HHsearch alignment for GI: peg_887 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=92.97 E-value=0.097 Score=31.67 Aligned_cols=21 Identities=24% Similarity=0.189 Sum_probs=18.2
Q ss_pred CCCCEEEEECCCCCCHHHHHH
Q ss_conf 898499998798733449999
Q 537021.9.peg.8 8 THTKAIFISGPTASGKSLCAV 28 (133)
Q Consensus 8 ~~~~ii~I~GpTasGKT~lai 28 (133)
T Consensus 19 ~~G~~~aIiG~sGsGKSTLl~ 39 (261)
T cd03271 19 PLGVLTCVTGVSGSGKSSLIN 39 (261)
T ss_pred CCCCEEEEECCCCCCHHHHHH
T ss_conf 899999998799986999999