HHsearch alignment for GI: 254780217 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=99.50 E-value=1.3e-13 Score=129.36 Aligned_cols=175 Identities=20% Similarity=0.298 Sum_probs=125.6
Q ss_pred CCHHHHCCHHHHHHHHHHHHHCC-----CCCEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHH
Q ss_conf 75656109299999999999828-----8981663117989888999999999981779988643121012678867999
Q gi|254780217|r 9 VYNQRLFGHEDIEKFLSQYYCSG-----RMHHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQ 83 (347)
Q Consensus 9 ~~~~~i~G~~~~~~~L~~~~~~~-----~l~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~ 83 (347)
T Consensus 1 ~~L~eFiGQ~~vk~~L~l~I~AAk~R~e~LDH-~LL~GPPGLGKTTLA~IiA~Emg~~l~iTsGP~-------------- 65 (305)
T TIGR00635 1 KLLAEFIGQEKVKEQLQLFIEAAKMRQEALDH-LLLYGPPGLGKTTLAHIIANEMGVNLKITSGPA-------------- 65 (305)
T ss_pred CCCHHCCCCHHHHHHHHHHHHHHHHCCCCCCC-EEEECCCCCCHHHHHHHHHHHHCCCCEEEECCC--------------
T ss_conf 98011058288999999999999824897341-663175687467899999998389326740675--------------
Q ss_pred HHCCCCCCEEEECCCCHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHH--------
Q ss_conf 967898754530010001013421232378875544310222111121035322055424000145677766--------
Q gi|254780217|r 84 MASHALHDFLYLSYSLNPKTGKWRTVITVDEIRRIRYFLSLTANTGYWRVIMIDPVDGMNRNAANALLKSLE-------- 155 (347)
Q Consensus 84 i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~~AaNALLK~LE-------- 155 (347)
T Consensus 66 -----------L-----~---kP---------gDlaaiL--t~-L~~gDVLFIDEIHRL~p~~EE~LYpAMEDF~lDi~I 114 (305)
T TIGR00635 66 -----------L-----E---KP---------GDLAAIL--TN-LEEGDVLFIDEIHRLSPAIEELLYPAMEDFRLDIVI 114 (305)
T ss_pred -----------C-----C---CH---------HHHHHHH--HH-CCCCCEEECCHHHHCCHHHHHHCCCCCCCEEEEEEE
T ss_conf -----------5-----4---75---------7899999--70-568963101256504833453105300121787787
Q ss_pred --HCCCCCC------EEEE--ECCCCCCCHHHHCEE-EEEECCCCCHHHHHHHHHHH----CCCCCHHHHHHHHHHCCCC
Q ss_conf --3034341------6765--044335730252036-98864799989999999972----7888967899999975989
Q gi|254780217|r 156 --EPPQKVL------FILI--SHASPTILSTIRSRC-LSIKFNSLSENNLYKALEQL----KIMGWDSKRDFVKIAAYGS 220 (347)
Q Consensus 156 --EPp~~t~------fiLi--t~~~~~il~TI~SRc-~~i~f~~l~~~~~~~~L~~~----~~~~~~~~~~~~~~~s~Gs 220 (347)
T Consensus 115 G~Gp~Ar~v~ldLpPFTLvGATTR~G~lt~PLrdRFG~~~rl~fY~~~EL~~Iv~R~A~~L~~ei~~~~a~~IArrSRGT 194 (305)
T TIGR00635 115 GKGPSARSVRLDLPPFTLVGATTRAGMLTSPLRDRFGIILRLEFYTPEELAEIVSRSAGLLNIEIEQEAALEIARRSRGT 194 (305)
T ss_pred ECCCCCCEEEECCCCCCCCCCCCCCCCCCCCHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCC
T ss_conf 12898525760686944200003477410313345447454026898789999875334414300778999998754786
Q ss_pred HHHHHHHHC
Q ss_conf 789998814
Q gi|254780217|r 221 VARAIKILH 229 (347)
Q Consensus 221 ~~~A~~ll~ 229 (347)
T Consensus 195 PRIAnRLLR 203 (305)
T TIGR00635 195 PRIANRLLR 203 (305)
T ss_pred HHHHHHHHH
T ss_conf 378887767