HHsearch alignment for GI: 254780545 and conserved domain: cd03283
>cd03283 ABC_MutS-like MutS-like 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 slid
Probab=95.24 E-value=0.036 Score=34.66 Aligned_cols=107 Identities=26% Similarity=0.438 Sum_probs=65.3
Q ss_pred CCCCEEECCCCCHHHHHHHHHHHCC-----CC---------CCEECC----CHHHH----HHHHHHCCHHHHHHHHHHHH
Q ss_conf 3331100378742588899997424-----69---------970205----85788----64442033245999999998
Q gi|254780545|r 180 IPHGVLLVGPPGTGKTLLARAVAGE-----AN---------VPFFTI----SGSDF----VELFVGVGASRVRDMFEQAK 237 (647)
Q Consensus 180 ~p~g~ll~GppGtGKTlla~a~a~e-----~~---------~~f~~~----~~s~~----~~~~~g~g~~~vr~lf~~a~ 237 (647)
T Consensus 24 ~~~~~iiTGpN~~GKSt~Lk~i~l~~ilaq~G~~vpa~~~~~~~~~i~t~i~~~d~~~~~~S~F~-~E~~~~~~il~~~~ 102 (199)
T cd03283 24 KKNGILITGSNMSGKSTFLRTIGVNVILAQAGAPVCASSFELPPVKIFTSIRVSDDLRDGISYFY-AELRRLKEIVEKAK 102 (199)
T ss_pred CCCEEEEECCCCCCHHHHHHHHHHHHHHHHHCCEEEHHHEEECCCEEEEEEECCCHHHCCCCHHH-HHHHHHHHHHHHHC
T ss_conf 98589998999986599999999999999968938624478233089999834751224535799-99999999999724
Q ss_pred HHCCHHEEHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCEEEEEECCCCCCCC
Q ss_conf 737801206323564144557898862688988998998530323577829999629810088
Q gi|254780545|r 238 NNSPCIVFVDEIDAVGRHRGIGLGGGNDEREQTLNQLLVEMDGFESSEGVILIAATNRPDVLD 300 (647)
Q Consensus 238 ~~~p~iifiDeida~~~~r~~~~~~~~~e~~~~ln~ll~~mdg~~~~~~v~vi~aTn~~~~lD 300 (647)
T Consensus 103 ~~~~sLvliDEl~-----~GT~----~~eg~a~a~a~le~l~---~-~~~~~iitTH~~~l~~ 152 (199)
T cd03283 103 KGEPVLFLLDEIF-----KGTN----SRERQAASAAVLKFLK---N-KNTIGIISTHDLELAD 152 (199)
T ss_pred CCCCEEEEECCCC-----CCCC----HHHHHHHHHHHHHHHH---H-CCCEEEEECCCHHHHH
T ss_conf 8985799614324-----7998----6789999999999998---6-7987999887289886