HHsearch alignment for GI: 254780684 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=93.68 E-value=0.05 Score=33.78 Aligned_cols=28 Identities=32% Similarity=0.220 Sum_probs=23.6
Q ss_pred HHHHHCCCCEEEEECCCCCCHHHHHHHH
Q ss_conf 2002235850375266788999999998
Q gi|254780684|r 154 IFTPLCHGQRIGVFAGSGIGKSTLLSMF 181 (438)
Q Consensus 154 ~l~pig~GQR~gIfg~~GvGKt~Ll~~i 181 (438)
T Consensus 14 vsl~i~~G~~~aIiG~sGsGKSTLl~~~ 41 (261)
T cd03271 14 IDVDIPLGVLTCVTGVSGSGKSSLINDT 41 (261)
T ss_pred EEEEECCCCEEEEECCCCCCHHHHHHHH
T ss_conf 5889889999999879998699999999