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= 0378.0006.p (465 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_00180128.1| hypothetical protein Mther193501 [Moorella th... 535 e-150 ref|NP_623406.1| DNA polymerase III alpha subunit [Thermoanaerob... 518 e-146 ref|ZP_00060117.1| COG0587: DNA polymerase III, alpha subunit [C... 511 e-143 ref|NP_783017.1| DNA polymerase III, alpha chain [Clostridium te... 502 e-141 ref|NP_561276.1| DNA polymerase III, subunit alpha [Clostridium ... 495 e-138 >ref|ZP_00180128.1| hypothetical protein Mther193501 [Moorella thermoacetica ATCC 39073] Length = 1156 Score = 535 bits (1377), Expect = e-150, Method: Compositional matrix adjust. Identities = 269/451 (59%), Positives = 325/451 (72%), Gaps = 20/451 (4%) Query: 1 MSPFVHLHVHSEYSLLDGAARITDLVRRAGEYGMTTLALTDHGVMYGAIPFYKACKASGI 60 M FVHLHVHSEYSLLDGA RI DLVR AGE GM LALTDHGVMYGA+ FYKA + GI Sbjct: 1 MKSFVHLHVHSEYSLLDGAGRIKDLVRAAGEMGMPALALTDHGVMYGAVEFYKAAREQGI 60 Query: 61 KPIIGWEAXXXGCEAYLTAGSRRERGSRKDQPIYHLILLAKNETGYRNLMRLVTIGHLEG 120 KPIIG CE Y+ SR +R +D YHL+LLA + TGYRNL LV+ LEG Sbjct: 61 KPIIG-------CEVYVAPRSRHDREPHRDDYQYHLVLLATDATGYRNLTALVSAAFLEG 113 Query: 121 QHYKPRIDMESLAAHAEGVICLXXXXACLGGEVPQHLLHGREEEARKAALRYKEIFGG-D 179 +YKPR+D E L+ H++G+I L ACL GEVP HLL RE+ A +AA +E+FG + Sbjct: 114 FYYKPRVDRELLSRHSQGLIALS---ACLAGEVPAHLLKNREDAAYEAATWLREVFGPEN 170 Query: 180 FYLELQDHGMPEQKRVNPQLIALAAECGIPLVATNDVHYLAKEDAEVQDVLICIGTGKTV 239 FYLELQD G+PEQ+++N +L+ LAA IPLVATNDVHY+ ++ A DVL+CI TGKT+ Sbjct: 171 FYLELQDQGLPEQRQLNRRLVDLAARLKIPLVATNDVHYIRQDQARAHDVLLCIQTGKTL 230 Query: 240 DDEERLKIGTDQLFLKSGEQMAALFPHVPEAIANTLNIAEKCNLELTFGEHILPAYSPLP 299 DD RL+ T Q +LKS +M LF VP A+ANTL IAE+C+ + TFG LPAY +P Sbjct: 231 DDPNRLRFPTAQFYLKSPAEMDNLFREVPSALANTLAIAERCHFDFTFGRLHLPAYQ-VP 289 Query: 300 EGMDAAAYLRELCWSGLEARYADTPRWSSPEEKDAAGKRLAYELGVIESMGFSDYFLIVW 359 G DAA+YLR L + GL+ RY P + A +RL YELG+IE MG+ YFLIVW Sbjct: 290 AGEDAASYLRRLSYEGLKRRY--------PHDDGTARQRLEYELGIIEQMGYPGYFLIVW 341 Query: 360 DFIAFCHRQGIVTGPGRGSSAGSLTAYCLRITDVDPLKYNLLFERFLNPERITMPDIDID 419 D + F R+GI GPGRGS+AGSL AYCL IT +DPL+YNLLFERFLNPER++MPDID+D Sbjct: 342 DMVNFARRRGIPVGPGRGSAAGSLVAYCLGITSIDPLRYNLLFERFLNPERVSMPDIDMD 401 Query: 420 FSDERRDEVIAYVVDKYGKQHVAQIITFGTM 450 F ERRDEVI YV++KYG+ HVAQIITFGTM Sbjct: 402 FCFERRDEVIQYVLEKYGRDHVAQIITFGTM 432 >ref|NP_623406.1| DNA polymerase III alpha subunit [Thermoanaerobacter tengcongensis] gb|AAM25010.1| DNA polymerase III alpha subunit [Thermoanaerobacter tengcongensis] Length = 1148 Score = 518 bits (1335), Expect = e-146, Method: Compositional matrix adjust. Identities = 262/448 (58%), Positives = 317/448 (70%), Gaps = 20/448 (4%) Query: 4 FVHLHVHSEYSLLDGAARITDLVRRAGEYGMTTLALTDHGVMYGAIPFYKACKASGIKPI 63 FVHLHVH+EYSLLDG+ RI DL+ + E GM +A+TDHG MYG I FYK A GIKPI Sbjct: 5 FVHLHVHTEYSLLDGSCRIKDLIAKTKELGMKAIAITDHGAMYGVIDFYKEAVAQGIKPI 64 Query: 64 IGWEAXXXGCEAYLTAGSRRERGSRKDQPIYHLILLAKNETGYRNLMRLVTIGHLEGQHY 123 IG CE Y+ ++R D YHL+LLAK+ TGY+NLM++VT LEG +Y Sbjct: 65 IG-------CEIYVAPRRMQDREYGIDDENYHLVLLAKDMTGYKNLMKIVTAASLEGFYY 117 Query: 124 KPRIDMESLAAHAEGVICLXXXXACLGGEVPQHLLHGREEEARKAALRYKEIFG-GDFYL 182 KPR+D E L H+EG+I L ACL GEVP +L G E+A++ AL Y IFG G+FYL Sbjct: 118 KPRVDKEFLKNHSEGLIALS---ACLAGEVPSLILRGDYEKAKEVALFYDSIFGRGNFYL 174 Query: 183 ELQDHGMPEQKRVNPQLIALAAECGIPLVATNDVHYLAKEDAEVQDVLICIGTGKTVDDE 242 ELQDHG+ EQK+VN +L+ ++ E GIPLVATNDVHYL K+DA +VL+CI TGKT++DE Sbjct: 175 ELQDHGILEQKKVNRELVRMSKETGIPLVATNDVHYLEKKDARAHEVLLCIQTGKTIEDE 234 Query: 243 ERLKIGTDQLFLKSGEQMAALFPHVPEAIANTLNIAEKCNLELTFGEHILPAYSPLPEGM 302 +R+ TD+ +LKS E+M LF EAI NT IAE CN+E F + LP Y LPEG+ Sbjct: 235 DRMLFPTDEFYLKSPEEMEELFACCKEAIENTEKIAEMCNIEFEFNKTKLPKYD-LPEGV 293 Query: 303 DAAAYLRELCWSGLEARYADTPRWSSPEEKDAAGKRLAYELGVIESMGFSDYFLIVWDFI 362 D+ YLR LC+ GL RY SP ++ RL YEL VI+ MG+ DYFLIVWDFI Sbjct: 294 DSYEYLRNLCYEGLYKRY------KSPSQE--VIDRLEYELSVIKQMGYVDYFLIVWDFI 345 Query: 363 AFCHRQGIVTGPGRGSSAGSLTAYCLRITDVDPLKYNLLFERFLNPERITMPDIDIDFSD 422 F GI+TGPGRGS+AGSL AY L IT+VDP+KYNLLFERFLNPER++MPDID DF Sbjct: 346 KFAKDNGIMTGPGRGSAAGSLVAYTLGITNVDPIKYNLLFERFLNPERVSMPDIDSDFCY 405 Query: 423 ERRDEVIAYVVDKYGKQHVAQIITFGTM 450 ERR EVI YVV KYGK +VAQIITFGTM Sbjct: 406 ERRQEVIDYVVRKYGKDNVAQIITFGTM 433 >ref|ZP_00060117.1| COG0587: DNA polymerase III, alpha subunit [Clostridium thermocellum ATCC 27405] Length = 1202 Score = 511 bits (1316), Expect = e-143, Method: Compositional matrix adjust. Identities = 252/451 (55%), Positives = 323/451 (71%), Gaps = 18/451 (3%) Query: 1 MSPFVHLHVHSEYSLLDGAARITDLVRRAGEYGMTTLALTDHGVMYGAIPFYKACKASGI 60 + FVHLHVH+EYSLLDGA RI DL+RR E GM ++A+TDHGVMYG + FYK +GI Sbjct: 23 LQKFVHLHVHTEYSLLDGANRIKDLIRRTKELGMDSIAITDHGVMYGVVDFYKEAVNNGI 82 Query: 61 KPIIGWEAXXXGCEAYLTAGSRRERGSRKDQPIYHLILLAKNETGYRNLMRLVTIGHLEG 120 KPI+G CE Y GSR ++ D H++LLAKN TGY+NLM++V+IG EG Sbjct: 83 KPILG-------CEIYTAKGSRFDKQGGWDSDPGHMVLLAKNNTGYKNLMKIVSIGFTEG 135 Query: 121 QHYKPRIDMESLAAHAEGVICLXXXXACLGGEVPQHLLHGREEEARKAALRYKEIFGGD- 179 +YKPR+DME L ++EG+I + ACL G++P+ +L+ E+A++ AL+ IFG D Sbjct: 136 FYYKPRVDMEVLEKYSEGLIAMS---ACLSGDIPKAILNNNYEKAKELALKLNSIFGQDN 192 Query: 180 FYLELQDHGMPEQKRVNPQLIALAAECGIPLVATNDVHYLAKEDAEVQDVLICIGTGKTV 239 FYLELQ +G+ EQ VN QLI L+ E GIPLVATND HYL +EDA ++L+CI TGK++ Sbjct: 193 FYLELQMNGIEEQNIVNQQLIKLSRETGIPLVATNDAHYLRREDARAHEILLCIQTGKSI 252 Query: 240 DDEERLKIGTDQLFLKSGEQMAALFPHVPEAIANTLNIAEKCNLELTFGEHILPAYSPLP 299 +DE+R++ +D ++KS E+M +LF ++PEAI+NT+ IA+ CN+EL F + LP + +P Sbjct: 253 NDEDRMRFSSDDFYIKSPEEMISLFRNIPEAISNTVRIADMCNVELEFNKLHLPKFD-VP 311 Query: 300 EGMDAAAYLRELCWSGLEARYADTPRWSSPEEKDAAGKRLAYELGVIESMGFSDYFLIVW 359 +G D YLR LC+ G E Y R EEK RL YEL VI+ MG+ DYFLIV Sbjct: 312 DGKDPFEYLRALCYEGFERIYGKDNR---DEEK---INRLEYELSVIKQMGYVDYFLIVS 365 Query: 360 DFIAFCHRQGIVTGPGRGSSAGSLTAYCLRITDVDPLKYNLLFERFLNPERITMPDIDID 419 DFI + +GI+ GPGRGS+AGS AYCL IT++DPLKYNLLFERFLNPERI+MPDIDID Sbjct: 366 DFIRYAKEKGIMVGPGRGSAAGSFVAYCLGITNIDPLKYNLLFERFLNPERISMPDIDID 425 Query: 420 FSDERRDEVIAYVVDKYGKQHVAQIITFGTM 450 F ERR EVI YVV+KYGK VAQIITFGTM Sbjct: 426 FCFERRQEVIDYVVEKYGKDRVAQIITFGTM 456 >ref|NP_783017.1| DNA polymerase III, alpha chain [Clostridium tetani E88] gb|AAO36954.1| DNA polymerase III, alpha chain [Clostridium tetani E88] Length = 1166 Score = 502 bits (1293), Expect = e-141, Method: Compositional matrix adjust. Identities = 245/447 (54%), Positives = 314/447 (70%), Gaps = 19/447 (4%) Query: 4 FVHLHVHSEYSLLDGAARITDLVRRAGEYGMTTLALTDHGVMYGAIPFYKACKASGIKPI 63 ++ LH H+EYSLLD +A+IT+L+++ E GM ++A+TDHGVMYG + FYK GIKPI Sbjct: 11 WISLHQHTEYSLLDSSAKITELIKKVKELGMKSIAITDHGVMYGCVEFYKEAIKEGIKPI 70 Query: 64 IGWEAXXXGCEAYLTAGSRRERGSRKDQPIYHLILLAKNETGYRNLMRLVTIGHLEGQHY 123 IG CE Y+ S + D IYHL+LL KN+ GYRNLM +V+ ++G +Y Sbjct: 71 IG-------CEIYVVPKSMHIKRVDNDNAIYHLVLLVKNDVGYRNLMEIVSKASIDGFYY 123 Query: 124 KPRIDMESLAAHAEGVICLXXXXACLGGEVPQHLLHGREEEARKAALRYKEIFGGDFYLE 183 KPR+D E L H+EG+I ACLGGEV ++L G E+A KAAL YKEIF FYLE Sbjct: 124 KPRVDHEFLREHSEGLIA---SSACLGGEVQSYILKGNIEKAEKAALNYKEIFKEGFYLE 180 Query: 184 LQDHGMPEQKRVNPQLIALAAECGIPLVATNDVHYLAKEDAEVQDVLICIGTGKTVDDEE 243 LQDHGM EQ +VN +LIA++ IPLVATNDVHY+ KED+ D+L+C+ TGKTV++E Sbjct: 181 LQDHGMKEQVKVNNELIAMSKRLSIPLVATNDVHYIEKEDSRAHDILLCVQTGKTVEEEN 240 Query: 244 RLKIGTDQLFLKSGEQMAALFPHVPEAIANTLNIAEKCNLELTFGEHILPAYSPLPEGMD 303 R++ T + +LKS E+M LF HVPEA+ NT+ IAE+CN + F E LP + PLP+ +D Sbjct: 241 RMRYPTGEFYLKSPEEMYNLFSHVPEALENTIKIAEQCNFQYNFHESKLPTF-PLPDKVD 299 Query: 304 AAAYLRELCWSGLEARYADTPRWSSPEEKDAAGKRLAYELGVIESMGFSDYFLIVWDFIA 363 YLRELC+ GL+ +Y + +EK RL YEL VI+ MG+ DYFLIVWDFI Sbjct: 300 NYDYLRELCYEGLKEKY------DTVDEK--LKNRLEYELNVIKEMGYVDYFLIVWDFIR 351 Query: 364 FCHRQGIVTGPGRGSSAGSLTAYCLRITDVDPLKYNLLFERFLNPERITMPDIDIDFSDE 423 F + I+TGPGRGS AGS+ AY L IT +DP+KY L+FERFLNPERI+MPDID DF E Sbjct: 352 FAKEKDIMTGPGRGSGAGSIVAYTLGITKIDPIKYGLIFERFLNPERISMPDIDSDFCYE 411 Query: 424 RRDEVIAYVVDKYGKQHVAQIITFGTM 450 RR EVI YVV+KYG+ +V+QI TFGTM Sbjct: 412 RRQEVIDYVVEKYGENNVSQIATFGTM 438 >ref|NP_561276.1| DNA polymerase III, subunit alpha [Clostridium perfringens] dbj|BAB80066.1| DNA polymerase III, subunit alpha [Clostridium perfringens str. 13] Length = 1192 Score = 495 bits (1274), Expect = e-138, Method: Compositional matrix adjust. Identities = 246/462 (53%), Positives = 318/462 (68%), Gaps = 26/462 (5%) Query: 4 FVHLHVHSEYSLLDGAARITDLVRRAGEYGMTTLALTDHGVMYGAIPFYKACKASGIKPI 63 F HLH+HS YSLLDG+ +I L++RA E GM ++ALTDHGVMYG + YK KA GIKPI Sbjct: 6 FCHLHLHSGYSLLDGSGKIKPLIKRAKELGMESIALTDHGVMYGCVDLYKEAKAEGIKPI 65 Query: 64 IGWEAXXXGCEAYLTAGSRRERGSRKDQPIYHLILLAKNETGYRNLMRLVTIGHLEGQHY 123 +G CE Y+ SR+ + + +D YHL+LL KNE GY NLM++V++ +EG +Y Sbjct: 66 LG-------CEVYVVPKSRKIKSNDEDNKTYHLVLLVKNEKGYENLMKIVSVASIEGFYY 118 Query: 124 KPRIDMESLAAHAEGVICLXXXXACLGGEVPQHLLHGREEEARKAALRYKEIFGGDFYLE 183 KPRID E L H+EG+I L ACLGGEV + +L+G ++AR+AA+ Y++ F FYLE Sbjct: 119 KPRIDREYLKEHSEGIIALS---ACLGGEVQKAILNGNIDKAREAAIFYRDTFKDGFYLE 175 Query: 184 LQDHGMPEQKRVNPQLIALAAECGIPLVATNDVHYLAKEDAEVQDVLICIGTGKTVDDEE 243 LQ+HG+ EQK+VN I LA E IPLVATNDVHY+ +ED++ D+L+CI TGKTVDD Sbjct: 176 LQNHGIEEQKKVNEVNIQLAKELNIPLVATNDVHYINQEDSKAHDILMCIQTGKTVDDPN 235 Query: 244 RLKIGTDQLFLKSGEQMAALFPHVPEAIANTLNIAEKCNLELTFGEHILPAYSPLPEGMD 303 R + +DQ +LKS E+M +F ++PEA+ NTL IAE+CN + F LP + PLPEG++ Sbjct: 236 RRRYPSDQFYLKSPEEMWDMFDYIPEALENTLKIAEECNFDYEFHVSKLPKF-PLPEGVE 294 Query: 304 AAAYLRELCWSGLEAR------------YADTPRWSSPEEKDAAGK---RLAYELGVIES 348 YLR+ C+ GL R Y + E D + RL YELGVI+ Sbjct: 295 PFEYLRKTCFDGLIDRLEELKPLKEKGIYDIDKVYEIGENNDKVKEDIERLEYELGVIKQ 354 Query: 349 MGFSDYFLIVWDFIAFCHRQGIVTGPGRGSSAGSLTAYCLRITDVDPLKYNLLFERFLNP 408 MG+ DYFLIVWDFI + + GI TGPGRGS+AG+L AY L IT +DP+KY+LLFERFLNP Sbjct: 355 MGYVDYFLIVWDFIKYANDNGIPTGPGRGSAAGALVAYTLGITKIDPMKYSLLFERFLNP 414 Query: 409 ERITMPDIDIDFSDERRDEVIAYVVDKYGKQHVAQIITFGTM 450 ER++MPDID DF E R VI YVV+KYG +V+QIITFGTM Sbjct: 415 ERVSMPDIDSDFCYEGRQRVIDYVVEKYGHDNVSQIITFGTM 456 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 0.321 0.139 0.424 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: 686,572,010 Number of extensions: 29408323 Number of successful extensions: 67691 Number of sequences better than 1.0e-05: 1062 Number of HSP's gapped: 65494 Number of HSP's successfully gapped: 1088 Length of query: 465 Length of database: 757,237,578 Length adjustment: 129 Effective length of query: 336 Effective length of database: 406,989,807 Effective search space: 136748575152 Effective search space used: 136748575152 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: 128 (53.9 bits)