HHsearch alignment for GI: 254780724 and conserved domain: pfam05496
>pfam05496 RuvB_N Holliday junction DNA helicase ruvB N-terminus. The RuvB protein makes up part of the RuvABC revolvasome which catalyses the resolution of Holliday junctions that arise during genetic recombination and DNA repair. Branch migration is catalysed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein. This family contains the N-terminal region of the protein.
Probab=96.30 E-value=0.0063 Score=39.08 Aligned_cols=106 Identities=21% Similarity=0.259 Sum_probs=57.2
Q ss_pred CCCCCHHHHHHCCCCCHHHHHHHHHHHC-C--CCCEEEECCCCCCHHHHHHHHHHHCCCCCCEEEEECCHHHCCCCCCEE
Q ss_conf 6546678886506998899999898622-5--884899818888888999999830387676799964213125678756
Q gi|254780724|r 221 KDKLTLDHLVSFGAVTAEGARLLQIIGR-I--RCNVLISGGTGSGKTTLLNCLTRYIDKDERIVTCEDTAELQLQQPHVV 297 (483)
Q Consensus 221 ~~~~~l~~l~~~g~~~~~~~~~l~~~v~-~--~~nilVsG~TGSGKTT~L~al~~~i~~~~rivtIED~~El~l~~~~~v 297 (483)
T Consensus 18 lRP~~l~e~vGQehl~~~l~~~i~a~~~~~~~l~h~lf~GPPG~GKTTlAriiAk~~~~~~~~~s--------------- 82 (234)
T pfam05496 18 LRPRRLDEYIGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLANIIANEMGVNIRITS--------------- 82 (234)
T ss_pred CCCCCHHHCCCHHHHHHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCCEEEEC---------------
T ss_conf 49897666069499999999999988742777662788789999888999999984087537614---------------
Q ss_pred EEEEECCCCCCCCCCHHHHHHHHHHHCCCCEEEECCCC--CHHHHHH-HHHHHCCC
Q ss_conf 77874166665300018999987520599889965758--7999999-99987397
Q gi|254780724|r 298 RLETRPPNIEGEGEITMRDLVKNCLRMRPERIILGEVR--GPEVLDL-LQAMNTGH 350 (483)
Q Consensus 298 ~~~~~~~~~e~~~~~t~~~ll~~aLR~~PD~IiVGEiR--g~Ea~~~-l~A~~TGH 350 (483)
T Consensus 83 -----~~~i~~--~~di~~~l~~~--~~~~ILFIDEIHr~nK~qqd~Llp~vE~g~ 129 (234)
T pfam05496 83 -----GPALEK--PGDLAAILTNL--EPGDVLFIDEIHRLNRAVEEILYPAMEDFR 129 (234)
T ss_pred -----CHHHHH--HHHHHHHHHHC--CCCCEEEEECHHHCCHHHHHHCCCCCCCCE
T ss_conf -----266643--89999999845--899889996654358768874455334616