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= 0034.0096.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... 1701 0.0 PA3002 [LK] COG1197 Transcription-repair coupling factor (superf... 1152 0.0 VC1886 [LK] COG1197 Transcription-repair coupling factor (superf... 1098 0.0 PM1041 [LK] COG1197 Transcription-repair coupling factor (superf... 1096 0.0 mfd [LK] COG1197 Transcription-repair coupling factor (superfami... 1081 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 = 833/1135 (73%), Positives = 946/1135 (83%), Gaps = 5/1135 (0%) Query: 11 KAGIRFQPPAVHGSADAYLLAQAALALKAEGRMLAVVVAGATDAQRLLAEIPWFQPSEGE 70 K G RF + GSADA LLA+ + MLAVV A A DAQRL E+ WF P Sbjct: 27 KPGQRFVFSGLQGSADALLLARYLAQHRDAVPMLAVVCANAVDAQRLADELRWFAP---- 82 Query: 71 RLRCHLLPDWETLPYDAFSPHQDLVSERLATLYEVQSGQCDLLIVPATTALLRMAPPQFL 130 + R LLPDWETLPYD FSPHQDL+SERLATL+++Q G CDLL+VPA+TAL R+APP FL Sbjct: 83 QARVKLLPDWETLPYDNFSPHQDLISERLATLHDLQGGACDLLLVPASTALQRIAPPSFL 142 Query: 131 AAYTFFFKQGEKLDEGKLKSQLTLAGYTHVGQVMSPGEYSVRGGLIDIFPMGSVLPYRLD 190 AAYTFFFK+GE+LDE LK+Q TLAGY HV VM PGEYSVRGGLID+FPMGS +PYRLD Sbjct: 143 AAYTFFFKKGERLDEAALKAQFTLAGYEHVSAVMRPGEYSVRGGLIDLFPMGSPMPYRLD 202 Query: 191 LFGDTIETIRTFDADTQRSLYPVPEVRLLPGREFPMDEVSRLAFRNRWREVFEGDPSRSA 250 LFGD I+TIR FD DTQRSLYPV EVRLLPGREFPMDE +R AFR RWREVFEGDP+R+ Sbjct: 203 LFGDEIDTIRAFDPDTQRSLYPVNEVRLLPGREFPMDEAARTAFRGRWREVFEGDPTRAP 262 Query: 251 IYKDIGNGIASAGIEYYLPLFFEETATLFQYLPANAMFATVGDIEQAIKRFWSDTRSRWN 310 IYKDIGNG+ SAGIEYYLPLFFE TATLF YLPA+A A VGDIE A++RFW+DT R+ Sbjct: 263 IYKDIGNGVPSAGIEYYLPLFFETTATLFDYLPASAHLALVGDIESAVRRFWADTTQRYG 322 Query: 311 FLHADRERPVLEPQAIYLDDEDFFTLLKPHARWVLKTDDAPSAISAPLPNIAVNRRADDP 370 F+ DR+RP+L P A+YLD+E FF KPHAR VL+ + + +S PLP++AVNRRA+DP Sbjct: 323 FMRHDRDRPLLAPSALYLDEEAFFIAAKPHARLVLRAEPGEAPLSLPLPSVAVNRRAEDP 382 Query: 371 LVNLRSFLLKGAERVLICAESNGRRETLQQYFAEYDLHPVLCEDWNGFLASDEPLMLGVA 430 LVNL SFL +G RV+ICAES GRRETL Q A LHP D + D +LGVA Sbjct: 383 LVNLESFLTRGNCRVMICAESAGRRETLAQMLAASGLHPEGVADCADLMGGDARFVLGVA 442 Query: 431 PLHAGFVTA-AGLALVTETELYAGSGRRVGSRKQQAATDVEYMVRDLSELKIGDPVVHSS 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 AINAVIKDMTGGKPMDRLICGDVGFGKTEVALRAAFVAVMGGKQVAILAPTTLLAEQHAA 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 TFVRAEQESTIREACLRELKRGGQVYFLHNEVETIANRKAELEQLLPEARIGVAHGQMHE 849 TFVR E++ +REA LRELKRGGQVYFLHNEVETI N++A+LE+L+PEAR+ VAHGQMHE 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 KRLANCEKSDAIDALQEELIDRFGKLPDAAKALIETHRLRIAAKPLGIIKIDAHSEAALL 1089 KRLANCE + ID +QEELIDRFGKLP A++LIETHRLRIAA PLGI KID ++A L Sbjct: 1043 KRLANCESGETIDNIQEELIDRFGKLPPQAQSLIETHRLRIAAVPLGIRKIDTGADAVTL 1102 Query: 1090 QFVPNPPIDAMRIIELVQKNRQVKLNGPDKLRITASMPDLNARVQQVKATMKALT 1144 QFVPNPP+DA++II LVQKNRQ+KL G D+LRI + A Q ++ TM+ LT Sbjct: 1103 QFVPNPPVDAIKIINLVQKNRQIKLAGQDRLRIENIPAETAALAQAIRQTMRQLT 1157 >PA3002 [LK] COG1197 Transcription-repair coupling factor (superfamily II helicase) Pae Pseudomonas aeruginosa Length = 1148 Score = 1152 bits (2981), Expect = 0.0, Method: Compositional matrix adjust. Identities = 590/1147 (51%), Positives = 795/1147 (69%), Gaps = 20/1147 (1%) Query: 8 SLPKAGIRFQPPAVHGSADAYLLAQAALALKAEGRMLAVVVAGATDAQRLLAEIPWFQPS 67 SLP + + + G+A + +A+AA + K R ++ A + +A+RL E+ +F P Sbjct: 8 SLPASAGKQHWGNLPGAALSLAVAEAASSAK---RFTLLLTADSQNAERLEQELRFFAPD 64 Query: 68 EGERLRCHLLPDWETLPYDAFSPHQDLVSERLATLYEVQSGQCDLLIVPATTALLRMAPP 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 RLDLFGDTIETIRTFDADTQRSLYPVPEVRLLPGREFPMDEVSRLAFRNRWREVFEGDPS 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 RWNFLHADRERPVLEPQAIYLDDEDFFTLLKPHARWVLKTDDAPSAI------SAPLPNI 361 R+ D ERP+L P ++L ED F LK R V +D + + PLPN+ Sbjct: 301 RYEDRRVDPERPLLPPAEVFLPVEDCFARLKNWPRVVASQEDVEPGVGRERFPALPLPNL 360 Query: 362 AVNRRADDPLVNLRSFLLKGAERVLICAESNGRRETLQQYFAEYDLHPVLCEDWNGFLAS 421 A+ +A +PL LR F+ + RVL CAES GRRE L + A L P + W FLAS Sbjct: 361 AIEAKAAEPLAALRRFIEEFPGRVLFCAESAGRREVLLELLARLKLRPEEVDGWPAFLAS 420 Query: 422 DEPLMLGVAPLHAGFV-TAAGLALVTETELYAGSGRRVGSRKQQAAT--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 PTTLLAEQHAATFADRFANWPVKIAELSRFRTGKEVTQAIKGLGDGTIDIVIGTHKLLSD 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 ATAPQKRLAIKTFVRAEQESTIREACLRELKRGGQVYFLHNEVETIANRKAELEQLLPEA 838 AT P +RL+++TFV +Q + I+EA LREL RGGQVY+LHNEV+TI +L +L+PEA Sbjct: 778 ATPPARRLSVRTFVMEQQNAVIKEALLRELLRGGQVYYLHNEVKTIEKCARDLAELVPEA 837 Query: 839 RIGVAHGQMHERDLEKVMRDFVAQRFNILLCTTIIETGIDVPTANTIIMHRADKFGLAQL 898 RIG+ 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 CGDVHERLSLYKRLANCEKSDAIDALQEELIDRFGKLPDAAKALIETHRLRIAAKPLGII 1078 DVH RL LYKR+AN + + LQ E+IDRFG LPD AK L+ L++ A+ LGI+ Sbjct: 1018 LPDVHARLILYKRIANAPDEEGLRELQVEMIDRFGLLPDPAKNLMRLTLLKLQAEKLGIL 1077 Query: 1079 KIDAHSEAALLQFVPNPPIDAMRIIELVQ-KNRQVKLNGPDKLRITASMPDLNARVQQVK 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 >VC1886 [LK] COG1197 Transcription-repair coupling factor (superfamily II helicase) Vch Vibrio cholerae Length = 1155 Score = 1098 bits (2841), Expect = 0.0, Method: Compositional matrix adjust. Identities = 564/1135 (49%), Positives = 756/1135 (66%), Gaps = 27/1135 (2%) Query: 21 VHGSADAYLLAQAALALKAEGRMLAVVVAGATDAQRLLAEIPWFQPSEGERLRCHLLPDW 80 +HG++ A +A+ A A + V A +LL E+ F SE 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 TFDADTQRSLYPVPEVRLLPGREFPMDEVSRLAFRNRWREVFEGDPSRSAIYKDIGNGIA 260 TFD D QRS+ + E+RLLP EFP + FRNRWR+ FE ++Y + G Sbjct: 196 TFDPDNQRSIAEMDEIRLLPAHEFPTTAAAIEEFRNRWRQRFEARREPESVYSQVSKGTW 255 Query: 261 SAGIEYYLPLFFEETATLFQYLPANAMFATVGDIEQAIKRFWSDTRSRWNFLHADRERPV 320 AGIEY+ PLFFE + TLF YLPAN+ VG++E+AI +F +D R++ + D RP+ Sbjct: 256 PAGIEYWQPLFFEHSETLFDYLPANSQLLVVGELEKAIDQFLTDVDYRYDQRNIDPLRPL 315 Query: 321 LEPQAIYLDDEDFFTLLKPHARWVLKTDDAPSAISA--------PLPNIAVNRRADDPLV 372 L P ++L ++ F K + L + +P + A PLP +AV + +PL Sbjct: 316 LPPNELWLRKDELFAHFKTLPQVQLTS--SPIELRAGRMNAQVQPLPVLAVEHQNKEPLA 373 Query: 373 NLRSFLLKGAERVLICAESNGRRETLQQYFAEYDLHPVLCEDWNGFLASDEPLMLGVAPL 432 LR F + +++ ES GRRE L + L P D++ E L + Sbjct: 374 ALRQFSEQFTGKIIFSVESEGRREALLELLQRIKLRPQSQNDFSLACQQTEKYSLVLGSA 433 Query: 433 HAGFVTAAG-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 AATFADRFANWPVKIAELSRFRTGKEVTQAIKGLGDGTIDIVIGTHKLLSDEVKFSRLGL 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 IKTFVRAEQESTIREACLRELKRGGQVYFLHNEVETIANRKAELEQLLPEARIGVAHGQM 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 LYKRLANCEKSDAIDALQEELIDRFGKLPDAAKALIETHRLRIAAKPLGIIKIDAHSEAA 1087 +YK++A+ D + L+ ELIDRFGKLPDAA L+ L++ A L + KI+AH Sbjct: 1031 MYKQIASVASKDELAELKVELIDRFGKLPDAALNLLAIAELKLNAMRLKVRKIEAHERGG 1090 Query: 1088 LLQFVPNPPIDAMRIIELVQKN-RQVKLNGPDKLRITASMPDLNARVQQVKATMK 1141 ++F PN I+ + +++L+Q + + ++GP KL+ T + + +AR+Q V +K Sbjct: 1091 YVEFYPNADINPVFLVKLLQSQPKLLAMDGPTKLKFTLPLVERSARIQFVADMLK 1145 >PM1041 [LK] COG1197 Transcription-repair coupling factor (superfamily II helicase) Pmu Pasteurella multocida Length = 1145 Score = 1096 bits (2834), Expect = 0.0, Method: Compositional matrix adjust. Identities = 561/1131 (49%), Positives = 746/1131 (65%), Gaps = 26/1131 (2%) Query: 27 AYLLAQAALALKAEGRMLAVVVAGATDAQRLLAEIPWFQPSEGERLRCHLLPDWETLPYD 86 A LA + +A + G + VV A A RL + F L PDWETLPYD Sbjct: 27 ADCLAISQIAQQYSG-LTVVVTADTRSAVRLEKVLAQFSS-----LPVTFFPDWETLPYD 80 Query: 87 AFSPHQDLVSERLATLYEVQSGQCDLLIVPATTALLRMAPPQFLAAYTFFFKQGEKLDEG 146 AFSPHQD++S RL+ L ++Q Q ++I+P +T + R+ PP FL K+ ++L Sbjct: 81 AFSPHQDIISSRLSALSQLQHCQKGIVILPISTLMQRLCPPTFLHHNLLLVKKSDRLQIN 140 Query: 147 KLKSQLTLAGYTHVGQVMSPGEYSVRGGLIDIFPMGSVLPYRLDLFGDTIETIRTFDADT 206 KL+ QL AGY V QV+ GEY+VRG L+D+FPMGS +P+RLD F D I++IRTFD DT Sbjct: 141 KLRLQLESAGYRAVEQVLEHGEYAVRGALLDLFPMGSAVPFRLDFFDDEIDSIRTFDVDT 200 Query: 207 QRSLYPVPEVRLLPGREFPMDEVSRLAFRNRWREVFEGDPSRSA--IYKDIGNGIASAGI 264 QR+L + + LLP EFP DE S FR ++RE F G+ R IY+ + G +GI Sbjct: 201 QRTLEEIQAINLLPAHEFPTDEKSIEFFRTQFRETF-GEIRRDPEHIYQQVSKGTLISGI 259 Query: 265 EYYLPLFFEETATLFQYLPANAMFATVGDIEQAIKRFWSDTRSRWNFLHADRERPVLEPQ 324 EY+ PLFFE+ A+LF YLP N ++ VGDI++ RF+ D R+ D RP+L P Sbjct: 260 EYWQPLFFEQMASLFDYLPKNTLWLDVGDIQEQGTRFYQDAEQRYESRKVDPMRPLLPPD 319 Query: 325 AIYLDDEDFFTLLKPHARWVLKTDDAPSAISA------PLPNIAVNRRADDPLVNLRSFL 378 ++L E+ +LK + R K D S+ PLP +A+ + +PL LR F Sbjct: 320 RLWLRLEEINRILKQYPRISFKLDKVRSSARQKNLAVQPLPTLAIQSQHKEPLQQLRQFS 379 Query: 379 LKGAERVLICAESNGRRETLQQYFAEYDLHPVLCEDWNGFLASDEPLMLGVAPLHAGFVT 438 + +++ ES GRRETL + + P + E + ++ L GF+ Sbjct: 380 DQFKGKIVFSVESEGRRETLLDLLSPLKIKP---QKLTALSNISEKCNVLISGLENGFII 436 Query: 439 AAG--LALVTETELYAGSGRRVG--SRKQQAATDVEYMVRDLSELKIGDPVVHSSHGIGR 494 +A++TETEL G RV SR ++ + + + ++R+L+ELKIG PVVH HG+GR Sbjct: 437 DNDQPIAVMTETELL---GERVQQRSRDKRKSVNPDTLIRNLAELKIGQPVVHLDHGVGR 493 Query: 495 YMGLVSMDLGEGETEFLHLEYAKETKLYVPVSQLHVISRYSGASPEDAPLHALGSGQWEK 554 Y GLV+++ G E+L L YA E+KLYVPVS LH+ISRY G + E APLH LGS W + Sbjct: 494 YAGLVTLENGGITAEYLLLNYANESKLYVPVSSLHLISRYVGGADETAPLHKLGSDAWVR 553 Query: 555 AKRKAAQQVRDTAAELLNLYARRALRQGHAFQYSAHDYEAFADSFGFEETADQAAAINAV 614 A++KAA+++RD AAELL++YA+R ++G AF Y ++ FA +F FEET DQ AINAV Sbjct: 554 ARQKAAEKIRDVAAELLDVYAQREAQKGFAFHYDREAFQQFAATFPFEETVDQEMAINAV 613 Query: 615 IKDMTGGKPMDRLICGDVGFGKTEVALRAAFVAVMGGKQVAILAPTTLLAEQHAATFADR 674 I DM K MDRL+CGDVGFGKTEVA+RAAF+AVM KQVA+L PTTLLA+QH F DR Sbjct: 614 IADMCQAKAMDRLVCGDVGFGKTEVAMRAAFLAVMNHKQVAVLVPTTLLAQQHFENFKDR 673 Query: 675 FANWPVKIAELSRFRTGKEVTQAIKGLGDGTIDIVIGTHKLLSDEVKFSRLGLVIIDEEH 734 FAN P+ + LSRF+T KE ++ L +G +DI+IGTHKL+ +V+F LGL++IDEEH Sbjct: 674 FANLPINVEVLSRFKTAKEQKVVLQNLAEGKVDILIGTHKLIQSDVQFKDLGLLVIDEEH 733 Query: 735 RFGVRQKEALKSLRAEVDVLTLTATPIPRTLGMALEGLRDFSVIATAPQKRLAIKTFVRA 794 RFGVRQKE +K LRA +D+LTLTATPIPRTL MA+ G+RD S+I+T P +RL IKTFV+ Sbjct: 734 RFGVRQKERIKQLRANIDILTLTATPIPRTLNMAMHGIRDLSIISTPPARRLTIKTFVKQ 793 Query: 795 EQESTIREACLRELKRGGQVYFLHNEVETIANRKAELEQLLPEARIGVAHGQMHERDLEK 854 ES IREA LRE+ RGGQVY+LHN+V +I N +L L+PEAR+ + HGQM ER+LE+ Sbjct: 794 SDESVIREAILREILRGGQVYYLHNDVASIENCAEKLRTLVPEARVTIGHGQMRERELER 853 Query: 855 VMRDFVAQRFNILLCTTIIETGIDVPTANTIIMHRADKFGLAQLHQLRGRVGRSHHQAYA 914 VM DF QRFN+L+C+TIIETGIDVPTANTII+ RAD FGLAQLHQLRGRVGRSHHQAYA Sbjct: 854 VMSDFYHQRFNVLVCSTIIETGIDVPTANTIIIERADNFGLAQLHQLRGRVGRSHHQAYA 913 Query: 915 YLLVQDVQGLSKQAQRRLEAIQQMEELGSGFYLAMHDLEIRGAGEVLGDHQSGEIHEIGF 974 YLL ++ ++K AQ+RLEA++ ++ LG+GF LA HDLEIRGAGE+LG QSG+I IGF Sbjct: 914 YLLTPPIKAMTKDAQKRLEALESLDNLGAGFILATHDLEIRGAGELLGSEQSGQIESIGF 973 Query: 975 QMYSDMLNEAVRALKDGREPDLAAPLSTTTEINLHAPALLPNDFCGDVHERLSLYKRLAN 1034 +Y D+L AV ALK GREP L EI+L PALLP D+ GDV+ RLS YKR+A Sbjct: 974 SLYMDLLESAVNALKAGREPSLEELTQQQVEIDLRLPALLPEDYLGDVNIRLSFYKRIAG 1033 Query: 1035 CEKSDAIDALQEELIDRFGKLPDAAKALIETHRLRIAAKPLGIIKIDAHSEAALLQFVPN 1094 E +D L+ ELIDRFG+LP+A +L LR AK + I KIDA+++ ++F N Sbjct: 1034 AENKPELDELKVELIDRFGRLPEATTSLFRIAELRQLAKKIQIQKIDANAQGGFIEFASN 1093 Query: 1095 PPIDAMRIIELVQKNRQV-KLNGPDKLRITASMPDLNARVQQVKATMKALT 1144 +D M+ ++L+Q V + +GP K R + + R+ V+ +K L+ Sbjct: 1094 ADLDPMKFLQLIQTEPSVYRFDGPTKFRFSKTFEGHKVRLDFVENLVKGLS 1144 >mfd [LK] COG1197 Transcription-repair coupling factor (superfamily II helicase) Eco Escherichia coli K12 Length = 1148 Score = 1081 bits (2796), Expect = 0.0, Method: Compositional matrix adjust. Identities = 547/1078 (50%), Positives = 730/1078 (67%), Gaps = 16/1078 (1%) Query: 77 LPDWETLPYDAFSPHQDLVSERLATLYEVQSGQCDLLIVPATTALLRMAPPQFLAAYTFF 136 L DWETLPYD+FSPHQD++S RL+TLY++ + Q +LIVP T + R+ P FL + Sbjct: 70 LADWETLPYDSFSPHQDIISSRLSTLYQLPTMQRGVLIVPVNTLMQRVCPHSFLHGHALV 129 Query: 137 FKQGEKLDEGKLKSQLTLAGYTHVGQVMSPGEYSVRGGLIDIFPMGSVLPYRLDLFGDTI 196 K+G++L L++QL AGY HV QVM GEY+ RG L+D+FPMGS LPYRLD F D I Sbjct: 130 MKKGQRLSRDALRTQLDSAGYRHVDQVMEHGEYATRGALLDLFPMGSELPYRLDFFDDEI 189 Query: 197 ETIRTFDADTQRSLYPVPEVRLLPGREFPMDEVSRLAFRNRWREVFEGDPSRSAIYKDIG 256 +++R FD D+QR+L V + LLP EFP D+ + FR++WR+ FE IY+ + Sbjct: 190 DSLRVFDVDSQRTLEEVEAINLLPAHEFPTDKAAIELFRSQWRDTFEVKRDPEHIYQQVS 249 Query: 257 NGIASAGIEYYLPLFFEE-TATLFQYLPANAMFATVGDIEQAIKRFWSDTRSRWNFLHAD 315 G AGIEY+ PLFF E LF Y PAN + GD+E + +RF +DT +R+ D Sbjct: 250 KGTLPAGIEYWQPLFFSEPLPPLFSYFPANTLLVNTGDLETSAERFQADTLARFENRGVD 309 Query: 316 RERPVLEPQAIYLDDEDFFTLLKPHARWVLKTDDAPSAIS------APLPNIAVNRRADD 369 RP+L PQ+++L ++ F+ LK R LKT+ P+ + LP++AV + Sbjct: 310 PMRPLLPPQSLWLRVDELFSELKNWPRVQLKTEHLPTKAANANLGFQKLPDLAVQAQQKA 369 Query: 370 PLVNLRSFLLKGAERVLICAESNGRRETLQQYFAEYDLHPVLCEDWNGFLASDEPLMLGV 429 PL LR FL V+ ES GRRE L + A + P + ASD L + Sbjct: 370 PLDALRKFLETFDGPVVFSVESEGRREALGELLARIKIAPQRIMRLDE--ASDRGRYLMI 427 Query: 430 APLHAGFV-TAAGLALVTETELYAGSGRRVGSRKQQAATDV--EYMVRDLSELKIGDPVV 486 GFV T LAL+ E++L G RV R+Q + + + ++R+L+EL IG PVV Sbjct: 428 GAAEHGFVDTVRNLALICESDLL---GERVARRRQDSRRTINPDTLIRNLAELHIGQPVV 484 Query: 487 HSSHGIGRYMGLVSMDLGEGETEFLHLEYAKETKLYVPVSQLHVISRYSGASPEDAPLHA 546 H HG+GRY G+ +++ G E+L L YA + KLYVPVS LH+ISRY+G + E+APLH Sbjct: 485 HLEHGVGRYAGMTTLEAGGITGEYLMLTYANDAKLYVPVSSLHLISRYAGGAEENAPLHK 544 Query: 547 LGSGQWEKAKRKAAQQVRDTAAELLNLYARRALRQGHAFQYSAHDYEAFADSFGFEETAD 606 LG W +A++KAA++VRD AAELL++YA+RA ++G AF++ Y+ F DSF FE T D Sbjct: 545 LGGDAWSRARQKAAEKVRDVAAELLDIYAQRAAKEGFAFKHDREQYQLFCDSFPFETTPD 604 Query: 607 QAAAINAVIKDMTGGKPMDRLICGDVGFGKTEVALRAAFVAVMGGKQVAILAPTTLLAEQ 666 QA AINAV+ DM MDRL+CGDVGFGKTEVA+RAAF+AV KQVA+L PTTLLA+Q Sbjct: 605 QAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVDNHKQVAVLVPTTLLAQQ 664 Query: 667 HAATFADRFANWPVKIAELSRFRTGKEVTQAIKGLGDGTIDIVIGTHKLLSDEVKFSRLG 726 H F DRFANWPV+I +SRFR+ KE TQ + + +G IDI+IGTHKLL +VKF LG Sbjct: 665 HYDNFRDRFANWPVRIEMISRFRSAKEQTQILAEVAEGKIDILIGTHKLLQSDVKFKDLG 724 Query: 727 LVIIDEEHRFGVRQKEALKSLRAEVDVLTLTATPIPRTLGMALEGLRDFSVIATAPQKRL 786 L+I+DEEHRFGVR KE +K++RA VD+LTLTATPIPRTL MA+ G+RD S+IAT P +RL Sbjct: 725 LLIVDEEHRFGVRHKERIKAMRANVDILTLTATPIPRTLNMAMSGMRDLSIIATPPARRL 784 Query: 787 AIKTFVRAEQESTIREACLRELKRGGQVYFLHNEVETIANRKAELEQLLPEARIGVAHGQ 846 A+KTFVR +REA LRE+ RGGQVY+L+N+VE I L +L+PEARI + HGQ Sbjct: 785 AVKTFVREYDSMVVREAILREILRGGQVYYLYNDVENIQKAAERLAELVPEARIAIGHGQ 844 Query: 847 MHERDLEKVMRDFVAQRFNILLCTTIIETGIDVPTANTIIMHRADKFGLAQLHQLRGRVG 906 M ER+LE+VM DF QRFN+L+CTTIIETGID+PTANTII+ RAD FGLAQLHQLRGRVG Sbjct: 845 MRERELERVMNDFHHQRFNVLVCTTIIETGIDIPTANTIIIERADHFGLAQLHQLRGRVG 904 Query: 907 RSHHQAYAYLLVQDVQGLSKQAQRRLEAIQQMEELGSGFYLAMHDLEIRGAGEVLGDHQS 966 RSHHQAYA+LL + ++ AQ+RLEAI +E+LG+GF LA HDLEIRGAGE+LG+ QS Sbjct: 905 RSHHQAYAWLLTPHPKAMTTDAQKRLEAIASLEDLGAGFALATHDLEIRGAGELLGEEQS 964 Query: 967 GEIHEIGFQMYSDMLNEAVRALKDGREPDLAAPLSTTTEINLHAPALLPNDFCGDVHERL 1026 G + IGF +Y ++L AV ALK GREP L S TE+ L P+LLP+DF DV+ RL Sbjct: 965 GSMETIGFSLYMELLENAVDALKAGREPSLEDLTSQQTEVELRMPSLLPDDFIPDVNTRL 1024 Query: 1027 SLYKRLANCEKSDAIDALQEELIDRFGKLPDAAKALIETHRLRIAAKPLGIIKIDAHSEA 1086 S YKR+A+ + + ++ ++ ELIDRFG LPD A+ L++ RLR A+ LGI K++ + + Sbjct: 1025 SFYKRIASAKTENELEEIKVELIDRFGLLPDPARTLLDIARLRQQAQKLGIRKLEGNEKG 1084 Query: 1087 ALLQFVPNPPIDAMRIIELVQKNRQ-VKLNGPDKLRITASMPDLNARVQQVKATMKAL 1143 +++F ++ +I L+QK Q +L+GP +L+ + + R++ V+ M+ L Sbjct: 1085 GVIEFAEKNHVNPAWLIGLLQKQPQHYRLDGPTRLKFIQDLSERKTRIEWVRQFMREL 1142