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= 0001.2993.p (1145 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... 1703 0.0 PA3002 [LK] COG1197 Transcription-repair coupling factor (superf... 1147 0.0 PM1041 [LK] COG1197 Transcription-repair coupling factor (superf... 1093 0.0 VC1886 [LK] COG1197 Transcription-repair coupling factor (superf... 1093 0.0 mfd [LK] COG1197 Transcription-repair coupling factor (superfami... 1086 0.0 >RSc1642 [LK] COG1197 Transcription-repair coupling factor (superfamily II helicase) Rso Ralstonia solanacearum Length = 1157 Score = 1703 bits (4411), Expect = 0.0, Method: Compositional matrix adjust. Identities = 834/1136 (73%), Positives = 948/1136 (83%), Gaps = 7/1136 (0%) Query: 11 KAGVRFQPPAVHGSADAFLLAQAALALKAEGRMLAVVVAGATDAQRLLSEIPWFQPKQGE 70 K G RF + GSADA LLA+ + MLAVV A A DAQRL E+ WF P+ Sbjct: 27 KPGQRFVFSGLQGSADALLLARYLAQHRDAVPMLAVVCANAVDAQRLADELRWFAPQA-- 84 Query: 71 RLRCHLLPDWETLPYDAFSPHQDLVSERLATLYEVQSGQCDLLIVPATTALLRMAPPQFL 130 R LLPDWETLPYD FSPHQDL+SERLATL+++Q G CDLL+VPA+TAL R+APP FL Sbjct: 85 --RVKLLPDWETLPYDNFSPHQDLISERLATLHDLQGGACDLLLVPASTALQRIAPPSFL 142 Query: 131 AAYTFFFKQGEKLDEGKLKSQLTLAGYTHVGQVMSPGEYSVRGGLIDIFPMGSVLPYRLD 190 AAYTFFFK+GE+LDE LK+Q TLAGY HV VM PGEYSVRGGLID+FPMGS +PYRLD Sbjct: 143 AAYTFFFKKGERLDEAALKAQFTLAGYEHVSAVMRPGEYSVRGGLIDLFPMGSPMPYRLD 202 Query: 191 LFGDTIETIRTFDADTQRSLYPVPEVRLLPGREFPMDEASRLAFRNRWREVFEGDPSRSA 250 LFGD I+TIR FD DTQRSLYPV EVRLLPGREFPMDEA+R AFR RWREVFEGDP+R+ Sbjct: 203 LFGDEIDTIRAFDPDTQRSLYPVNEVRLLPGREFPMDEAARTAFRGRWREVFEGDPTRAP 262 Query: 251 IYKDIGNGIASAGIEYYLPLFFEETATLFQYLPANAMFATVGDIEQAIKRFWSDTRSRWT 310 IYKDIGNG+ SAGIEYYLPLFFE TATLF YLPA+A A VGDIE A++RFW+DT R+ Sbjct: 263 IYKDIGNGVPSAGIEYYLPLFFETTATLFDYLPASAHLALVGDIESAVRRFWADTTQRYG 322 Query: 311 FLHADRERPVLEPRSIYLDDEDFFTLLKPHARWVLKTDDAPSAISAPLPNIAVNRRAEDP 370 F+ DR+RP+L P ++YLD+E FF KPHAR VL+ + + +S PLP++AVNRRAEDP Sbjct: 323 FMRHDRDRPLLAPSALYLDEEAFFIAAKPHARLVLRAEPGEAPLSLPLPSVAVNRRAEDP 382 Query: 371 LVNLRGFLLKGAERVLICAESNGRRETLQQYFAEYDLHPVLCEDWNDFLASDEPLMLGVA 430 LVNL FL +G RV+ICAES GRRETL Q A LHP D D + D +LGVA Sbjct: 383 LVNLESFLTRGNCRVMICAESAGRRETLAQMLAASGLHPEGVADCADLMGGDARFVLGVA 442 Query: 431 PLHAGFVSAGG-LALVTETELYAGSGRRVGSRKQQAATDVEYMVRDLSELKIGDPVVHSS 489 PL+ GF+ +A +TETELYA + RR G RKQ+ AT V+ MVRDL+ELKIGDPVVHS Sbjct: 443 PLYQGFILGDERIAFITETELYAQALRRGGRRKQEQATAVDAMVRDLAELKIGDPVVHSE 502 Query: 490 HGIGRYMGLVSMDLGEGETEFLHLEYAKETKLYVPVSQLHVISRYSGASPEDAPLHALGS 549 HGIGRY GLVS+D+G GE EFLHL+Y K +KLYVPV QLHVISRYSGA P+ APLH LGS Sbjct: 503 HGIGRYQGLVSIDMGNGEEEFLHLDYDKGSKLYVPVHQLHVISRYSGADPDTAPLHQLGS 562 Query: 550 GQWEKAKRKAAQQVRDTAAELLNLYARRALRQGHAFQYSAHDYEAFADSFGFEETADQAA 609 GQW+KAKRKAAQQ+RDTAAELLNLYARRALRQG AF + +DYEAFA+SFGF+ET DQAA Sbjct: 563 GQWDKAKRKAAQQIRDTAAELLNLYARRALRQGFAFPLAPNDYEAFAESFGFDETPDQAA 622 Query: 610 AINAVIKDMTGGKPMDRLICGDVGFGKTEVALRAAFVAVMGGKQVAILAPTTLLAEQHAT 669 AI AVI DMT GKPMDRL+CGDVGFGKTEVALRAAFVAVMGGKQVA+LAPTTLLAEQH Sbjct: 623 AITAVIADMTSGKPMDRLVCGDVGFGKTEVALRAAFVAVMGGKQVAMLAPTTLLAEQHYQ 682 Query: 670 TFADRFANWPVKIAELSRFRTGKEVTQAIKGLGDGTIDIVIGTHKLLSDEVKFSRLGLVI 729 T ADRFA+WPV+IAE+SRF+ KE+ AI+ + GTIDIVIGTHKLLS +VKF+RLGLVI Sbjct: 683 TLADRFADWPVRIAEISRFKNKKEIDAAIEAINAGTIDIVIGTHKLLSPDVKFNRLGLVI 742 Query: 730 IDEEHRFGVRQKEALKSLRAEVDVLTLTATPIPRTLGMALEGLRDFSVIATAPQKRLAIK 789 IDEEHRFGVRQKEALK+LRAEVDVLTLTATPIPRTLGMALEGLRDFSVIATAPQKRLAIK Sbjct: 743 IDEEHRFGVRQKEALKTLRAEVDVLTLTATPIPRTLGMALEGLRDFSVIATAPQKRLAIK 802 Query: 790 TFVRAENESTIREACLRELKRGGQVYFLHNEVETIANRKAALEQLLPEARIAVAHGQMHE 849 TFVR E + +REA LRELKRGGQVYFLHNEVETI N++A LE+L+PEAR+AVAHGQMHE Sbjct: 803 TFVRREEDGVLREAILRELKRGGQVYFLHNEVETIENKRAKLEELVPEARVAVAHGQMHE 862 Query: 850 RDLEKVMRDFVAQRFNILLCTTIIETGIDVPTANTIIMHRADKFGLAQLHQLRGRVGRSH 909 R+LE+VMRDFVAQR NILLCTTIIETGIDVPTANTI++HRADKFGLAQLHQLRGRVGRSH Sbjct: 863 RELERVMRDFVAQRANILLCTTIIETGIDVPTANTILIHRADKFGLAQLHQLRGRVGRSH 922 Query: 910 HQAYAYLLVQDVQGLSKQAQRRLEAIQQMEELGSGFYLAMHDLEIRGAGEVLGDHQSGEI 969 HQAYAYLLV D GL+KQ+QRRLEAIQQMEELGSGFYLAMHDLEIRGAGEVLGD QSGEI Sbjct: 923 HQAYAYLLVHDADGLTKQSQRRLEAIQQMEELGSGFYLAMHDLEIRGAGEVLGDKQSGEI 982 Query: 970 HEIGFQMYSDMLNEAVRALKDGREPDLAAPLSTTTEINLHAPALLPNDFCGDVHERLSLY 1029 EIGFQ+Y+DMLN+AV++LK G+EPDL APL+ TTEINL PALLP+D+CGDV ERLSLY Sbjct: 983 SEIGFQLYTDMLNQAVKSLKAGKEPDLMAPLAATTEINLGTPALLPSDYCGDVQERLSLY 1042 Query: 1030 KRFANCEKSDAIDALQEELIDRFGKLPDAAKALIETHRLRIAAKPLGIIKIDAHSEAALL 1089 KR ANCE + ID +QEELIDRFGKLP A++LIETHRLRIAA PLGI KID ++A L Sbjct: 1043 KRLANCESGETIDNIQEELIDRFGKLPPQAQSLIETHRLRIAAVPLGIRKIDTGADAVTL 1102 Query: 1090 QFVPHPPIDAMRIIELVQKNRQVKLNGPDKLRITANMP-DLSTRVQQVKATMKALT 1144 QFVP+PP+DA++II LVQKNRQ+KL G D+LRI N+P + + Q ++ TM+ LT Sbjct: 1103 QFVPNPPVDAIKIINLVQKNRQIKLAGQDRLRIE-NIPAETAALAQAIRQTMRQLT 1157 >PA3002 [LK] COG1197 Transcription-repair coupling factor (superfamily II helicase) Pae Pseudomonas aeruginosa Length = 1148 Score = 1147 bits (2967), Expect = 0.0, Method: Compositional matrix adjust. Identities = 588/1147 (51%), Positives = 790/1147 (68%), Gaps = 20/1147 (1%) Query: 8 SLPKAGVRFQPPAVHGSADAFLLAQAALALKAEGRMLAVVVAGATDAQRLLSEIPWFQPK 67 SLP + + + G+A + +A+AA + K R ++ A + +A+RL E+ +F P Sbjct: 8 SLPASAGKQHWGNLPGAALSLAVAEAASSAK---RFTLLLTADSQNAERLEQELRFFAPD 64 Query: 68 QGERLRCHLLPDWETLPYDAFSPHQDLVSERLATLYEVQSGQCDLLIVPATTALLRMAPP 127 L PDWETLPYD FSPHQD++S+R+A LY++ + +L+VP +TAL R+AP Sbjct: 65 ----LPVLHFPDWETLPYDVFSPHQDIISQRIAALYQLPQLKHGVLVVPISTALHRLAPT 120 Query: 128 QFLAAYTFFFKQGEKLDEGKLKSQLTLAGYTHVGQVMSPGEYSVRGGLIDIFPMGSVLPY 187 +FL + G+KLD +++ +L AGY V V GE++VRG LID+FPMGS LP+ Sbjct: 121 RFLLGSSLVLDVGQKLDVERMRLRLEGAGYRCVDTVYEHGEFAVRGALIDLFPMGSELPF 180 Query: 188 RLDLFGDTIETIRTFDADTQRSLYPVPEVRLLPGREFPMDEASRLAFRNRWREVFEGDPS 247 R+DLF D IET+RTFD +TQRS+ V +RLLP REFP+++ + FR R+RE F+ D Sbjct: 181 RIDLFDDEIETLRTFDPETQRSIDKVESIRLLPAREFPLNKEAVTGFRGRFRERFDVDYR 240 Query: 248 RSAIYKDIGNGIASAGIEYYLPLFFEETATLFQYLPANAMFATVGDIEQAIKRFWSDTRS 307 R IY+D+ +G+ +GIEYYLPLFFEETATLF YLP + ++ IEQA ++FW+D RS Sbjct: 241 RCPIYQDLASGLTPSGIEYYLPLFFEETATLFDYLPQDTQVFSLPGIEQAAEQFWNDVRS 300 Query: 308 RWTFLHADRERPVLEPRSIYLDDEDFFTLLKPHARWVLKTDDAPSAI------SAPLPNI 361 R+ D ERP+L P ++L ED F LK R V +D + + PLPN+ Sbjct: 301 RYEDRRVDPERPLLPPAEVFLPVEDCFARLKNWPRVVASQEDVEPGVGRERFPALPLPNL 360 Query: 362 AVNRRAEDPLVNLRGFLLKGAERVLICAESNGRRETLQQYFAEYDLHPVLCEDWNDFLAS 421 A+ +A +PL LR F+ + RVL CAES GRRE L + A L P + W FLAS Sbjct: 361 AIEAKAAEPLAALRRFIEEFPGRVLFCAESAGRREVLLELLARLKLRPEEVDGWPAFLAS 420 Query: 422 DEPLMLGVAPLHAGFV-SAGGLALVTETELYAGSGRRVGSRKQQAAT--DVEYMVRDLSE 478 L + +APL G + LALV E+ L+ G+RV R+++ T + ++++L+E Sbjct: 421 QARLAISIAPLDEGLLLDHPALALVAESPLF---GQRVMQRRRREKTRDGGDAVIKNLTE 477 Query: 479 LKIGDPVVHSSHGIGRYMGLVSMDLGEGETEFLHLEYAKETKLYVPVSQLHVISRYSGAS 538 L+ G PVVH HG+GRY+GL+++++ + EFL L+YA++ KLYVPV+ LH+I+RY+GA Sbjct: 478 LREGAPVVHIDHGVGRYLGLITLEVDNQQAEFLMLQYAEDAKLYVPVANLHLIARYTGAD 537 Query: 539 PEDAPLHALGSGQWEKAKRKAAQQVRDTAAELLNLYARRALRQGHAFQYSAHDYEAFADS 598 APLH LGS W+KAKRKAA+QVRD AAELL++YARRA R+G AF+ DY F+ Sbjct: 538 DALAPLHRLGSETWQKAKRKAAEQVRDVAAELLDIYARRAAREGFAFKDPQADYATFSAG 597 Query: 599 FGFEETADQAAAINAVIKDMTGGKPMDRLICGDVGFGKTEVALRAAFVAVMGGKQVAILA 658 F FEET DQ +AI AV+ DM +PMDRL+CGDVGFGKTEVA+RAAFVAV GKQVA+L Sbjct: 598 FPFEETPDQQSAIEAVVADMLAPRPMDRLVCGDVGFGKTEVAMRAAFVAVHSGKQVAVLV 657 Query: 659 PTTLLAEQHATTFADRFANWPVKIAELSRFRTGKEVTQAIKGLGDGTIDIVIGTHKLLSD 718 PTTLLA+QH +F DRFA+WPV + +SRF++ KEV A + L +G IDI+IGTHKLL + Sbjct: 658 PTTLLAQQHYNSFRDRFADWPVSVEVMSRFKSAKEVENAARLLAEGKIDILIGTHKLLQE 717 Query: 719 EVKFSRLGLVIIDEEHRFGVRQKEALKSLRAEVDVLTLTATPIPRTLGMALEGLRDFSVI 778 +VKF+ LGLV+IDEEHRFGVRQKE LK+LR+EVD+LTLTATPIPRTL MA+ G+RD S+I Sbjct: 718 DVKFANLGLVVIDEEHRFGVRQKEQLKALRSEVDILTLTATPIPRTLNMAVSGMRDLSII 777 Query: 779 ATAPQKRLAIKTFVRAENESTIREACLRELKRGGQVYFLHNEVETIANRKAALEQLLPEA 838 AT P +RL+++TFV + + I+EA LREL RGGQVY+LHNEV+TI L +L+PEA Sbjct: 778 ATPPARRLSVRTFVMEQQNAVIKEALLRELLRGGQVYYLHNEVKTIEKCARDLAELVPEA 837 Query: 839 RIAVAHGQMHERDLEKVMRDFVAQRFNILLCTTIIETGIDVPTANTIIMHRADKFGLAQL 898 RI + HGQMHER+LE+VM DF +RFN+L+ +TIIETGIDVP+ANTI++ RADKFGLAQL Sbjct: 838 RIGIGHGQMHERELEQVMSDFYHKRFNVLVASTIIETGIDVPSANTILIERADKFGLAQL 897 Query: 899 HQLRGRVGRSHHQAYAYLLVQDVQGLSKQAQRRLEAIQQMEELGSGFYLAMHDLEIRGAG 958 HQLRGRVGRSHHQAYAYLL + ++ A++RLEAI ++LG+GF LA HDLEIRGAG Sbjct: 898 HQLRGRVGRSHHQAYAYLLTPPRRQMTPDAEKRLEAIANAQDLGAGFVLATHDLEIRGAG 957 Query: 959 EVLGDHQSGEIHEIGFQMYSDMLNEAVRALKDGREPDLAAPLSTTTEINLHAPALLPNDF 1018 E+LGD QSG+I +GF +Y +ML AV+A++ G +P+L PL E+NL PAL+P D+ Sbjct: 958 ELLGDGQSGQIQAVGFTLYMEMLERAVKAIRKGEQPNLEQPLGGGPEVNLRVPALIPEDY 1017 Query: 1019 CGDVHERLSLYKRFANCEKSDAIDALQEELIDRFGKLPDAAKALIETHRLRIAAKPLGII 1078 DVH RL LYKR AN + + LQ E+IDRFG LPD AK L+ L++ A+ LGI+ Sbjct: 1018 LPDVHARLILYKRIANAPDEEGLRELQVEMIDRFGLLPDPAKNLMRLTLLKLQAEKLGIL 1077 Query: 1079 KIDAHSEAALLQFVPHPPIDAMRIIELVQ-KNRQVKLNGPDKLRITANMPDLSTRVQQVK 1137 K+DA + ++F +D + +I+L+Q + + K G R M R ++ Sbjct: 1078 KVDAGPQGGRIEFAADTQVDPLVLIKLIQGQPNRYKFEGATLFRFQVPMERPEERFNTLE 1137 Query: 1138 ATMKALT 1144 A + LT Sbjct: 1138 ALFERLT 1144 >PM1041 [LK] COG1197 Transcription-repair coupling factor (superfamily II helicase) Pmu Pasteurella multocida Length = 1145 Score = 1093 bits (2828), Expect = 0.0, Method: Compositional matrix adjust. Identities = 559/1128 (49%), Positives = 746/1128 (66%), Gaps = 26/1128 (2%) Query: 30 LAQAALALKAEGRMLAVVVAGATDAQRLLSEIPWFQPKQGERLRCHLLPDWETLPYDAFS 89 LA + +A + G + VV A A RL + F L PDWETLPYDAFS Sbjct: 30 LAISQIAQQYSG-LTVVVTADTRSAVRLEKVLAQFSS-----LPVTFFPDWETLPYDAFS 83 Query: 90 PHQDLVSERLATLYEVQSGQCDLLIVPATTALLRMAPPQFLAAYTFFFKQGEKLDEGKLK 149 PHQD++S RL+ L ++Q Q ++I+P +T + R+ PP FL K+ ++L KL+ Sbjct: 84 PHQDIISSRLSALSQLQHCQKGIVILPISTLMQRLCPPTFLHHNLLLVKKSDRLQINKLR 143 Query: 150 SQLTLAGYTHVGQVMSPGEYSVRGGLIDIFPMGSVLPYRLDLFGDTIETIRTFDADTQRS 209 QL AGY V QV+ GEY+VRG L+D+FPMGS +P+RLD F D I++IRTFD DTQR+ Sbjct: 144 LQLESAGYRAVEQVLEHGEYAVRGALLDLFPMGSAVPFRLDFFDDEIDSIRTFDVDTQRT 203 Query: 210 LYPVPEVRLLPGREFPMDEASRLAFRNRWREVFEGDPSRSA--IYKDIGNGIASAGIEYY 267 L + + LLP EFP DE S FR ++RE F G+ R IY+ + G +GIEY+ Sbjct: 204 LEEIQAINLLPAHEFPTDEKSIEFFRTQFRETF-GEIRRDPEHIYQQVSKGTLISGIEYW 262 Query: 268 LPLFFEETATLFQYLPANAMFATVGDIEQAIKRFWSDTRSRWTFLHADRERPVLEPRSIY 327 PLFFE+ A+LF YLP N ++ VGDI++ RF+ D R+ D RP+L P ++ Sbjct: 263 QPLFFEQMASLFDYLPKNTLWLDVGDIQEQGTRFYQDAEQRYESRKVDPMRPLLPPDRLW 322 Query: 328 LDDEDFFTLLKPHARWVLKTDDAPSAISA------PLPNIAVNRRAEDPLVNLRGFLLKG 381 L E+ +LK + R K D S+ PLP +A+ + ++PL LR F + Sbjct: 323 LRLEEINRILKQYPRISFKLDKVRSSARQKNLAVQPLPTLAIQSQHKEPLQQLRQFSDQF 382 Query: 382 AERVLICAESNGRRETLQQYFAEYDLHPVLCEDWNDFLASDEPLMLGVAPLHAGFV--SA 439 +++ ES GRRETL + + P ++ E + ++ L GF+ + Sbjct: 383 KGKIVFSVESEGRRETLLDLLSPLKIKPQKLTALSNI---SEKCNVLISGLENGFIIDND 439 Query: 440 GGLALVTETELYAGSGRRVG--SRKQQAATDVEYMVRDLSELKIGDPVVHSSHGIGRYMG 497 +A++TETEL G RV SR ++ + + + ++R+L+ELKIG PVVH HG+GRY G Sbjct: 440 QPIAVMTETELL---GERVQQRSRDKRKSVNPDTLIRNLAELKIGQPVVHLDHGVGRYAG 496 Query: 498 LVSMDLGEGETEFLHLEYAKETKLYVPVSQLHVISRYSGASPEDAPLHALGSGQWEKAKR 557 LV+++ G E+L L YA E+KLYVPVS LH+ISRY G + E APLH LGS W +A++ Sbjct: 497 LVTLENGGITAEYLLLNYANESKLYVPVSSLHLISRYVGGADETAPLHKLGSDAWVRARQ 556 Query: 558 KAAQQVRDTAAELLNLYARRALRQGHAFQYSAHDYEAFADSFGFEETADQAAAINAVIKD 617 KAA+++RD AAELL++YA+R ++G AF Y ++ FA +F FEET DQ AINAVI D Sbjct: 557 KAAEKIRDVAAELLDVYAQREAQKGFAFHYDREAFQQFAATFPFEETVDQEMAINAVIAD 616 Query: 618 MTGGKPMDRLICGDVGFGKTEVALRAAFVAVMGGKQVAILAPTTLLAEQHATTFADRFAN 677 M K MDRL+CGDVGFGKTEVA+RAAF+AVM KQVA+L PTTLLA+QH F DRFAN Sbjct: 617 MCQAKAMDRLVCGDVGFGKTEVAMRAAFLAVMNHKQVAVLVPTTLLAQQHFENFKDRFAN 676 Query: 678 WPVKIAELSRFRTGKEVTQAIKGLGDGTIDIVIGTHKLLSDEVKFSRLGLVIIDEEHRFG 737 P+ + LSRF+T KE ++ L +G +DI+IGTHKL+ +V+F LGL++IDEEHRFG Sbjct: 677 LPINVEVLSRFKTAKEQKVVLQNLAEGKVDILIGTHKLIQSDVQFKDLGLLVIDEEHRFG 736 Query: 738 VRQKEALKSLRAEVDVLTLTATPIPRTLGMALEGLRDFSVIATAPQKRLAIKTFVRAENE 797 VRQKE +K LRA +D+LTLTATPIPRTL MA+ G+RD S+I+T P +RL IKTFV+ +E Sbjct: 737 VRQKERIKQLRANIDILTLTATPIPRTLNMAMHGIRDLSIISTPPARRLTIKTFVKQSDE 796 Query: 798 STIREACLRELKRGGQVYFLHNEVETIANRKAALEQLLPEARIAVAHGQMHERDLEKVMR 857 S IREA LRE+ RGGQVY+LHN+V +I N L L+PEAR+ + HGQM ER+LE+VM Sbjct: 797 SVIREAILREILRGGQVYYLHNDVASIENCAEKLRTLVPEARVTIGHGQMRERELERVMS 856 Query: 858 DFVAQRFNILLCTTIIETGIDVPTANTIIMHRADKFGLAQLHQLRGRVGRSHHQAYAYLL 917 DF QRFN+L+C+TIIETGIDVPTANTII+ RAD FGLAQLHQLRGRVGRSHHQAYAYLL Sbjct: 857 DFYHQRFNVLVCSTIIETGIDVPTANTIIIERADNFGLAQLHQLRGRVGRSHHQAYAYLL 916 Query: 918 VQDVQGLSKQAQRRLEAIQQMEELGSGFYLAMHDLEIRGAGEVLGDHQSGEIHEIGFQMY 977 ++ ++K AQ+RLEA++ ++ LG+GF LA HDLEIRGAGE+LG QSG+I IGF +Y Sbjct: 917 TPPIKAMTKDAQKRLEALESLDNLGAGFILATHDLEIRGAGELLGSEQSGQIESIGFSLY 976 Query: 978 SDMLNEAVRALKDGREPDLAAPLSTTTEINLHAPALLPNDFCGDVHERLSLYKRFANCEK 1037 D+L AV ALK GREP L EI+L PALLP D+ GDV+ RLS YKR A E Sbjct: 977 MDLLESAVNALKAGREPSLEELTQQQVEIDLRLPALLPEDYLGDVNIRLSFYKRIAGAEN 1036 Query: 1038 SDAIDALQEELIDRFGKLPDAAKALIETHRLRIAAKPLGIIKIDAHSEAALLQFVPHPPI 1097 +D L+ ELIDRFG+LP+A +L LR AK + I KIDA+++ ++F + + Sbjct: 1037 KPELDELKVELIDRFGRLPEATTSLFRIAELRQLAKKIQIQKIDANAQGGFIEFASNADL 1096 Query: 1098 DAMRIIELVQKNRQV-KLNGPDKLRITANMPDLSTRVQQVKATMKALT 1144 D M+ ++L+Q V + +GP K R + R+ V+ +K L+ Sbjct: 1097 DPMKFLQLIQTEPSVYRFDGPTKFRFSKTFEGHKVRLDFVENLVKGLS 1144 >VC1886 [LK] COG1197 Transcription-repair coupling factor (superfamily II helicase) Vch Vibrio cholerae Length = 1155 Score = 1093 bits (2826), Expect = 0.0, Method: Compositional matrix adjust. Identities = 562/1135 (49%), Positives = 752/1135 (66%), Gaps = 27/1135 (2%) Query: 21 VHGSADAFLLAQAALALKAEGRMLAVVVAGATDAQRLLSEIPWFQPKQGERLRCHLLPDW 80 +HG++ A +A+ A A + V A +LL E+ F + L PDW Sbjct: 24 LHGASLALAIAELA---NAHTSHTLLAVPDPQTALKLLHEVEQFSHSE-----VALFPDW 75 Query: 81 ETLPYDAFSPHQDLVSERLATLYEVQSGQCDLLIVPATTALLRMAPPQFLAAYTFFFKQG 140 ETLPYD FSPHQD++S+R++ LY++ S + IVP +T L R +P FL +T K+G Sbjct: 76 ETLPYDNFSPHQDIISDRISRLYQLPSLTRGITIVPVSTLLQRQSPRDFLLQHTLIVKRG 135 Query: 141 EKLDEGKLKSQLTLAGYTHVGQVMSPGEYSVRGGLIDIFPMGSVLPYRLDLFGDTIETIR 200 + KL+ QL + Y HV QV PGEY+ RG ++D+FPMGS P+R+D F D I+TIR Sbjct: 136 DHFSLDKLRLQLENSSYRHVDQVFGPGEYASRGSILDLFPMGSSDPFRIDFFDDEIDTIR 195 Query: 201 TFDADTQRSLYPVPEVRLLPGREFPMDEASRLAFRNRWREVFEGDPSRSAIYKDIGNGIA 260 TFD D QRS+ + E+RLLP EFP A+ FRNRWR+ FE ++Y + G Sbjct: 196 TFDPDNQRSIAEMDEIRLLPAHEFPTTAAAIEEFRNRWRQRFEARREPESVYSQVSKGTW 255 Query: 261 SAGIEYYLPLFFEETATLFQYLPANAMFATVGDIEQAIKRFWSDTRSRWTFLHADRERPV 320 AGIEY+ PLFFE + TLF YLPAN+ VG++E+AI +F +D R+ + D RP+ Sbjct: 256 PAGIEYWQPLFFEHSETLFDYLPANSQLLVVGELEKAIDQFLTDVDYRYDQRNIDPLRPL 315 Query: 321 LEPRSIYLDDEDFFTLLKPHARWVLKTDDAPSAISA--------PLPNIAVNRRAEDPLV 372 L P ++L ++ F K + L + +P + A PLP +AV + ++PL Sbjct: 316 LPPNELWLRKDELFAHFKTLPQVQLTS--SPIELRAGRMNAQVQPLPVLAVEHQNKEPLA 373 Query: 373 NLRGFLLKGAERVLICAESNGRRETLQQYFAEYDLHPVLCEDWNDFLASDEPLMLGVAPL 432 LR F + +++ ES GRRE L + L P D++ E L + Sbjct: 374 ALRQFSEQFTGKIIFSVESEGRREALLELLQRIKLRPQSQNDFSLACQQTEKYSLVLGSA 433 Query: 433 HAGFVSAGG-LALVTETELYAGSGRRVGSRKQQA----ATDVEYMVRDLSELKIGDPVVH 487 GF+ +AL+ E++L G RV R+++ T+ + ++R+L+ELK G PVVH Sbjct: 434 ERGFIYGDNQVALICESDLL---GDRVIQRRRKKDRKNVTNSDAVIRNLAELKPGQPVVH 490 Query: 488 SSHGIGRYMGLVSMDLGEGETEFLHLEYAKETKLYVPVSQLHVISRYSGASPEDAPLHAL 547 HGIGRY+GL +++ G +E++ LEY E KLYVPVS L++ISRYSG + E A LH L Sbjct: 491 IDHGIGRYLGLQTLEAGGMVSEYVMLEYQNEAKLYVPVSSLNLISRYSGGAEEAAQLHKL 550 Query: 548 GSGQWEKAKRKAAQQVRDTAAELLNLYARRALRQGHAFQYSAHDYEAFADSFGFEETADQ 607 G W KA+RKAA++VRD AAELL++YA+R ++ G F Y F +F FEET DQ Sbjct: 551 GGEAWVKARRKAAEKVRDVAAELLDVYAKREIKPGFKFHLDREQYATFKATFPFEETDDQ 610 Query: 608 AAAINAVIKDMTGGKPMDRLICGDVGFGKTEVALRAAFVAVMGGKQVAILAPTTLLAEQH 667 A AINAV+ DM K MDRL+CGDVGFGKTEVA+RAAFVA GKQVA+L PTTLLA+QH Sbjct: 611 AMAINAVLSDMCQAKAMDRLVCGDVGFGKTEVAMRAAFVATDNGKQVAVLVPTTLLAQQH 670 Query: 668 ATTFADRFANWPVKIAELSRFRTGKEVTQAIKGLGDGTIDIVIGTHKLLSDEVKFSRLGL 727 F DRFAN P+++ LSRF++ KE Q ++ + DG +DI++GTHKLLS E++F+ LGL Sbjct: 671 FENFRDRFANLPIRVEVLSRFKSAKEQKQILQDVADGKVDILVGTHKLLSSEIRFADLGL 730 Query: 728 VIIDEEHRFGVRQKEALKSLRAEVDVLTLTATPIPRTLGMALEGLRDFSVIATAPQKRLA 787 +I+DEEHRFGVRQKE +K++RA+VD+LTLTATPIPRTL MA+ G+RD S+IAT P +RLA Sbjct: 731 LIVDEEHRFGVRQKEKVKAMRADVDILTLTATPIPRTLNMAMSGMRDLSIIATPPARRLA 790 Query: 788 IKTFVRAENESTIREACLRELKRGGQVYFLHNEVETIANRKAALEQLLPEARIAVAHGQM 847 IKTFVR +S IREA LRE+ RGGQVYFLHN+VETI A LE+L+PEARI VAHGQM Sbjct: 791 IKTFVRQSEDSVIREAVLREIMRGGQVYFLHNQVETIDKVAADLEKLVPEARITVAHGQM 850 Query: 848 HERDLEKVMRDFVAQRFNILLCTTIIETGIDVPTANTIIMHRADKFGLAQLHQLRGRVGR 907 ER+LEKVM DF QRFN+L+CTTIIETGIDVPTANTIIM RAD GLAQLHQLRGRVGR Sbjct: 851 RERELEKVMNDFYHQRFNLLVCTTIIETGIDVPTANTIIMDRADSLGLAQLHQLRGRVGR 910 Query: 908 SHHQAYAYLLVQDVQGLSKQAQRRLEAIQQMEELGSGFYLAMHDLEIRGAGEVLGDHQSG 967 SHHQAYAYLL + ++K A +RLEAI +E+LG+GF LA HDLEIRGAGE+LG+ QSG Sbjct: 911 SHHQAYAYLLTPPPKAITKDAVKRLEAIASLEDLGAGFTLATHDLEIRGAGELLGEEQSG 970 Query: 968 EIHEIGFQMYSDMLNEAVRALKDGREPDLAAPLSTTTEINLHAPALLPNDFCGDVHERLS 1027 +I +GF +Y +ML +AV ALK G+EP L L TE+ + PALLP ++ D++ RLS Sbjct: 971 QIQSVGFTLYMEMLEQAVEALKSGKEPALDDLLREQTEVEMRLPALLPEEYIPDINTRLS 1030 Query: 1028 LYKRFANCEKSDAIDALQEELIDRFGKLPDAAKALIETHRLRIAAKPLGIIKIDAHSEAA 1087 +YK+ A+ D + L+ ELIDRFGKLPDAA L+ L++ A L + KI+AH Sbjct: 1031 MYKQIASVASKDELAELKVELIDRFGKLPDAALNLLAIAELKLNAMRLKVRKIEAHERGG 1090 Query: 1088 LLQFVPHPPIDAMRIIELVQKN-RQVKLNGPDKLRITANMPDLSTRVQQVKATMK 1141 ++F P+ I+ + +++L+Q + + ++GP KL+ T + + S R+Q V +K Sbjct: 1091 YVEFYPNADINPVFLVKLLQSQPKLLAMDGPTKLKFTLPLVERSARIQFVADMLK 1145 >mfd [LK] COG1197 Transcription-repair coupling factor (superfamily II helicase) Eco Escherichia coli K12 Length = 1148 Score = 1086 bits (2809), Expect = 0.0, Method: Compositional matrix adjust. Identities = 566/1150 (49%), Positives = 766/1150 (66%), Gaps = 25/1150 (2%) Query: 6 KKSLP-KAGVRFQPPAVHGSADAFLLAQAALALKAEGRMLAVVVAGATDAQRLLSEIPWF 64 + +LP KAG + + G+A A L+A+ A + + ++ +A RL EI F Sbjct: 6 RYTLPVKAGEQRLLGELTGAACATLVAEIA---ERHAGPVVLIAPDMQNALRLHDEISQF 62 Query: 65 QPKQGERLRCHLLPDWETLPYDAFSPHQDLVSERLATLYEVQSGQCDLLIVPATTALLRM 124 + L DWETLPYD+FSPHQD++S RL+TLY++ + Q +LIVP T + R+ Sbjct: 63 TDQM-----VMNLADWETLPYDSFSPHQDIISSRLSTLYQLPTMQRGVLIVPVNTLMQRV 117 Query: 125 APPQFLAAYTFFFKQGEKLDEGKLKSQLTLAGYTHVGQVMSPGEYSVRGGLIDIFPMGSV 184 P FL + K+G++L L++QL AGY HV QVM GEY+ RG L+D+FPMGS Sbjct: 118 CPHSFLHGHALVMKKGQRLSRDALRTQLDSAGYRHVDQVMEHGEYATRGALLDLFPMGSE 177 Query: 185 LPYRLDLFGDTIETIRTFDADTQRSLYPVPEVRLLPGREFPMDEASRLAFRNRWREVFEG 244 LPYRLD F D I+++R FD D+QR+L V + LLP EFP D+A+ FR++WR+ FE Sbjct: 178 LPYRLDFFDDEIDSLRVFDVDSQRTLEEVEAINLLPAHEFPTDKAAIELFRSQWRDTFEV 237 Query: 245 DPSRSAIYKDIGNGIASAGIEYYLPLFFEET-ATLFQYLPANAMFATVGDIEQAIKRFWS 303 IY+ + G AGIEY+ PLFF E LF Y PAN + GD+E + +RF + Sbjct: 238 KRDPEHIYQQVSKGTLPAGIEYWQPLFFSEPLPPLFSYFPANTLLVNTGDLETSAERFQA 297 Query: 304 DTRSRWTFLHADRERPVLEPRSIYLDDEDFFTLLKPHARWVLKTDDAPSAIS------AP 357 DT +R+ D RP+L P+S++L ++ F+ LK R LKT+ P+ + Sbjct: 298 DTLARFENRGVDPMRPLLPPQSLWLRVDELFSELKNWPRVQLKTEHLPTKAANANLGFQK 357 Query: 358 LPNIAVNRRAEDPLVNLRGFLLKGAERVLICAESNGRRETLQQYFAEYDLHPVLCEDWND 417 LP++AV + + PL LR FL V+ ES GRRE L + A + P ++ Sbjct: 358 LPDLAVQAQQKAPLDALRKFLETFDGPVVFSVESEGRREALGELLARIKIAPQRIMRLDE 417 Query: 418 FLASDEPLMLGVAPLHAGFV-SAGGLALVTETELYAGSGRRVGSRKQQAATDV--EYMVR 474 ASD L + GFV + LAL+ E++L G RV R+Q + + + ++R Sbjct: 418 --ASDRGRYLMIGAAEHGFVDTVRNLALICESDLL---GERVARRRQDSRRTINPDTLIR 472 Query: 475 DLSELKIGDPVVHSSHGIGRYMGLVSMDLGEGETEFLHLEYAKETKLYVPVSQLHVISRY 534 +L+EL IG PVVH HG+GRY G+ +++ G E+L L YA + KLYVPVS LH+ISRY Sbjct: 473 NLAELHIGQPVVHLEHGVGRYAGMTTLEAGGITGEYLMLTYANDAKLYVPVSSLHLISRY 532 Query: 535 SGASPEDAPLHALGSGQWEKAKRKAAQQVRDTAAELLNLYARRALRQGHAFQYSAHDYEA 594 +G + E+APLH LG W +A++KAA++VRD AAELL++YA+RA ++G AF++ Y+ Sbjct: 533 AGGAEENAPLHKLGGDAWSRARQKAAEKVRDVAAELLDIYAQRAAKEGFAFKHDREQYQL 592 Query: 595 FADSFGFEETADQAAAINAVIKDMTGGKPMDRLICGDVGFGKTEVALRAAFVAVMGGKQV 654 F DSF FE T DQA AINAV+ DM MDRL+CGDVGFGKTEVA+RAAF+AV KQV Sbjct: 593 FCDSFPFETTPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVDNHKQV 652 Query: 655 AILAPTTLLAEQHATTFADRFANWPVKIAELSRFRTGKEVTQAIKGLGDGTIDIVIGTHK 714 A+L PTTLLA+QH F DRFANWPV+I +SRFR+ KE TQ + + +G IDI+IGTHK Sbjct: 653 AVLVPTTLLAQQHYDNFRDRFANWPVRIEMISRFRSAKEQTQILAEVAEGKIDILIGTHK 712 Query: 715 LLSDEVKFSRLGLVIIDEEHRFGVRQKEALKSLRAEVDVLTLTATPIPRTLGMALEGLRD 774 LL +VKF LGL+I+DEEHRFGVR KE +K++RA VD+LTLTATPIPRTL MA+ G+RD Sbjct: 713 LLQSDVKFKDLGLLIVDEEHRFGVRHKERIKAMRANVDILTLTATPIPRTLNMAMSGMRD 772 Query: 775 FSVIATAPQKRLAIKTFVRAENESTIREACLRELKRGGQVYFLHNEVETIANRKAALEQL 834 S+IAT P +RLA+KTFVR + +REA LRE+ RGGQVY+L+N+VE I L +L Sbjct: 773 LSIIATPPARRLAVKTFVREYDSMVVREAILREILRGGQVYYLYNDVENIQKAAERLAEL 832 Query: 835 LPEARIAVAHGQMHERDLEKVMRDFVAQRFNILLCTTIIETGIDVPTANTIIMHRADKFG 894 +PEARIA+ HGQM ER+LE+VM DF QRFN+L+CTTIIETGID+PTANTII+ RAD FG Sbjct: 833 VPEARIAIGHGQMRERELERVMNDFHHQRFNVLVCTTIIETGIDIPTANTIIIERADHFG 892 Query: 895 LAQLHQLRGRVGRSHHQAYAYLLVQDVQGLSKQAQRRLEAIQQMEELGSGFYLAMHDLEI 954 LAQLHQLRGRVGRSHHQAYA+LL + ++ AQ+RLEAI +E+LG+GF LA HDLEI Sbjct: 893 LAQLHQLRGRVGRSHHQAYAWLLTPHPKAMTTDAQKRLEAIASLEDLGAGFALATHDLEI 952 Query: 955 RGAGEVLGDHQSGEIHEIGFQMYSDMLNEAVRALKDGREPDLAAPLSTTTEINLHAPALL 1014 RGAGE+LG+ QSG + IGF +Y ++L AV ALK GREP L S TE+ L P+LL Sbjct: 953 RGAGELLGEEQSGSMETIGFSLYMELLENAVDALKAGREPSLEDLTSQQTEVELRMPSLL 1012 Query: 1015 PNDFCGDVHERLSLYKRFANCEKSDAIDALQEELIDRFGKLPDAAKALIETHRLRIAAKP 1074 P+DF DV+ RLS YKR A+ + + ++ ++ ELIDRFG LPD A+ L++ RLR A+ Sbjct: 1013 PDDFIPDVNTRLSFYKRIASAKTENELEEIKVELIDRFGLLPDPARTLLDIARLRQQAQK 1072 Query: 1075 LGIIKIDAHSEAALLQFVPHPPIDAMRIIELVQKNRQ-VKLNGPDKLRITANMPDLSTRV 1133 LGI K++ + + +++F ++ +I L+QK Q +L+GP +L+ ++ + TR+ Sbjct: 1073 LGIRKLEGNEKGGVIEFAEKNHVNPAWLIGLLQKQPQHYRLDGPTRLKFIQDLSERKTRI 1132 Query: 1134 QQVKATMKAL 1143 + V+ M+ L Sbjct: 1133 EWVRQFMREL 1142