HHsearch alignment for GI: 255764460 and conserved domain: cd03284
>cd03284 ABC_MutS1 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding clam
Probab=95.46 E-value=0.11 Score=30.35 Aligned_cols=130 Identities=17% Similarity=0.256 Sum_probs=61.7
Q ss_pred HHHHHHHCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHH--HHCCCEEEEEECCC-CCCH--HHHHHHCCCHHHEEEEEC
Q ss_conf 789997238972688079997068723789999998752--00898799997388-5566--889981988334489725
Q gi|255764460|r 53 LGLDIALGIGGFPKGRIVEIYGPESSGKTTLALHTIAQS--QKTGGTCAFVDAEH-ALDS--IYARKLGVDLKNLLISQP 127 (363)
Q Consensus 53 ~~lD~~Lg~GG~p~Gri~ei~G~~~sGKTtlal~~~a~~--qk~g~~~~~iD~E~-~~~~--~~a~~~Gvd~~~l~~~~~ 127 (363)
T Consensus 20 VpNdi~l~----~~~~~~iiTGpN~sGKSt~Lk~igl~~ilaq~G~---~vpA~~a~i~~~d~I~t~i~~-~d~i~~~~S 91 (216)
T cd03284 20 VPNDTELD----PERQILLITGPNMAGKSTYLRQVALIALLAQIGS---FVPASKAEIGVVDRIFTRIGA-SDDLAGGRS 91 (216)
T ss_pred ECCEEEEC----CCCEEEEEECCCCCCHHHHHHHHHHHHHHHHHCC---EEEECCEEEEECCEEEEEECC-CCHHHCCCC
T ss_conf 76568978----9845999989987745999999999999998687---587661599704469995068-621333726
Q ss_pred CCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCEEEEEECCCC
Q ss_conf 848999999999974489768998143332202655434555302247888767767777642017818999863411
Q gi|255764460|r 128 DTGEQALEITDMLVRSGAVDIIVIDSVAALTPRAEIEGDMGESLPGMQARLMSQALRKLTSSISRSKCILVFINQMRM 205 (363)
Q Consensus 128 ~~~E~~~~i~~~li~~~~~~liViDSi~al~p~~Eie~~~~d~~~g~~ar~ms~~lrkl~~~~~k~~~~~i~iNQ~r~ 205 (363)
T Consensus 92 tF~~e~~~~~~il~~a~~~sLvliDEl~~gT~~~e--g----------~ala~aile~---L~~~~~~~~i~tTH~~~ 154 (216)
T cd03284 92 TFMVEMVETANILNNATERSLVLLDEIGRGTSTYD--G----------LSIAWAIVEY---LHEKIGAKTLFATHYHE 154 (216)
T ss_pred HHHHHHHHHHHHHHHCCCCCEEEECCCCCCCCHHH--H----------HHHHHHHHHH---HHHCCCCEEEEEECHHH
T ss_conf 58999999999998487761563344568998578--8----------9999999999---99707972897505088