HHsearch alignment for GI: 254780750 and conserved domain: pfam00488
>pfam00488 MutS_V MutS domain V. This domain is found in proteins of the MutS family (DNA mismatch repair proteins) and is found associated with pfam01624, pfam05188, pfam05192 and pfam05190. The mutS family of proteins is named after the Salmonella typhimurium MutS protein involved in mismatch repair; other members of the family included the eukaryotic MSH 1,2,3, 4,5 and 6 proteins. These have various roles in DNA repair and recombination. Human MSH has been implicated in non-polyposis colorectal carcinoma (HNPCC) and is a mismatch binding protein. The aligned region corresponds with domain V of Thermus aquaticus MutS, which contains a Walker A motif, and is structurally similar to the ATPase domain of ABC transporters.
Probab=100.00 E-value=0 Score=587.45 Aligned_cols=233 Identities=56% Similarity=0.920 Sum_probs=223.7
Q ss_pred CCCEECCCCCCEEECCCCCHHHHHHHHHCCCCCEEEEEEEECCCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHHHCC
Q ss_conf 85121047871400004680588763102877044434563587777664399996778440789999999999999719
Q gi|254780750|r 601 YCRPIIDNSTNFIVKDGRHPIVEKTLKQQSSKPFIANDCDLSCPNDKNSGKLWLLTGPNMGGKSTFLRQNALIVIMAQMG 680 (920)
Q Consensus 601 y~rP~i~~~~~l~i~~gRHPviE~~l~~~~~~~fVpNdi~l~~~~~~~~~~~~iiTGpNmgGKSt~lRqval~vilAQiG 680 (920)
T Consensus 1 y~~P~~~~~~~l~i~~~rHPll~~~~----~~~~VpNdi~l~~----~~~~~~iiTGpN~sGKSt~Lk~igl~~~lAq~G 72 (234)
T pfam00488 1 YVRPEFTESDALHIEGGRHPVVEAVL----AENFVPNDVSLGK----ERSRILLITGPNMGGKSTYLRQVALIVIMAQIG 72 (234)
T ss_pred CCCCEECCCCCEEEEECCCCEEECCC----CCCEECCEEEECC----CCEEEEEEECCCCCCCHHHHHHHHHHHHHHHHC
T ss_conf 97887858996899976687697257----9976876589779----961699997887776199999999999999836
Q ss_pred CCCCHHHCCCCCCCEEEEEEECCCCCCCCCCHHHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHHHHH
Q ss_conf 85303532068221056765237661138532899999999999958998569993258898805679999999999997
Q gi|254780750|r 681 SYVPASYAHIGIVDKLFSRVGSADNLASGRSTFMVEMIETASILNQATNQSFVILDEIGRGTATLDGLSIAWATIEYLHE 760 (920)
Q Consensus 681 ~fVPA~~a~i~~~D~IftRiGa~D~l~~g~STF~vEm~e~~~IL~~at~~SLVllDElGrGTst~DG~aiA~aile~l~~ 760 (920)
T Consensus 73 ~~VPA~~a~~~~~d~I~~~i~~~dsl~~~~StF~~e~~~~~~il~~~~~~sLvliDEl~~GT~~~eg~al~~aile~L~~ 152 (234)
T pfam00488 73 SFVPAESARIGIVDRIFTRIGASDDLASGRSTFMVEMLETANILHNATDKSLVILDELGRGTSTYDGLAIAWAVAEHLAE 152 (234)
T ss_pred CCEEECCEEEECCCEEEEEECCCCHHHCCCCHHHHHHHHHHHHHHHCCCCCEECCCCCCCCCCHHHHHHHHHHHHHHHHH
T ss_conf 87422205996365599985675334466117999999999999738877322014245899834679999999999997
Q ss_pred HCCCEEEEECCCHHHHHHHHHCCCEEEEEEEEEEECCEEEEEEEEEECCCCCCHHHHHHHHCCCCHHHHHHHHHHHHHHH
Q ss_conf 26984999748757976643068858999999960992778777744789887789999982999899999999999998
Q gi|254780750|r 761 TNRCRGLLATHFHELTDLSKSLKRFHNATLQVSDSNEGIIFLHKVIPGIADHSYGIQVGKLAGLPNTVISRAYDILKTFE 840 (920)
Q Consensus 761 ~~~~~~lfaTHy~eL~~l~~~~~~v~n~~~~~~~~~~~i~flykl~~G~~~~Sygi~vA~laG~p~~vi~~A~~~~~~le 840 (920)
T Consensus 153 ~~~~~~i~tTH~~~L~~l~~~~~~v~~~~m~~~~~~~~~~f~Ykl~~G~~~~s~ai~ia~~~G~p~~ii~rA~~i~~~le 232 (234)
T pfam00488 153 KIRARTLFATHYHELTKLAEKLPAVKNVHMAAVETNGDIVFLYKVKPGAADKSYGIHVAELAGLPESVVERAREVLAELE 232 (234)
T ss_pred HCCCEEEEEECHHHHHHHHHHCCCCCCEEEEEEEECCEEEEEEEECCCCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHHH
T ss_conf 35977999713577999987476444148999998997869999775899983999999991969999999999999986
Q ss_pred H
Q ss_conf 7
Q gi|254780750|r 841 K 841 (920)
Q Consensus 841 ~ 841 (920)
T Consensus 233 ~ 233 (234)
T pfam00488 233 D 233 (234)
T ss_pred C
T ss_conf 6