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= 0013.0004.p (873 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B1DIH5.1 B1DIH5_9BACL Transcription-repair coupling factor 1308 0.0 C0ZHD9.1 C0ZHD9_BREBN Transcription-repair coupling factor 1118 0.0 A7Z0H8.1 A7Z0H8_BACA2 Mfd 1062 0.0 P37474.1 MFD_BACSU Transcription-repair-coupling factor EC=3.6.1.- 1061 0.0 A7GJW5.1 A7GJW5_BACCN Transcription-repair coupling factor 1058 0.0 >B1DIH5.1 B1DIH5_9BACL Transcription-repair coupling factor Length = 1002 Score = 1308 bits (3386), Expect = 0.0, Method: Compositional matrix adjust. Identities = 626/824 (75%), Positives = 715/824 (86%) Query: 1 MAQDTLLVLDEPARLLETAKQLERDESEWNLHLLQNGKTLPDLQLSVESDAVMYQRPFQS 60 M DT+L+LDEP RL+ET +QLERDE+EW+ HLL NGK+LP L+ ESD +++ R FQ+ Sbjct: 128 MPDDTVLILDEPTRLIETGRQLERDEAEWSTHLLSNGKSLPSFMLARESDEILHHRKFQT 187 Query: 61 LFMSIFLRQVPHIQPQNILGFISRGMQDFHGQMNVLKSEMERWHKSGVKVIMLANGEERM 120 LFMS+FLRQ+PH QPQNIL SR MQ+FHGQMNVLK+EMERW K+G KV+ML ER+ Sbjct: 188 LFMSLFLRQIPHSQPQNILNMTSRAMQNFHGQMNVLKAEMERWKKTGAKVMMLGGNAERL 247 Query: 121 ERVRRVLYDYGIEEPTILQGNLGSGFELPSIHLAVITEGEMFSQKQRKARKVSKGIDNAE 180 +R+RRVL DY IE P +++GNL SGFELPS HL +ITEGEMFSQKQRKAR++ K IDNAE Sbjct: 248 DRIRRVLQDYHIEPPILIEGNLQSGFELPSSHLVIITEGEMFSQKQRKARRMDKKIDNAE 307 Query: 181 RIKSYTELKIGDYVVHQNHGIGKYMGIGTLEVSGIHRDYMHILYAGGDKLSVPIDQIDLI 240 RIKSYTELK+GDYVVHQNHGIGKY+GIGTLE+ GIH+DY+HILYAGGDKLSVP++Q+D+I Sbjct: 308 RIKSYTELKVGDYVVHQNHGIGKYVGIGTLEIGGIHKDYLHILYAGGDKLSVPVEQVDMI 367 Query: 241 QKYVGSEDKEPKVYKLGGNEWTRVTSKVRSSVQDIADDLIKLYAERQSALGYGFEKDTQE 300 QKYVGSE+KEPK+ KLGG+EW R +KVR+SVQDIADDLIKLYAERQSA G+ F +DT Sbjct: 368 QKYVGSEEKEPKINKLGGSEWIRAKNKVRASVQDIADDLIKLYAERQSAPGFAFGQDTAY 427 Query: 301 QREFEEMFPYEETRDQLRAIEEIKKDMEQNRPMDRLLCGDVGYGKTEVAIRAAFKSAIEG 360 Q EFE +FPY+ETRDQLRAIEEIKKDM++ +PMDRLLCGDVGYGKTEVA+RAAFK+AIEG Sbjct: 428 QNEFEAIFPYDETRDQLRAIEEIKKDMQKPQPMDRLLCGDVGYGKTEVAVRAAFKAAIEG 487 Query: 361 KQVAVLVPTTILAQQHYETFRERFANYPLNIQVLSRFRSRKEQNETIKGVRQGTVDVVIG 420 KQVA+LVPTTILAQQHYETFRERF+ YP NIQVLSRFRSRKEQN+T+KG++ GTVDVVIG Sbjct: 488 KQVAILVPTTILAQQHYETFRERFSGYPFNIQVLSRFRSRKEQNDTMKGLKAGTVDVVIG 547 Query: 421 THRLLSQDMVFKDLGLLIVDEEQRFGVTHKEKLKKLKTNVDVLTLTATPIPRTLHMSMLG 480 THRLLSQD++FKDLGLLIVDEEQRFGV+HKEKLKKLKTNVDVLTLTATPIPRTLHMSMLG Sbjct: 548 THRLLSQDVIFKDLGLLIVDEEQRFGVSHKEKLKKLKTNVDVLTLTATPIPRTLHMSMLG 607 Query: 481 VRDLSVIETPPENRFPVQTYVVEHSQTLIREAVERELARGGQVYYLYNRVQGIQEMAAQI 540 VRDLSVIETPPENRFPVQTYVVE+S +L+REA+ERELARGGQVYYLYNRVQGI +MA QI Sbjct: 608 VRDLSVIETPPENRFPVQTYVVEYSTSLVREAIERELARGGQVYYLYNRVQGIYQMAEQI 667 Query: 541 SMLVPEARVGIGHGQMSESELEKTILDFLDGEYDVLVSTSIIETGVDIPNVNTLIVHDAD 600 + LVP+A+V +GHGQMSE ELEKTILDFLDGE DVLVSTSIIETGVDIPNVNTLIVHDAD Sbjct: 668 NALVPDAKVAVGHGQMSEQELEKTILDFLDGESDVLVSTSIIETGVDIPNVNTLIVHDAD 727 Query: 601 KMGLSQLYQLRGRVGRSNRIAYAYFTYQRDKVLTEVAEKRLQSIKEFTELGSGFKIAMRD 660 KMGLSQLYQLRGRVGRSNRIAYAYFTYQRDKVLTEVAEKRLQSIKEFTELGSGFKIAMRD Sbjct: 728 KMGLSQLYQLRGRVGRSNRIAYAYFTYQRDKVLTEVAEKRLQSIKEFTELGSGFKIAMRD 787 Query: 661 LSIRGAGNLLGAEQHGFIASVGFDLYSQMLAEEIRKRKVSVLGEEDTSLKQGNTVIDLSI 720 LSIRGAGNLLGAEQHGFIASVGFDLYSQMLA+EI KRK + G E ++ +T+ID+SI Sbjct: 788 LSIRGAGNLLGAEQHGFIASVGFDLYSQMLADEIAKRKAEMEGVEVKEERRVSTLIDVSI 847 Query: 721 DAYLPSEYIYDSIQKIEIYKKXXXXXXXXXXXXXXXXXXXRFGELPEAVVNLLTVARLKV 780 DAYLPS+YIYDSIQKIEIYKK RFG LP+AV NLL+VARLKV Sbjct: 848 DAYLPSDYIYDSIQKIEIYKKVATVTSIDEAEDLAEELIDRFGNLPQAVDNLLSVARLKV 907 Query: 781 YGKLYGMESMVRRGDEVSLNFHEGSTGAFDTAKLAKVGNSFERR 824 YG YG+E + ++ D++ + F E D + ++ +E R Sbjct: 908 YGTQYGIEQISQKSDDLIVRFGEREKKRIDRKLVDQLCVQYENR 951 >C0ZHD9.1 C0ZHD9_BREBN Transcription-repair coupling factor Length = 1182 Score = 1118 bits (2891), Expect = 0.0, Method: Compositional matrix adjust. Identities = 549/855 (64%), Positives = 672/855 (78%), Gaps = 20/855 (2%) Query: 1 MAQDTLLVLDEPARLLETAKQLERDESEWNLHLLQNGKTLPDLQLSVESDAVMYQRPFQS 60 M DTLL++DEP+R+L+TA QL+++E EW + G+ + +L LS D ++ + Q Sbjct: 301 MPSDTLLLVDEPSRVLDTAAQLQKEEGEWLTGRIIQGEYMSNLSLSRTYDEIVSTKKRQI 360 Query: 61 LFMSIFLRQVPHIQPQNILGFISRGMQDFHGQMNVLKSEMERWHKSGVKVIMLANGEERM 120 +++S+FLRQ P QPQNI+ R MQ+FHGQMNVLK+E+ RW KS +++ +A ER Sbjct: 361 VYLSLFLRQSPKTQPQNIVNLTCRTMQNFHGQMNVLKTELARWKKSQDQIVFVAADLERA 420 Query: 121 ERVRRVLYDYGIE--------------EPTILQGNLGSGFELPSIHLAVITEGEMFSQKQ 166 +R+ RVL+DY +E PTI+ GNL +GFELP L VITEGE+F+ KQ Sbjct: 421 KRLERVLHDYEMEADVLTEAVETVPPGRPTIILGNLQTGFELPLNKLVVITEGEVFTAKQ 480 Query: 167 RKARKVSKGIDNAERIKSYTELKIGDYVVHQNHGIGKYMGIGTLEVSGIHRDYMHILYAG 226 RKARKV + ++NAERIK+Y ELK GD+VVH NHGIGKY+GI T E+ GIH+DY+HI YA Sbjct: 481 RKARKVQQTMNNAERIKNYLELKPGDFVVHVNHGIGKYLGIETKEILGIHKDYLHIQYAA 540 Query: 227 GDKLSVPIDQIDLIQKYVGSEDKEPKVYKLGGNEWTRVTSKVRSSVQDIADDLIKLYAER 286 GD L VPIDQID +QKYV SE+ +PK+Y LGG+EW RV +KV+SSV+DIA+DLIKLYA R Sbjct: 541 GDSLFVPIDQIDHVQKYVASEEAQPKIYSLGGSEWKRVKNKVQSSVKDIAEDLIKLYAAR 600 Query: 287 QSALGYGFEKDTQEQREFEEMFPYEETRDQLRAIEEIKKDMEQNRPMDRLLCGDVGYGKT 346 +SA+G+ F DT EQREFE MFPY+ET+DQLRAI E+K DME+ RPMDRL+CGDVGYGKT Sbjct: 601 ESAVGHTFSPDTTEQREFEAMFPYQETQDQLRAISEVKADMERKRPMDRLVCGDVGYGKT 660 Query: 347 EVAIRAAFKSAIEGKQVAVLVPTTILAQQHYETFRERFANYPLNIQVLSRFRSRKEQNET 406 EVAIRAAFK+ ++GKQVAVLVPTTILAQQHYETFRERFA YP+ ++VLSRFRSRKEQN T Sbjct: 661 EVAIRAAFKAVMDGKQVAVLVPTTILAQQHYETFRERFAEYPIRVEVLSRFRSRKEQNAT 720 Query: 407 IKGVRQGTVDVVIGTHRLLSQDMVFKDLGLLIVDEEQRFGVTHKEKLKKLKTNVDVLTLT 466 +KG+++GTVDVVIGTHRLLS+D+ F++LGLLIVDEEQRFGV+HKEKLK++KTNVDV+TLT Sbjct: 721 LKGLKEGTVDVVIGTHRLLSKDLTFRELGLLIVDEEQRFGVSHKEKLKQIKTNVDVMTLT 780 Query: 467 ATPIPRTLHMSMLGVRDLSVIETPPENRFPVQTYVVEHSQTLIREAVERELARGGQVYYL 526 ATPIPRTLHMSMLGVRDLSVIETPPENRFPVQTYV+++S L+REA+ERE+AR GQV++L Sbjct: 781 ATPIPRTLHMSMLGVRDLSVIETPPENRFPVQTYVMDYSPALVREAIEREMARDGQVFFL 840 Query: 527 YNRVQGIQEMAAQISMLVPEARVGIGHGQMSESELEKTILDFLDGEYDVLVSTSIIETGV 586 YN+VQGI++MA QISMLVP+AR+ + HGQM+ESELE ILDFL+G +DVLVST+IIETGV Sbjct: 841 YNQVQGIEQMAEQISMLVPDARIAVAHGQMNESELEGVILDFLEGNFDVLVSTTIIETGV 900 Query: 587 DIPNVNTLIVHDADKMGLSQLYQLRGRVGRSNRIAYAYFTYQRDKVLTEVAEKRLQSIKE 646 DIPNVNTLI+++ADKMGLSQLYQLRGRVGRSNRIAYAYFTYQRDKVLTEVAEKRLQ+IKE Sbjct: 901 DIPNVNTLIIYNADKMGLSQLYQLRGRVGRSNRIAYAYFTYQRDKVLTEVAEKRLQAIKE 960 Query: 647 FTELGSGFKIAMRDLSIRGAGNLLGAEQHGFIASVGFDLYSQMLAEEIRKRKVSVLGEED 706 FTELGSGFKIAMRDLSIRGAGNLLGAEQHGFI +VGFDLYSQML E I + K V E Sbjct: 961 FTELGSGFKIAMRDLSIRGAGNLLGAEQHGFINTVGFDLYSQMLKEAIDELKGEVKHEIV 1020 Query: 707 TSLKQGNTVIDLSIDAYLPSEYIYDSIQKIEIYKKXXXXXXXXXXXXXXXXXXXRFGELP 766 T ++ I+L +DAY+PS YI DS QKIE+YKK RFG +P Sbjct: 1021 TPVE-----INLQLDAYIPSMYITDSRQKIEMYKKFVAVSTLEDVDDLAEELLDRFGPVP 1075 Query: 767 EAVVNLLTVARLKVYG-KLYGMESMVRRGDEVSLNFHEGSTGAFDTAKLAKVGNSFERRV 825 + V NLLT++RL+VY K + E + DE+ L H D L + +++ +RV Sbjct: 1076 KPVDNLLTISRLRVYALKHHITEISQKNPDEIKLLLHPSQNNNIDGGALFALTSNWSKRV 1135 Query: 826 QFDRDAKATIRVKSK 840 + TI VK K Sbjct: 1136 GLSGGQQITIAVKVK 1150 >A7Z0H8.1 A7Z0H8_BACA2 Mfd Length = 1177 Score = 1062 bits (2747), Expect = 0.0, Method: Compositional matrix adjust. Identities = 530/851 (62%), Positives = 648/851 (76%), Gaps = 20/851 (2%) Query: 4 DTLLVLDEPARLLETAKQLERDESEWNLHLLQNGKTLPDLQLSVESDAVMYQRPFQSLFM 63 DTLL+LDE +R+ E QL+++E+E+ LL+ GK L D+ LS +M ++ +++ Sbjct: 304 DTLLLLDEVSRIHEMEDQLQKEEAEFMTSLLEEGKILHDIHLSFSFQELMSEKRRPAIYY 363 Query: 64 SIFLRQVPHIQPQNILGFISRGMQDFHGQMNVLKSEMERWHKSGVKVIMLANGEERMERV 123 S+FLR V H PQNI+ SR MQ FHGQMNVL EMER+ KS V+ L ++R +R+ Sbjct: 364 SLFLRHVQHTSPQNIVNVTSRQMQSFHGQMNVLAGEMERFKKSNFTVVFLGANKDRTDRL 423 Query: 124 RRVLYDYGIEEPT-------------ILQGNLGSGFELPSIHLAVITEGEMFSQKQRKAR 170 VL DY IE +++G L SGFELP + LAVITE E+F + +K Sbjct: 424 ASVLADYEIEAAKTDSSKALVQGQVYVMEGELQSGFELPLMKLAVITEEELFKNRIKKKP 483 Query: 171 KVSKGIDNAERIKSYTELKIGDYVVHQNHGIGKYMGIGTLEVSGIHRDYMHILYAGGDKL 230 + K + NAERIKSY+EL++GDYVVH NHGIGKY+GI TLE+ GIH+DY++I Y G DKL Sbjct: 484 RKQK-LTNAERIKSYSELQVGDYVVHVNHGIGKYLGIETLEIKGIHKDYLNIHYQGSDKL 542 Query: 231 SVPIDQIDLIQKYVGSEDKEPKVYKLGGNEWTRVTSKVRSSVQDIADDLIKLYAERQSAL 290 VP++QID +QKYVGSE KEPK+YKLGG+EW RV KV +SVQDIADDLIKLYAER+++ Sbjct: 543 YVPVEQIDQVQKYVGSEGKEPKLYKLGGSEWKRVKKKVENSVQDIADDLIKLYAEREASK 602 Query: 291 GYGFEKDTQEQREFEEMFPYEETRDQLRAIEEIKKDMEQNRPMDRLLCGDVGYGKTEVAI 350 GY F D + QR+FE FPY+ET DQLR+I+EIKKDME+ RPMDRLLCGDVGYGKTEVAI Sbjct: 603 GYAFSPDHEMQRQFESAFPYQETEDQLRSIQEIKKDMERERPMDRLLCGDVGYGKTEVAI 662 Query: 351 RAAFKSAIEGKQVAVLVPTTILAQQHYETFRERFANYPLNIQVLSRFRSRKEQNETIKGV 410 RAAFK+ +GKQVA+LVPTTILAQQHYET ERF +YP+NI +LSRFR+RKE NETIKG+ Sbjct: 663 RAAFKAIADGKQVALLVPTTILAQQHYETIMERFQDYPINIGLLSRFRTRKESNETIKGL 722 Query: 411 RQGTVDVVIGTHRLLSQDMVFKDLGLLIVDEEQRFGVTHKEKLKKLKTNVDVLTLTATPI 470 + GTVD+VIGTHRLLS+D+V+KDLGLLI+DEEQRFGVTHKEK+K++K NVDVLTLTATPI Sbjct: 723 KNGTVDIVIGTHRLLSKDVVYKDLGLLIIDEEQRFGVTHKEKIKQIKANVDVLTLTATPI 782 Query: 471 PRTLHMSMLGVRDLSVIETPPENRFPVQTYVVEHSQTLIREAVERELARGGQVYYLYNRV 530 PRTLHMSMLGVRDLSVIETPPENRFPVQTYVVE++ L+REA+ERELARGGQVY+LYNRV Sbjct: 783 PRTLHMSMLGVRDLSVIETPPENRFPVQTYVVEYNGALVREAIERELARGGQVYFLYNRV 842 Query: 531 QGIQEMAAQISMLVPEARVGIGHGQMSESELEKTILDFLDGEYDVLVSTSIIETGVDIPN 590 I+ A +ISMLVP+A+V HG+M+E+ELE +L+FL+GE DVLVST+IIETGVDIPN Sbjct: 843 DDIERKADEISMLVPDAKVAYAHGKMTENELESVMLNFLEGESDVLVSTTIIETGVDIPN 902 Query: 591 VNTLIVHDADKMGLSQLYQLRGRVGRSNRIAYAYFTYQRDKVLTEVAEKRLQSIKEFTEL 650 VNTLIV D DKMGLSQLYQLRGRVGRSNR+AYAYFTY+RDKVLTEVAEKRLQ+IKEFTEL Sbjct: 903 VNTLIVFDGDKMGLSQLYQLRGRVGRSNRVAYAYFTYRRDKVLTEVAEKRLQAIKEFTEL 962 Query: 651 GSGFKIAMRDLSIRGAGNLLGAEQHGFIASVGFDLYSQMLAEEIRKRKVSVLGEEDTSLK 710 GSGFKIAMRDL+IRGAGNLLGA+QHGFI SVGFDLYSQML E I +RK + E Sbjct: 963 GSGFKIAMRDLTIRGAGNLLGAQQHGFIDSVGFDLYSQMLKEAIEERKGDIPKSE----- 1017 Query: 711 QGNTVIDLSIDAYLPSEYIYDSIQKIEIYKKXXXXXXXXXXXXXXXXXXXRFGELPEAVV 770 Q T ID+ +DAY+P YI D QKI++YK+ RFG P+ V Sbjct: 1018 QFETEIDIELDAYIPENYIQDGKQKIDMYKRFRSIATIEEKNELQDEIIDRFGSYPKEVE 1077 Query: 771 NLLTVARLKVYGKLYGMESMVRRGDEVSLNFHEGSTGAFDTAKLAKVGNSFERRVQFDRD 830 L TVA +KVYGK +E + + D + E ++ D KL ++GN + R++ + Sbjct: 1078 WLFTVAEMKVYGKYERVELIKQDKDAIRFTISEEASAQIDGQKLFELGNKYGRQIGLGME 1137 Query: 831 AKA-TIRVKSK 840 K I V++K Sbjct: 1138 GKKLKISVQTK 1148 >P37474.1 MFD_BACSU Transcription-repair-coupling factor EC=3.6.1.- Length = 1177 Score = 1061 bits (2743), Expect = 0.0, Method: Compositional matrix adjust. Identities = 529/842 (62%), Positives = 645/842 (76%), Gaps = 19/842 (2%) Query: 4 DTLLVLDEPARLLETAKQLERDESEWNLHLLQNGKTLPDLQLSVESDAVMYQRPFQSLFM 63 +TLL+LDE +R+ E +QL+++E+E+ +LL+ GK L D++LS ++ ++ L+ Sbjct: 304 NTLLILDEVSRIHEMEEQLQKEEAEFITNLLEEGKILHDIRLSFSFQKIVAEQKRPLLYY 363 Query: 64 SIFLRQVPHIQPQNILGFISRGMQDFHGQMNVLKSEMERWHKSGVKVIMLANGEERMERV 123 S+FLR V H PQNI+ R MQ FHGQMNVL EMER+ KS V+ L +ER +++ Sbjct: 364 SLFLRHVHHTSPQNIVNVSGRQMQSFHGQMNVLAGEMERFKKSNFTVVFLGANKERTQKL 423 Query: 124 RRVLYDYGIEEPT-------------ILQGNLGSGFELPSIHLAVITEGEMFSQKQRKAR 170 VL DY IE I++G L SGFELP + LAVITE E+F + +K Sbjct: 424 SSVLADYDIEAAMTDSKKALVQGQVYIMEGELQSGFELPLMKLAVITEEELFKNRVKKKP 483 Query: 171 KVSKGIDNAERIKSYTELKIGDYVVHQNHGIGKYMGIGTLEVSGIHRDYMHILYAGGDKL 230 + K + NAERIKSY+EL+IGDYVVH NHGIGKY+GI TLE++GIH+DY++I Y G DKL Sbjct: 484 RKQK-LTNAERIKSYSELQIGDYVVHINHGIGKYLGIETLEINGIHKDYLNIHYQGSDKL 542 Query: 231 SVPIDQIDLIQKYVGSEDKEPKVYKLGGNEWTRVTSKVRSSVQDIADDLIKLYAERQSAL 290 VP++QID +QKYVGSE KEPK+YKLGG+EW RV KV +SVQDIADDLIKLYAER+++ Sbjct: 543 YVPVEQIDQVQKYVGSEGKEPKLYKLGGSEWKRVKKKVETSVQDIADDLIKLYAEREASK 602 Query: 291 GYGFEKDTQEQREFEEMFPYEETRDQLRAIEEIKKDMEQNRPMDRLLCGDVGYGKTEVAI 350 GY F D + QREFE FPY+ET DQLR+I EIKKDME+ RPMDRLLCGDVGYGKTEVAI Sbjct: 603 GYAFSPDHEMQREFESAFPYQETEDQLRSIHEIKKDMERERPMDRLLCGDVGYGKTEVAI 662 Query: 351 RAAFKSAIEGKQVAVLVPTTILAQQHYETFRERFANYPLNIQVLSRFRSRKEQNETIKGV 410 RAAFK+ +GKQVA+LVPTTILAQQHYET +ERF +YP+NI +LSRFR+RKE NETIKG+ Sbjct: 663 RAAFKAIGDGKQVALLVPTTILAQQHYETIKERFQDYPINIGLLSRFRTRKEANETIKGL 722 Query: 411 RQGTVDVVIGTHRLLSQDMVFKDLGLLIVDEEQRFGVTHKEKLKKLKTNVDVLTLTATPI 470 + GTVD+VIGTHRLLS+D+V+KDLGLLI+DEEQRFGVTHKEK+K++K NVDVLTLTATPI Sbjct: 723 KNGTVDIVIGTHRLLSKDVVYKDLGLLIIDEEQRFGVTHKEKIKQIKANVDVLTLTATPI 782 Query: 471 PRTLHMSMLGVRDLSVIETPPENRFPVQTYVVEHSQTLIREAVERELARGGQVYYLYNRV 530 PRTLHMSMLGVRDLSVIETPPENRFPVQTYVVE++ L+REA+ERELARGGQVY+LYNRV Sbjct: 783 PRTLHMSMLGVRDLSVIETPPENRFPVQTYVVEYNGALVREAIERELARGGQVYFLYNRV 842 Query: 531 QGIQEMAAQISMLVPEARVGIGHGQMSESELEKTILDFLDGEYDVLVSTSIIETGVDIPN 590 + I+ A +ISMLVP+A+V HG+M+E+ELE +L FL+GE DVLVST+IIETGVDIPN Sbjct: 843 EDIERKADEISMLVPDAKVAYAHGKMTENELETVMLSFLEGESDVLVSTTIIETGVDIPN 902 Query: 591 VNTLIVHDADKMGLSQLYQLRGRVGRSNRIAYAYFTYQRDKVLTEVAEKRLQSIKEFTEL 650 VNTLIV DADKMGLSQLYQLRGRVGRSNR+AYAYFTY+RDKVLTEVAEKRLQ+IKEFTEL Sbjct: 903 VNTLIVFDADKMGLSQLYQLRGRVGRSNRVAYAYFTYRRDKVLTEVAEKRLQAIKEFTEL 962 Query: 651 GSGFKIAMRDLSIRGAGNLLGAEQHGFIASVGFDLYSQMLAEEIRKRKVSVLGEEDTSLK 710 GSGFKIAMRDL+IRGAGNLLGA+QHGFI SVGFDLYSQML E I +RK E Sbjct: 963 GSGFKIAMRDLTIRGAGNLLGAQQHGFIDSVGFDLYSQMLKEAIEERKGDTAKTE----- 1017 Query: 711 QGNTVIDLSIDAYLPSEYIYDSIQKIEIYKKXXXXXXXXXXXXXXXXXXXRFGELPEAVV 770 Q T ID+ +DAY+P YI D QKI++YK+ RFG P+ V Sbjct: 1018 QFETEIDVELDAYIPETYIQDGKQKIDMYKRFRSVATIEEKNELQDEMIDRFGNYPKEVE 1077 Query: 771 NLLTVARLKVYGKLYGMESMVRRGDEVSLNFHEGSTGAFDTAKLAKVGNSFERRVQFDRD 830 L TVA +KVY + +E + + D V L E ++ D KL ++GN + R++ + Sbjct: 1078 YLFTVAEMKVYARQERVELIKQDKDAVRLTISEEASAEIDGQKLFELGNQYGRQIGLGME 1137 Query: 831 AK 832 K Sbjct: 1138 GK 1139 >A7GJW5.1 A7GJW5_BACCN Transcription-repair coupling factor Length = 1176 Score = 1058 bits (2736), Expect = 0.0, Method: Compositional matrix adjust. Identities = 524/843 (62%), Positives = 648/843 (76%), Gaps = 29/843 (3%) Query: 1 MAQDTLLVLDEPARLLETAKQLERDESEWNLHLLQNGKTLPDLQLSVESDAVMYQRPFQS 60 + ++ +++LDE +R+ ETA LE +E+EW LL G + DL S + + + Sbjct: 301 LPENGVVILDEISRVQETASHLETEEAEWYTSLLSEGAIIQDLVFSHSFEEFLRHKKRSF 360 Query: 61 LFMSIFLRQVPHIQPQNILGFISRGMQDFHGQMNVLKSEMERWHKSGVKVIMLANGEERM 120 +++++FLR + H PQNI+ + MQDFHGQM +LK+E++RW++ ++L EER Sbjct: 361 VYLTLFLRHIAHTHPQNIVNVTCKTMQDFHGQMQLLKTEIDRWNEGQFTTVILGTDEERA 420 Query: 121 ERVRRVLYDYGIEE----------PTILQ---GNLGSGFELPSIHLAVITEGEMFSQKQR 167 ++++ +L DY IE P LQ G+L +GFE+P L VITE E+F +K + Sbjct: 421 KKLQHILSDYDIEADIIESTDILLPGRLQIAVGDLHAGFEMPMQKLVVITEKELFHKKVK 480 Query: 168 KARKVSKGIDNAERIKSYTELKIGDYVVHQNHGIGKYMGIGTLEVSGIHRDYMHILYAGG 227 K+R+ K + NAERIKSY+ELK+GDYVVH NHGIGK++GI TLE++G+H+DY++I Y G Sbjct: 481 KSRRKQK-LSNAERIKSYSELKVGDYVVHVNHGIGKFLGIETLEINGVHKDYLNIKYQGN 539 Query: 228 DKLSVPIDQIDLIQKYVGSEDKEPKVYKLGGNEWTRVTSKVRSSVQDIADDLIKLYAERQ 287 DKL VPI+QID +QKYVGSE K+PKVYKLGGN+W +V +KV SVQDIADDLIKLYAER+ Sbjct: 540 DKLYVPIEQIDQVQKYVGSEGKDPKVYKLGGNDWKKVKTKVEKSVQDIADDLIKLYAERE 599 Query: 288 SALGYGFEKDTQEQREFEEMFPYEETRDQLRAIEEIKKDMEQNRPMDRLLCGDVGYGKTE 347 ++ GY F DT EQREFE FPY+ET DQLR+IEEIKKDME++RPMDRLLCGDVGYGKTE Sbjct: 600 ASKGYAFTPDTAEQREFESSFPYQETEDQLRSIEEIKKDMERSRPMDRLLCGDVGYGKTE 659 Query: 348 VAIRAAFKSAIEGKQVAVLVPTTILAQQHYETFRERFANYPLNIQVLSRFRSRKEQNETI 407 VAIRAAFK+ ++ KQVA+LVPTTILAQQHYET RERF +YP+NI +LSRFR+RKEQNETI Sbjct: 660 VAIRAAFKAIMDEKQVAILVPTTILAQQHYETIRERFQDYPINIGLLSRFRTRKEQNETI 719 Query: 408 KGVRQGTVDVVIGTHRLLSQDMVFKDLGLLIVDEEQRFGVTHKEKLKKLKTNVDVLTLTA 467 KG++ GTVD+VIGTHR+LS+D+ +KDLGLLI+DEEQRFGVTHKEK+K+LK N+DVLTLTA Sbjct: 720 KGLKDGTVDIVIGTHRILSKDVTYKDLGLLIIDEEQRFGVTHKEKIKQLKANIDVLTLTA 779 Query: 468 TPIPRTLHMSMLGVRDLSVIETPPENRFPVQTYVVEHSQTLIREAVERELARGGQVYYLY 527 TPIPRTLHMSMLGVRDLSVIETPPENRFPVQTYVVE++ LIREA+ERELARGGQ+Y+LY Sbjct: 780 TPIPRTLHMSMLGVRDLSVIETPPENRFPVQTYVVEYNPALIREAIERELARGGQIYFLY 839 Query: 528 NRVQGIQEMAAQISMLVPEARVGIGHGQMSESELEKTILDFLDGEYDVLVSTSIIETGVD 587 NRV+ I+ A +ISMLVPEARV HG+M+ESELE +L FL+G+YDVLVST+IIETGVD Sbjct: 840 NRVEDIERKADEISMLVPEARVTYAHGKMNESELESVMLSFLEGQYDVLVSTTIIETGVD 899 Query: 588 IPNVNTLIVHDADKMGLSQLYQLRGRVGRSNRIAYAYFTYQRDKVLTEVAEKRLQSIKEF 647 IPNVNTLIV+DAD+MGLSQLYQLRGRVGRSNR+AYAYF Y+RDKVL+EVAEKRLQ+IKEF Sbjct: 900 IPNVNTLIVYDADRMGLSQLYQLRGRVGRSNRVAYAYFAYKRDKVLSEVAEKRLQAIKEF 959 Query: 648 TELGSGFKIAMRDLSIRGAGNLLGAEQHGFIASVGFDLYSQMLAEEIRKRKVSVLGEEDT 707 TELGSGFKIAMRDLSIRGAGNLLGAEQHGFI SVGFDLYSQML + I +RK Sbjct: 960 TELGSGFKIAMRDLSIRGAGNLLGAEQHGFIDSVGFDLYSQMLKDAIEQRKG-------- 1011 Query: 708 SLKQG--NTV---IDLSIDAYLPSEYIYDSIQKIEIYKKXXXXXXXXXXXXXXXXXXXRF 762 KQG NT+ IDL +DAYLP YI DS QKI +YK+ RF Sbjct: 1012 --KQGIENTIDVEIDLEVDAYLPDSYISDSKQKIMMYKQFRGVSTLEDIEELQEEMIDRF 1069 Query: 763 GELPEAVVNLLTVARLKVYGKLYGMESMVRRGDEVSLNFHEGSTGAFDTAKLAKVGNSFE 822 G+ P+ V LL +A +KV +E + + EV+ F E ++ D KL +GN F Sbjct: 1070 GDYPQEVGYLLQIANIKVLAMKEQIELIKQTKSEVTFLFSEQASQNIDGGKLFMLGNKFG 1129 Query: 823 RRV 825 R + Sbjct: 1130 RMI 1132 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 0.136 0.376 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: 4,682,446,763 Number of extensions: 191377138 Number of successful extensions: 573397 Number of sequences better than 1.0e-05: 3569 Number of HSP's gapped: 565834 Number of HSP's successfully gapped: 3657 Length of query: 873 Length of database: 3,060,696,203 Length adjustment: 145 Effective length of query: 728 Effective length of database: 1,694,649,028 Effective search space: 1233704492384 Effective search space used: 1233704492384 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 136 (57.0 bits)