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= 0116.0005.p (591 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B3KKE3.1 B3KKE3_9BACI DNA polymerase III, subunits gamma and tau... 827 0.0 B1DK70.1 B1DK70_9BACL DNA polymerase III, subunits gamma and tau... 667 0.0 C0ZHA0.1 C0ZHA0_BREBN DNA polymerase III gamma and tau subunits ... 497 e-138 Q9KGM4.1 Q9KGM4_BACHD DNA polymerase III gamma and tau subunits ... 463 e-128 B5UWY9.1 B5UWY9_BACCE DNA polymerase III, gamma and tau subunits... 447 e-123 >B3KKE3.1 B3KKE3_9BACI DNA polymerase III, subunits gamma and tau EC=2.7.7.7 Length = 571 Score = 827 bits (2135), Expect = 0.0, Method: Compositional matrix adjust. Identities = 402/594 (67%), Positives = 470/594 (79%), Gaps = 26/594 (4%) Query: 1 VEHIALYRAWRPQSFHDMVGQQHIIQTLQNAIREQRVSHAYLFSGPRGTGKTSAAKVLAK 60 +EHIALYRAWRPQSF DMVGQQHIIQTLQNAIREQRVSHAYLFSGPRGTGKTSAAK+LAK Sbjct: 1 MEHIALYRAWRPQSFGDMVGQQHIIQTLQNAIREQRVSHAYLFSGPRGTGKTSAAKILAK 60 Query: 61 AVNCERSEGAEPCNECPSCLRITAGNVMDVQEIDAASNRGVEEIRDLRDKVKYAPTEVRR 120 AVNCE EPCN C +C RIT+G VMDVQEIDAASNRGVEEIRDLR+KVKYAPTEVRR Sbjct: 61 AVNCEHGPAEEPCNACEACRRITSGAVMDVQEIDAASNRGVEEIRDLREKVKYAPTEVRR 120 Query: 121 KVYIIDEVHMLTTEAFNALLKTLEEPPPHVMFILATTEPHKLPATIISRCQRFDFRRVSL 180 KVYIIDEVHMLTTEAFNALLKTLEEPP HVMFILATTEPH+LPATIISRCQRFDFRRVSL Sbjct: 121 KVYIIDEVHMLTTEAFNALLKTLEEPPAHVMFILATTEPHRLPATIISRCQRFDFRRVSL 180 Query: 181 EEQTAHLTAICQKEGISADSDALQYIARLSDGGMRDALSILDQISSFTDGQVTYQQVLGM 240 EEQT L IC +EGI+A+ +ALQYIARLSDGGMRDALSILDQI+SFT G V+Y+QV+ M Sbjct: 181 EEQTGRLEQICGEEGITAEHEALQYIARLSDGGMRDALSILDQIASFTGGTVSYRQVMDM 240 Query: 241 TGGIPSEQFARLATAILEGDMGLLLELVEQLMHEGKSADKCLENLLYYFRDLLMIKMVPG 300 TGGI SEQF RLA A+ +GD GL+L++VEQ M EGKSADKC+ENLLYYFRDLLMIKMVP Sbjct: 241 TGGIASEQFGRLAGAVKQGDAGLVLQIVEQFMQEGKSADKCMENLLYYFRDLLMIKMVPD 300 Query: 301 ADQLTDRVLNPADFRDMAAAFTRDRLFLIVETLTRYLGEMKYATHPQTLFEVALMKLCSL 360 AD+LTDRVLNPA+F++MA AF+RD LF +++TL RY EMKYA+ PQTLFEVAL+KL + Sbjct: 301 ADKLTDRVLNPAEFQEMANAFSRDELFQMIDTLNRYQSEMKYASQPQTLFEVALLKLSGI 360 Query: 361 QQQEGSPHGTTPQAASSHVVGGNAAAVDSGELEHLKRQIAALEKKLEQAMQSGAMSXXXX 420 Q G +A++H + D+GEL LK+ +AALEKKLE+ +Q+G + Sbjct: 361 TQSGGG-------SAAAH------STADAGELAQLKQHVAALEKKLERLIQNGVPA---- 403 Query: 421 XXXXXXXXXPAQA---PAPRVSSPSKLPPQLDKFIAGKDSPDFAEVYKKWSVVLQGVKEE 477 PA++ PAP+ +S +K+P +D++++ + D+ V+++W+ +LQ VKEE Sbjct: 404 ----SNQREPAKSTRTPAPKAASTAKIPQHMDQYVSSRTGEDYTAVHRQWAQILQNVKEE 459 Query: 478 KVTVHAWFVDGEPVAVMEDAVLVAFKNTIHRDTTEKPANRQVIENVFAARLGKPYRLVTM 537 KVTVHAW +DGEPV+V ED VLVAFKN IHR+TTEKPAN+QVIE V + LGKPY LVTM Sbjct: 460 KVTVHAWLMDGEPVSVWEDKVLVAFKNNIHRETTEKPANKQVIEGVLESMLGKPYHLVTM 519 Query: 538 MLRDWNEAATKTAAXXXXXXXXXXXXXXTGDTRTEPWIDEAIQLFGEDLVVIKE 591 MLRDWN+A G + PWIDEAIQLFGEDLVVIK+ Sbjct: 520 MLRDWNDAVEGVGKPQAEELKLEHEEADAGGEK--PWIDEAIQLFGEDLVVIKD 571 >B1DK70.1 B1DK70_9BACL DNA polymerase III, subunits gamma and tau EC=2.7.7.7 Length = 590 Score = 667 bits (1721), Expect = 0.0, Method: Compositional matrix adjust. Identities = 330/596 (55%), Positives = 433/596 (72%), Gaps = 13/596 (2%) Query: 1 VEHIALYRAWRPQSFHDMVGQQHIIQTLQNAIREQRVSHAYLFSGPRGTGKTSAAKVLAK 60 + HIALYRAWRPQ+F DMVGQ+HIIQTLQNAIRE RVSHAYLF+GPRGTGKT+AAKVLAK Sbjct: 1 MSHIALYRAWRPQTFQDMVGQRHIIQTLQNAIREDRVSHAYLFNGPRGTGKTTAAKVLAK 60 Query: 61 AVNCERSEGAEPCNECPSCLRITAGNVMDVQEIDAASNRGVEEIRDLRDKVKYAPTEVRR 120 AVNCER EPCNEC +C ITAG++MDV EIDAASNRG++EIRD+RDKV+YAP+EVR Sbjct: 61 AVNCERGPAEEPCNECDACRGITAGHIMDVIEIDAASNRGIDEIRDIRDKVRYAPSEVRY 120 Query: 121 KVYIIDEVHMLTTEAFNALLKTLEEPPPHVMFILATTEPHKLPATIISRCQRFDFRRVSL 180 KVYIIDEVHMLT+EAFNALLKTLEEPP HV+FILATTEPHKLPATIISRCQRFDFR+VSL Sbjct: 121 KVYIIDEVHMLTSEAFNALLKTLEEPPGHVIFILATTEPHKLPATIISRCQRFDFRQVSL 180 Query: 181 EEQTAHLTAICQKEGISADSDALQYIARLSDGGMRDALSILDQISSFTDGQVTYQQVLGM 240 EEQ+ L IC+ EGI A+ DA+ YIARLS+GGMRDA+S+L+Q+++F ++T + + Sbjct: 181 EEQSERLFEICRDEGIEAEEDAIAYIARLSEGGMRDAISLLEQVAAFGGSRITLDGAVDV 240 Query: 241 TGGIPSEQFARLATAILEGDMGLLLELVEQLMHEGKSADKCLENLLYYFRDLLMIKMVP- 299 TGG+ ++QF LA AI + ++ ++ LVE L GKSADKC+ENL++YFRDLL++K+ P Sbjct: 241 TGGMAADQFYALAEAIRDRNVAAIMPLVEGLTQAGKSADKCMENLIFYFRDLLVLKLAPQ 300 Query: 300 GADQLTDRVLNPADFRDMAAAFTRDRLFLIVETLTRYLGEMKYATHPQTLFEVALMKLCS 359 GA +T+RV++ FR MA AF+ +RLF +++TL Y +MK+A+ PQTLFEVALMK+C+ Sbjct: 301 GA--VTERVVDAERFRGMADAFSSERLFKMIDTLNTYQSDMKHASQPQTLFEVALMKICT 358 Query: 360 LQQQEGSPHGTTPQAASSHVVGGNAAAVDSGELEHLKRQIAALEKKLEQAMQSGAMSXXX 419 + G+ + AA S E++ L++Q+ LE+KLEQ +Q+G + Sbjct: 359 I----GNESAGGTGSGGGAATSSPPAA--SAEVQRLRQQVEILERKLEQLIQNGGAAGSG 412 Query: 420 XXXXXXXXXXPAQAPAPRV----SSPSKLPPQLDKFIAGKDSPDFAEVYKKWSVVLQGVK 475 +Q+ P ++ S+ +LD F+A SP +V KW+ VL VK Sbjct: 413 AGDGGAVRQPASQSRRPGFGGGGAAVSRSTVKLDPFVAAAGSPGTGQVRMKWNEVLHRVK 472 Query: 476 EEKVTVHAWFVDGEPVAVMEDAVLVAFKNTIHRDTTEKPANRQVIENVFAARLGKPYRLV 535 E ++TVHAW VDGEPVA + +LVAFKNT+HR+TTE+PA+R++IE V G P++L Sbjct: 473 EARITVHAWLVDGEPVAATDSTILVAFKNTMHRETTERPAHREIIERVMQDVFGNPFKLA 532 Query: 536 TMMLRDWNEAATKTAAXXXXXXXXXXXXXXTGDTRTEPWIDEAIQLFGEDLVVIKE 591 T ML++W AA+++ TG+ + W++EA++LFGEDLVVIKE Sbjct: 533 TCMLKEWQNAASRSGEQEGETLELQPDAIDTGEEQRPQWVEEAVKLFGEDLVVIKE 588 >C0ZHA0.1 C0ZHA0_BREBN DNA polymerase III gamma and tau subunits EC=2.7.7.7 Length = 565 Score = 497 bits (1279), Expect = e-138, Method: Compositional matrix adjust. Identities = 255/590 (43%), Positives = 371/590 (62%), Gaps = 28/590 (4%) Query: 3 HIALYRAWRPQSFHDMVGQQHIIQTLQNAIREQRVSHAYLFSGPRGTGKTSAAKVLAKAV 62 + ALYR +RPQ+F D+VGQ+H+ TL+NA+RE R+SHAYLF+GPRGTGKTSAAK++AKAV Sbjct: 3 YTALYRVYRPQTFQDVVGQEHVTTTLRNALRENRLSHAYLFNGPRGTGKTSAAKIMAKAV 62 Query: 63 NCERSEGAEPCNECPSCLRITAGNVMDVQEIDAASNRGVEEIRDLRDKVKYAPTEVRRKV 122 NCE+ EPCN+C +C I+ G+V DV EIDAASNRGVEEIRD+RDKVK+AP++VR KV Sbjct: 63 NCEQPIDGEPCNQCDTCRAISNGSVTDVLEIDAASNRGVEEIRDIRDKVKFAPSDVRYKV 122 Query: 123 YIIDEVHMLTTEAFNALLKTLEEPPPHVMFILATTEPHKLPATIISRCQRFDFRRVSLEE 182 YIIDEVHMLTTEAFNALLKTLEEPP HV+FILATTEPHKLPATIISRCQRFDF R+ L Sbjct: 123 YIIDEVHMLTTEAFNALLKTLEEPPSHVIFILATTEPHKLPATIISRCQRFDFHRIPLRV 182 Query: 183 QTAHLTAICQKEGISADSDALQYIARLSDGGMRDALSILDQISSFTDGQVTYQQVLGMTG 242 L ICQ +G+ + ALQ +A++++GG RDALS+LDQ S++ +V ++ +TG Sbjct: 183 MVDLLQRICQSQGVQVEEQALQLVAKMAEGGARDALSLLDQAISYSKDEVRASDIMQITG 242 Query: 243 GIPSEQFARLATAILEGDMGLLLELVEQLMHEGKSADKCLENLLYYFRDLLMIKMVPGAD 302 + F+ LA I E D+ ++E +++M +GK ++ L + LYY+RD+L++K P + Sbjct: 243 TVAQSYFSVLARHIAENDIAQVMEQFDKVMVQGKDPEQFLHDFLYYYRDMLLLKTAPQLE 302 Query: 303 QLTDRVLNPADFRDMAAAFTRDRLFLIVETLTRYLGEMKYATHPQTLFEVALMKLCSLQQ 362 ++ +R + F ++A ++ L+ +ET + L ++K++T+ + L E+ L+K+C Sbjct: 303 EIVERTMIDDQFAEVAKLYSFPVLYAAIETCNQALSQLKWSTYARVLVELTLVKMCQ--- 359 Query: 363 QEGSPHGTTPQAASSHVVGGNAAAVDSGELEHLKRQIAALEKKLEQAMQSGAMSXXXXXX 422 P A ++ +G A+ V+S EL + +I LE++L Q MQ + Sbjct: 360 ---------PNANATESMG--ASPVNSEELTAMSNRIRVLEERLVQVMQGQVSTPGQQKA 408 Query: 423 XXXXXXXPAQAPAPRVSSPSKLPPQLDKFIA-GKDSPDFAEVYKKWSVVLQGVKEEKVTV 481 P + A S S+ P + +A D +V +WS +L +K+ K+ Sbjct: 409 EETRKSEPRRIAA--ASGGSRTPMNRVREVAKAMDENLTRQVRGQWSQILTELKKIKIQY 466 Query: 482 HAWFVDGEPVAVMEDAVLVAFKNTIHRDTTEKPANRQVIENVFAARLGKPYRLVTMMLRD 541 AW V+G+PVA +AV+V F + IH D T + R VIE V + LG+P +L+++M + Sbjct: 467 QAWLVNGQPVAAGNEAVVVTFNSAIHCDKTMEAELRSVIERVMSTVLGRPLQLLSVMEEE 526 Query: 542 WNEAATKTAAXXXXXXXXXXXXXXTGDTRTEPWIDEAIQLFGEDLVVIKE 591 W + + + +P+ EAI+L GE LV +K+ Sbjct: 527 WQSVDQQVG-----------QKDASDEPEEDPFFAEAIKLVGEGLVEVKD 565 >Q9KGM4.1 Q9KGM4_BACHD DNA polymerase III gamma and tau subunits EC=2.7.7.7 Length = 564 Score = 463 bits (1191), Expect = e-128, Method: Compositional matrix adjust. Identities = 248/594 (41%), Positives = 355/594 (59%), Gaps = 41/594 (6%) Query: 5 ALYRAWRPQSFHDMVGQQHIIQTLQNAIREQRVSHAYLFSGPRGTGKTSAAKVLAKAVNC 64 ALYR WRPQ D+VGQ+HI +TLQNA+ +++ SHAYLFSGPRGTGKTSAAK++AKA+NC Sbjct: 5 ALYRVWRPQKLQDVVGQEHITKTLQNALVQEKFSHAYLFSGPRGTGKTSAAKIIAKAINC 64 Query: 65 ERSEGAEPCNECPSCLRITAGNVMDVQEIDAASNRGVEEIRDLRDKVKYAPTEVRRKVYI 124 E++ AEPCNEC +C IT+G+++DV EIDAASN GV+EIRD+RD VK+AP+EVR KVYI Sbjct: 65 EQAPIAEPCNECRACKGITSGSIVDVMEIDAASNNGVDEIRDIRDHVKFAPSEVRYKVYI 124 Query: 125 IDEVHMLTTEAFNALLKTLEEPPPHVMFILATTEPHKLPATIISRCQRFDFRRVSLEEQT 184 IDEVHMLTT AFNALLKTLEEPP H +FILATTEPHK+P TIISRCQRFDF+R+S + Sbjct: 125 IDEVHMLTTGAFNALLKTLEEPPSHAIFILATTEPHKIPLTIISRCQRFDFKRISNDALV 184 Query: 185 AHLTAICQKEGISADSDALQYIARLSDGGMRDALSILDQISSFTDGQVTYQQVLGMTGGI 244 + I EGI A+ +AL +AR ++GGMRD+LS+LDQ SF D +VT + VL +TG + Sbjct: 185 GRMKEILTHEGIEAEDEALVLVARAAEGGMRDSLSLLDQAISFADERVTVEDVLAITGAV 244 Query: 245 PSEQFARLATAILEGDMGLLLELVEQLMHEGKSADKCLENLLYYFRDLLMIKMVPGADQL 304 E ++ + +G+ L+LV QL+ GK + +E+L+YY+RDL++ K P A QL Sbjct: 245 SHEVLTQVVESAQKGETAEALQLVNQLLANGKDPLRFVEDLIYYYRDLMLFKAAPEASQL 304 Query: 305 TDRVLNPADFRDMAAAFTRDRLFLIVETLTRYLGEMKYATHPQTLFEVALMKLCSLQQQE 364 +R F+ +A LF +E L M++++HP+ E+ ++ LC QQ Sbjct: 305 LERAQINDSFKTLAGEINDASLFAAIEILNDCQQRMRWSSHPRVALELGVVTLC--QQVV 362 Query: 365 GSPHGTTPQA-ASSHVVGGNAAAVDSGELEHLKRQIAALEKKLEQAMQSGAMSXXXXXXX 423 P +PQA A++H +E L+ +I LE+ ++ +G + Sbjct: 363 QVP--ASPQAGAATH-----------PNVEALQERIQQLEQAVQSLKVNGVANVTAEEPK 409 Query: 424 XXXXXXPAQAPAPRVSSPSKLPPQLDKFIAGKDSPDFAEVYKKWSVVLQGVKEEKVTVHA 483 P+ +P+ ++ + + V +W V++ VK + V HA Sbjct: 410 TKQASRRPLKQMPKSQAPTG---KIKELLKEASKQQLQLVNGRWGEVMERVKAQNVPAHA 466 Query: 484 WFVDGEPVAVMEDAVLVAFKNTIHR---DTTEKPANRQVIENVFAARLGKPYRLVTMMLR 540 W +D +P A +L+AF+N +HR DT +P V+ ++F A P T++ Sbjct: 467 WLMDCKPAAASPKFILLAFQNEMHRDMIDTKFRPFIESVLRDIFQA----PLDFQTLLQS 522 Query: 541 DWNEAATKTAAXXXXXXXXXXXXXXTGDTR---TEPWIDEAIQLFGEDLVVIKE 591 WN+ + GD ++P I+EAI+L G DL+ +K+ Sbjct: 523 QWNKVKEEYV------------RDQRGDGEEPSSDPLIEEAIKLVGSDLIEVKD 564 >B5UWY9.1 B5UWY9_BACCE DNA polymerase III, gamma and tau subunits EC=2.7.7.7 Length = 562 Score = 447 bits (1149), Expect = e-123, Method: Compositional matrix adjust. Identities = 235/590 (39%), Positives = 349/590 (59%), Gaps = 35/590 (5%) Query: 5 ALYRAWRPQSFHDMVGQQHIIQTLQNAIREQRVSHAYLFSGPRGTGKTSAAKVLAKAVNC 64 ALYR WRPQ F D+VGQ+H+ +TLQNA+ +++VSHAYLFSGPRGTGKT+ AKV AKA+NC Sbjct: 5 ALYRTWRPQKFEDVVGQKHVTKTLQNALLQEKVSHAYLFSGPRGTGKTTIAKVFAKAINC 64 Query: 65 ERSEGAEPCNECPSCLRITAGNVMDVQEIDAASNRGVEEIRDLRDKVKYAPTEVRRKVYI 124 E + AEPCNECPSCL IT G++ DV EIDAASN GV+EIRD+RDKVKYAP+ V KVYI Sbjct: 65 EHAPVAEPCNECPSCLGITQGSISDVLEIDAASNNGVDEIRDIRDKVKYAPSAVEYKVYI 124 Query: 125 IDEVHMLTTEAFNALLKTLEEPPPHVMFILATTEPHKLPATIISRCQRFDFRRVSLEEQT 184 IDEVHML+ AFNALLKTLEEPP HV+FILATTEPHK+P TIISRCQRF+FR++S+ + Sbjct: 125 IDEVHMLSMGAFNALLKTLEEPPGHVIFILATTEPHKIPPTIISRCQRFEFRKISVNDIV 184 Query: 185 AHLTAICQKEGISADSDALQYIARLSDGGMRDALSILDQISSFTDGQVTYQQVLGMTGGI 244 L+ + EG + +ALQ +AR ++GGMRDALS++DQ S++D VT + VL +TG + Sbjct: 185 ERLSTVVTNEGTQVEDEALQIVARAAEGGMRDALSLIDQAISYSDETVTTEDVLAVTGSV 244 Query: 245 PSEQFARLATAILEGDMGLLLELVEQLMHEGKSADKCLENLLYYFRDLLMIKMVPGADQL 304 + L I E D+ L++++++M +GK + +E+ +YY+RD+L+ + P + + Sbjct: 245 SQQYLGNLVECIRENDVSRALQIIDEMMSKGKDPVRFMEDFIYYYRDMLLYQTSPQLEHM 304 Query: 305 TDRVLNPADFRDMAAAFTRDRLFLIVETLTRYLGEMKYATHPQTLFEVALMKLCSLQQQE 364 +RV+ FR ++ + ++ I+ TL++ EMK+ HP+ EV +++LC QQ Sbjct: 305 LERVIVDDQFRKLSEEMQPEVIYEIIHTLSKGQQEMKWTNHPRIFLEVVMVQLC--QQFM 362 Query: 365 GSPHGTTPQAASSHVVGGNAAAVDSGELEHLKRQIAALEKKLEQAMQSGAMSXXXXXXXX 424 +GT L+ + ++ LEK+LEQ ++G + Sbjct: 363 MQANGT-------------------DRLQAIMNRMQQLEKELEQVKKNGVPAGVQQEVRE 403 Query: 425 XXXXXPAQAPAPRVSSPSKLP-PQLDKFIAGKDSPDFAEVYKKWSVVLQGVKE-EKVTVH 482 P P + K+P ++++ + D ++ W +L +K KV Sbjct: 404 TRA-----TPKPVRTGSMKIPVGRVNEVLKQAKRQDLEQLKAVWGELLGRLKSYNKVAFA 458 Query: 483 AWFVDGEPVAVMEDAVLVAFKNTIH-RDTTEKPANRQVIENVFAARLGKPYRLVTMMLRD 541 + EPVA +D ++AF+ IH + +E +E L K ++ + + Sbjct: 459 VLLENSEPVAASDDTYVLAFQYEIHCKMASENREAMDTVEQALFELLSKRLNMIAIPKSE 518 Query: 542 WNEAATKTAAXXXXXXXXXXXXXXTGDTRTEPWIDEAIQLFGEDLVVIKE 591 W + + + R +P I+EA++L G++L+ IKE Sbjct: 519 WGK------IREDFLQREGGESEESPEKREDPLIEEAVKLVGQELIEIKE 562 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 0.318 0.132 0.383 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: 3,234,011,775 Number of extensions: 127051668 Number of successful extensions: 420869 Number of sequences better than 1.0e-05: 3775 Number of HSP's gapped: 418058 Number of HSP's successfully gapped: 3800 Length of query: 591 Length of database: 3,060,696,203 Length adjustment: 142 Effective length of query: 449 Effective length of database: 1,722,912,073 Effective search space: 773587520777 Effective search space used: 773587520777 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: 134 (56.2 bits)