRD I + +VPV Y VFD++ G W+ Sbjct: 66 RGCA--FDGEVVALSQGIPNFYHVLRRDRASALHEIPRLMREVPVWYAVFDVVQIGGEWV 123 Query: 128 LDQPLSRRQQMLGEMLLPHPHVQAVPSYADPAELYAAAVRQGLEGIVCKDSGSTYALGGK 187 D PL++R + E L HV D L+AA + GLEGIVCK STYA GGK Sbjct: 124 GDWPLAKRLDWMLEHLSGVEHVLTSEGEVDTEALFAATKQLGLEGIVCKRVDSTYAPGGK 183 Query: 188 DKRWLKRKIIFDVTAVAGGVTFRDGTVNAVLLGLYDNEGKLHYIGHAGAGRMTVQDWRDL 247 D RW+K K + A GGV +RDG NA++LGL+D++ +L ++G+AGAGR+ ++WR L Sbjct: 184 DGRWVKVKHERNAIAAVGGVVYRDGAPNALMLGLFDDKARLFHVGNAGAGRLPHREWRHL 243 Query: 248 TEQAHTLASETMPFAELPERSKGAFWIKPQLVFKVHYLEWNASGTLRHPSIQARVE--LA 305 EQ + + PFA P+ + + +P + KV Y EW + T RHP + ++ Sbjct: 244 VEQVLSQETSVQPFARPPKVDRPCRFAQPVVAVKVRYAEWTPNLTFRHPVLVGWLDAPAT 303 Query: 306 PQHCLLSQRD 315 P C +Q D Sbjct: 304 PAACSFAQAD 313 >C0GF58.1 C0GF58_9FIRM DNA polymerase LigD, ligase domain protein Length = 314 Score = 197 bits (501), Expect = 1e-48, Method: Compositional matrix adjust. Identities = 116/318 (36%), Positives = 170/318 (53%), Gaps = 11/318 (3%) Query: 1 MKLQPVVPFEPVLASQLPEGGQWIAQIKWDGVRMLSYCDGSEAELINRRGNRRTLQYPEI 60 M P P EPV+AS +P + Q+KWDGVRML++ + L NR+ +RT YPE+ Sbjct: 2 MLYTPFKPMEPVMASGVPPASDLLYQVKWDGVRMLAHVGHGKIMLHNRKLRQRTGHYPEL 61 Query: 61 ADPRAYCRAGSVILDGEVIALSGGKPSFHEVMRRDSL-----KNAAAIKAVSPQVPVLYM 115 + G ILDGE++AL G+PSF ++ RD + + ++ + Q+PV YM Sbjct: 62 SR-LGQLLQGEAILDGEIVALKDGRPSFPLILERDLIGGSGEPDPGKVRQRARQIPVFYM 120 Query: 116 VFDILYCNGTWLLDQPLSRRQQMLGEMLLPHPHVQAVPSYADPAELYAAAVRQGLEGIVC 175 VFD++Y NG L PL +RQ +L E+L VQ V ++AD L+AA +EGIV Sbjct: 121 VFDLIYHNGRDLTALPLYQRQALLAEILPKDEAVQTVENFADGEALFAAVSENKMEGIVA 180 Query: 176 KDSGSTYALGGKDKRWLKRKIIFDVTAVAGGVTFRDGTVNAVLLGLYDNEGKLHYIGHAG 235 K+ S Y G K+ W K K+ GG T +DG +NA+L G Y ++G+L Y+G Sbjct: 181 KEPSSLYQRGKKNAAWKKIKVRQRQLVAIGGYTVKDGQINALLAGAY-HQGQLIYVGRVA 239 Query: 236 AGRMTVQDWRDLTEQAHTLASETMPFAEL-PERSKGAFWIKPQLVFKVHYLEWNASGTLR 294 G ++ QD R+LT PF P R K W++P+LV + + EW +R Sbjct: 240 TG-LSGQDIRELTPFLKETLQTAPPFVNASPARDKA--WVEPRLVALIDFQEWTEDLRMR 296 Query: 295 HPSIQARVELAPQHCLLS 312 P I+ + P+ C+L Sbjct: 297 QPVIKGFTKDRPEDCVLQ 314 >Q0AXX1.1 Q0AXX1_SYNWW DNA ligase, putative Length = 309 Score = 188 bits (478), Expect = 6e-46, Method: Compositional matrix adjust. Identities = 109/301 (36%), Positives = 159/301 (52%), Gaps = 4/301 (1%) Query: 3 LQPVVPFEPVLASQLPEGGQWIAQIKWDGVRMLSYCDGSEAELINRRGNRRTLQYPEIAD 62 L+ + +P+ Q + ++ Q+KWDGVRML G + L+N+RGN R+ QYPE+ + Sbjct: 5 LREIRSMDPINCEQAFDSDDFLYQVKWDGVRMLVAVAGEQVSLLNKRGNLRSRQYPELQN 64 Query: 63 PRAYCRAGSVILDGEVIALSGGKPSFHEVMRRDSLKNAAAIKAVSPQVPVLYMVFDILYC 122 RA + +LDGE++ L GKPSF VM+RD+ +N I+ +S + + YMVFD+LY Sbjct: 65 LPNLIRASTAVLDGEIVVLREGKPSFPAVMQRDNCRNPMKIQHLSKTLAISYMVFDLLYL 124 Query: 123 NGTWLLDQPLSRRQQMLGEMLLPHPHVQAVPSYADPAELYAAAVRQGLEGIVCKDSGSTY 182 NG L L R L E+ + V S++ L+ + R GLEGIV K S Y Sbjct: 125 NGRDLRSASLVDRLSQLAELFDNQGCLYLVESFSQGTILFDSVQRAGLEGIVAKKKNSFY 184 Query: 183 ALGGKDKRWLKRKIIFDVTAVAGGVTFRDGTVNAVLLGLYDNEGKLHYIGHAGAGRMTVQ 242 G + W K K + GG T R VNA+LLG+ +G L + G A G + + Sbjct: 185 RPGKQHDDWFKIKCRCSQACLVGGYTLRGKQVNALLLGVM-RDGSLSFAGKASNG-LDAE 242 Query: 243 DWRDLTEQAHTLASETMPFAELPERSKGAFWIKPQLVFKVHYLEWNASGTLRHPSIQARV 302 + L+E L + PF E G+ +I PQL +V YLEW S LR P I++ + Sbjct: 243 QLQILSETLPRLEVKDSPFLE--PTPAGSHYITPQLAVEVEYLEWTDSLHLRFPVIKSFI 300 Query: 303 E 303 + Sbjct: 301 K 301 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 0.421 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: 2,055,261,425 Number of extensions: 89129956 Number of successful extensions: 188744 Number of sequences better than 1.0e-05: 820 Number of HSP's gapped: 187457 Number of HSP's successfully gapped: 820 Length of query: 320 Length of database: 3,060,696,203 Length adjustment: 135 Effective length of query: 185 Effective length of database: 1,788,859,178 Effective search space: 330938947930 Effective search space used: 330938947930 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)