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= 0586.0017.p (358 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B3KIG4.1 B3KIG4_9BACI DNA polymerase III, alpha subunit EC=2.7.7.7 451 e-125 B1DM58.1 B1DM58_9BACL DNA polymerase III, epsilon subunit EC=2.7... 385 e-105 C0ZF56.1 C0ZF56_BREBN DNA polymerase III alpha subunit EC=2.7.7.7 240 2e-61 C2UZ57.1 C2UZ57_BACCE DNA polymerase III polC-type 211 7e-53 C2VFN8.1 C2VFN8_BACCE DNA polymerase III polC-type 211 1e-52 >B3KIG4.1 B3KIG4_9BACI DNA polymerase III, alpha subunit EC=2.7.7.7 Length = 1438 Score = 451 bits (1159), Expect = e-125, Method: Compositional matrix adjust. Identities = 217/356 (60%), Positives = 279/356 (78%), Gaps = 3/356 (0%) Query: 1 MEQNEERRKRFELLMKQGEIPPAIIDPYFLDGHIERVEISRGNHDWHIVIVKESLVPAQT 60 M E++RKRFELL+KQGE+P +++PYFLDG IE+VE SR + DW I + KE+LVPA+ Sbjct: 1 MGTTEDKRKRFELLIKQGEVPANLVEPYFLDGVIEQVETSRNSKDWRITVQKETLVPAEV 60 Query: 61 YRTFVLRMREKLQHIAKVSFLFLYDEKISRAELVQEYWGLFLEWVQREIPSVNGWLTRST 120 YRTF LR++EK+ HIAK+ F+F Y + A++VQEYWGLFLEW REIPSVNGW+TR+ Sbjct: 61 YRTFCLRIQEKMGHIAKIKFVFRYGSGVPEADIVQEYWGLFLEWAHREIPSVNGWMTRAK 120 Query: 121 QELQDGTLVLSLNDSMSLELARKKGIEGAIVKFYDKFFGLSLKVKLQITENESKADAYEE 180 E++DG ++LS++D MSLELARKK I+ AI +F+ ++F L+L+VK+Q+ +N A E Sbjct: 121 HEVEDGQVLLSMSDGMSLELARKKQIDAAITRFFGQYFDLTLRVKMQVGDN---GQAAYE 177 Query: 181 FQQKLQQEQRELVEMMMMASXXXXXXXXXXXXXVIKLQVGYEIKEQAVPIIEIQDEEKKI 240 ++ ++E+ V +M+S ++LQVGY+IK+Q V I EIQDEEKKI Sbjct: 178 EFEQRKREEEREVIEQIMSSMEAELDAEDEEEGDVRLQVGYDIKDQPVSIQEIQDEEKKI 237 Query: 241 TIQGTIFGLESKELRNGNTLFTFCITDFTDSLQIKMFAKTKEDLKIMGQLANGKWVRARG 300 TIQGTIFGL+ KELRNG+TLFTF +TDF+DSLQ+KMF KTK+DLK++ L NGKWV+ARG Sbjct: 238 TIQGTIFGLDRKELRNGSTLFTFNLTDFSDSLQMKMFGKTKDDLKVLSLLENGKWVKARG 297 Query: 301 KVEYDRFMQIPELVMIPSDLCEVQAPPARKDLAPVKRVEFHLHTTMSTMDAVTPID 356 +VEYDRFMQ+PELVMIPSDL EV+APP+RKD A KRVEFHLHTTMSTMDAVTPID Sbjct: 298 RVEYDRFMQVPELVMIPSDLNEVKAPPSRKDNAAEKRVEFHLHTTMSTMDAVTPID 353 >B1DM58.1 B1DM58_9BACL DNA polymerase III, epsilon subunit EC=2.7.7.7 Length = 942 Score = 385 bits (990), Expect = e-105, Method: Compositional matrix adjust. Identities = 190/355 (53%), Positives = 254/355 (71%), Gaps = 3/355 (0%) Query: 1 MEQNEERRKRFELLMKQGEIPPAIIDPYFLDGHIERVEISRGNHDWHIVIVKESLVPAQT 60 M Q + R+RFELLM+Q +P II+ Y+ DG+IE+V + + N W I K SLVP + Sbjct: 1 MSQTGDNRQRFELLMQQAGLPLEIINSYYKDGYIEQVIVGKSNRKWTFCIRKTSLVPYKA 60 Query: 61 YRTFVLRMREKLQHIAKVSFLFLYDEKISRAELVQEYWGLFLEWVQREIPSVNGWLTRST 120 + + K HIA++SF LYD+ + A++ +EYW LFLEWVQ+E PSVNGWL+++ Sbjct: 61 FMALTQAVNMKFAHIAEISFKLLYDDAVPSADIAREYWPLFLEWVQQENPSVNGWLSKAG 120 Query: 121 QELQDGTLVLSLNDSMSLELARKKGIEGAIVKFYDKFFGLSLKVKLQITENESKADAYEE 180 E D +V+SL D M LELA+KK I+ AI FY++ F + +VKL++ E + + D YEE Sbjct: 121 MEPTDEMIVVSLLDGMGLELAKKKKIDEAISSFYERTFARNYRVKLEVGE-QVRQDVYEE 179 Query: 181 FQQKLQQEQRELVEMMMMASXXXXXXXXXXXXXVIKLQVGYEIKEQAVPIIEIQDEEKKI 240 FQQK +Q +RE V + +M S V KL +GY+I+++ P++ I++EEKK+ Sbjct: 180 FQQKREQAEREAV-IQIMESVAEAGEADGDDEPV-KLAMGYDIRDEPTPLMNIREEEKKV 237 Query: 241 TIQGTIFGLESKELRNGNTLFTFCITDFTDSLQIKMFAKTKEDLKIMGQLANGKWVRARG 300 T+QG +FGLE KELRNG TLFTF +TDFTDS+ +KMFAKTKED+KI+ L+NGKWV+ARG Sbjct: 238 TVQGAVFGLEVKELRNGMTLFTFNVTDFTDSMAMKMFAKTKEDVKILSLLSNGKWVKARG 297 Query: 301 KVEYDRFMQIPELVMIPSDLCEVQAPPARKDLAPVKRVEFHLHTTMSTMDAVTPI 355 KV+YDRFMQ PELVMIP+DL E+ +PP RKD A KRVEFHLH+TMS MDAVTPI Sbjct: 298 KVDYDRFMQEPELVMIPNDLQEISSPPDRKDNAEEKRVEFHLHSTMSAMDAVTPI 352 >C0ZF56.1 C0ZF56_BREBN DNA polymerase III alpha subunit EC=2.7.7.7 Length = 1434 Score = 240 bits (612), Expect = 2e-61, Method: Compositional matrix adjust. Identities = 129/355 (36%), Positives = 214/355 (60%), Gaps = 7/355 (1%) Query: 1 MEQNEERRKRFELLMKQGEIPPAIIDPYFLDGHIERVEISRGNHDWHIVIVKESLVPAQT 60 M++ +E++ RF LL+KQ E+P ++ +FLD IE++E+ + N +W ++PA Sbjct: 1 MDRLQEQKHRFSLLVKQMEVPDEWVERFFLDAQIEKLELYKQNKEWVFHFALPRMIPADV 60 Query: 61 YRTFVLRMREKLQHIAKVSFLFLYDEKISRAELVQEYWGLFLEWVQREIPSVNGWLTRST 120 Y F R+ H+AKV F Y +K S +V+EYW + L ++ + S+ + ++ Sbjct: 61 YAVFTKRLTHTFSHLAKVDTRFRYHQKPSLDHVVEEYWDVLLAGLEPTLNSLAVTMRQAR 120 Query: 121 QELQDGTLVLSLNDSMSLELARKKGIEGAIVKFYDKFFGLSLKVKLQITENESKADAYEE 180 +++ + + L MS+E+A++K + ++ + K S++ E DAY+ Sbjct: 121 KQVDQQEVKVYLPTEMSVEVAKRKRADNELLAAFQKATDCSMRFSFH---GEESDDAYKA 177 Query: 181 FQQKLQQEQRELVEMMMMASXXXXXXXXXXXXXVIKLQVGYEIKEQAVPIIEIQDEEKKI 240 F+++ ++E+R LVE++M A+ V L +GYEIK+ +PI EIQDEE++I Sbjct: 178 FEEQRKEEERALVEVVMTAAQQESKSSDKAEA-VTTLMMGYEIKDAPIPICEIQDEERRI 236 Query: 241 TIQGTIFGLESKELRNGNTLFTFCITDFTDSLQIKMFAKTKEDLKIMGQLANGKWVRARG 300 IQGT+F +E KELR+G L TF I+D+TDSL +KMF++ KED+K++ L +G WV+ RG Sbjct: 237 VIQGTVFNVEVKELRSGRHLLTFNISDYTDSLTVKMFSRDKEDVKMLELLKDGMWVKVRG 296 Query: 301 KVEYDRFMQIPELVMIPSDLCEVQAPPARKDLAPVKRVEFHLHTTMSTMDAVTPI 355 V++D F++ +LV+ +DL +++ RKD A KRVE H HT MS +DAV + Sbjct: 297 SVQHDTFVR--DLVLNANDLNQIEQ-VIRKDQAEEKRVELHCHTPMSALDAVASV 348 >C2UZ57.1 C2UZ57_BACCE DNA polymerase III polC-type Length = 1433 Score = 211 bits (538), Expect = 7e-53, Method: Compositional matrix adjust. Identities = 131/370 (35%), Positives = 209/370 (56%), Gaps = 36/370 (9%) Query: 1 MEQNEERRKRFELLMKQGEIPPAIIDPYFLDGHIERVEISRGNHDWHIVIVKESLVPAQT 60 M E+++RF++L++Q +IP +I+ Y G IE++ I + N WH + ++P + Sbjct: 1 MSLTNEQQERFQILLQQLQIPEDLINQYLQGGGIEKLVIDKANKSWHFDLQVPRILPTEL 60 Query: 61 YRTFVLRMREKLQHIAKVSFLFLYDEKISRAELVQEYWGLFLE---------WVQREIPS 111 Y +++++ HIA+ +F + K E V+ YW L E ++++++P Sbjct: 61 YELLEMKLKQSFSHIARTTFALQAENKQFTEEEVKAYWPLCTERITFSPMFAYLKKQLPQ 120 Query: 112 VNGWLTRSTQELQDGTLVLSLNDSMSLELARKKGIEGAIVKFYDKFFGLSLKVKLQITEN 171 VNG L++++N+ + A KK + + Y+ F ++ I +N Sbjct: 121 VNGV-----------KLLINVNNELE-STALKKNVTKPVGDQYEAFGFPRFQLDTHIKQN 168 Query: 172 ESKADAYEEFQQKLQQEQRELVEMMM--MASXXXXXXXXXXXXXVIKLQVGYEIK--EQA 227 A+ ++F+++ QQE RE V M MA V+ +GY IK E+ Sbjct: 169 ---AEEMQKFREQTQQEDRERVIQAMEEMAKKQAEESSVVHEGPVV---LGYLIKPDEEI 222 Query: 228 VPIIEIQDEEKKITIQGTIFGLESKELRNGNTLFTFCITDFTDSLQIKMFAKTKEDLKIM 287 P+ EIQDEE++ T+QG +F +E+KELR+G TL T ITD+TDS+ IKMF++ KED+ ++ Sbjct: 223 TPMREIQDEERRKTVQGYVFHVETKELRSGRTLLTLKITDYTDSIMIKMFSRDKEDIPML 282 Query: 288 GQLANGKWVRARGKVEYDRFMQIPELVMIPSDLCEVQAPPARKDLAP--VKRVEFHLHTT 345 L G WV+ARG V+ D F++ +LVMI +D+ E+ P+RKD AP KRVE HLHT Sbjct: 283 QSLRKGMWVKARGSVQNDTFVR--DLVMIANDINEITG-PSRKDKAPEGEKRVELHLHTP 339 Query: 346 MSTMDAVTPI 355 MS MDAVTP+ Sbjct: 340 MSQMDAVTPV 349 >C2VFN8.1 C2VFN8_BACCE DNA polymerase III polC-type Length = 1433 Score = 211 bits (537), Expect = 1e-52, Method: Compositional matrix adjust. Identities = 131/370 (35%), Positives = 209/370 (56%), Gaps = 36/370 (9%) Query: 1 MEQNEERRKRFELLMKQGEIPPAIIDPYFLDGHIERVEISRGNHDWHIVIVKESLVPAQT 60 M E+++RF++L++Q +IP +I+ Y G IE++ I + N WH + ++P + Sbjct: 1 MSLTNEQQERFQILLQQLQIPEDLINQYLQGGGIEKLVIDKANKGWHFDLQVPRILPTEL 60 Query: 61 YRTFVLRMREKLQHIAKVSFLFLYDEKISRAELVQEYWGLFLE---------WVQREIPS 111 Y +++++ HIA+ +F + K E V+ YW L E ++++++P Sbjct: 61 YELLEVKLKQSFSHIARTTFALQAENKQFTEEEVKAYWPLCTERITFSPMFAYLKKQLPQ 120 Query: 112 VNGWLTRSTQELQDGTLVLSLNDSMSLELARKKGIEGAIVKFYDKFFGLSLKVKLQITEN 171 VNG L++++N+ + A KK + + Y+ F ++ I +N Sbjct: 121 VNGV-----------KLLINVNNELE-STALKKNVTKPVGDQYEAFGFPRFQLDTHIKQN 168 Query: 172 ESKADAYEEFQQKLQQEQRELVEMMM--MASXXXXXXXXXXXXXVIKLQVGYEIK--EQA 227 A+ ++F+++ QQE RE V M MA V+ +GY IK E+ Sbjct: 169 ---AEEMQKFREQTQQEDRERVIQAMEEMAKKQAEESSVVHEGPVV---LGYLIKPDEEI 222 Query: 228 VPIIEIQDEEKKITIQGTIFGLESKELRNGNTLFTFCITDFTDSLQIKMFAKTKEDLKIM 287 P+ EIQDEE++ T+QG +F +E+KELR+G TL T ITD+TDS+ IKMF++ KED+ ++ Sbjct: 223 TPMREIQDEERRKTVQGYVFHVETKELRSGRTLLTLKITDYTDSIMIKMFSRDKEDIPML 282 Query: 288 GQLANGKWVRARGKVEYDRFMQIPELVMIPSDLCEVQAPPARKDLAP--VKRVEFHLHTT 345 L G WV+ARG V+ D F++ +LVMI +D+ E+ P+RKD AP KRVE HLHT Sbjct: 283 QSLRKGMWVKARGSVQNDTFVR--DLVMIANDINEITG-PSRKDKAPEGEKRVELHLHTP 339 Query: 346 MSTMDAVTPI 355 MS MDAVTP+ Sbjct: 340 MSQMDAVTPV 349 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 0.388 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: 1,875,337,797 Number of extensions: 70790868 Number of successful extensions: 190779 Number of sequences better than 1.0e-05: 385 Number of HSP's gapped: 190132 Number of HSP's successfully gapped: 385 Length of query: 358 Length of database: 3,060,696,203 Length adjustment: 137 Effective length of query: 221 Effective length of database: 1,770,017,148 Effective search space: 391173789708 Effective search space used: 391173789708 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: 132 (55.5 bits)