HHsearch alignment for GI: 254780217 and conserved domain: cd03287
>cd03287 ABC_MSH3_euk MutS3 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=93.95 E-value=0.18 Score=31.52 Aligned_cols=119 Identities=16% Similarity=0.093 Sum_probs=58.8
Q ss_pred EEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHHH
Q ss_conf 16631179898889999999999817799886431210126788679999678987545300100010134212323788
Q gi|254780217|r 35 HALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVDE 114 (347)
Q Consensus 35 ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd~ 114 (347)
T Consensus 32 ~~~iiTGpN~~GKSt~lk~i~l~~ilaq~G~~vpa~~~~~~~~-------------d~i~~~i~~~d~~~~-~~StF~~e 97 (222)
T cd03287 32 YCQIITGPNMGGKSSYIRQVALITIMAQIGSFVPASSATLSIF-------------DSVLTRMGASDSIQH-GMSTFMVE 97 (222)
T ss_pred EEEEEECCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHCEEECC-------------CEEEEECCCCCHHHC-CCCHHHHH
T ss_conf 4899978998872899999999999997267721456399635-------------759995067862344-52279999
Q ss_pred HHHHHHHCCCCCCCCCCHHHHHHHHHHCCH-----HHHHHHHHHHHHCCCCCCEEEEECCCC
Q ss_conf 755443102221111210353220554240-----001456777663034341676504433
Q gi|254780217|r 115 IRRIRYFLSLTANTGYWRVIMIDPVDGMNR-----NAANALLKSLEEPPQKVLFILISHASP 171 (347)
Q Consensus 115 IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~-----~AaNALLK~LEEPp~~t~fiLit~~~~ 171 (347)
T Consensus 98 ~~~~~~il~~~---~~~sLvliDEl~~GT~~~eg~ala~aile~l~~~-~~~~~i~tTH~~~ 155 (222)
T cd03287 98 LSETSHILSNC---TSRSLVILDELGRGTSTHDGIAIAYATLHYLLEE-KKCLVLFVTHYPS 155 (222)
T ss_pred HHHHHHHHHHC---CCCCEEEECCCCCCCCHHHHHHHHHHHHHHHHHC-CCCEEEEECCCHH
T ss_conf 99999999867---8875442322468998357799999999999860-5889999476278