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= 0004.0036.p (1132 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... 1702 0.0 PA3002 [LK] COG1197 Transcription-repair coupling factor (superf... 1147 0.0 VC1886 [LK] COG1197 Transcription-repair coupling factor (superf... 1095 0.0 PM1041 [LK] COG1197 Transcription-repair coupling factor (superf... 1095 0.0 ECs1492 [LK] COG1197 Transcription-repair coupling factor (super... 1082 0.0 >RSc1642 [LK] COG1197 Transcription-repair coupling factor (superfamily II helicase) Rso Ralstonia solanacearum Length = 1157 Score = 1702 bits (4407), Expect = 0.0, Method: Compositional matrix adjust. Identities = 834/1132 (73%), Positives = 947/1132 (83%), Gaps = 7/1132 (0%) Query: 2 RFQPPAVHGSADAYLLAQAALALKAEGRMLAVVVAGATDAQRLLAEIPWFQPKEGERLRC 61 RF + GSADA LLA+ + MLAVV A A DAQRL E+ WF P+ R Sbjct: 31 RFVFSGLQGSADALLLARYLAQHRDAVPMLAVVCANAVDAQRLADELRWFAPQA----RV 86 Query: 62 HLLPDWETLPYDAFSPHQDLVSERLATLYEVQSGQCDLLIVPATTALLRMAPPQFLAAYT 121 LLPDWETLPYD FSPHQDL+SERLATL+++Q G CDLL+VPA+TAL R+APP FLAAYT Sbjct: 87 KLLPDWETLPYDNFSPHQDLISERLATLHDLQGGACDLLLVPASTALQRIAPPSFLAAYT 146 Query: 122 FFFKQGEKLDEGKLKSQLTLAGYTHVGQVMSPGEYSVRGGLIDIFPMGSVLPYRLDLFGD 181 FFFK+GE+LDE LK+Q TLAGY HV VM PGEYSVRGGLID+FPMGS +PYRLDLFGD Sbjct: 147 FFFKKGERLDEAALKAQFTLAGYEHVSAVMRPGEYSVRGGLIDLFPMGSPMPYRLDLFGD 206 Query: 182 TIETIRTFDADTQRSLYPVPEVRLLPGREFPMDEASRLAFRNRWREVFEGDPSRSAIYKD 241 I+TIR FD DTQRSLYPV EVRLLPGREFPMDEA+R AFR RWREVFEGDP+R+ IYKD Sbjct: 207 EIDTIRAFDPDTQRSLYPVNEVRLLPGREFPMDEAARTAFRGRWREVFEGDPTRAPIYKD 266 Query: 242 IGNGIASAGIEYYLPLFFEETATLFQYLPANAMFATVGDIEQAIKRFWSDTRSRWTFLHA 301 IGNG+ SAGIEYYLPLFFE TATLF YLPA+A A VGDIE A++RFW+DT R+ F+ Sbjct: 267 IGNGVPSAGIEYYLPLFFETTATLFDYLPASAHLALVGDIESAVRRFWADTTQRYGFMRH 326 Query: 302 DRERPVLEPRVIYLDDEDFFTLLKPHARWVLKTDDAPSAISAPLPNIAVNRRAEDPLVNL 361 DR+RP+L P +YLD+E FF KPHAR VL+ + + +S PLP++AVNRRAEDPLVNL Sbjct: 327 DRDRPLLAPSALYLDEEAFFIAAKPHARLVLRAEPGEAPLSLPLPSVAVNRRAEDPLVNL 386 Query: 362 RSFLLKGAERVLICAESNGRRETLQQYFAEYDLHPALCDDWNDFLSGNEPLMLGVAPLHA 421 SFL +G RV+ICAES GRRETL Q A LHP D D + G+ +LGVAPL+ Sbjct: 387 ESFLTRGNCRVMICAESAGRRETLAQMLAASGLHPEGVADCADLMGGDARFVLGVAPLYQ 446 Query: 422 GFVTAGG-LALITETELYAGSGRRVGSRKQQAATDVEYMVRDLSELKIGDPVVHSSHGIG 480 GF+ +A ITETELYA + RR G RKQ+ AT V+ MVRDL+ELKIGDPVVHS HGIG Sbjct: 447 GFILGDERIAFITETELYAQALRRGGRRKQEQATAVDAMVRDLAELKIGDPVVHSEHGIG 506 Query: 481 RYMGLVSMDLGEGETEFLHLEYAKETKLYVPVSQLHVISRYSGASPEDAPLHALGSGQWE 540 RY GLVS+D+G GE EFLHL+Y K +KLYVPV QLHVISRYSGA P+ APLH LGSGQW+ Sbjct: 507 RYQGLVSIDMGNGEEEFLHLDYDKGSKLYVPVHQLHVISRYSGADPDTAPLHQLGSGQWD 566 Query: 541 KAKRKAAQQVRDTAAELLNLYARRALRQGHAFQYSAHDYEAFADSFGFEETADQAAAINA 600 KAKRKAAQQ+RDTAAELLNLYARRALRQG AF + +DYEAFA+SFGF+ET DQAAAI A Sbjct: 567 KAKRKAAQQIRDTAAELLNLYARRALRQGFAFPLAPNDYEAFAESFGFDETPDQAAAITA 626 Query: 601 VIKDMTGGKPMDRLICGDVGFGKTEVALRAAFVAVMGGKQVAILAPTTLLAEQHAATFAD 660 VI DMT GKPMDRL+CGDVGFGKTEVALRAAFVAVMGGKQVA+LAPTTLLAEQH T AD Sbjct: 627 VIADMTSGKPMDRLVCGDVGFGKTEVALRAAFVAVMGGKQVAMLAPTTLLAEQHYQTLAD 686 Query: 661 RFANWPVKIAELSRFRTGKEVTQAIKGLGDGTIDIVIGTHKLLSDEVKFSRLGLVIIDEE 720 RFA+WPV+IAE+SRF+ KE+ AI+ + GTIDIVIGTHKLLS +VKF+RLGLVIIDEE Sbjct: 687 RFADWPVRIAEISRFKNKKEIDAAIEAINAGTIDIVIGTHKLLSPDVKFNRLGLVIIDEE 746 Query: 721 HRFGVRQKEALKSLRAEVDVLTLTATPIPRTLGMALEGLRDFSVIATAPQKRLAIKTFVR 780 HRFGVRQKEALK+LRAEVDVLTLTATPIPRTLGMALEGLRDFSVIATAPQKRLAIKTFVR Sbjct: 747 HRFGVRQKEALKTLRAEVDVLTLTATPIPRTLGMALEGLRDFSVIATAPQKRLAIKTFVR 806 Query: 781 AEQESTIREACLRELKRGGQVYFLHNEVETIANRKAALEQLLPEARIGIAHGQMHERDLE 840 E++ +REA LRELKRGGQVYFLHNEVETI N++A LE+L+PEAR+ +AHGQMHER+LE Sbjct: 807 REEDGVLREAILRELKRGGQVYFLHNEVETIENKRAKLEELVPEARVAVAHGQMHERELE 866 Query: 841 KVMRDFVAQRFNILLCTTIIETGIDVPTANTIIMHRADKFGLAQLHQLRGRVGRSHHQAY 900 +VMRDFVAQR NILLCTTIIETGIDVPTANTI++HRADKFGLAQLHQLRGRVGRSHHQAY Sbjct: 867 RVMRDFVAQRANILLCTTIIETGIDVPTANTILIHRADKFGLAQLHQLRGRVGRSHHQAY 926 Query: 901 AYLLVQDVQGLSKQAQRRLEAIQQMEELGSGFYLAMHDLEIRGAGEVLGDHQSGEIHEIG 960 AYLLV D GL+KQ+QRRLEAIQQMEELGSGFYLAMHDLEIRGAGEVLGD QSGEI EIG Sbjct: 927 AYLLVHDADGLTKQSQRRLEAIQQMEELGSGFYLAMHDLEIRGAGEVLGDKQSGEISEIG 986 Query: 961 FQMYSDMLNEAVRALKDGREPDLAAPLSTTTEINLHAPALLPNDFCGDVHERLSLYKRFA 1020 FQ+Y+DMLN+AV++LK G+EPDL APL+ TTEINL PALLP+D+CGDV ERLSLYKR A Sbjct: 987 FQLYTDMLNQAVKSLKAGKEPDLMAPLAATTEINLGTPALLPSDYCGDVQERLSLYKRLA 1046 Query: 1021 NCEKADAIDALQEELIDRFGKLPDAAKALIETHRLRIAAKPLGIIKIDAHSEAALLQFVP 1080 NCE + ID +QEELIDRFGKLP A++LIETHRLRIAA PLGI KID ++A LQFVP Sbjct: 1047 NCESGETIDNIQEELIDRFGKLPPQAQSLIETHRLRIAAVPLGIRKIDTGADAVTLQFVP 1106 Query: 1081 NPPIDAMRIIELVQKNRQVKLNGPDKLRITANMP-DLNARVQQVKATMKALT 1131 NPP+DA++II LVQKNRQ+KL G D+LRI N+P + A Q ++ TM+ LT Sbjct: 1107 NPPVDAIKIINLVQKNRQIKLAGQDRLRIE-NIPAETAALAQAIRQTMRQLT 1157 >PA3002 [LK] COG1197 Transcription-repair coupling factor (superfamily II helicase) Pae Pseudomonas aeruginosa Length = 1148 Score = 1147 bits (2968), Expect = 0.0, Method: Compositional matrix adjust. Identities = 586/1132 (51%), Positives = 786/1132 (69%), Gaps = 20/1132 (1%) Query: 10 GSADAYLLAQAALALKAEGRMLAVVVAGATDAQRLLAEIPWFQPKEGERLRCHLLPDWET 69 G+A + +A+AA + K R ++ A + +A+RL E+ +F P L PDWET Sbjct: 23 GAALSLAVAEAASSAK---RFTLLLTADSQNAERLEQELRFFAPD----LPVLHFPDWET 75 Query: 70 LPYDAFSPHQDLVSERLATLYEVQSGQCDLLIVPATTALLRMAPPQFLAAYTFFFKQGEK 129 LPYD FSPHQD++S+R+A LY++ + +L+VP +TAL R+AP +FL + G+K Sbjct: 76 LPYDVFSPHQDIISQRIAALYQLPQLKHGVLVVPISTALHRLAPTRFLLGSSLVLDVGQK 135 Query: 130 LDEGKLKSQLTLAGYTHVGQVMSPGEYSVRGGLIDIFPMGSVLPYRLDLFGDTIETIRTF 189 LD +++ +L AGY V V GE++VRG LID+FPMGS LP+R+DLF D IET+RTF Sbjct: 136 LDVERMRLRLEGAGYRCVDTVYEHGEFAVRGALIDLFPMGSELPFRIDLFDDEIETLRTF 195 Query: 190 DADTQRSLYPVPEVRLLPGREFPMDEASRLAFRNRWREVFEGDPSRSAIYKDIGNGIASA 249 D +TQRS+ V +RLLP REFP+++ + FR R+RE F+ D R IY+D+ +G+ + Sbjct: 196 DPETQRSIDKVESIRLLPAREFPLNKEAVTGFRGRFRERFDVDYRRCPIYQDLASGLTPS 255 Query: 250 GIEYYLPLFFEETATLFQYLPANAMFATVGDIEQAIKRFWSDTRSRWTFLHADRERPVLE 309 GIEYYLPLFFEETATLF YLP + ++ IEQA ++FW+D RSR+ D ERP+L Sbjct: 256 GIEYYLPLFFEETATLFDYLPQDTQVFSLPGIEQAAEQFWNDVRSRYEDRRVDPERPLLP 315 Query: 310 PRVIYLDDEDFFTLLKPHARWVLKTDDAPSAI------SAPLPNIAVNRRAEDPLVNLRS 363 P ++L ED F LK R V +D + + PLPN+A+ +A +PL LR Sbjct: 316 PAEVFLPVEDCFARLKNWPRVVASQEDVEPGVGRERFPALPLPNLAIEAKAAEPLAALRR 375 Query: 364 FLLKGAERVLICAESNGRRETLQQYFAEYDLHPALCDDWNDFLSGNEPLMLGVAPLHAGF 423 F+ + RVL CAES GRRE L + A L P D W FL+ L + +APL G Sbjct: 376 FIEEFPGRVLFCAESAGRREVLLELLARLKLRPEEVDGWPAFLASQARLAISIAPLDEGL 435 Query: 424 V-TAGGLALITETELYAGSGRRVGSRKQQAAT--DVEYMVRDLSELKIGDPVVHSSHGIG 480 + LAL+ E+ L+ G+RV R+++ T + ++++L+EL+ G PVVH HG+G Sbjct: 436 LLDHPALALVAESPLF---GQRVMQRRRREKTRDGGDAVIKNLTELREGAPVVHIDHGVG 492 Query: 481 RYMGLVSMDLGEGETEFLHLEYAKETKLYVPVSQLHVISRYSGASPEDAPLHALGSGQWE 540 RY+GL+++++ + EFL L+YA++ KLYVPV+ LH+I+RY+GA APLH LGS W+ Sbjct: 493 RYLGLITLEVDNQQAEFLMLQYAEDAKLYVPVANLHLIARYTGADDALAPLHRLGSETWQ 552 Query: 541 KAKRKAAQQVRDTAAELLNLYARRALRQGHAFQYSAHDYEAFADSFGFEETADQAAAINA 600 KAKRKAA+QVRD AAELL++YARRA R+G AF+ DY F+ F FEET DQ +AI A Sbjct: 553 KAKRKAAEQVRDVAAELLDIYARRAAREGFAFKDPQADYATFSAGFPFEETPDQQSAIEA 612 Query: 601 VIKDMTGGKPMDRLICGDVGFGKTEVALRAAFVAVMGGKQVAILAPTTLLAEQHAATFAD 660 V+ DM +PMDRL+CGDVGFGKTEVA+RAAFVAV GKQVA+L PTTLLA+QH +F D Sbjct: 613 VVADMLAPRPMDRLVCGDVGFGKTEVAMRAAFVAVHSGKQVAVLVPTTLLAQQHYNSFRD 672 Query: 661 RFANWPVKIAELSRFRTGKEVTQAIKGLGDGTIDIVIGTHKLLSDEVKFSRLGLVIIDEE 720 RFA+WPV + +SRF++ KEV A + L +G IDI+IGTHKLL ++VKF+ LGLV+IDEE Sbjct: 673 RFADWPVSVEVMSRFKSAKEVENAARLLAEGKIDILIGTHKLLQEDVKFANLGLVVIDEE 732 Query: 721 HRFGVRQKEALKSLRAEVDVLTLTATPIPRTLGMALEGLRDFSVIATAPQKRLAIKTFVR 780 HRFGVRQKE LK+LR+EVD+LTLTATPIPRTL MA+ G+RD S+IAT P +RL+++TFV Sbjct: 733 HRFGVRQKEQLKALRSEVDILTLTATPIPRTLNMAVSGMRDLSIIATPPARRLSVRTFVM 792 Query: 781 AEQESTIREACLRELKRGGQVYFLHNEVETIANRKAALEQLLPEARIGIAHGQMHERDLE 840 +Q + I+EA LREL RGGQVY+LHNEV+TI L +L+PEARIGI HGQMHER+LE Sbjct: 793 EQQNAVIKEALLRELLRGGQVYYLHNEVKTIEKCARDLAELVPEARIGIGHGQMHERELE 852 Query: 841 KVMRDFVAQRFNILLCTTIIETGIDVPTANTIIMHRADKFGLAQLHQLRGRVGRSHHQAY 900 +VM DF +RFN+L+ +TIIETGIDVP+ANTI++ RADKFGLAQLHQLRGRVGRSHHQAY Sbjct: 853 QVMSDFYHKRFNVLVASTIIETGIDVPSANTILIERADKFGLAQLHQLRGRVGRSHHQAY 912 Query: 901 AYLLVQDVQGLSKQAQRRLEAIQQMEELGSGFYLAMHDLEIRGAGEVLGDHQSGEIHEIG 960 AYLL + ++ A++RLEAI ++LG+GF LA HDLEIRGAGE+LGD QSG+I +G Sbjct: 913 AYLLTPPRRQMTPDAEKRLEAIANAQDLGAGFVLATHDLEIRGAGELLGDGQSGQIQAVG 972 Query: 961 FQMYSDMLNEAVRALKDGREPDLAAPLSTTTEINLHAPALLPNDFCGDVHERLSLYKRFA 1020 F +Y +ML AV+A++ G +P+L PL E+NL PAL+P D+ DVH RL LYKR A Sbjct: 973 FTLYMEMLERAVKAIRKGEQPNLEQPLGGGPEVNLRVPALIPEDYLPDVHARLILYKRIA 1032 Query: 1021 NCEKADAIDALQEELIDRFGKLPDAAKALIETHRLRIAAKPLGIIKIDAHSEAALLQFVP 1080 N + + LQ E+IDRFG LPD AK L+ L++ A+ LGI+K+DA + ++F Sbjct: 1033 NAPDEEGLRELQVEMIDRFGLLPDPAKNLMRLTLLKLQAEKLGILKVDAGPQGGRIEFAA 1092 Query: 1081 NPPIDAMRIIELVQ-KNRQVKLNGPDKLRITANMPDLNARVQQVKATMKALT 1131 + +D + +I+L+Q + + K G R M R ++A + LT Sbjct: 1093 DTQVDPLVLIKLIQGQPNRYKFEGATLFRFQVPMERPEERFNTLEALFERLT 1144 >VC1886 [LK] COG1197 Transcription-repair coupling factor (superfamily II helicase) Vch Vibrio cholerae Length = 1155 Score = 1095 bits (2833), Expect = 0.0, Method: Compositional matrix adjust. Identities = 564/1135 (49%), Positives = 755/1135 (66%), Gaps = 27/1135 (2%) Query: 8 VHGSADAYLLAQAALALKAEGRMLAVVVAGATDAQRLLAEIPWFQPKEGERLRCHLLPDW 67 +HG++ A +A+ A A + V A +LL E+ F E L PDW Sbjct: 24 LHGASLALAIAELA---NAHTSHTLLAVPDPQTALKLLHEVEQFSHSE-----VALFPDW 75 Query: 68 ETLPYDAFSPHQDLVSERLATLYEVQSGQCDLLIVPATTALLRMAPPQFLAAYTFFFKQG 127 ETLPYD FSPHQD++S+R++ LY++ S + IVP +T L R +P FL +T K+G Sbjct: 76 ETLPYDNFSPHQDIISDRISRLYQLPSLTRGITIVPVSTLLQRQSPRDFLLQHTLIVKRG 135 Query: 128 EKLDEGKLKSQLTLAGYTHVGQVMSPGEYSVRGGLIDIFPMGSVLPYRLDLFGDTIETIR 187 + KL+ QL + Y HV QV PGEY+ RG ++D+FPMGS P+R+D F D I+TIR Sbjct: 136 DHFSLDKLRLQLENSSYRHVDQVFGPGEYASRGSILDLFPMGSSDPFRIDFFDDEIDTIR 195 Query: 188 TFDADTQRSLYPVPEVRLLPGREFPMDEASRLAFRNRWREVFEGDPSRSAIYKDIGNGIA 247 TFD D QRS+ + E+RLLP EFP A+ FRNRWR+ FE ++Y + G Sbjct: 196 TFDPDNQRSIAEMDEIRLLPAHEFPTTAAAIEEFRNRWRQRFEARREPESVYSQVSKGTW 255 Query: 248 SAGIEYYLPLFFEETATLFQYLPANAMFATVGDIEQAIKRFWSDTRSRWTFLHADRERPV 307 AGIEY+ PLFFE + TLF YLPAN+ VG++E+AI +F +D R+ + D RP+ Sbjct: 256 PAGIEYWQPLFFEHSETLFDYLPANSQLLVVGELEKAIDQFLTDVDYRYDQRNIDPLRPL 315 Query: 308 LEPRVIYLDDEDFFTLLKPHARWVLKTDDAPSAISA--------PLPNIAVNRRAEDPLV 359 L P ++L ++ F K + L + +P + A PLP +AV + ++PL Sbjct: 316 LPPNELWLRKDELFAHFKTLPQVQLTS--SPIELRAGRMNAQVQPLPVLAVEHQNKEPLA 373 Query: 360 NLRSFLLKGAERVLICAESNGRRETLQQYFAEYDLHPALCDDWNDFLSGNEPLMLGVAPL 419 LR F + +++ ES GRRE L + L P +D++ E L + Sbjct: 374 ALRQFSEQFTGKIIFSVESEGRREALLELLQRIKLRPQSQNDFSLACQQTEKYSLVLGSA 433 Query: 420 HAGFVTAGG-LALITETELYAGSGRRVGSRKQQA----ATDVEYMVRDLSELKIGDPVVH 474 GF+ +ALI E++L G RV R+++ T+ + ++R+L+ELK G PVVH Sbjct: 434 ERGFIYGDNQVALICESDLL---GDRVIQRRRKKDRKNVTNSDAVIRNLAELKPGQPVVH 490 Query: 475 SSHGIGRYMGLVSMDLGEGETEFLHLEYAKETKLYVPVSQLHVISRYSGASPEDAPLHAL 534 HGIGRY+GL +++ G +E++ LEY E KLYVPVS L++ISRYSG + E A LH L Sbjct: 491 IDHGIGRYLGLQTLEAGGMVSEYVMLEYQNEAKLYVPVSSLNLISRYSGGAEEAAQLHKL 550 Query: 535 GSGQWEKAKRKAAQQVRDTAAELLNLYARRALRQGHAFQYSAHDYEAFADSFGFEETADQ 594 G W KA+RKAA++VRD AAELL++YA+R ++ G F Y F +F FEET DQ Sbjct: 551 GGEAWVKARRKAAEKVRDVAAELLDVYAKREIKPGFKFHLDREQYATFKATFPFEETDDQ 610 Query: 595 AAAINAVIKDMTGGKPMDRLICGDVGFGKTEVALRAAFVAVMGGKQVAILAPTTLLAEQH 654 A AINAV+ DM K MDRL+CGDVGFGKTEVA+RAAFVA GKQVA+L PTTLLA+QH Sbjct: 611 AMAINAVLSDMCQAKAMDRLVCGDVGFGKTEVAMRAAFVATDNGKQVAVLVPTTLLAQQH 670 Query: 655 AATFADRFANWPVKIAELSRFRTGKEVTQAIKGLGDGTIDIVIGTHKLLSDEVKFSRLGL 714 F DRFAN P+++ LSRF++ KE Q ++ + DG +DI++GTHKLLS E++F+ LGL Sbjct: 671 FENFRDRFANLPIRVEVLSRFKSAKEQKQILQDVADGKVDILVGTHKLLSSEIRFADLGL 730 Query: 715 VIIDEEHRFGVRQKEALKSLRAEVDVLTLTATPIPRTLGMALEGLRDFSVIATAPQKRLA 774 +I+DEEHRFGVRQKE +K++RA+VD+LTLTATPIPRTL MA+ G+RD S+IAT P +RLA Sbjct: 731 LIVDEEHRFGVRQKEKVKAMRADVDILTLTATPIPRTLNMAMSGMRDLSIIATPPARRLA 790 Query: 775 IKTFVRAEQESTIREACLRELKRGGQVYFLHNEVETIANRKAALEQLLPEARIGIAHGQM 834 IKTFVR ++S IREA LRE+ RGGQVYFLHN+VETI A LE+L+PEARI +AHGQM Sbjct: 791 IKTFVRQSEDSVIREAVLREIMRGGQVYFLHNQVETIDKVAADLEKLVPEARITVAHGQM 850 Query: 835 HERDLEKVMRDFVAQRFNILLCTTIIETGIDVPTANTIIMHRADKFGLAQLHQLRGRVGR 894 ER+LEKVM DF QRFN+L+CTTIIETGIDVPTANTIIM RAD GLAQLHQLRGRVGR Sbjct: 851 RERELEKVMNDFYHQRFNLLVCTTIIETGIDVPTANTIIMDRADSLGLAQLHQLRGRVGR 910 Query: 895 SHHQAYAYLLVQDVQGLSKQAQRRLEAIQQMEELGSGFYLAMHDLEIRGAGEVLGDHQSG 954 SHHQAYAYLL + ++K A +RLEAI +E+LG+GF LA HDLEIRGAGE+LG+ QSG Sbjct: 911 SHHQAYAYLLTPPPKAITKDAVKRLEAIASLEDLGAGFTLATHDLEIRGAGELLGEEQSG 970 Query: 955 EIHEIGFQMYSDMLNEAVRALKDGREPDLAAPLSTTTEINLHAPALLPNDFCGDVHERLS 1014 +I +GF +Y +ML +AV ALK G+EP L L TE+ + PALLP ++ D++ RLS Sbjct: 971 QIQSVGFTLYMEMLEQAVEALKSGKEPALDDLLREQTEVEMRLPALLPEEYIPDINTRLS 1030 Query: 1015 LYKRFANCEKADAIDALQEELIDRFGKLPDAAKALIETHRLRIAAKPLGIIKIDAHSEAA 1074 +YK+ A+ D + L+ ELIDRFGKLPDAA L+ L++ A L + KI+AH Sbjct: 1031 MYKQIASVASKDELAELKVELIDRFGKLPDAALNLLAIAELKLNAMRLKVRKIEAHERGG 1090 Query: 1075 LLQFVPNPPIDAMRIIELVQKN-RQVKLNGPDKLRITANMPDLNARVQQVKATMK 1128 ++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 = 1095 bits (2831), Expect = 0.0, Method: Compositional matrix adjust. Identities = 562/1132 (49%), Positives = 745/1132 (65%), Gaps = 28/1132 (2%) Query: 14 AYLLAQAALALKAEGRMLAVVVAGATDAQRLLAEIPWFQPKEGERLRCHLLPDWETLPYD 73 A LA + +A + G + VV A A RL + F L PDWETLPYD Sbjct: 27 ADCLAISQIAQQYSG-LTVVVTADTRSAVRLEKVLAQFSS-----LPVTFFPDWETLPYD 80 Query: 74 AFSPHQDLVSERLATLYEVQSGQCDLLIVPATTALLRMAPPQFLAAYTFFFKQGEKLDEG 133 AFSPHQD++S RL+ L ++Q Q ++I+P +T + R+ PP FL K+ ++L Sbjct: 81 AFSPHQDIISSRLSALSQLQHCQKGIVILPISTLMQRLCPPTFLHHNLLLVKKSDRLQIN 140 Query: 134 KLKSQLTLAGYTHVGQVMSPGEYSVRGGLIDIFPMGSVLPYRLDLFGDTIETIRTFDADT 193 KL+ QL AGY V QV+ GEY+VRG L+D+FPMGS +P+RLD F D I++IRTFD DT Sbjct: 141 KLRLQLESAGYRAVEQVLEHGEYAVRGALLDLFPMGSAVPFRLDFFDDEIDSIRTFDVDT 200 Query: 194 QRSLYPVPEVRLLPGREFPMDEASRLAFRNRWREVF---EGDPSRSAIYKDIGNGIASAG 250 QR+L + + LLP EFP DE S FR ++RE F DP IY+ + G +G Sbjct: 201 QRTLEEIQAINLLPAHEFPTDEKSIEFFRTQFRETFGEIRRDPEH--IYQQVSKGTLISG 258 Query: 251 IEYYLPLFFEETATLFQYLPANAMFATVGDIEQAIKRFWSDTRSRWTFLHADRERPVLEP 310 IEY+ PLFFE+ A+LF YLP N ++ VGDI++ RF+ D R+ D RP+L P Sbjct: 259 IEYWQPLFFEQMASLFDYLPKNTLWLDVGDIQEQGTRFYQDAEQRYESRKVDPMRPLLPP 318 Query: 311 RVIYLDDEDFFTLLKPHARWVLKTDDAPSAISA------PLPNIAVNRRAEDPLVNLRSF 364 ++L E+ +LK + R K D S+ PLP +A+ + ++PL LR F Sbjct: 319 DRLWLRLEEINRILKQYPRISFKLDKVRSSARQKNLAVQPLPTLAIQSQHKEPLQQLRQF 378 Query: 365 LLKGAERVLICAESNGRRETLQQYFAEYDLHPALCDDWNDFLSGNEPLMLGVAPLHAGFV 424 + +++ ES GRRETL + + P ++ +E + ++ L GF+ Sbjct: 379 SDQFKGKIVFSVESEGRRETLLDLLSPLKIKPQKLTALSNI---SEKCNVLISGLENGFI 435 Query: 425 TAGG--LALITETELYAGSGRRVG--SRKQQAATDVEYMVRDLSELKIGDPVVHSSHGIG 480 +A++TETEL G RV SR ++ + + + ++R+L+ELKIG PVVH HG+G Sbjct: 436 IDNDQPIAVMTETELL---GERVQQRSRDKRKSVNPDTLIRNLAELKIGQPVVHLDHGVG 492 Query: 481 RYMGLVSMDLGEGETEFLHLEYAKETKLYVPVSQLHVISRYSGASPEDAPLHALGSGQWE 540 RY GLV+++ G E+L L YA E+KLYVPVS LH+ISRY G + E APLH LGS W Sbjct: 493 RYAGLVTLENGGITAEYLLLNYANESKLYVPVSSLHLISRYVGGADETAPLHKLGSDAWV 552 Query: 541 KAKRKAAQQVRDTAAELLNLYARRALRQGHAFQYSAHDYEAFADSFGFEETADQAAAINA 600 +A++KAA+++RD AAELL++YA+R ++G AF Y ++ FA +F FEET DQ AINA Sbjct: 553 RARQKAAEKIRDVAAELLDVYAQREAQKGFAFHYDREAFQQFAATFPFEETVDQEMAINA 612 Query: 601 VIKDMTGGKPMDRLICGDVGFGKTEVALRAAFVAVMGGKQVAILAPTTLLAEQHAATFAD 660 VI DM K MDRL+CGDVGFGKTEVA+RAAF+AVM KQVA+L PTTLLA+QH F D Sbjct: 613 VIADMCQAKAMDRLVCGDVGFGKTEVAMRAAFLAVMNHKQVAVLVPTTLLAQQHFENFKD 672 Query: 661 RFANWPVKIAELSRFRTGKEVTQAIKGLGDGTIDIVIGTHKLLSDEVKFSRLGLVIIDEE 720 RFAN P+ + LSRF+T KE ++ L +G +DI+IGTHKL+ +V+F LGL++IDEE Sbjct: 673 RFANLPINVEVLSRFKTAKEQKVVLQNLAEGKVDILIGTHKLIQSDVQFKDLGLLVIDEE 732 Query: 721 HRFGVRQKEALKSLRAEVDVLTLTATPIPRTLGMALEGLRDFSVIATAPQKRLAIKTFVR 780 HRFGVRQKE +K LRA +D+LTLTATPIPRTL MA+ G+RD S+I+T P +RL IKTFV+ Sbjct: 733 HRFGVRQKERIKQLRANIDILTLTATPIPRTLNMAMHGIRDLSIISTPPARRLTIKTFVK 792 Query: 781 AEQESTIREACLRELKRGGQVYFLHNEVETIANRKAALEQLLPEARIGIAHGQMHERDLE 840 ES IREA LRE+ RGGQVY+LHN+V +I N L L+PEAR+ I HGQM ER+LE Sbjct: 793 QSDESVIREAILREILRGGQVYYLHNDVASIENCAEKLRTLVPEARVTIGHGQMRERELE 852 Query: 841 KVMRDFVAQRFNILLCTTIIETGIDVPTANTIIMHRADKFGLAQLHQLRGRVGRSHHQAY 900 +VM DF QRFN+L+C+TIIETGIDVPTANTII+ RAD FGLAQLHQLRGRVGRSHHQAY Sbjct: 853 RVMSDFYHQRFNVLVCSTIIETGIDVPTANTIIIERADNFGLAQLHQLRGRVGRSHHQAY 912 Query: 901 AYLLVQDVQGLSKQAQRRLEAIQQMEELGSGFYLAMHDLEIRGAGEVLGDHQSGEIHEIG 960 AYLL ++ ++K AQ+RLEA++ ++ LG+GF LA HDLEIRGAGE+LG QSG+I IG Sbjct: 913 AYLLTPPIKAMTKDAQKRLEALESLDNLGAGFILATHDLEIRGAGELLGSEQSGQIESIG 972 Query: 961 FQMYSDMLNEAVRALKDGREPDLAAPLSTTTEINLHAPALLPNDFCGDVHERLSLYKRFA 1020 F +Y D+L AV ALK GREP L EI+L PALLP D+ GDV+ RLS YKR A Sbjct: 973 FSLYMDLLESAVNALKAGREPSLEELTQQQVEIDLRLPALLPEDYLGDVNIRLSFYKRIA 1032 Query: 1021 NCEKADAIDALQEELIDRFGKLPDAAKALIETHRLRIAAKPLGIIKIDAHSEAALLQFVP 1080 E +D L+ ELIDRFG+LP+A +L LR AK + I KIDA+++ ++F Sbjct: 1033 GAENKPELDELKVELIDRFGRLPEATTSLFRIAELRQLAKKIQIQKIDANAQGGFIEFAS 1092 Query: 1081 NPPIDAMRIIELVQKNRQV-KLNGPDKLRITANMPDLNARVQQVKATMKALT 1131 N +D M+ ++L+Q V + +GP K R + R+ V+ +K L+ Sbjct: 1093 NADLDPMKFLQLIQTEPSVYRFDGPTKFRFSKTFEGHKVRLDFVENLVKGLS 1144 >ECs1492 [LK] COG1197 Transcription-repair coupling factor (superfamily II helicase) Ecs Escherichia coli O157:H7 Length = 1148 Score = 1082 bits (2797), Expect = 0.0, Method: Compositional matrix adjust. Identities = 566/1135 (49%), Positives = 753/1135 (66%), Gaps = 30/1135 (2%) Query: 10 GSADAYLLAQAALALKAEGRMLAVVVAGATDAQ---RLLAEIPWFQPKEGERLRCHLLPD 66 G+A A L+A+ A R VV A D Q RL EI F + L D Sbjct: 24 GAACATLVAEIA------ERHAGPVVLIAPDMQNALRLHDEISQFTDQ-----MVMNLAD 72 Query: 67 WETLPYDAFSPHQDLVSERLATLYEVQSGQCDLLIVPATTALLRMAPPQFLAAYTFFFKQ 126 WETLPYD+FSPHQD++S RL+TLY++ + Q +LIVP T + R+ P FL + ++ Sbjct: 73 WETLPYDSFSPHQDIISSRLSTLYQLPTMQRGVLIVPVNTLMQRVCPHSFLHGHALVMEK 132 Query: 127 GEKLDEGKLKSQLTLAGYTHVGQVMSPGEYSVRGGLIDIFPMGSVLPYRLDLFGDTIETI 186 G++L L++QL AGY HV QVM GEY+ RG L+D+FPMGS LPYRLD F D I+++ Sbjct: 133 GQRLSRDALRTQLDSAGYRHVDQVMEHGEYATRGALLDLFPMGSELPYRLDFFDDEIDSL 192 Query: 187 RTFDADTQRSLYPVPEVRLLPGREFPMDEASRLAFRNRWREVFEGDPSRSAIYKDIGNGI 246 R FD D+QR+L V + LLP EFP D+A+ FR++WR+ FE IY+ + G Sbjct: 193 RVFDVDSQRTLEEVEAINLLPAHEFPTDKAAIELFRSQWRDTFEVKRDPEHIYQQVSKGT 252 Query: 247 ASAGIEYYLPLFFEET-ATLFQYLPANAMFATVGDIEQAIKRFWSDTRSRWTFLHADRER 305 AGIEY+ PLFF E LF Y PAN + GD+E + +RF +DT +R+ D R Sbjct: 253 LPAGIEYWQPLFFSEPLPPLFSYFPANTLLVNTGDLENSAERFQADTLARFENRGVDPMR 312 Query: 306 PVLEPRVIYLDDEDFFTLLKPHARWVLKTDDAPSAIS------APLPNIAVNRRAEDPLV 359 P+L P+ ++L ++ F+ LK R LKT+ P+ + LP++AV + + PL Sbjct: 313 PLLPPQSLWLRVDELFSELKNWPRVQLKTEHLPTKAANANLGFQKLPDLAVQAQQKAPLD 372 Query: 360 NLRSFLLKGAERVLICAESNGRRETLQQYFAEYDLHPALCDDWNDFLSGNEPLMLGVAPL 419 LR FL V+ ES GRRE L + A + P ++ LM+G A Sbjct: 373 ALRKFLESFDGPVVFSVESEGRREALGELLARIKIAPQRIMRLDEASDRGRYLMIGAA-- 430 Query: 420 HAGFV-TAGGLALITETELYAGSGRRVGSRKQQAATDV--EYMVRDLSELKIGDPVVHSS 476 GFV T LALI E++L G RV R+Q + + + ++R+L+EL IG PVVH Sbjct: 431 EHGFVDTVRNLALICESDLL---GERVARRRQDSRRTINPDTLIRNLAELHIGQPVVHLE 487 Query: 477 HGIGRYMGLVSMDLGEGETEFLHLEYAKETKLYVPVSQLHVISRYSGASPEDAPLHALGS 536 HG+GRY G+ +++ G E+L L YA + KLYVPVS LH+ISRY+G + E+APLH LG Sbjct: 488 HGVGRYAGMTTLEAGGITGEYLMLTYANDAKLYVPVSSLHLISRYAGGAEENAPLHKLGG 547 Query: 537 GQWEKAKRKAAQQVRDTAAELLNLYARRALRQGHAFQYSAHDYEAFADSFGFEETADQAA 596 W +A++KAA++VRD AAELL++YA+RA ++G AF++ Y+ F DSF FE T DQA Sbjct: 548 DAWSRARQKAAEKVRDVAAELLDIYAQRAAKEGFAFKHDREQYQLFCDSFPFETTPDQAQ 607 Query: 597 AINAVIKDMTGGKPMDRLICGDVGFGKTEVALRAAFVAVMGGKQVAILAPTTLLAEQHAA 656 AINAV+ DM MDRL+CGDVGFGKTEVA+RAAF+AV KQVA+L PTTLLA+QH Sbjct: 608 AINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVDNHKQVAVLVPTTLLAQQHYD 667 Query: 657 TFADRFANWPVKIAELSRFRTGKEVTQAIKGLGDGTIDIVIGTHKLLSDEVKFSRLGLVI 716 F DRFANWPV+I LSRFR+ KE TQ + + +G IDI+IGTHKLL +VKF LGL+I Sbjct: 668 NFRDRFANWPVRIEMLSRFRSAKEQTQILAEVAEGKIDILIGTHKLLQSDVKFKDLGLLI 727 Query: 717 IDEEHRFGVRQKEALKSLRAEVDVLTLTATPIPRTLGMALEGLRDFSVIATAPQKRLAIK 776 +DEEHRFGVR KE +K++RA VD+LTLTATPIPRTL MA+ G+RD S+IAT P +RLA+K Sbjct: 728 VDEEHRFGVRHKERIKAMRANVDILTLTATPIPRTLNMAMSGMRDLSIIATPPARRLAVK 787 Query: 777 TFVRAEQESTIREACLRELKRGGQVYFLHNEVETIANRKAALEQLLPEARIGIAHGQMHE 836 TFVR +REA LRE+ RGGQVY+L+N+VE I L +L+PEARI I HGQM E Sbjct: 788 TFVREYDSLVVREAILREILRGGQVYYLYNDVENIQKAAERLAELVPEARIAIGHGQMRE 847 Query: 837 RDLEKVMRDFVAQRFNILLCTTIIETGIDVPTANTIIMHRADKFGLAQLHQLRGRVGRSH 896 R+LE+VM DF QRFN+L+CTTIIETGID+PTANTII+ RAD FGLAQLHQLRGRVGRSH Sbjct: 848 RELERVMNDFHHQRFNVLVCTTIIETGIDIPTANTIIIERADHFGLAQLHQLRGRVGRSH 907 Query: 897 HQAYAYLLVQDVQGLSKQAQRRLEAIQQMEELGSGFYLAMHDLEIRGAGEVLGDHQSGEI 956 HQAYA+LL + ++ AQ+RLEAI +E+LG+GF LA HDLEIRGAGE+LG+ QSG + Sbjct: 908 HQAYAWLLTPHPKAMTTDAQKRLEAIASLEDLGAGFALATHDLEIRGAGELLGEEQSGSM 967 Query: 957 HEIGFQMYSDMLNEAVRALKDGREPDLAAPLSTTTEINLHAPALLPNDFCGDVHERLSLY 1016 IGF +Y ++L AV ALK GREP L S TE+ L P+LLP+DF DV+ RLS Y Sbjct: 968 ETIGFSLYMELLENAVDALKAGREPSLEDLTSQQTEVELRMPSLLPDDFIPDVNTRLSFY 1027 Query: 1017 KRFANCEKADAIDALQEELIDRFGKLPDAAKALIETHRLRIAAKPLGIIKIDAHSEAALL 1076 KR A+ + + ++ ++ ELIDRFG LPD A+ L++ RLR A+ LGI K++ + + ++ Sbjct: 1028 KRIASAKTENELEEIKVELIDRFGLLPDPARTLLDIARLRQQAQKLGIRKLEGNEKGGVI 1087 Query: 1077 QFVPNPPIDAMRIIELVQKNRQ-VKLNGPDKLRITANMPDLNARVQQVKATMKAL 1130 +F ++ +I L+QK Q +L+GP +L+ ++ + R++ V+ M+ L Sbjct: 1088 EFAEKNHVNPAWLIGLLQKQPQHYRLDGPTRLKFIQDLSERKTRIEWVRQFMREL 1142