HHsearch alignment for GI: 254780545 and conserved domain: cd03284
>cd03284 ABC_MutS1 MutS1 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 clam
Probab=94.49 E-value=0.1 Score=31.46 Aligned_cols=110 Identities=22% Similarity=0.262 Sum_probs=61.7
Q ss_pred CCEEECCCCCHHHHHHHHHHHC-----CCC---------CCEE-----CCCHHHHHHHHHHCC-----HHHHHHHHHHHH
Q ss_conf 3110037874258889999742-----469---------9702-----058578864442033-----245999999998
Q gi|254780545|r 182 HGVLLVGPPGTGKTLLARAVAG-----EAN---------VPFF-----TISGSDFVELFVGVG-----ASRVRDMFEQAK 237 (647)
Q Consensus 182 ~g~ll~GppGtGKTlla~a~a~-----e~~---------~~f~-----~~~~s~~~~~~~g~g-----~~~vr~lf~~a~ 237 (647)
T Consensus 31 ~~~iiTGpN~sGKSt~Lk~igl~~ilaq~G~~vpA~~a~i~~~d~I~t~i~~~d~--i~~~~StF~~e~~~~~~il~~a- 107 (216)
T cd03284 31 QILLITGPNMAGKSTYLRQVALIALLAQIGSFVPASKAEIGVVDRIFTRIGASDD--LAGGRSTFMVEMVETANILNNA- 107 (216)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHHHHHHHCCEEEECCEEEEECCEEEEEECCCCH--HHCCCCHHHHHHHHHHHHHHHC-
T ss_conf 5999989987745999999999999998687587661599704469995068621--3337265899999999999848-
Q ss_pred HHCCHHEEHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCEEEEEECCCCCCCCHHHCCCC
Q ss_conf 7378012063235641445578988626889889989985303235778299996298100883331656
Q gi|254780545|r 238 NNSPCIVFVDEIDAVGRHRGIGLGGGNDEREQTLNQLLVEMDGFESSEGVILIAATNRPDVLDAALLRPG 307 (647)
Q Consensus 238 ~~~p~iifiDeida~~~~r~~~~~~~~~e~~~~ln~ll~~mdg~~~~~~v~vi~aTn~~~~lD~al~Rpg 307 (647)
T Consensus 108 -~~~sLvliDEl~-----~gT~~----~eg~ala~aile~L---~~~~~~~~i~tTH~~~L~~l~~~~~~ 164 (216)
T cd03284 108 -TERSLVLLDEIG-----RGTST----YDGLSIAWAIVEYL---HEKIGAKTLFATHYHELTELEGKLPR 164 (216)
T ss_pred -CCCCEEEECCCC-----CCCCH----HHHHHHHHHHHHHH---HHCCCCEEEEEECHHHHHHHHHHCCC
T ss_conf -776156334456-----89985----78899999999999---97079728975050889998762866