HHsearch alignment for GI: 254780163 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=98.84 E-value=2.9e-08 Score=78.52 Aligned_cols=192 Identities=22% Similarity=0.340 Sum_probs=122.1
Q ss_pred HHHHCHHHHHHHHHHHHHHHHCCCCCCCCCCCEEEEECCCCHHHHHHHHHHHHHCCCCEEEEEHHHHHCCCCCCHHCCCC
Q ss_conf 66534589999999998775204456578740688614320038899999873047733772068861246530110478
Q gi|254780163|r 477 TVVYGQEEAIKKLSSSIKIARAGLSDPNKPIGCYVFSGPTGVGKTEISKQLAFALGVQLLRFDMSEYMERHAVSRLIGAP 556 (798)
Q Consensus 477 ~~v~GQ~~ai~~v~~~i~~~~~gl~~~~rP~g~flf~GptGvGKTelak~la~~~~~~lir~dmsey~e~~~vs~LiGap 556 (798)
T Consensus 4 ~eFiGQ~~vk~~L~l~I~AAk~----R~e~LDH~LL~GPPGLGKTTLA~IiA~Emg~~l~iTsGP~L~k----------- 68 (305)
T TIGR00635 4 AEFIGQEKVKEQLQLFIEAAKM----RQEALDHLLLYGPPGLGKTTLAHIIANEMGVNLKITSGPALEK----------- 68 (305)
T ss_pred HHCCCCHHHHHHHHHHHHHHHH----CCCCCCCEEEECCCCCCHHHHHHHHHHHHCCCCEEEECCCCCC-----------
T ss_conf 1105828899999999999982----4897341663175687467899999998389326740675547-----------
Q ss_pred CHHCCCCCCCCCCHHHHHCCCEEEEECCHHHCCHHHHHHHHHHHHHHHCC-----CCCCCEECCC---CEEEEEECCCCH
Q ss_conf 00025644431003555158517774044550289999999987775021-----7799776125---429999424214
Q gi|254780163|r 557 PGYVGFGQGGILADSVDQNPYSVVLLDEIEKSHPDVLNILLQIMDYGILT-----DQSGKKISFR---NVILIMTTNAGA 628 (798)
Q Consensus 557 pGYvG~~egg~Lte~vr~~P~sVvl~DEiEKAh~~v~~~llqild~G~lt-----d~~Gr~vdf~---n~iii~TsN~G~ 628 (798)
T Consensus 69 Pg----DlaaiLt~-L--~~gDVLFIDEIHRL~p~~EE~LYpAMEDF~lDi~IG~Gp~Ar~v~ldLpPFTLvGATTR~G- 140 (305)
T TIGR00635 69 PG----DLAAILTN-L--EEGDVLFIDEIHRLSPAIEELLYPAMEDFRLDIVIGKGPSARSVRLDLPPFTLVGATTRAG- 140 (305)
T ss_pred HH----HHHHHHHH-C--CCCCEEECCHHHHCCHHHHHHCCCCCCCEEEEEEEECCCCCCEEEECCCCCCCCCCCCCCC-
T ss_conf 57----89999970-5--6896310125650483345310530012178778712898525760686944200003477-
Q ss_pred HHHHHCCCCCCCCCCHHHHHHHHHHHCCHHHHCCCCEEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCEEEECHHHHHH
Q ss_conf 55330368988211148899999872887881776828962889999999999999999999998669889998899999
Q gi|254780163|r 629 LEMSKARIGFGSSRNDDADKEALRNFLSPEFLNRLDSIIPFFPLSSDIIRQVVHKFIMKLELQLQEKGISFHFSEEVINW 708 (798)
Q Consensus 629 ~~~~~~~~g~~~~~~~~~~~~~l~~~f~peflnRid~ii~F~~l~~~~~~~i~~~~l~~l~~~l~~~~i~l~~~~~~~~~ 708 (798)
T Consensus 141 -----------------~lt~PLrdRFG--~~~rl~------fY~~~EL~~Iv~R~A---------~~L~~ei~~~~a~~ 186 (305)
T TIGR00635 141 -----------------MLTSPLRDRFG--IILRLE------FYTPEELAEIVSRSA---------GLLNIEIEQEAALE 186 (305)
T ss_pred -----------------CCCCCHHHHHH--HHHHCC------CCCHHHHHHHHHHHH---------HHCCCCCCHHHHHH
T ss_conf -----------------41031334544--745402------689878999987533---------44143007789999
Q ss_pred HHHCCC-CCCCCCHHHHH
Q ss_conf 997189-81015326799
Q gi|254780163|r 709 LVSHGY-DVKMGARPLER 725 (798)
Q Consensus 709 l~~~~~-~~~~GAR~l~r 725 (798)
T Consensus 187 IArrSRGTPRIAnRLLRR 204 (305)
T TIGR00635 187 IARRSRGTPRIANRLLRR 204 (305)
T ss_pred HHHHCCCCHHHHHHHHHH
T ss_conf 987547863788877676