HHsearch alignment for GI: 254780750 and conserved domain: cd03282

>cd03282 ABC_MSH4_euk MutS4 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=100.00  E-value=0  Score=507.47  Aligned_cols=202  Identities=38%  Similarity=0.647  Sum_probs=189.0

Q ss_pred             EECCCCCHHHHHHHHHCCCCCEEEEEEEECCCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHHHCCCCCCHHHCCCCC
Q ss_conf             00004680588763102877044434563587777664399996778440789999999999999719853035320682
Q gi|254780750|r  613 IVKDGRHPIVEKTLKQQSSKPFIANDCDLSCPNDKNSGKLWLLTGPNMGGKSTFLRQNALIVIMAQMGSYVPASYAHIGI  692 (920)
Q Consensus       613 ~i~~gRHPviE~~l~~~~~~~fVpNdi~l~~~~~~~~~~~~iiTGpNmgGKSt~lRqval~vilAQiG~fVPA~~a~i~~  692 (920)
T Consensus         1 iik~~rHPlle~~-----~~~~VpNdi~l~~----~~~~~~iITGpN~gGKSt~Lktigl~~ilAq~G~~vpA~~a~~~~   71 (204)
T cd03282           1 IIRDSRHPILDRD-----KKNFIPNDIYLTR----GSSRFHIITGPNMSGKSTYLKQIALLAIMAQIGCFVPAEYATLPI   71 (204)
T ss_pred             CCCCCCCCEEECC-----CCCEECCEEEECC----CCCEEEEEECCCCCCHHHHHHHHHHHHHHHHHCCEEEHHHCCCCC
T ss_conf             9557708638568-----8967876688669----972599998999887199999999999999968916713210336


Q ss_pred             CCEEEEEEECCCCCCCCCCHHHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHHHHHHCCCEEEEECCC
Q ss_conf             21056765237661138532899999999999958998569993258898805679999999999997269849997487
Q gi|254780750|r  693 VDKLFSRVGSADNLASGRSTFMVEMIETASILNQATNQSFVILDEIGRGTATLDGLSIAWATIEYLHETNRCRGLLATHF  772 (920)
Q Consensus       693 ~D~IftRiGa~D~l~~g~STF~vEm~e~~~IL~~at~~SLVllDElGrGTst~DG~aiA~aile~l~~~~~~~~lfaTHy  772 (920)
T Consensus        72 ~d~I~t~i~~~d~i~~~~StF~~E~~~~~~il~~~~~~sLvliDEl~~GT~~~eg~a~a~aile~l~~~-~~~~i~tTH~  150 (204)
T cd03282          72 FNRLLSRLSNDDSMERNLSTFASEMSETAYILDYADGDSLVLIDELGRGTSSADGFAISLAILECLIKK-ESTVFFATHF  150 (204)
T ss_pred             CCEEEEEECCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCEEEECCCCCCCCHHHHHHHHHHHHHHHHHC-CCEEEEECCH
T ss_conf             677899987666100664589999999999998588898798543348998678999999999999967-9879998976


Q ss_pred             HHHHHHHHHCCCEEEEEEEEEE-ECCEEEEEEEEEECCCC-CCHHHHHHHHCCC
Q ss_conf             5797664306885899999996-09927787777447898-8778999998299
Q gi|254780750|r  773 HELTDLSKSLKRFHNATLQVSD-SNEGIIFLHKVIPGIAD-HSYGIQVGKLAGL  824 (920)
Q Consensus       773 ~eL~~l~~~~~~v~n~~~~~~~-~~~~i~flykl~~G~~~-~Sygi~vA~laG~  824 (920)
T Consensus       151 ~~L~~l~~~~~~v~n~~m~~~~~~~~~l~f~YkL~~G~~~~~~ygi~~ar~~~l  204 (204)
T cd03282         151 RDIAAILGNKSCVVHLHMKAQSINSNGIEMAYKLVLGLYRIVDDGIRFVRVLAL  204 (204)
T ss_pred             HHHHHHHHHCCCEEEEEEEEEEEECCEEEEEEEECCCCCCCCCCHHHHHHHCCC
T ss_conf             899998863888499999999973992889879752788886355999997479