HHsearch alignment for GI: 254780766 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=97.32 E-value=0.00028 Score=47.17 Aligned_cols=32 Identities=16% Similarity=0.315 Sum_probs=24.9
Q ss_pred HHHEEEECCC-CEEEEECCCCCCHHHHHHHHHH
Q ss_conf 4553673279-8799986899864448999999
Q gi|254780766|r 18 YASLRLVFDA-QHTIFVGDNGVGKTNILEAISF 49 (375)
Q Consensus 18 ~~~~~i~f~~-~~n~i~G~NG~GKT~iLEAI~~ 49 (375)
T Consensus 11 L~~vsl~i~~G~~~aIiG~sGsGKSTLl~~~L~ 43 (261)
T cd03271 11 LKNIDVDIPLGVLTCVTGVSGSGKSSLINDTLY 43 (261)
T ss_pred CCCEEEEECCCCEEEEECCCCCCHHHHHHHHHH
T ss_conf 778588988999999987999869999999988