HHsearch alignment for GI: 254780640 and conserved domain: cd03285
>cd03285 ABC_MSH2_euk MutS2 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding c
Probab=96.48 E-value=0.0044 Score=35.18 Aligned_cols=35 Identities=23% Similarity=0.381 Sum_probs=25.7
Q ss_pred CCCCCEEEECCC---CEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 368317998689---869999079865789999999985
Q gi|254780640|r 39 GFTEIQKIEFAD---HLTIVNGQNGYGKSSLSEAIEWLF 74 (110)
Q Consensus 39 ~f~~~~~i~f~~---~~~~i~G~Ng~GKStil~ai~~~l 74 (110)
T Consensus 17 ~~Vp-Ndi~l~~~~~~i~iiTGpN~sGKSt~lk~i~l~~ 54 (222)
T cd03285 17 AFIP-NDVTLTRGKSRFLIITGPNMGGKSTYIRQIGVIV 54 (222)
T ss_pred CEEC-CEEEECCCCCEEEEEECCCCCCHHHHHHHHHHHH
T ss_conf 7777-6689768982599998999887189999999999