>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=97.31 E-value=0.006 Score=39.20 Aligned_cols=145 Identities=17% Similarity=0.237 Sum_probs=72.1 Q ss_pred CCCCCEEEEEEECCCCCEEECCHHHCCCEEEEECCCCCHHHHHHHHHHHHHHHCCHHHEEEEEECCCCCEECCCCCCCCE Q ss_conf 46783689842057887321120114846997078753447999999999985680110799972342100012577520 Q gi|254780606|r 387 HSKANLALCLGKTISGESVIADLANMPHILVAGTTGSGKSVAINTMIMSLLYRLRPDECRMIMVDPKMLELSVYDGIPHL 466 (744) Q Consensus 387 ~~~~~l~~~~g~~~~g~~~~~dl~~~PH~lvaG~TgsGKS~~l~~~i~sl~~~~~p~~~~~~liD~k~~~~~~~~~~ph~ 466 (744) T Consensus 4 ~~rHPll~~~~~~~V~Ndi~l~-~~~~~~iiTGpN~sGKSt~lk~i~l~~iLAq~G---~~vpa~-~~~~~~~~d~---i 75 (200) T cd03280 4 EARHPLLPLQGEKVVPLDIQLG-ENKRVLVITGPNAGGKTVTLKTLGLLTLMAQSG---LPIPAA-EGSSLPVFEN---I 75 (200) T ss_pred CCCCCEEECCCCCEECCEEEEC-CCCEEEEEECCCCCCCHHHHHHHHHHHHHHHHC---CCEEEC-CCEECCCCCE---E T ss_conf 7728859757895476258977-993399998898775099999999999999977---780011-0047266567---8 Q ss_pred EEEEEECHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEEHHHHHHHHHHCC Q ss_conf 00044441787689999998667699999980778679999988642026776665432338679998445687675310 Q gi|254780606|r 467 LTPVVTNPKKAVMALKWAVREMEERYRKMSHLSVRNIKSYNERISTMYGEKPQGCGDDMRPMPYIVIIVDEMADLMMVAG 546 (744) Q Consensus 467 ~~~v~~~~~~~~~~l~~~~~em~~r~~~~~~~~~~~i~~~n~~~~~~~~~~~~~~~~~~~~~p~ivvviDE~a~l~~~~~ 546 (744) T Consensus 76 ~~~-i~~~d~~~~~~S~F~~E~~~~~~il~~~~-----------------------------~~sLvliDE~~~--gTn~ 123 (200) T cd03280 76 FAD-IGDEQSIEQSLSTFSSHMKNIARILQHAD-----------------------------PDSLVLLDELGS--GTDP 123 (200) T ss_pred EEE-ECCCCCHHHHHHHHHHHHHHHHHHHHHCC-----------------------------CCCEEEECCCCC--CCCH T ss_conf 888-46733666778799999999999998588-----------------------------888797556668--9887 Q ss_pred HHHH----HHHHHHHHHHHCCEEEEEEEECCCC Q ss_conf 3589----9999999964201358999851654 Q gi|254780606|r 547 KEIE----GAIQRLAQMARAAGIHLIMATQRPS 575 (744) Q Consensus 547 ~~~e----~~~~~la~~~ra~GihlilatQrp~ 575 (744) T Consensus 124 ~eg~~~a~a~l~~l~~----~~~~~i~tTH~~e 152 (200) T cd03280 124 VEGAALAIAILEELLE----RGALVIATTHYGE 152 (200) T ss_pred HHHHHHHHHHHHHHHH----CCCEEEEECCCHH T ss_conf 8999999999999985----7997999897178

HHsearch alignment for GI: 254780606 and conserved domain: cd03280