HHsearch alignment for GI: 254780750 and conserved domain: pfam05188
>pfam05188 MutS_II MutS domain II. This domain is found in proteins of the MutS family (DNA mismatch repair proteins) and is found associated with pfam00488, pfam01624, 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. This domain corresponds to domain II in Thermus aquaticus MutS as characterized in, and has similarity resembles RNAse-H-like domains (see pfam00075).
Probab=99.78 E-value=1e-17 Score=150.88 Aligned_cols=129 Identities=28% Similarity=0.445 Sum_probs=109.1
Q ss_pred CEEEEEEEC-CCEEEEEEEECCCCEEEEEECC-HHHHHHHHHHCCCCEEEEECCCCCHHH-HHHHHHHCCCCEECCCCCC
Q ss_conf 369999952-9849999999786559996058-789999985229857997077689678-9988742388157185211
Q gi|254780750|r 151 NYLMAVARI-RTEWAIAWIDISTGIFKISTSN-HDRLISDIMRIDPREIIFSEKELSHAE-YKSLFETLGNVAVAQPNVF 227 (920)
Q Consensus 151 nyL~aI~~~-~~~~Gia~iDisTG~~~~~~~~-~d~l~~~L~~l~P~EIii~~~~~~~~~-~~~l~~~~~~~~~~~~~~~ 227 (920)
T Consensus 1 NyL~ai~~~~~~~~glA~~DiSTGef~~~~~~~~~~l~~el~r~~P~Eiii~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (133)
T pfam05188 1 NYLAAISRGDGNRYGLAFLDLSTGEFGVSEFEDFEELLAELSRLSPKELLLPESLSSSTVAESQKLLELRLRVGRRPTWL 80 (133)
T ss_pred CEEEEEEECCCCEEEEEEEECCCCCEEEEECCCHHHHHHHHHHCCCCEEEECCCCCCCHHHHHHHHHHCCCCEEECCCCC
T ss_conf 97999998799859999999677967888528999999999825994899534422001566777640365317567532
Q ss_pred CCHHHHHHHHHHHCCCCCCCCHHH-HHHHHHHHHHHHHHHHHHHHCCCCCCCC
Q ss_conf 471344788998708786421024-4434688877776436874112222221
Q gi|254780750|r 228 FDHSISESRIADYYNITTVDTFGS-FSQVEKTAAAAAISYIKKTQMVNKPTIG 279 (920)
Q Consensus 228 f~~~~~~~~l~~~~~~~~l~~~~~-~~~~~~~a~~all~Yl~~~~~~~~~~i~ 279 (920)
T Consensus 81 f~~~~a~~~l~~~f~~~~l~~~g~~~~~~~i~A~galL~Yl~~Tqk~~L~hi~ 133 (133)
T pfam05188 81 FELEHAYEDLNEDFGVEDLDGFGLEELPLALCAAGALISYLKETQKENLPHIQ 133 (133)
T ss_pred CCHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCHHCC
T ss_conf 48899999999983858764468766668999999999999999671624219