HHsearch alignment for GI: 254780810 and conserved domain: cd03271
>cd03271 ABC_UvrA_II The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins and UvrB having one ATP binding site that is structurally related to that of helicases.
Probab=93.43 E-value=0.056 Score=32.12 Aligned_cols=26 Identities=19% Similarity=0.308 Sum_probs=22.7
Q ss_pred HHHHCCCCEEEECCCCCCHHHHHHHH
Q ss_conf 65510231222048778789999999
Q gi|254780810|r 169 APIGKGQRSLIVAPPRTGKTILLQNI 194 (423)
Q Consensus 169 ~pig~gqr~~i~~~~~~gkt~ll~~i 194 (423)
T Consensus 16 l~i~~G~~~aIiG~sGsGKSTLl~~~ 41 (261)
T cd03271 16 VDIPLGVLTCVTGVSGSGKSSLINDT 41 (261)
T ss_pred EEECCCCEEEEECCCCCCHHHHHHHH
T ss_conf 89889999999879998699999999