HHsearch alignment for GI: 254780217 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=94.45 E-value=0.099 Score=33.58 Aligned_cols=133 Identities=14% Similarity=0.108 Sum_probs=64.8
Q ss_pred EEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHH-CCCCCCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHH
Q ss_conf 1663117989888999999999981779988643121-012678867999967898754530010001013421232378
Q gi|254780217|r 35 HALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRM-CNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVD 113 (347)
Q Consensus 35 ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~-~~~~~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd 113 (347)
T Consensus 29 ~~~iiTGpN~sGKSt~lk~i~l~~iLAq~G~~vpa~~~~~~~~----~---------d~i~~~i~-~~d~~~~~~S~F~~ 94 (200)
T cd03280 29 RVLVITGPNAGGKTVTLKTLGLLTLMAQSGLPIPAAEGSSLPV----F---------ENIFADIG-DEQSIEQSLSTFSS 94 (200)
T ss_pred EEEEEECCCCCCCHHHHHHHHHHHHHHHHCCCEEECCCEECCC----C---------CEEEEEEC-CCCCHHHHHHHHHH
T ss_conf 3999988987750999999999999999777800110047266----5---------67888846-73366677879999
Q ss_pred HHHHHHHHCCCCCCCCCCHHHHHHHHHHCCH-----HHHHHHHHHHHHCCCCCCEEEEECCCC-CCCHHHHCEEEEEEC
Q ss_conf 8755443102221111210353220554240-----001456777663034341676504433-573025203698864
Q gi|254780217|r 114 EIRRIRYFLSLTANTGYWRVIMIDPVDGMNR-----NAANALLKSLEEPPQKVLFILISHASP-TILSTIRSRCLSIKF 186 (347)
Q Consensus 114 ~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~-----~AaNALLK~LEEPp~~t~fiLit~~~~-~il~TI~SRc~~i~f 186 (347)
T Consensus 95 E~~~~~~il~~~---~~~sLvliDE~~~gTn~~eg~~~a~a~l~~l~~--~~~~~i~tTH~~eL~~l~~~~~~v~~~~~ 168 (200)
T cd03280 95 HMKNIARILQHA---DPDSLVLLDELGSGTDPVEGAALAIAILEELLE--RGALVIATTHYGELKAYAYKREGVENASM 168 (200)
T ss_pred HHHHHHHHHHHC---CCCCEEEECCCCCCCCHHHHHHHHHHHHHHHHH--CCCEEEEECCCHHHHHHHHHCCCEEEEEE
T ss_conf 999999999858---888879755666898878999999999999985--79979998971789987751356278899