HHsearch alignment for GI: 254780567 and conserved domain: TIGR00635

>TIGR00635 ruvB Holliday junction DNA helicase RuvB; InterPro: IPR004605 All proteins in this family for which functions are known are 5'-3' DNA helicases that, as part of a complex with RuvA homologs serve as a 5'-3' Holliday junction helicase. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.; GO: 0003677 DNA binding, 0005524 ATP binding, 0009378 Holliday junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination.
Probab=99.65  E-value=5.3e-15  Score=112.23  Aligned_cols=197  Identities=16%  Similarity=0.170  Sum_probs=140.5

Q ss_pred             CCCCEEECCCH-----HHHHHHHHHHHCCCCCEEEEECCCCCCHHHHHHHHHHHHCCCCHHHH--------HHHHHHHHH
Q ss_conf             84541653618-----99999998510167884999878777868899999986276201356--------764445466
Q gi|254780567|r   39 SRDDLLVHSAI-----EQAVRLIDSWPSWPSRVVILVGPSGSGKSCLANIWSDKSRSTRFSNI--------AKSLDSILI  105 (246)
Q Consensus        39 ~~dnFiv~~~N-----~~A~~~i~~~~~~~~~~l~i~G~~GsGKTHLl~a~~~~~~~~~~~~~--------~~~~~~~~~  105 (246)
T Consensus         2 ~L~eFi-GQ~~vk~~L~l~I~AAk~R~e-~LDH~LL~GPPGLGKTTLA~IiA~Emg~~l~iTsGP~L~kPgDlaaiLt~L   79 (305)
T TIGR00635         2 LLAEFI-GQEKVKEQLQLFIEAAKMRQE-ALDHLLLYGPPGLGKTTLAHIIANEMGVNLKITSGPALEKPGDLAAILTNL   79 (305)
T ss_pred             CCHHCC-CCHHHHHHHHHHHHHHHHCCC-CCCCEEEECCCCCCHHHHHHHHHHHHCCCCEEEECCCCCCHHHHHHHHHHC
T ss_conf             801105-828899999999999982489-734166317568746789999999838932674067554757899999705


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHH-HHHHHHC----------------CCCCEEEEECCCCCCHHHHHHHHHHHHHHCCEE
Q ss_conf             66665334332100376103354-5554311----------------234215640354320022345667885212224
Q gi|254780567|r  106 DTRKPVLLEDIDLLDFNDTQLFH-IINSIHQ----------------YDSSLLMTARTFPVSWGVCLPDLCSRLKAATVV  168 (246)
Q Consensus       106 ~~~~~i~iddi~~~~~~ee~lf~-l~n~~~~----------------~~~~iilts~~~p~~~~~~l~DL~SRl~~g~~~  168 (246)
T Consensus        80 ~~gDVLFIDEIHRL~p~~EE~LYpAMEDF~lDi~IG~Gp~Ar~v~ldLpPFTLvGATTR~G~lt--~P-LrdRFG--~~~  154 (305)
T TIGR00635        80 EEGDVLFIDEIHRLSPAIEELLYPAMEDFRLDIVIGKGPSARSVRLDLPPFTLVGATTRAGMLT--SP-LRDRFG--IIL  154 (305)
T ss_pred             CCCCEEECCHHHHCCHHHHHHCCCCCCCEEEEEEEECCCCCCEEEECCCCCCCCCCCCCCCCCC--CC-HHHHHH--HHH
T ss_conf             6896310125650483345310530012178778712898525760686944200003477410--31-334544--745


Q ss_pred             EECCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHCCCCCHHHHHHHHHHHH-HHHHHHCCCCCHHHHHHHHHHH
Q ss_conf             5078897899999999866628979889999999406679899999999999-9999847787889999999867
Q gi|254780567|r  169 KISLPDDDFLEKVIVKMFADRQIFIDKKLAAYIVQRMERSLVFAEKLVDKMD-NLALSRGMGITRSLAAEVLKET  242 (246)
Q Consensus       169 ~I~~pdde~~~~il~k~~~~r~i~l~~~v~~yl~~r~~Rs~~~l~~~l~~Ld-~~sl~~kr~ITi~lvk~vL~~~  242 (246)
T Consensus       155 rl~fY~~~EL~~Iv~R~A~~L~~ei~~~~a~~IArrSRGTPRIAnRLLRRVRDfA~V~~~~~I~~~i~~~AL~~L  229 (305)
T TIGR00635       155 RLEFYTPEELAEIVSRSAGLLNIEIEQEAALEIARRSRGTPRIANRLLRRVRDFAQVRGQGVITRDIALKALEML  229 (305)
T ss_pred             HCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
T ss_conf             402689878999987533441430077899999875478637888776766448887267873889999998862