HHsearch alignment for GI: 254780217 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=94.20 E-value=0.12 Score=32.89 Aligned_cols=120 Identities=16% Similarity=0.062 Sum_probs=57.7
Q ss_pred CEEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHCCCCCCCHHHHHHHCCCCCCEEEECCCCHHHCCCCCCCCCHH
Q ss_conf 81663117989888999999999981779988643121012678867999967898754530010001013421232378
Q gi|254780217|r 34 HHALLFEGEQGIGKATLGFRYAGHVLQNPDFSKAPVRMCNPDPCSPFVKQMASHALHDFLYLSYSLNPKTGKWRTVITVD 113 (347)
Q Consensus 34 ~ha~Lf~Gp~GiGK~~~A~~~A~~llc~~~~~~~~~~~~~~~~~~~~~~~i~~~~hpd~~~i~~~~~~k~~~~~~~I~vd 113 (347)
T Consensus 42 ~~~~iiTGpN~sGKSt~Lk~igl~~~lAq~G~~VPA~~a~~~~~-------------d~I~~~i~~~ds-l~~~~StF~~ 107 (234)
T pfam00488 42 SRILLITGPNMGGKSTYLRQVALIVIMAQIGSFVPAESARIGIV-------------DRIFTRIGASDD-LASGRSTFMV 107 (234)
T ss_pred EEEEEEECCCCCCCHHHHHHHHHHHHHHHHCCCEEECCEEEECC-------------CEEEEEECCCCH-HHCCCCHHHH
T ss_conf 16999978877761999999999999998368742220599636-------------559998567533-4466117999
Q ss_pred HHHHHHHHCCCCCCCCCCHHHHHHHHHHCCH-----HHHHHHHHHHHHCCCCCCEEEEECCCC
Q ss_conf 8755443102221111210353220554240-----001456777663034341676504433
Q gi|254780217|r 114 EIRRIRYFLSLTANTGYWRVIMIDPVDGMNR-----NAANALLKSLEEPPQKVLFILISHASP 171 (347)
Q Consensus 114 ~IR~l~~~~~~~~~~~~~Ki~IId~ad~ln~-----~AaNALLK~LEEPp~~t~fiLit~~~~ 171 (347)
T Consensus 108 e~~~~~~il~~~---~~~sLvliDEl~~GT~~~eg~al~~aile~L~~~-~~~~~i~tTH~~~ 166 (234)
T pfam00488 108 EMLETANILHNA---TDKSLVILDELGRGTSTYDGLAIAWAVAEHLAEK-IRARTLFATHYHE 166 (234)
T ss_pred HHHHHHHHHHHC---CCCCEECCCCCCCCCCHHHHHHHHHHHHHHHHHH-CCCEEEEEECHHH
T ss_conf 999999999738---8773220142458998346799999999999973-5977999713577