HHsearch alignment for GI: 255764496 and conserved domain: TIGR00084
>TIGR00084 ruvA Holliday junction DNA helicase RuvA; InterPro: IPR000085 In prokaryotes, RuvA, RuvB, and RuvC process the universal DNA intermediate of homologous recombination, termed Holliday junction. The tetrameric DNA helicase RuvA specifically binds to the Holliday junction and facilitates the isomerization of the junction from the stacked folded configuration to the square-planar structure . In the RuvA tetramer, each subunit consists of three domains, I, II and III, where I and II form the major core that is responsible for Holliday junction binding and base pair rearrangements of Holliday junction executed at the crossover point, whereas domain III regulates branch migration through direct contact with RuvB.; GO: 0003678 DNA helicase activity, 0006281 DNA repair, 0006310 DNA recombination.
Probab=97.46 E-value=9.8e-05 Score=53.68 Aligned_cols=81 Identities=19% Similarity=0.293 Sum_probs=60.2
Q ss_pred HHHHHHHHHHHHHHH-HH-HHHHHHHCCCCHHCCCCCCHHHHHHHHHHHC--CHHH-HHHCCHHHHHHCCCCCHHHHHHH
Q ss_conf 999887877887889-89-9864321477100488879899999999808--8898-99389888862789998999999
Q gi|255764496|r 529 FIQRLRDEAHRFAIT-TH-RKRRKKAAYSPLDEINGIGPLRKRLLLQSFG--TVKM-ISRSSPETLASIEGISKKIACKI 603 (616)
Q Consensus 529 ~Lq~iRDEaHRFAi~-~h-Rk~r~k~~~S~Ld~I~GIG~k~~~~Ll~~Fg--s~~~-i~~As~eeL~~v~gi~~~~A~~I 603 (616)
T Consensus 55 t~~~~RedaNQi~~~LfGF~~~~Er~lF~~Li~~nGvGpk~ALaiL~~~~~~~~~~ai~~~~~~~L~k~pGvGKK~A~~l 134 (217)
T TIGR00084 55 THLVVREDANQILHLLFGFNTLEERELFKELIKVNGVGPKLALAILSNMSPEEFVQAIETEEVKALVKIPGVGKKTAERL 134 (217)
T ss_pred EEEEEECCHHHHHHHHHCCCCHHHHHHHHHHHHCCCCHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHCCCCCCHHHHHHH
T ss_conf 87777604678999973479877899999985148802899999866788758988886410444204588573789999
Q ss_pred H-HHHCC
Q ss_conf 9-98547
Q gi|255764496|r 604 Y-NHFHK 609 (616)
Q Consensus 604 ~-~~l~~ 609 (616)
T Consensus 135 ~~leL~g 141 (217)
T TIGR00084 135 LALELKG 141 (217)
T ss_pred HHHHHHH
T ss_conf 8777545