HHsearch alignment for GI: 254780553 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=100.00 E-value=0 Score=364.65 Aligned_cols=203 Identities=29% Similarity=0.420 Sum_probs=178.1
Q ss_pred CCCEEEEEEEEEEC-----CEEEEEECCEEEEEECCHHHHHHCCCCC-CEEEEEEEEEECCCC----EEEEEEECHHHHH
Q ss_conf 93258999999609-----9799985883238970868898502479-849999999973884----1899970677999
Q gi|254780553|r 1 MIGKIKGNIEGLYE-----DYVLIDVQGVCYIIYCPIRTLSCLGKIG-DFCTLFVETHMRQDQ----IRLFGFLSDLDRQ 70 (207)
Q Consensus 1 MI~~i~G~i~~~~~-----~~ivi~v~GvGY~i~vs~~~~~~l~~~g-~~v~l~~~~~vrEd~----~~LyGF~~~~Er~ 70 (207)
T Consensus 1 mI~~l~G~v~~v~~niqnr~~i~~e~~gv~Y~~~v~~~~~~~~~~~gP~~~~~Ft~~~~RedaNQi~~~LfGF~~~~Er~ 80 (217)
T TIGR00084 1 MIGFLQGKVIEVSKNIQNRREIILEVNGVGYELQVPMTCAYELNLEGPQKAQLFTHLVVREDANQILHLLFGFNTLEERE 80 (217)
T ss_pred CCCEEEEEEEEECCCCCCCCEEEEEEEEEEEEEECCCHHHHHCCCCCCCCCEEEEEEEEECCHHHHHHHHHCCCCHHHHH
T ss_conf 97514568888446522461788873128999878721432047871486346787777604678999973479877899
Q ss_pred HHHHHHHHHHCCCHHHHHHHCCCCHHHHHHHHHCCCHHHHHHCCCCCHHHHHHHH-HHHHHHHHHCCCCCCCCCCCCCCC
Q ss_conf 9999850100051011244315789999999851566875104571167999999-997422211011334432333334
Q gi|254780553|r 71 WFMLLQSVQGVGARVAMGVLSRITATELVESIILQNSKVIAQIPGISMKIASRIM-TELKGKAISLSSVVQQDMSCVNKE 149 (207)
Q Consensus 71 ~F~~Li~V~GIGpK~AL~iLs~l~~~~l~~aI~~~D~~~L~~vpGIGkKtA~rIi-~ELk~K~~~~~~~~~~~~~~~~~~ 149 (207)
T Consensus 81 lF~~Li~~nGvGpk~ALaiL~~~~~~~~~~ai~~~~~~~L~k~pGvGKK~A~~l~~leL~gk~~~~~~~~~~~~~~~~~~ 160 (217)
T TIGR00084 81 LFKELIKVNGVGPKLALAILSNMSPEEFVQAIETEEVKALVKIPGVGKKTAERLLALELKGKLKGVKNLEMFTNLANHLE 160 (217)
T ss_pred HHHHHHHCCCCHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCC
T ss_conf 99998514880289999986678875898888641044420458857378999987775454405521124554335335
Q ss_pred CCCCCCCCCHH-HHHHHHHHHCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q ss_conf 45555653158-999999996799989999999999851688889899999999974
Q gi|254780553|r 150 QAHICSMPSFA-INAISALVNLGYGQDQATTAVVSVLKKEKNIADDSQIIRLALRAI 205 (207)
Q Consensus 150 ~~~~~~~~~~~-~d~~~AL~~LGy~~~ea~~ai~~i~~~~~~~~~~eelIk~aLk~L 205 (207)
T Consensus 161 ~~~~~~~~~~~y~E~~~aL~sLGY~~~Ei~~~l~~~~--~~~~~~~~~~~~eal~~l 215 (217)
T TIGR00084 161 TDEKLTAEAARYDELFEALVSLGYKPQEIQKALKKIK--EKPDLAIEQDIKEALKQL 215 (217)
T ss_pred CCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHC--CCCCCCHHHHHHHHHHHH
T ss_conf 5410121021188999999972988889999998640--467885446799999997