HHsearch alignment for GI: 254780640 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=96.62 E-value=0.0025 Score=36.38 Aligned_cols=29 Identities=17% Similarity=0.396 Sum_probs=22.9
Q ss_pred EEEECCC--CEEEEEECCCCCHHHHHHHHHH
Q ss_conf 7998689--8699990798657899999999
Q gi|254780640|r 44 QKIEFAD--HLTIVNGQNGYGKSSLSEAIEW 72 (110)
Q Consensus 44 ~~i~f~~--~~~~i~G~Ng~GKStil~ai~~ 72 (110)
T Consensus 20 Ndi~l~~~~~~~iiTGpN~sGKSt~lk~i~l 50 (200)
T cd03280 20 LDIQLGENKRVLVITGPNAGGKTVTLKTLGL 50 (200)
T ss_pred CEEEECCCCEEEEEECCCCCCCHHHHHHHHH
T ss_conf 2589779933999988987750999999999