HHsearch alignment for GI: 254780766 and conserved domain: cd03280
>cd03280 ABC_MutS2 MutS2 homologs in bacteria and 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 also possess 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 clamps, a
Probab=96.16 E-value=0.0062 Score=38.37 Aligned_cols=33 Identities=24% Similarity=0.407 Sum_probs=24.6
Q ss_pred HHHEEEECCC--CEEEEECCCCCCHHHHHHHHHHH
Q ss_conf 4553673279--87999868998644489999997
Q gi|254780766|r 18 YASLRLVFDA--QHTIFVGDNGVGKTNILEAISFL 50 (375)
Q Consensus 18 ~~~~~i~f~~--~~n~i~G~NG~GKT~iLEAI~~l 50 (375)
T Consensus 17 ~V~Ndi~l~~~~~~~iiTGpN~sGKSt~lk~i~l~ 51 (200)
T cd03280 17 VVPLDIQLGENKRVLVITGPNAGGKTVTLKTLGLL 51 (200)
T ss_pred EECCEEEECCCCEEEEEECCCCCCCHHHHHHHHHH
T ss_conf 47625897799339999889877509999999999