HHsearch alignment for GI: 254780554 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=100.00  E-value=0  Score=368.96  Aligned_cols=153  Identities=46%  Similarity=0.726  Sum_probs=148.7

Q ss_pred             EEEEECCCCCEEEEEEEEEECCEEEEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHCCCCCEEEEEHHHHCCCHHHHHHH
Q ss_conf             69999788872058999971996899983368738899988899999998999862279627788503320241247889
Q gi|254780554|r    6 RIIGIDPGLRRTGWGIVDVAGDNLCFVSSGTIVSCVRQSLAFRLCQLYEGLTDVIKNWRPEEAAVEQVFVNKDAVATLKL   85 (169)
Q Consensus         6 rILGIDPGl~~tG~avie~~~~~~~li~~g~I~t~~~~~~~~Rl~~I~~~l~~ii~~~~Pd~vaiE~~F~~~n~~t~~~l   85 (169)
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             HHHHHHHHHHHHHCCCCEEEECHHHHHHHHCCCCCCCHHHHHHHHHHHCCCCC-CCCCCHHHHHHHHHHHHHHC
Q ss_conf             99999999999860161775260677765316888899999999999628899-99955678999999976416
Q gi|254780554|r   86 GQARAIAILSPALARIPVSEYAPNTIKKAVIGVGHGDKKQIHMMLKMLMPESF-FKGKDAADALAIAVCHAYHA  158 (169)
Q Consensus        86 g~arGvi~l~~~~~~i~v~ey~P~~vKkavtG~G~A~KeqV~~mV~~ll~~~~-~~~~D~aDAlAiAl~h~~~~  158 (169)
T Consensus        81 g~arGvi~~~~~~~~i~v~ey~P~~VK~~vtG~G~A~K~qV~~mV~~~l~l~~~~~~~D~aDAlAiAl~h~~~~  154 (154)
T cd00529          81 GQARGALILALANRNLPVFEYTPNQVKKAVTGYGKADKDQVQHMVKRLLNLSEIPKPDDAADALAVAITHAHWL  154 (154)
T ss_pred             HHHHHHHHHHHHHHCCCCEEECHHHHHHHHHCCCCCCHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHCCCC
T ss_conf             99999999999981798616888998899867973759999999999819998999866899999999842719