HHsearch alignment for GI: 254780218 and conserved domain: cd03243
>cd03243 ABC_MutS_homologs 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, and recognition of specific DNA stru
Probab=94.88 E-value=0.19 Score=28.90 Aligned_cols=110 Identities=16% Similarity=0.212 Sum_probs=56.5
Q ss_pred CCCCEEEEECCCCCCHHHHHHHHHH--HHHHCCCCEEEEECCCCCCCCCHHHHCCCC-CCCCCCHHHHHHHHHHHHHHHH
Q ss_conf 8886899867888797999999999--999779819998778898441001100124-4454101345677788999997
Q gi|254780218|r 2 NSGLFISFEGIEGAGKTTHISLLKR--FLQRKNYDVHVTREPGGTPAAEAARHVLLS-CGVDEFGAEAEAIVFAAARLDH 78 (225)
Q Consensus 2 ~~g~~I~iEGiDGsGKsTq~~~L~~--~L~~~g~~v~~~~eP~~t~~ge~ir~~l~~-~~~~~~~~~~~~lLfaadr~~~ 78 (225)
T Consensus 27 ~~~~~~iiTGpN~sGKSt~lkti~l~~~laq~G~~v-----pa~~~~~~~~~~i~~~~~~~d~~--~~~~S~F~~e~-~~ 98 (202)
T cd03243 27 GSGRLLLITGPNMGGKSTYLRSIGLAVLLAQIGCFV-----PAESASIPLVDRIFTRIGAEDSI--SDGRSTFMAEL-LE 98 (202)
T ss_pred CCCCEEEEECCCCCCHHHHHHHHHHHHHHHHHCCEE-----EECCCEEECCCEEEEEECCCHHH--HCCCCHHHHHH-HH
T ss_conf 798289998998875399999999999999838737-----20446894466699984660244--43535499999-99
Q ss_pred HHHHHHHHHCCCCEEEECCCCCCCEEHHCCCCCCCHHHHHHHHH
Q ss_conf 76356554234525872354243100010034442457765444
Q gi|254780218|r 79 VENVIRPALMEGKILLCDRFLDSSYAYQGERDSSQHLFLDSLQE 122 (225)
Q Consensus 79 ~~~~I~p~L~~g~iVI~DRy~~S~lAYQ~~~~~~~~~~i~~l~~ 122 (225)
T Consensus 99 ~~~i~~-~~~~~slvliDE~~~gT~~~eg~--~la~a~l~~l~~ 139 (202)
T cd03243 99 LKEILS-LATPRSLVLIDELGRGTSTAEGL--AIAYAVLEHLLE 139 (202)
T ss_pred HHHHHH-HCCCCCEEEECCCCCCCCHHHHH--HHHHHHHHHHHH
T ss_conf 999998-67777724205234799867879--999999999985