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