>cd00523 archeal_HJR 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 eukaryotes, however this CD includes only the archeal HJR's. The bacterial and archeal HJRs perform a similar function but differ in both sequence and structure. Structural similarity does however, exist between the archeal HJRs and type II restriction endonucleases, such as EcoRV, BglII, and Fok, and this similarity includes their active site configurations.

Probab=97.62 E-value=0.0011 Score=44.20 Aligned_cols=77 Identities=26% Similarity=0.275 Sum_probs=59.3 Q ss_pred CCHHHHHHHHHHHHHHCCCEEEEEECCC--CCCCCEEEEECCCCCEEEEEEECCCCC---CCHHHHHHHHHH-HHCCCEE Q ss_conf 8999999999999997898999981188--898743999906982999999768988---688999999999-9789889 Q gi|254780128|r 9 QTEKDVEKRLVTGAKKLDCWVRKASFVG--RRGCPDRLIITPNGGLWWIEVKKPTGR---LSHQQMSEIEEL-RRRGQRV 82 (103) Q Consensus 9 ~~E~~ie~~l~~~lk~~G~~~~K~~~~g--~~GvPDli~~~~~g~~~fIEvK~~~gk---ls~~Q~~~~~~l-~~~G~~~ 82 (103) T Consensus 3 rkG~~~EReL~~~l~~~GfavvR~~gSG~~~~~~pDiiA~-~~~~~~~iEvKst~~~~iYi~~e~ve~L~~Fa~~fG~~p 81 (123) T cd00523 3 RKGSRAERELVKILEEKGFAVVRAPGSGGGPRPLPDIVAG-NGGTYLAIEVKSTKKDKIYIKKEQVEKLVEFARRFGGEP 81 (123) T ss_pred CCCCHHHHHHHHHHHHCCCEEEEECCCCCCCCCCCCEEEE-CCCEEEEEEEEECCCCEEEECHHHHHHHHHHHHHCCCEE T ss_conf 5503799999999986593499834678887889988975-698599999996269808984999999999999749938 Q ss_pred EEEC Q ss_conf 9985 Q gi|254780128|r 83 KVLV 86 (103) Q Consensus 83 ~Vv~ 86 (103) T Consensus 82 ~iav 85 (123) T cd00523 82 YLAV 85 (123) T ss_pred EEEE T ss_conf 9999

HHsearch alignment for GI: 254780128 and conserved domain: cd00523