BLASTP 2.2.21 [Jun-14-2009] 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= 0020.0002.p (1151 letters) Database: COGmodified 192,987 sequences; 59,019,183 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value RSc1642 [LK] COG1197 Transcription-repair coupling factor (super... 1701 0.0 PA3002 [LK] COG1197 Transcription-repair coupling factor (superf... 1154 0.0 PM1041 [LK] COG1197 Transcription-repair coupling factor (superf... 1098 0.0 VC1886 [LK] COG1197 Transcription-repair coupling factor (superf... 1086 0.0 HI1258 [LK] COG1197 Transcription-repair coupling factor (superf... 1080 0.0 >RSc1642 [LK] COG1197 Transcription-repair coupling factor (superfamily II helicase) Rso Ralstonia solanacearum Length = 1157 Score = 1701 bits (4405), Expect = 0.0, Method: Compositional matrix adjust. Identities = 830/1141 (72%), Positives = 949/1141 (83%), Gaps = 11/1141 (0%) Query: 11 KPGARFVPPAPHGSADAYLLAQAAIALKAEKRMLTVVVANATDAQRLLSEIPWFQRPVEG 70 KPG RFV GSADA LLA+ + ML VV ANA DAQRL E+ WF Sbjct: 27 KPGQRFVFSGLQGSADALLLARYLAQHRDAVPMLAVVCANAVDAQRLADELRWF------ 80 Query: 71 SDGGDKLRCHLLPDWETLPYDAFSPHQDLVSERLATLYEVQNGQCDVLIVPATTALLRMA 130 + R LLPDWETLPYD FSPHQDL+SERLATL+++Q G CD+L+VPA+TAL R+A Sbjct: 81 ---APQARVKLLPDWETLPYDNFSPHQDLISERLATLHDLQGGACDLLLVPASTALQRIA 137 Query: 131 PPGFLAAYTFFFKQGEKLDEARLKSQLTLAGYTHVTQVMSPGEYSVRGGLIDIFPMGSAL 190 PP FLAAYTFFFK+GE+LDEA LK+Q TLAGY HV+ VM PGEYSVRGGLID+FPMGS + Sbjct: 138 PPSFLAAYTFFFKKGERLDEAALKAQFTLAGYEHVSAVMRPGEYSVRGGLIDLFPMGSPM 197 Query: 191 PYRLDLFGDIIETIRTFDADTQRSLYPVREVRLLPGREFPMDEISRSAFRSRWREVFEGD 250 PYRLDLFGD I+TIR FD DTQRSLYPV EVRLLPGREFPMDE +R+AFR RWREVFEGD Sbjct: 198 PYRLDLFGDEIDTIRAFDPDTQRSLYPVNEVRLLPGREFPMDEAARTAFRGRWREVFEGD 257 Query: 251 PSRSAIYKDIGNGIASAGIEYYLPLFFEETATLFRYLPENSMFATVGDIDQAIKRFWSDT 310 P+R+ IYKDIGNG+ SAGIEYYLPLFFE TATLF YLP ++ A VGDI+ A++RFW+DT Sbjct: 258 PTRAPIYKDIGNGVPSAGIEYYLPLFFETTATLFDYLPASAHLALVGDIESAVRRFWADT 317 Query: 311 RSRHNFLKADRERPVLAPEQVFLTDEDFFTLVKPYGRWVLQTDDTPSALSAPIPNVAVNR 370 R+ F++ DR+RP+LAP ++L +E FF KP+ R VL+ + + LS P+P+VAVNR Sbjct: 318 TQRYGFMRHDRDRPLLAPSALYLDEEAFFIAAKPHARLVLRAEPGEAPLSLPLPSVAVNR 377 Query: 371 RTDDPLTNLRAYLLKTGKRVMLCAESNGRRETLQQYFAEYDLHPALCDGYDSFIGNSEPL 430 R +DPL NL ++L + RVM+CAES GRRETL Q A LHP +G Sbjct: 378 RAEDPLVNLESFLTRGNCRVMICAESAGRRETLAQMLAASGLHPEGVADCADLMGGDARF 437 Query: 431 MLGVAPLHAGFELEQEQVAFITETELYAGSGRRVGRKKQENVTQVEHMVRDLSELKIGDP 490 +LGVAPL+ GF L E++AFITETELYA + RR GR+KQE T V+ MVRDL+ELKIGDP Sbjct: 438 VLGVAPLYQGFILGDERIAFITETELYAQALRRGGRRKQEQATAVDAMVRDLAELKIGDP 497 Query: 491 VVHANHGIGRYMGLLSMDLGEGETEFLHLEYAKETKLYVPVSQLHVIARYSGASPEDAPL 550 VVH+ HGIGRY GL+S+D+G GE EFLHL+Y K +KLYVPV QLHVI+RYSGA P+ APL Sbjct: 498 VVHSEHGIGRYQGLVSIDMGNGEEEFLHLDYDKGSKLYVPVHQLHVISRYSGADPDTAPL 557 Query: 551 HSLGSGQWEKAKRKAAQQIRDTAAELLNLYARRALRQGHAFQYSARDYETFAESFGFEET 610 H LGSGQW+KAKRKAAQQIRDTAAELLNLYARRALRQG AF + DYE FAESFGF+ET Sbjct: 558 HQLGSGQWDKAKRKAAQQIRDTAAELLNLYARRALRQGFAFPLAPNDYEAFAESFGFDET 617 Query: 611 PDQAAAINAVIGDMTGGKPMDRLICGDVGFGKTEVALRAAFVAVMGGKQVAILAPTTLLA 670 PDQAAAI AVI DMT GKPMDRL+CGDVGFGKTEVALRAAFVAVMGGKQVA+LAPTTLLA Sbjct: 618 PDQAAAITAVIADMTSGKPMDRLVCGDVGFGKTEVALRAAFVAVMGGKQVAMLAPTTLLA 677 Query: 671 EQHAQTFADRFANWPVRIAELSRFRTGKEITQAIKGMADGTLDIIIGTHKLLSDDVKFSR 730 EQH QT ADRFA+WPVRIAE+SRF+ KEI AI+ + GT+DI+IGTHKLLS DVKF+R Sbjct: 678 EQHYQTLADRFADWPVRIAEISRFKNKKEIDAAIEAINAGTIDIVIGTHKLLSPDVKFNR 737 Query: 731 LGLVIIDEEHRFGVRQKEALKSLRAEVDVLTLTATPIPRTLGMALEGLRDFSIIATAPQK 790 LGLVIIDEEHRFGVRQKEALK+LRAEVDVLTLTATPIPRTLGMALEGLRDFS+IATAPQK Sbjct: 738 LGLVIIDEEHRFGVRQKEALKTLRAEVDVLTLTATPIPRTLGMALEGLRDFSVIATAPQK 797 Query: 791 RLAIKTFVRAEGESTIREACLRELKRGGQVYFLHNEVDTIENRKAMLEALLPEARVVIAH 850 RLAIKTFVR E + +REA LRELKRGGQVYFLHNEV+TIEN++A LE L+PEARV +AH Sbjct: 798 RLAIKTFVRREEDGVLREAILRELKRGGQVYFLHNEVETIENKRAKLEELVPEARVAVAH 857 Query: 851 GQMHERDLEKVMRDFVAQRSNILLCTTIIETGIDVPTANTIIMHRADKFGLAQLHQLRGR 910 GQMHER+LE+VMRDFVAQR+NILLCTTIIETGIDVPTANTI++HRADKFGLAQLHQLRGR Sbjct: 858 GQMHERELERVMRDFVAQRANILLCTTIIETGIDVPTANTILIHRADKFGLAQLHQLRGR 917 Query: 911 VGRSHHQAYAYLLVNDVKGLTKQAQRRLEAIQQMEELGSGFYLAMHDLEIRGAGEVLGDS 970 VGRSHHQAYAYLLV+D GLTKQ+QRRLEAIQQMEELGSGFYLAMHDLEIRGAGEVLGD Sbjct: 918 VGRSHHQAYAYLLVHDADGLTKQSQRRLEAIQQMEELGSGFYLAMHDLEIRGAGEVLGDK 977 Query: 971 QSGEMHEIGFQMYSDMLSEAVRALKDGREPDLAAPLASTTEINLHVPALLPNDYCGDVHE 1030 QSGE+ EIGFQ+Y+DML++AV++LK G+EPDL APLA+TTEINL PALLP+DYCGDV E Sbjct: 978 QSGEISEIGFQLYTDMLNQAVKSLKAGKEPDLMAPLAATTEINLGTPALLPSDYCGDVQE 1037 Query: 1031 RLSLYKRFANCTSQDTIDALQEELIDRFGKLPEVAKALVETHRLRIAAKPLGIIKIDAHA 1090 RLSLYKR ANC S +TID +QEELIDRFGKLP A++L+ETHRLRIAA PLGI KID A Sbjct: 1038 RLSLYKRLANCESGETIDNIQEELIDRFGKLPPQAQSLIETHRLRIAAVPLGIRKIDTGA 1097 Query: 1091 ESALLQFVPNPPVDAMRIIELIQKNRHIKLNGQDKLRITANMPDLNARVTQ-IKATMRSL 1149 ++ LQFVPNPPVDA++II L+QKNR IKL GQD+LRI N+P A + Q I+ TMR L Sbjct: 1098 DAVTLQFVPNPPVDAIKIINLVQKNRQIKLAGQDRLRIE-NIPAETAALAQAIRQTMRQL 1156 Query: 1150 V 1150 Sbjct: 1157 T 1157 >PA3002 [LK] COG1197 Transcription-repair coupling factor (superfamily II helicase) Pae Pseudomonas aeruginosa Length = 1148 Score = 1154 bits (2985), Expect = 0.0, Method: Compositional matrix adjust. Identities = 583/1137 (51%), Positives = 794/1137 (69%), Gaps = 26/1137 (2%) Query: 23 GSADAYLLAQAAIALKAEKRMLTVVVANATDAQRLLSEIPWFQRPVEGSDGGDKLRCHLL 82 G+A + +A+AA + KR ++ A++ +A+RL E+ +F L Sbjct: 23 GAALSLAVAEAA---SSAKRFTLLLTADSQNAERLEQELRFF---------APDLPVLHF 70 Query: 83 PDWETLPYDAFSPHQDLVSERLATLYEVQNGQCDVLIVPATTALLRMAPPGFLAAYTFFF 142 PDWETLPYD FSPHQD++S+R+A LY++ + VL+VP +TAL R+AP FL + Sbjct: 71 PDWETLPYDVFSPHQDIISQRIAALYQLPQLKHGVLVVPISTALHRLAPTRFLLGSSLVL 130 Query: 143 KQGEKLDEARLKSQLTLAGYTHVTQVMSPGEYSVRGGLIDIFPMGSALPYRLDLFGDIIE 202 G+KLD R++ +L AGY V V GE++VRG LID+FPMGS LP+R+DLF D IE Sbjct: 131 DVGQKLDVERMRLRLEGAGYRCVDTVYEHGEFAVRGALIDLFPMGSELPFRIDLFDDEIE 190 Query: 203 TIRTFDADTQRSLYPVREVRLLPGREFPMDEISRSAFRSRWREVFEGDPSRSAIYKDIGN 262 T+RTFD +TQRS+ V +RLLP REFP+++ + + FR R+RE F+ D R IY+D+ + Sbjct: 191 TLRTFDPETQRSIDKVESIRLLPAREFPLNKEAVTGFRGRFRERFDVDYRRCPIYQDLAS 250 Query: 263 GIASAGIEYYLPLFFEETATLFRYLPENSMFATVGDIDQAIKRFWSDTRSRHNFLKADRE 322 G+ +GIEYYLPLFFEETATLF YLP+++ ++ I+QA ++FW+D RSR+ + D E Sbjct: 251 GLTPSGIEYYLPLFFEETATLFDYLPQDTQVFSLPGIEQAAEQFWNDVRSRYEDRRVDPE 310 Query: 323 RPVLAPEQVFLTDEDFFTLVKPYGRWVLQTDDTPSAL------SAPIPNVAVNRRTDDPL 376 RP+L P +VFL ED F +K + R V +D + + P+PN+A+ + +PL Sbjct: 311 RPLLPPAEVFLPVEDCFARLKNWPRVVASQEDVEPGVGRERFPALPLPNLAIEAKAAEPL 370 Query: 377 TNLRAYLLKTGKRVMLCAESNGRRETLQQYFAEYDLHPALCDGYDSFIGNSEPLMLGVAP 436 LR ++ + RV+ CAES GRRE L + A L P DG+ +F+ + L + +AP Sbjct: 371 AALRRFIEEFPGRVLFCAESAGRREVLLELLARLKLRPEEVDGWPAFLASQARLAISIAP 430 Query: 437 LHAGFELEQEQVAFITETELYAGSGRRVGRKKQENVTQ--VEHMVRDLSELKIGDPVVHA 494 L G L+ +A + E+ L+ G+RV ++++ T+ + ++++L+EL+ G PVVH Sbjct: 431 LDEGLLLDHPALALVAESPLF---GQRVMQRRRREKTRDGGDAVIKNLTELREGAPVVHI 487 Query: 495 NHGIGRYMGLLSMDLGEGETEFLHLEYAKETKLYVPVSQLHVIARYSGASPEDAPLHSLG 554 +HG+GRY+GL+++++ + EFL L+YA++ KLYVPV+ LH+IARY+GA APLH LG Sbjct: 488 DHGVGRYLGLITLEVDNQQAEFLMLQYAEDAKLYVPVANLHLIARYTGADDALAPLHRLG 547 Query: 555 SGQWEKAKRKAAQQIRDTAAELLNLYARRALRQGHAFQYSARDYETFAESFGFEETPDQA 614 S W+KAKRKAA+Q+RD AAELL++YARRA R+G AF+ DY TF+ F FEETPDQ Sbjct: 548 SETWQKAKRKAAEQVRDVAAELLDIYARRAAREGFAFKDPQADYATFSAGFPFEETPDQQ 607 Query: 615 AAINAVIGDMTGGKPMDRLICGDVGFGKTEVALRAAFVAVMGGKQVAILAPTTLLAEQHA 674 +AI AV+ DM +PMDRL+CGDVGFGKTEVA+RAAFVAV GKQVA+L PTTLLA+QH Sbjct: 608 SAIEAVVADMLAPRPMDRLVCGDVGFGKTEVAMRAAFVAVHSGKQVAVLVPTTLLAQQHY 667 Query: 675 QTFADRFANWPVRIAELSRFRTGKEITQAIKGMADGTLDIIIGTHKLLSDDVKFSRLGLV 734 +F DRFA+WPV + +SRF++ KE+ A + +A+G +DI+IGTHKLL +DVKF+ LGLV Sbjct: 668 NSFRDRFADWPVSVEVMSRFKSAKEVENAARLLAEGKIDILIGTHKLLQEDVKFANLGLV 727 Query: 735 IIDEEHRFGVRQKEALKSLRAEVDVLTLTATPIPRTLGMALEGLRDFSIIATAPQKRLAI 794 +IDEEHRFGVRQKE LK+LR+EVD+LTLTATPIPRTL MA+ G+RD SIIAT P +RL++ Sbjct: 728 VIDEEHRFGVRQKEQLKALRSEVDILTLTATPIPRTLNMAVSGMRDLSIIATPPARRLSV 787 Query: 795 KTFVRAEGESTIREACLRELKRGGQVYFLHNEVDTIENRKAMLEALLPEARVVIAHGQMH 854 +TFV + + I+EA LREL RGGQVY+LHNEV TIE L L+PEAR+ I HGQMH Sbjct: 788 RTFVMEQQNAVIKEALLRELLRGGQVYYLHNEVKTIEKCARDLAELVPEARIGIGHGQMH 847 Query: 855 ERDLEKVMRDFVAQRSNILLCTTIIETGIDVPTANTIIMHRADKFGLAQLHQLRGRVGRS 914 ER+LE+VM DF +R N+L+ +TIIETGIDVP+ANTI++ RADKFGLAQLHQLRGRVGRS Sbjct: 848 ERELEQVMSDFYHKRFNVLVASTIIETGIDVPSANTILIERADKFGLAQLHQLRGRVGRS 907 Query: 915 HHQAYAYLLVNDVKGLTKQAQRRLEAIQQMEELGSGFYLAMHDLEIRGAGEVLGDSQSGE 974 HHQAYAYLL + +T A++RLEAI ++LG+GF LA HDLEIRGAGE+LGD QSG+ Sbjct: 908 HHQAYAYLLTPPRRQMTPDAEKRLEAIANAQDLGAGFVLATHDLEIRGAGELLGDGQSGQ 967 Query: 975 MHEIGFQMYSDMLSEAVRALKDGREPDLAAPLASTTEINLHVPALLPNDYCGDVHERLSL 1034 + +GF +Y +ML AV+A++ G +P+L PL E+NL VPAL+P DY DVH RL L Sbjct: 968 IQAVGFTLYMEMLERAVKAIRKGEQPNLEQPLGGGPEVNLRVPALIPEDYLPDVHARLIL 1027 Query: 1035 YKRFANCTSQDTIDALQEELIDRFGKLPEVAKALVETHRLRIAAKPLGIIKIDAHAESAL 1094 YKR AN ++ + LQ E+IDRFG LP+ AK L+ L++ A+ LGI+K+DA + Sbjct: 1028 YKRIANAPDEEGLRELQVEMIDRFGLLPDPAKNLMRLTLLKLQAEKLGILKVDAGPQGGR 1087 Query: 1095 LQFVPNPPVDAMRIIELI--QKNRHIKLNGQDKLRITANMPDLNARVTQIKATMRSL 1149 ++F + VD + +I+LI Q NR+ K G R M R ++A L Sbjct: 1088 IEFAADTQVDPLVLIKLIQGQPNRY-KFEGATLFRFQVPMERPEERFNTLEALFERL 1143 >PM1041 [LK] COG1197 Transcription-repair coupling factor (superfamily II helicase) Pmu Pasteurella multocida Length = 1145 Score = 1098 bits (2840), Expect = 0.0, Method: Compositional matrix adjust. Identities = 559/1117 (50%), Positives = 750/1117 (67%), Gaps = 26/1117 (2%) Query: 44 LTVVV-ANATDAQRLLSEIPWFQRPVEGSDGGDKLRCHLLPDWETLPYDAFSPHQDLVSE 102 LTVVV A+ A RL + F L PDWETLPYDAFSPHQD++S Sbjct: 42 LTVVVTADTRSAVRLEKVLAQF----------SSLPVTFFPDWETLPYDAFSPHQDIISS 91 Query: 103 RLATLYEVQNGQCDVLIVPATTALLRMAPPGFLAAYTFFFKQGEKLDEARLKSQLTLAGY 162 RL+ L ++Q+ Q ++I+P +T + R+ PP FL K+ ++L +L+ QL AGY Sbjct: 92 RLSALSQLQHCQKGIVILPISTLMQRLCPPTFLHHNLLLVKKSDRLQINKLRLQLESAGY 151 Query: 163 THVTQVMSPGEYSVRGGLIDIFPMGSALPYRLDLFGDIIETIRTFDADTQRSLYPVREVR 222 V QV+ GEY+VRG L+D+FPMGSA+P+RLD F D I++IRTFD DTQR+L ++ + Sbjct: 152 RAVEQVLEHGEYAVRGALLDLFPMGSAVPFRLDFFDDEIDSIRTFDVDTQRTLEEIQAIN 211 Query: 223 LLPGREFPMDEISRSAFRSRWREVFEGDPSRSA--IYKDIGNGIASAGIEYYLPLFFEET 280 LLP EFP DE S FR+++RE F G+ R IY+ + G +GIEY+ PLFFE+ Sbjct: 212 LLPAHEFPTDEKSIEFFRTQFRETF-GEIRRDPEHIYQQVSKGTLISGIEYWQPLFFEQM 270 Query: 281 ATLFRYLPENSMFATVGDIDQAIKRFWSDTRSRHNFLKADRERPVLAPEQVFLTDEDFFT 340 A+LF YLP+N+++ VGDI + RF+ D R+ K D RP+L P++++L E+ Sbjct: 271 ASLFDYLPKNTLWLDVGDIQEQGTRFYQDAEQRYESRKVDPMRPLLPPDRLWLRLEEINR 330 Query: 341 LVKPYGRWVLQTDDTPSALSA------PIPNVAVNRRTDDPLTNLRAYLLKTGKRVMLCA 394 ++K Y R + D S+ P+P +A+ + +PL LR + + +++ Sbjct: 331 ILKQYPRISFKLDKVRSSARQKNLAVQPLPTLAIQSQHKEPLQQLRQFSDQFKGKIVFSV 390 Query: 395 ESNGRRETLQQYFAEYDLHPALCDGYDSFIGNSEPLMLGVAPLHAGFELEQEQ-VAFITE 453 ES GRRETL + + P + SE + ++ L GF ++ +Q +A +TE Sbjct: 391 ESEGRRETLLDLLSPLKIKPQKLTALSNI---SEKCNVLISGLENGFIIDNDQPIAVMTE 447 Query: 454 TELYAGSGRRVGRKKQENVTQVEHMVRDLSELKIGDPVVHANHGIGRYMGLLSMDLGEGE 513 TEL ++ R K+++V + ++R+L+ELKIG PVVH +HG+GRY GL++++ G Sbjct: 448 TELLGERVQQRSRDKRKSVNP-DTLIRNLAELKIGQPVVHLDHGVGRYAGLVTLENGGIT 506 Query: 514 TEFLHLEYAKETKLYVPVSQLHVIARYSGASPEDAPLHSLGSGQWEKAKRKAAQQIRDTA 573 E+L L YA E+KLYVPVS LH+I+RY G + E APLH LGS W +A++KAA++IRD A Sbjct: 507 AEYLLLNYANESKLYVPVSSLHLISRYVGGADETAPLHKLGSDAWVRARQKAAEKIRDVA 566 Query: 574 AELLNLYARRALRQGHAFQYSARDYETFAESFGFEETPDQAAAINAVIGDMTGGKPMDRL 633 AELL++YA+R ++G AF Y ++ FA +F FEET DQ AINAVI DM K MDRL Sbjct: 567 AELLDVYAQREAQKGFAFHYDREAFQQFAATFPFEETVDQEMAINAVIADMCQAKAMDRL 626 Query: 634 ICGDVGFGKTEVALRAAFVAVMGGKQVAILAPTTLLAEQHAQTFADRFANWPVRIAELSR 693 +CGDVGFGKTEVA+RAAF+AVM KQVA+L PTTLLA+QH + F DRFAN P+ + LSR Sbjct: 627 VCGDVGFGKTEVAMRAAFLAVMNHKQVAVLVPTTLLAQQHFENFKDRFANLPINVEVLSR 686 Query: 694 FRTGKEITQAIKGMADGTLDIIIGTHKLLSDDVKFSRLGLVIIDEEHRFGVRQKEALKSL 753 F+T KE ++ +A+G +DI+IGTHKL+ DV+F LGL++IDEEHRFGVRQKE +K L Sbjct: 687 FKTAKEQKVVLQNLAEGKVDILIGTHKLIQSDVQFKDLGLLVIDEEHRFGVRQKERIKQL 746 Query: 754 RAEVDVLTLTATPIPRTLGMALEGLRDFSIIATAPQKRLAIKTFVRAEGESTIREACLRE 813 RA +D+LTLTATPIPRTL MA+ G+RD SII+T P +RL IKTFV+ ES IREA LRE Sbjct: 747 RANIDILTLTATPIPRTLNMAMHGIRDLSIISTPPARRLTIKTFVKQSDESVIREAILRE 806 Query: 814 LKRGGQVYFLHNEVDTIENRKAMLEALLPEARVVIAHGQMHERDLEKVMRDFVAQRSNIL 873 + RGGQVY+LHN+V +IEN L L+PEARV I HGQM ER+LE+VM DF QR N+L Sbjct: 807 ILRGGQVYYLHNDVASIENCAEKLRTLVPEARVTIGHGQMRERELERVMSDFYHQRFNVL 866 Query: 874 LCTTIIETGIDVPTANTIIMHRADKFGLAQLHQLRGRVGRSHHQAYAYLLVNDVKGLTKQ 933 +C+TIIETGIDVPTANTII+ RAD FGLAQLHQLRGRVGRSHHQAYAYLL +K +TK Sbjct: 867 VCSTIIETGIDVPTANTIIIERADNFGLAQLHQLRGRVGRSHHQAYAYLLTPPIKAMTKD 926 Query: 934 AQRRLEAIQQMEELGSGFYLAMHDLEIRGAGEVLGDSQSGEMHEIGFQMYSDMLSEAVRA 993 AQ+RLEA++ ++ LG+GF LA HDLEIRGAGE+LG QSG++ IGF +Y D+L AV A Sbjct: 927 AQKRLEALESLDNLGAGFILATHDLEIRGAGELLGSEQSGQIESIGFSLYMDLLESAVNA 986 Query: 994 LKDGREPDLAAPLASTTEINLHVPALLPNDYCGDVHERLSLYKRFANCTSQDTIDALQEE 1053 LK GREP L EI+L +PALLP DY GDV+ RLS YKR A ++ +D L+ E Sbjct: 987 LKAGREPSLEELTQQQVEIDLRLPALLPEDYLGDVNIRLSFYKRIAGAENKPELDELKVE 1046 Query: 1054 LIDRFGKLPEVAKALVETHRLRIAAKPLGIIKIDAHAESALLQFVPNPPVDAMRIIELIQ 1113 LIDRFG+LPE +L LR AK + I KIDA+A+ ++F N +D M+ ++LIQ Sbjct: 1047 LIDRFGRLPEATTSLFRIAELRQLAKKIQIQKIDANAQGGFIEFASNADLDPMKFLQLIQ 1106 Query: 1114 KNRHI-KLNGQDKLRITANMPDLNARVTQIKATMRSL 1149 + + +G K R + R+ ++ ++ L Sbjct: 1107 TEPSVYRFDGPTKFRFSKTFEGHKVRLDFVENLVKGL 1143 >VC1886 [LK] COG1197 Transcription-repair coupling factor (superfamily II helicase) Vch Vibrio cholerae Length = 1155 Score = 1086 bits (2809), Expect = 0.0, Method: Compositional matrix adjust. Identities = 552/1138 (48%), Positives = 754/1138 (66%), Gaps = 25/1138 (2%) Query: 22 HGSADAYLLAQAAIALKAEKRMLTVVVANATDAQRLLSEIPWFQRPVEGSDGGDKLRCHL 81 HG++ A +A+ A A + V + A +LL E+ F L Sbjct: 25 HGASLALAIAELA---NAHTSHTLLAVPDPQTALKLLHEVEQFSHS----------EVAL 71 Query: 82 LPDWETLPYDAFSPHQDLVSERLATLYEVQNGQCDVLIVPATTALLRMAPPGFLAAYTFF 141 PDWETLPYD FSPHQD++S+R++ LY++ + + IVP +T L R +P FL +T Sbjct: 72 FPDWETLPYDNFSPHQDIISDRISRLYQLPSLTRGITIVPVSTLLQRQSPRDFLLQHTLI 131 Query: 142 FKQGEKLDEARLKSQLTLAGYTHVTQVMSPGEYSVRGGLIDIFPMGSALPYRLDLFGDII 201 K+G+ +L+ QL + Y HV QV PGEY+ RG ++D+FPMGS+ P+R+D F D I Sbjct: 132 VKRGDHFSLDKLRLQLENSSYRHVDQVFGPGEYASRGSILDLFPMGSSDPFRIDFFDDEI 191 Query: 202 ETIRTFDADTQRSLYPVREVRLLPGREFPMDEISRSAFRSRWREVFEGDPSRSAIYKDIG 261 +TIRTFD D QRS+ + E+RLLP EFP + FR+RWR+ FE ++Y + Sbjct: 192 DTIRTFDPDNQRSIAEMDEIRLLPAHEFPTTAAAIEEFRNRWRQRFEARREPESVYSQVS 251 Query: 262 NGIASAGIEYYLPLFFEETATLFRYLPENSMFATVGDIDQAIKRFWSDTRSRHNFLKADR 321 G AGIEY+ PLFFE + TLF YLP NS VG++++AI +F +D R++ D Sbjct: 252 KGTWPAGIEYWQPLFFEHSETLFDYLPANSQLLVVGELEKAIDQFLTDVDYRYDQRNIDP 311 Query: 322 ERPVLAPEQVFLTDEDFFTLVKPYGRWVLQTDDTPSALSA--------PIPNVAVNRRTD 373 RP+L P +++L ++ F K + +Q +P L A P+P +AV + Sbjct: 312 LRPLLPPNELWLRKDELFAHFKTLPQ--VQLTSSPIELRAGRMNAQVQPLPVLAVEHQNK 369 Query: 374 DPLTNLRAYLLKTGKRVMLCAESNGRRETLQQYFAEYDLHPALCDGYDSFIGNSEPLMLG 433 +PL LR + + +++ ES GRRE L + L P + + +E L Sbjct: 370 EPLAALRQFSEQFTGKIIFSVESEGRREALLELLQRIKLRPQSQNDFSLACQQTEKYSLV 429 Query: 434 VAPLHAGFELEQEQVAFITETELYAGSGRRVGRKK-QENVTQVEHMVRDLSELKIGDPVV 492 + GF QVA I E++L + RKK ++NVT + ++R+L+ELK G PVV Sbjct: 430 LGSAERGFIYGDNQVALICESDLLGDRVIQRRRKKDRKNVTNSDAVIRNLAELKPGQPVV 489 Query: 493 HANHGIGRYMGLLSMDLGEGETEFLHLEYAKETKLYVPVSQLHVIARYSGASPEDAPLHS 552 H +HGIGRY+GL +++ G +E++ LEY E KLYVPVS L++I+RYSG + E A LH Sbjct: 490 HIDHGIGRYLGLQTLEAGGMVSEYVMLEYQNEAKLYVPVSSLNLISRYSGGAEEAAQLHK 549 Query: 553 LGSGQWEKAKRKAAQQIRDTAAELLNLYARRALRQGHAFQYSARDYETFAESFGFEETPD 612 LG W KA+RKAA+++RD AAELL++YA+R ++ G F Y TF +F FEET D Sbjct: 550 LGGEAWVKARRKAAEKVRDVAAELLDVYAKREIKPGFKFHLDREQYATFKATFPFEETDD 609 Query: 613 QAAAINAVIGDMTGGKPMDRLICGDVGFGKTEVALRAAFVAVMGGKQVAILAPTTLLAEQ 672 QA AINAV+ DM K MDRL+CGDVGFGKTEVA+RAAFVA GKQVA+L PTTLLA+Q Sbjct: 610 QAMAINAVLSDMCQAKAMDRLVCGDVGFGKTEVAMRAAFVATDNGKQVAVLVPTTLLAQQ 669 Query: 673 HAQTFADRFANWPVRIAELSRFRTGKEITQAIKGMADGTLDIIIGTHKLLSDDVKFSRLG 732 H + F DRFAN P+R+ LSRF++ KE Q ++ +ADG +DI++GTHKLLS +++F+ LG Sbjct: 670 HFENFRDRFANLPIRVEVLSRFKSAKEQKQILQDVADGKVDILVGTHKLLSSEIRFADLG 729 Query: 733 LVIIDEEHRFGVRQKEALKSLRAEVDVLTLTATPIPRTLGMALEGLRDFSIIATAPQKRL 792 L+I+DEEHRFGVRQKE +K++RA+VD+LTLTATPIPRTL MA+ G+RD SIIAT P +RL Sbjct: 730 LLIVDEEHRFGVRQKEKVKAMRADVDILTLTATPIPRTLNMAMSGMRDLSIIATPPARRL 789 Query: 793 AIKTFVRAEGESTIREACLRELKRGGQVYFLHNEVDTIENRKAMLEALLPEARVVIAHGQ 852 AIKTFVR +S IREA LRE+ RGGQVYFLHN+V+TI+ A LE L+PEAR+ +AHGQ Sbjct: 790 AIKTFVRQSEDSVIREAVLREIMRGGQVYFLHNQVETIDKVAADLEKLVPEARITVAHGQ 849 Query: 853 MHERDLEKVMRDFVAQRSNILLCTTIIETGIDVPTANTIIMHRADKFGLAQLHQLRGRVG 912 M ER+LEKVM DF QR N+L+CTTIIETGIDVPTANTIIM RAD GLAQLHQLRGRVG Sbjct: 850 MRERELEKVMNDFYHQRFNLLVCTTIIETGIDVPTANTIIMDRADSLGLAQLHQLRGRVG 909 Query: 913 RSHHQAYAYLLVNDVKGLTKQAQRRLEAIQQMEELGSGFYLAMHDLEIRGAGEVLGDSQS 972 RSHHQAYAYLL K +TK A +RLEAI +E+LG+GF LA HDLEIRGAGE+LG+ QS Sbjct: 910 RSHHQAYAYLLTPPPKAITKDAVKRLEAIASLEDLGAGFTLATHDLEIRGAGELLGEEQS 969 Query: 973 GEMHEIGFQMYSDMLSEAVRALKDGREPDLAAPLASTTEINLHVPALLPNDYCGDVHERL 1032 G++ +GF +Y +ML +AV ALK G+EP L L TE+ + +PALLP +Y D++ RL Sbjct: 970 GQIQSVGFTLYMEMLEQAVEALKSGKEPALDDLLREQTEVEMRLPALLPEEYIPDINTRL 1029 Query: 1033 SLYKRFANCTSQDTIDALQEELIDRFGKLPEVAKALVETHRLRIAAKPLGIIKIDAHAES 1092 S+YK+ A+ S+D + L+ ELIDRFGKLP+ A L+ L++ A L + KI+AH Sbjct: 1030 SMYKQIASVASKDELAELKVELIDRFGKLPDAALNLLAIAELKLNAMRLKVRKIEAHERG 1089 Query: 1093 ALLQFVPNPPVDAMRIIELIQKN-RHIKLNGQDKLRITANMPDLNARVTQIKATMRSL 1149 ++F PN ++ + +++L+Q + + ++G KL+ T + + +AR+ + +++ Sbjct: 1090 GYVEFYPNADINPVFLVKLLQSQPKLLAMDGPTKLKFTLPLVERSARIQFVADMLKNF 1147 >HI1258 [LK] COG1197 Transcription-repair coupling factor (superfamily II helicase) Hin Haemophilus influenzae Length = 1146 Score = 1080 bits (2793), Expect = 0.0, Method: Compositional matrix adjust. Identities = 558/1158 (48%), Positives = 763/1158 (65%), Gaps = 39/1158 (3%) Query: 14 ARFVPPAPHGSADAYLL--------AQAAIALKAEKRMLTVVVA----NATDAQRLLSEI 61 A F P P D +L A A + + + LTVVV +A R+LSE+ Sbjct: 4 AFFQPDIPTQPNDHKILGNVLPGADALAISEISEQNQNLTVVVTPDTRSAVRLSRVLSEL 63 Query: 62 PWFQRPVEGSDGGDKLRCHLLPDWETLPYDAFSPHQDLVSERLATLYEVQNGQCDVLIVP 121 + C L PDWETLPYD FSPHQ+++S RL+ L+ +QN + + ++P Sbjct: 64 ------------SSQDVC-LFPDWETLPYDTFSPHQEIISSRLSALFHLQNAKKGIFLLP 110 Query: 122 ATTALLRMAPPGFLAAYTFFFKQGEKLDEARLKSQLTLAGYTHVTQVMSPGEYSVRGGLI 181 +T + R+ PP +L K+G++L +++ QL AGY V QV+ GEY+VRG L+ Sbjct: 111 ISTLMQRLCPPQYLQHNVLLIKKGDRLVIDKMRLQLEAAGYRAVEQVLEHGEYAVRGALL 170 Query: 182 DIFPMGSALPYRLDLFGDIIETIRTFDADTQRSLYPVREVRLLPGREFPMDEISRSAFRS 241 D+FPMGSA+P+RLD F D I++IRTFD DTQR+L + + LLP EFP D+ FR+ Sbjct: 171 DLFPMGSAVPFRLDFFDDEIDSIRTFDVDTQRTLDEISSINLLPAHEFPTDDKGIEFFRA 230 Query: 242 RWREVFEGDPSRSA--IYKDIGNGIASAGIEYYLPLFFEETATLFRYLPENSMFATVGDI 299 ++RE F G+ R IY+ I G +GIEY+ PLFF E ATLF YLPE ++F + + Sbjct: 231 QFRETF-GEIRRDPEHIYQQISKGTLISGIEYWQPLFFAEMATLFDYLPEQTLFVDMENN 289 Query: 300 DQAIKRFWSDTRSRHNFLKADRERPVLAPEQVFLTDEDFFTLVKPYGRWVLQTDDTPSAL 359 +RF+ D + R+ K D RP+L+PE+++L ++ +K Y R + + S++ Sbjct: 290 QTQGERFYQDAKQRYEQRKVDPMRPLLSPEKLWLNVDEVNRRLKSYPRITFKAEKVRSSV 349 Query: 360 S------APIPNVAVNRRTDDPLTNLRAYLLKTGKRVMLCAESNGRRETLQQYFAEYDLH 413 A +P V + + +PL LR ++ V+ E+ GRRETL + L Sbjct: 350 RQKNLPVAALPEVTIQSQQKEPLGQLRQFIEHFKGNVLFSVETEGRRETLLDLLSPLKLK 409 Query: 414 PALCDGYDSFIGNSEPLMLGVAPLHAGFELEQE-QVAFITETELYAGSGRRVGRKKQENV 472 P + +E L V+ L GF +EQ VA I E L ++ R K++ + Sbjct: 410 PKQIQSLEQI--ENEKFSLLVSSLEQGFIIEQSLPVAIIGEANLLGKRIQQRSRDKRKTI 467 Query: 473 TQVEHMVRDLSELKIGDPVVHANHGIGRYMGLLSMDLGEGETEFLHLEYAKETKLYVPVS 532 + +VR+L+ELKIG PVVH +HG+GRY GL+++D G + E+L L YA E+KLYVPV+ Sbjct: 468 NP-DTLVRNLAELKIGQPVVHLDHGVGRYGGLVTLDTGGIKAEYLLLNYANESKLYVPVT 526 Query: 533 QLHVIARYSGASPEDAPLHSLGSGQWEKAKRKAAQQIRDTAAELLNLYARRALRQGHAFQ 592 LH+I+RY G S E APLH LG+ W K+++KAA++IRD AAELL++YA+R ++G AF+ Sbjct: 527 SLHLISRYVGGSDESAPLHKLGNEAWAKSRQKAAEKIRDVAAELLDVYAQREAKKGFAFK 586 Query: 593 YSARDYETFAESFGFEETPDQAAAINAVIGDMTGGKPMDRLICGDVGFGKTEVALRAAFV 652 Y +++ F+ +F FEET DQ AINAVI DM K MDRL+CGDVGFGKTEVA+RAAF+ Sbjct: 587 YDREEFQQFSATFPFEETYDQEMAINAVISDMCQPKAMDRLVCGDVGFGKTEVAMRAAFL 646 Query: 653 AVMGGKQVAILAPTTLLAEQHAQTFADRFANWPVRIAELSRFRTGKEITQAIKGMADGTL 712 AVM KQVA+L PTTLLA+QH + F DRFAN PV + LSRF+T KE Q ++ +A+G + Sbjct: 647 AVMNHKQVAVLVPTTLLAQQHYENFKDRFANLPVNVEVLSRFKTAKEQKQILENLAEGKV 706 Query: 713 DIIIGTHKLLSDDVKFSRLGLVIIDEEHRFGVRQKEALKSLRAEVDVLTLTATPIPRTLG 772 DI+IGTHKL+ DVKF+ LGL+IIDEEHRFGV QKE +K LRA +D+LTLTATPIPRTL Sbjct: 707 DILIGTHKLIQSDVKFNDLGLLIIDEEHRFGVGQKEKIKQLRANIDILTLTATPIPRTLN 766 Query: 773 MALEGLRDFSIIATAPQKRLAIKTFVRAEGESTIREACLRELKRGGQVYFLHNEVDTIEN 832 MA+ G+RD SII+T P +RL+IKTFVR + +REA LRE+ RGGQVY+LHN+V +IEN Sbjct: 767 MAMNGIRDLSIISTPPARRLSIKTFVRQNDDLVVREAILREILRGGQVYYLHNDVASIEN 826 Query: 833 RKAMLEALLPEARVVIAHGQMHERDLEKVMRDFVAQRSNILLCTTIIETGIDVPTANTII 892 L AL+PEARV++ HGQM ER+LE+VM DF QR N+L+C+TIIETGIDVPTANTII Sbjct: 827 TAEKLTALVPEARVIVGHGQMRERELERVMSDFYHQRYNVLVCSTIIETGIDVPTANTII 886 Query: 893 MHRADKFGLAQLHQLRGRVGRSHHQAYAYLLVNDVKGLTKQAQRRLEAIQQMEELGSGFY 952 + RAD FGLAQLHQLRGRVGRSHHQAYAYLL K +TK A+RRL+A++ ++ LG+GF Sbjct: 887 IERADHFGLAQLHQLRGRVGRSHHQAYAYLLTPPPKMMTKDAERRLDALENLDNLGAGFI 946 Query: 953 LAMHDLEIRGAGEVLGDSQSGEMHEIGFQMYSDMLSEAVRALKDGREPDLAAPLASTTEI 1012 LA HDLEIRGAGE+LG+ QSG++ IGF +Y ++L AV+ALK+GREP L +I Sbjct: 947 LATHDLEIRGAGELLGNEQSGQIESIGFSLYMELLDAAVKALKEGREPSLEELTQQQADI 1006 Query: 1013 NLHVPALLPNDYCGDVHERLSLYKRFANCTSQDTIDALQEELIDRFGKLPEVAKALVETH 1072 L VPALLP+DY GDV+ RLS YKR A S+ +D L+ ELIDRFG LP+ K L++ Sbjct: 1007 ELRVPALLPDDYLGDVNMRLSFYKRIAAAESKAELDELKVELIDRFGLLPDATKNLLQIT 1066 Query: 1073 RLRIAAKPLGIIKIDAHAESALLQFVPNPPVDAMRIIELIQKNRHI-KLNGQDKLRITAN 1131 LR+ +PL +++IDA + ++F V+ + I+LIQK + + +G K + + Sbjct: 1067 ELRLLVEPLNVVRIDAGTQGGFIEFSAKAQVNPDKFIQLIQKEPIVYRFDGPFKFKFMKD 1126 Query: 1132 MPDLNARVTQIKATMRSL 1149 + D R+ + +R++ Sbjct: 1127 LSDNKVRLEFVVDLLRTI 1144