HHsearch alignment for GI: 254780606 and conserved domain: cd03286
>cd03286 ABC_MSH6_euk MutS6 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=97.16 E-value=0.0095 Score=37.86 Aligned_cols=119 Identities=18% Similarity=0.242 Sum_probs=70.9
Q ss_pred CEEEEECCCCCHHHHHHHHHHHHHHHCCHHHEEEEEECCCCCEECCCCCCCCEEEEEEECHHHHHHHHHHHHHHHHHHHH
Q ss_conf 46997078753447999999999985680110799972342100012577520000444417876899999986676999
Q gi|254780606|r 414 HILVAGTTGSGKSVAINTMIMSLLYRLRPDECRMIMVDPKMLELSVYDGIPHLLTPVVTNPKKAVMALKWAVREMEERYR 493 (744)
Q Consensus 414 H~lvaG~TgsGKS~~l~~~i~sl~~~~~p~~~~~~liD~k~~~~~~~~~~ph~~~~v~~~~~~~~~~l~~~~~em~~r~~ 493 (744)
T Consensus 32 ~~iiTGpN~sGKSt~lk~i~l~~ilaq~G~-----~vpA~~~~~~~~d~i---~~-~i~~~d~~~~~~StF~~e~~~~~~ 102 (218)
T cd03286 32 ILVLTGPNMGGKSTLLRTVCLAVIMAQMGM-----DVPAKSMRLSLVDRI---FT-RIGARDDIMKGESTFMVELSETAN 102 (218)
T ss_pred EEEEECCCCCCCHHHHHHHHHHHHHHHCCC-----CEECCCCEEECCCEE---EE-EECCCCCHHHHHHHHHHHHHHHHH
T ss_conf 899989998873899999999999998288-----430146477346648---99-745866143115069999999999
Q ss_pred HHHHCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEEHHHHHHHHHHCCHHHH----HHHHHHHHHHHCCEEEEEE
Q ss_conf 999807786799999886420267766654323386799984456876753103589----9999999964201358999
Q gi|254780606|r 494 KMSHLSVRNIKSYNERISTMYGEKPQGCGDDMRPMPYIVIIVDEMADLMMVAGKEIE----GAIQRLAQMARAAGIHLIM 569 (744)
Q Consensus 494 ~~~~~~~~~i~~~n~~~~~~~~~~~~~~~~~~~~~p~ivvviDE~a~l~~~~~~~~e----~~~~~la~~~ra~Gihlil 569 (744)
T Consensus 103 il~~~~-----------------------------~~sLvllDE~~~--GT~~~eg~ala~aile~L~---~~~~~~~i~ 148 (218)
T cd03286 103 ILRHAT-----------------------------PDSLVILDELGR--GTSTHDGYAIAHAVLEYLV---KKVKCLTLF 148 (218)
T ss_pred HHHHCC-----------------------------CCCCEECCCCCC--CCCCHHHHHHHHHHHHHHH---HCCCCEEEE
T ss_conf 998679-----------------------------985010255468--9981167999999999998---637976999
Q ss_pred EECCCC
Q ss_conf 851654
Q gi|254780606|r 570 ATQRPS 575 (744)
Q Consensus 570 atQrp~ 575 (744)
T Consensus 149 tTH~~e 154 (218)
T cd03286 149 STHYHS 154 (218)
T ss_pred ECCCHH
T ss_conf 767289