HHsearch alignment for GI: 254780750 and conserved domain: pfam05192
>pfam05192 MutS_III MutS domain III. This domain is found in proteins of the MutS family (DNA mismatch repair proteins) and is found associated with pfam00488, pfam05188, pfam01624 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 III, which is central to the structure of Thermus aquaticus MutS as characterized in.
Probab=100.00 E-value=0 Score=423.31 Aligned_cols=305 Identities=38% Similarity=0.601 Sum_probs=275.1
Q ss_pred CCEEEECCHHHCCEEEEECC-CCCCCCHHHHHHCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCHHHHHHHH
Q ss_conf 54014251332015454127-87764127876301234337899998631002345678989999997402212588999
Q gi|254780750|r 287 QSTLFIDSAARSNLEILRTL-SGSREQSLLKTIDYSITGAGGRLFAERIASPLTDSTKINTRLDSINFFIQNPILINPIQ 365 (920)
Q Consensus 287 ~~~m~LD~~Tl~nLEI~~~~-~g~~~gSL~~~Ln~t~T~~G~RlLr~wL~~PL~d~~~I~~R~daVe~l~~~~~~~~~l~ 365 (920)
T Consensus 1 ~~~m~lD~~tl~~Lei~~n~~~~~~~~SL~~~Ln~t~T~~G~RlLr~wl~~Pl~d~~~I~~R~d~Ve~l~~~~~~~~~l~ 80 (306)
T pfam05192 1 EDYMLLDSATRRNLELVENLSGDGKNGSLFSVLDRTVTAMGSRLLRRWLLQPLRDREEINARLDAVEELLEDPELRQTLR 80 (306)
T ss_pred CCCEECCHHHHHHHCCCCCCCCCCCCCCHHHHHCCCCCCHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHCHHHHHHHH
T ss_conf 98453289999852688788899989839999656889088999999985816699999999999999985989999999
Q ss_pred HHHHHHCCHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 99752048344445677521000021206899999865567543025845778767657767899999999985431012
Q gi|254780750|r 366 KILKSSPDVPRSLSRLKIGRGEPKDIAVIRDGIRSGINILNLFLKNDLPEELRGAVEKLKKLPQSLEKTLSSMLSDDLPT 445 (920)
Q Consensus 366 ~~L~~i~DleRll~ri~~~~~~p~dl~~L~~sl~~~~~i~~~l~~~~~~~~l~~~~~~l~~l~~~l~~~l~~~i~~~~~~ 445 (920)
T Consensus 81 ~~Lk~i~Dlerl~~ri~~~~~~~~~~~~l~~~l~~i~~i~~~l~~~~~~~~~~~~~~~~~~-~~~~~~~i~~~i~~~~~~ 159 (306)
T pfam05192 81 ELLKRVPDLERLLSRLALGRANPRDLLRLRDSLERLPTIKELLEELDSPLLLKELRKSIDD-LSELLDLLETAINEDPPL 159 (306)
T ss_pred HHHHCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHCCCC-HHHHHHHHHHHHHCCHHH
T ss_conf 9986489789999999828978899999999999999999999857884678888744234-899999999998246176
Q ss_pred HHCCCCEECCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCEEEEEECCHHHHHCCCCCCCCCCEEE
Q ss_conf 21046010168541145579988638999997768778873887511025586223762041143334411168765279
Q gi|254780750|r 446 FKRDGGFLRDGADASLDETRSLRDQSKRIIASLQLKYAEETKIKNLKIKHNNNLGYFIEVTSSSASVLKKDLESKDRFIH 525 (920)
Q Consensus 446 ~~~~~~~ik~g~d~eLD~lr~~~~~~~~~l~~l~~~~~~~~~i~sLki~~n~~~gy~iEV~~~~~~~i~~~~~~~~~~i~ 525 (920)
T Consensus 160 ~~~~~~~i~~g~~~~LD~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~~~~~~~g~~i~~~~~~~~~~p------~~~~~ 233 (306)
T pfam05192 160 LIREGGVIKSGYDAELDELRDLRDEAKEWIAELEAKEREETGIDSLKIGYNKVGGYYIEVTKSNADLLP------KHFIR 233 (306)
T ss_pred HCCCCCEECCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEEECCCEEEEEEECCCHHCCCC------CCCEE
T ss_conf 556788548998878999999999789999999999999818986125665822799986031010286------40024
Q ss_pred EEECCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 8521200011134566643346437777764334478887654301125798888999867788778887752
Q gi|254780750|r 526 RQTMSNLTRFTTLELIDLENRITNATNSALLIELESFEILSNAIIEQSESLDNASQVIAIIDISIALAILAKE 598 (920)
Q Consensus 526 ~qt~~~~~Rf~t~eL~~l~~~i~~~~~~~~~~e~~~~~~l~~~i~~~~~~l~~~~~~ia~lD~l~SlA~~a~~ 598 (920)
T Consensus 234 ~~~~k~~~~f~t~~l~~l~~~l~~~~~~i~~~~~~i~~~l~~~~~~~~~~l~~~~~~ia~LD~l~S~A~vA~e 306 (306)
T pfam05192 234 RQTLKNAERFTTPELKELEDKILNAEERILALEKELFEELRERVVEHAEPLQALAEALAELDVLVSFAELAAE 306 (306)
T ss_pred EEECCCEEEEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC
T ss_conf 4301571588568899999999999999999999999999999999999999999999999999999999578