>TIGR00580 mfd transcription-repair coupling factor; InterPro: IPR004576 All proteins in this family for which functions are known are DNA-dependent ATPases that function in the process of transcription-coupled DNA repair in which the repair of the transcribed strand of actively transcribed genes is repaired at a higher rate than the repair of non-transcribed regions of the genome and than the non-transcribed strand of the same gene. A lesion in the template strand blocks the RNA polymerase complex (RNAP). The RNAP-DNA-RNA complex is specifically recognised by TcrF, which releases RNAP and the truncated transcript. The TcrF may replace RNAP at the lesion site and then recruit the UvrA/B/C repair system.; GO: 0003684 damaged DNA binding, 0005524 ATP binding, 0006281 DNA repair.

Probab=100.00 E-value=1.2e-42 Score=345.37 Aligned_cols=344 Identities=26% Similarity=0.345 Sum_probs=268.7 Q ss_pred CCC-CCCHHHHHHHHHHHHHHCCC-CCEEEEECCCCHHHHHHHHHHHHHHHHCC----CCEEEEECCCHHHHHHHHHHHC Q ss_conf 666-68837899999998752048-96199844753157999999999985146----8479971521001344555430 Q gi|254780619|r 195 SLP-ILDKNQQDVVEQVVPLCTKG-FAVSLISGVTGSGKTEVYLEIVAAVLHLG----KQVLILLPEISLTSAILERFQK 268 (731) Q Consensus 195 ~~~-~Lt~eQ~~a~~~i~~~~~~~-f~~~LL~GvTGSGKTEVYl~li~~~L~~G----kqvLiLvPEI~Lt~Q~~~rl~~ 268 (731) T Consensus 504 ~FPfeeT~DQ~~AI~eik~Dm~~~~~MDRL~CGDVGfGKTEVAmRAaFkAv~~gneylKQVavLVPTT~LA~QHf~tf~~ 583 (997) T TIGR00580 504 SFPFEETPDQLKAIEEIKADMESPRPMDRLVCGDVGFGKTEVAMRAAFKAVLDGNEYLKQVAVLVPTTILAQQHFETFKE 583 (997) T ss_pred HCCCCCCHHHHHHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCEECEEEEECCHHHHHHHHHHHHHH T ss_conf 38788977899999999997406898734652454885368888788876338782201168962704427778899999 Q ss_pred CC---CCEEEEEECCCCCHHHHHHHHHHHCCCCEEEEECCHHHH---HHHCCCEEEEEEECCCCCCHHCCCCCCCHHHHH Q ss_conf 38---976899623557235667899997199739994001211---001000136774055321000024432248999 Q gi|254780619|r 269 RF---GVKPAEWHSSLSTSMREKIWRQVARGAISVIVGVRSALF---LPFKKLGLIVIDEEHDISYKQEEGILYNARDMS 342 (731) Q Consensus 269 rF---~~~v~v~HS~ls~~eR~~~w~~i~~G~~~IVIGtRSAif---~P~~nLglIIvDEEHd~sykq~~~pry~aRdvA 342 (731) T Consensus 584 RF~~fPv~I~~LSRF~~~~E~~~iL~~la~G~iDI~IGTH-~lL~k~v~FKdLGLlIiDEEQRFGV~~KE~--------- 653 (997) T TIGR00580 584 RFANFPVTIELLSRFRSAKEKKEILKELASGKIDILIGTH-KLLQKDVKFKDLGLLIIDEEQRFGVKQKEK--------- 653 (997) T ss_pred HHCCCCEEEEECCCCCCCHHHHHHHHHHHCCCEEEEECCH-HHHCCCEEEECCCCEEEECCCCCCCCHHHH--------- T ss_conf 7378981687527756737899999997559422663010-412785468638646983143488311555--------- Q ss_pred HHHHHHCCCCEECCCCCCCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCEECCCCCCCCCCCCCCCH-HHHHHHHHHHCCC Q ss_conf 997511032100002454324677532123444124322367654332110222233222454798-9999998862265 Q gi|254780619|r 343 IVRGKIESFPVVLVSATPSIESRVNGISRRYHSVHLSTRYRNSALPHLQVIDMRGQTIAQGKSLSP-EMIDGIRHTLARN 421 (731) Q Consensus 343 ~~Ra~~~~~~lilgSATPSles~~~~~~g~~~~~~l~~R~~~~~~P~i~ivDm~~~~~~~~~~lS~-~l~~~i~~~l~~g 421 (731) T Consensus 654 -lK~~~~~VDvLtlsATPIPRTL~MSl~g~RdlS~I~TPP~~R-~pv~T~v----------~~~~~~~~~~AI~rEL~Rg 721 (997) T TIGR00580 654 -LKELKTSVDVLTLSATPIPRTLHMSLSGIRDLSIIATPPEDR-LPVRTFV----------MEYDDELVREAIRRELLRG 721 (997) T ss_pred -HCCCCCCCCEEEEECCCCHHHHHHHHHHHHHHHHCCCCCCCC-CCEEEEE----------ECCCHHHHHHHHHHHHCCC T ss_conf -300156765676337896055899987553322105788877-4248877----------4278689999999753139 Q ss_pred CEEEEEECCCCEEHHCCCCCCCCCCCCCCCCCEEEEECCCCCCEECHHHCCCCCCCCCCCCCCCCEECCCCCCHHHHHHH Q ss_conf 51799742220000002356543431014652012113578320000210244655566678741100135428998888 Q gi|254780619|r 422 EQTLLFLNRRGYAPLTLCQVCGNRLKCLHCSCWLVEHRSKKKLYCHQCGHSAIYSQSCVVCGSSGKMIACGFGIERIAEE 501 (731) Q Consensus 422 ~qvll~lnRrGya~~~~C~~Cg~~~~C~~C~~~l~~h~~~~~l~Ch~Cg~~~~~~~~Cp~Cg~~~~l~~~G~Gte~~~e~ 501 (731) T Consensus 722 GQvFyv~Nr---------------------------------------------------------ie----~i~~~~~~ 740 (997) T TIGR00580 722 GQVFYVHNR---------------------------------------------------------IE----SIEKLKTQ 740 (997) T ss_pred CEEEEEECC---------------------------------------------------------CC----CHHHHHHH T ss_conf 818998088---------------------------------------------------------13----57899999 Q ss_pred HHHCCCCCHHHHCCCCCCCCHHHHHHHHHHHCCCCCCEEEEEHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 52048520001023211358678999998621257657987044302311345201233000344310245578999998 Q gi|254780619|r 502 VCEYFPLARISILSSDLEGGGGRLQLQLSAIAKGEIDIIIGTQLVAKGHNFPRMSLVGVVDGDLGLTNADLRSSERTFQL 581 (731) Q Consensus 502 l~~~fp~~~v~~~d~d~~~~~~~~~~~~~~~~~~~~~ilvgTq~i~kg~~fp~v~lv~il~aD~~l~~pd~ra~E~~~ql 581 (731) T Consensus 741 l~~LVP~arIaiaHGqM~--e~eLE~~m~~F~~~~~~vLvcTTIIE~GIDIPnANTiIi~~AD~FGL-----------aQ 807 (997) T TIGR00580 741 LRELVPEARIAIAHGQMT--ENELEEVMLEFYKGEFDVLVCTTIIESGIDIPNANTIIIDRADKFGL-----------AQ 807 (997) T ss_pred HHHCCCCEEEEEEECCCC--HHHHHHHHHHHHCCCCCEEEEHHHHHCCCCHHHHHHHHHHHHCCCCH-----------HH T ss_conf 985084326788833568--45689999986268433013221465056410012686875211470-----------34 Q ss_pred HHHHHHCCCCCCCCCEEEEEECCCC---CHHH---HHHHHC----CHHHHHHHHHHHHHHCCC Q ss_conf 7543110256678868999932986---4888---999958----979999999999998188 Q gi|254780619|r 582 LSQVTGRAGRFGLKSLGLIQAYQPT---HPVM---QALVSG----DADSFYESEIRARESVNL 634 (731) Q Consensus 582 l~qv~gRagr~~~~g~v~iQt~~p~---~~~~---~~~~~~----d~~~f~~~el~~R~~~~~ 634 (731) T Consensus 808 LYQLRGRVGRs~~~AYAYlL~~~~~~Lt~~A~~RL~ai~~f~eLGaGf~iA~hDlEIRGaGNL 870 (997) T TIGR00580 808 LYQLRGRVGRSKKKAYAYLLYPHQKALTEDALKRLEAIQEFSELGAGFKIALHDLEIRGAGNL 870 (997) T ss_pred HHHCCCEECCCCCEEEEEECCCCCCCCCHHHHHHHHHHHHHCCCCCHHHHHHHCCCCCCCHHH T ss_conf 745363120587126898334774001458999999997301135216788631100355001

HHsearch alignment for GI: 254780619 and conserved domain: TIGR00580