HHsearch alignment for GI: 254781194 and conserved domain: cd00523
>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=97.45 E-value=0.0024 Score=41.47 Aligned_cols=76 Identities=16% Similarity=0.194 Sum_probs=58.3
Q ss_pred CHHHHHHHHHHHHHHCCCEEEEEECCC--CCCCCCEEEEECCCCEEEEEEECCCCC---CCHHHHHHHHHHH-HCCCEEE
Q ss_conf 599999999999997898899971489--887662799915991999997278988---6989999999999-7898699
Q gi|254781194|r 7 SEAKLEKRLVKGSKKLDCLVFKTQFIN--QRGCPDRLIITPNGAHFWVEMKTSRGR---LSNAQKRVIATLL-LYHQKVQ 80 (98)
Q Consensus 7 ~E~~ie~~i~~~~k~~g~~~~k~~~~g--~~G~PDli~~~~~g~~~fIEvK~~~gk---ls~~Q~~~~~~l~-~~G~~~~ 80 (98)
T Consensus 4 kG~~~EReL~~~l~~~GfavvR~~gSG~~~~~~pDiiA~~-~~~~~~iEvKst~~~~iYi~~e~ve~L~~Fa~~fG~~p~ 82 (123)
T cd00523 4 KGSRAERELVKILEEKGFAVVRAPGSGGGPRPLPDIVAGN-GGTYLAIEVKSTKKDKIYIKKEQVEKLVEFARRFGGEPY 82 (123)
T ss_pred CCCHHHHHHHHHHHHCCCEEEEECCCCCCCCCCCCEEEEC-CCEEEEEEEEECCCCEEEECHHHHHHHHHHHHHCCCEEE
T ss_conf 5037999999999865934998346788878899889756-985999999962698089849999999999997499389
Q ss_pred EEC
Q ss_conf 983
Q gi|254781194|r 81 VLS 83 (98)
Q Consensus 81 Vv~ 83 (98)
T Consensus 83 iav 85 (123)
T cd00523 83 LAV 85 (123)
T ss_pred EEE
T ss_conf 999