HHsearch alignment for GI: 254780750 and conserved domain: pfam05190
>pfam05190 MutS_IV MutS family domain IV. This domain is found in proteins of the MutS family (DNA mismatch repair proteins) and is found associated with pfam01624, pfam05188, pfam05192 and pfam00488. 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 in part with globular domain IV, which is involved in DNA binding, in Thermus aquaticus MutS as characterized in.
Probab=99.61 E-value=2.8e-16 Score=140.03 Aligned_cols=91 Identities=41% Similarity=0.544 Sum_probs=86.5
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCEEEEEECCHHHHHCCCCCCCCCCEEEEEECCCCHHH
Q ss_conf 85411455799886389999977687788738875110255862237620411433344111687652798521200011
Q gi|254780750|r 456 GADASLDETRSLRDQSKRIIASLQLKYAEETKIKNLKIKHNNNLGYFIEVTSSSASVLKKDLESKDRFIHRQTMSNLTRF 535 (920)
Q Consensus 456 g~d~eLD~lr~~~~~~~~~l~~l~~~~~~~~~i~sLki~~n~~~gy~iEV~~~~~~~i~~~~~~~~~~i~~qt~~~~~Rf 535 (920)
T Consensus 1 G~d~eLD~lr~~~~~~~~~l~~l~~~~~~~~gi~~LKi~~n~~~Gy~ieV~~~~~~~vp------~~~i~~qt~kn~~Rf 74 (92)
T pfam05190 1 GFDEELDELRDLLEELESELDELLAKERERLGIKSLKVGYNKVFGYYIEVTRSEAKKVP------KDYIRRQTLKNGVRF 74 (92)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCEEEEEECCEEEEEEEECHHHHHCCC------HHHHHHHHHHCCEEE
T ss_conf 98879999999998589999999999999939973999774688999996044341296------779999846076355
Q ss_pred HHHHHHHHHHHHHHHHH
Q ss_conf 13456664334643777
Q gi|254780750|r 536 TTLELIDLENRITNATN 552 (920)
Q Consensus 536 ~t~eL~~l~~~i~~~~~ 552 (920)
T Consensus 75 tt~eL~~le~~~~~a~e 91 (92)
T pfam05190 75 TTPELKKLEDELLEAEE 91 (92)
T ss_pred CCHHHHHHHHHHHHHCC
T ss_conf 58899999999984035