HHsearch alignment for GI: 254780429 and conserved domain: cd00529
>cd00529 RuvC_resolvase Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes only the bacterial and mitochondrial HJR's. These are referred to as the RuvC family of Holliday junction resolvases, RuvC being the E.coli HJR. RuvC and its orthologs are homodimers and are structurely similar to RNase H and Hsp70.
Probab=93.86 E-value=0.42 Score=27.44 Aligned_cols=99 Identities=12% Similarity=0.126 Sum_probs=64.1
Q ss_pred CEEEEECCCHHHEEEEEECCCCEE--EEEEEEE--CCHHHHHH---HHHHHHHHHHHHCCCHHHHHHHHCCCCCCCCHHH
Q ss_conf 278862168012789997798139--9999984--22689998---9999999997609998786654303785432024
Q gi|254780429|r 2 IVLALDTTGADCSVAIYDSHAGRI--LGSYFKN--LGRGHAEH---LMPAIDYALKDSRLEVSQVDRVVTALGPGSFTGV 74 (206)
Q Consensus 2 ~iLaIdTs~~~~sval~~~~~~~~--~~~~~~~--~~r~hs~~---L~~~i~~lL~~~~~~~~~id~iav~~GPGSFTGl 74 (206)
T Consensus 1 RILGIDPGl~~~G~aiie~~~~~~~~l~~g~I~t~~~~~~~~RL~~I~~~l~~li~~~~P~~vaiE~~f~~~n~~tal~l 80 (154)
T cd00529 1 RILGIDPGSRNTGYGVIEQEGRKLIYLASGVIRTSSDAPLPSRLKTIYDGLNEVIDQFQPDVVAIERVFFAKNPDSALKL 80 (154)
T ss_pred CEEEECCCCCCCEEEEEEEECCEEEEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHHCCCCEEEEEHHHHHCCHHHHHHH
T ss_conf 96998756687159999957997899998889669999989999999999999998349978986546560188889999
Q ss_pred HHHHHHHHHHHHHCCCCCCCCCHHHH
Q ss_conf 66899999999732687110383899
Q gi|254780429|r 75 RVSIAVARGISLVLKQPALGVGNLEV 100 (206)
Q Consensus 75 Rigia~akgLa~~~~~pv~gvssle~ 100 (206)
T Consensus 81 g~arGvi~~~~~~~~i~v~ey~P~~V 106 (154)
T cd00529 81 GQARGALILALANRNLPVFEYTPNQV 106 (154)
T ss_pred HHHHHHHHHHHHHHCCCCEEECHHHH
T ss_conf 99999999999981798616888998