HHsearch alignment for GI: 254780606 and conserved domain: cd03243
>cd03243 ABC_MutS_homologs 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, and recognition of specific DNA stru
Probab=97.69 E-value=0.0007 Score=45.59 Aligned_cols=125 Identities=17% Similarity=0.192 Sum_probs=74.1
Q ss_pred HCCCEEEEECCCCCHHHHHHHHHHHHHHHCCHHHEEEEEECCCCCEECCCCCCCCEEEEEEECHHHHHHHHHHHHHHHHH
Q ss_conf 14846997078753447999999999985680110799972342100012577520000444417876899999986676
Q gi|254780606|r 411 NMPHILVAGTTGSGKSVAINTMIMSLLYRLRPDECRMIMVDPKMLELSVYDGIPHLLTPVVTNPKKAVMALKWAVREMEE 490 (744)
Q Consensus 411 ~~PH~lvaG~TgsGKS~~l~~~i~sl~~~~~p~~~~~~liD~k~~~~~~~~~~ph~~~~v~~~~~~~~~~l~~~~~em~~ 490 (744)
T Consensus 28 ~~~~~iiTGpN~sGKSt~lkti~l~~~laq~G----~~-vpa~~~~~~~~~~i~---~-~~~~~d~~~~~~S~F~~e~~~ 98 (202)
T cd03243 28 SGRLLLITGPNMGGKSTYLRSIGLAVLLAQIG----CF-VPAESASIPLVDRIF---T-RIGAEDSISDGRSTFMAELLE 98 (202)
T ss_pred CCCEEEEECCCCCCHHHHHHHHHHHHHHHHHC----CE-EEECCCEEECCCEEE---E-EECCCHHHHCCCCHHHHHHHH
T ss_conf 98289998998875399999999999999838----73-720446894466699---9-846602444353549999999
Q ss_pred HHHHHHHCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEEHHHHHHHHHHCCHHHHH----HHHHHHHHHHCCEEE
Q ss_conf 9999998077867999998864202677666543233867999844568767531035899----999999964201358
Q gi|254780606|r 491 RYRKMSHLSVRNIKSYNERISTMYGEKPQGCGDDMRPMPYIVIIVDEMADLMMVAGKEIEG----AIQRLAQMARAAGIH 566 (744)
Q Consensus 491 r~~~~~~~~~~~i~~~n~~~~~~~~~~~~~~~~~~~~~p~ivvviDE~a~l~~~~~~~~e~----~~~~la~~~ra~Gih 566 (744)
T Consensus 99 ~~~i~~~~~-----------------------------~~slvliDE~~~--gT~~~eg~~la~a~l~~l~~----~~~~ 143 (202)
T cd03243 99 LKEILSLAT-----------------------------PRSLVLIDELGR--GTSTAEGLAIAYAVLEHLLE----KGCR 143 (202)
T ss_pred HHHHHHHCC-----------------------------CCCEEEECCCCC--CCCHHHHHHHHHHHHHHHHH----CCCE
T ss_conf 999998677-----------------------------777242052347--99867879999999999985----3684
Q ss_pred EEEEECCCCCCCC
Q ss_conf 9998516544441
Q gi|254780606|r 567 LIMATQRPSVDVI 579 (744)
Q Consensus 567 lilatQrp~~~vi 579 (744)
T Consensus 144 ~i~tTH~~~L~~~ 156 (202)
T cd03243 144 TLFATHFHELADL 156 (202)
T ss_pred EEEEECCHHHHHH
T ss_conf 9998253888875