HHsearch alignment for GI: 255764514 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=98.46 E-value=1.4e-06 Score=62.28 Aligned_cols=74 Identities=22% Similarity=0.215 Sum_probs=60.5
Q ss_pred HCCHHHHHHHHHHHHHHCCCCCCCEEEEECCCCCCCHHHHHHHHHHHHHHHH-CCCEEEEECHHHHHHHCCCEEEE
Q ss_conf 0621579999999998436689976998034468887999999999999730-59399980837986501761799
Q gi|255764514|r 428 ASGGELSRFLLALKIVLVDQGSIPTLVFDEVDSGIGGAVADAIGYRLKQLSK-KIQLLAVTHAPQVAARADRHFLV 502 (554)
Q Consensus 428 aSGGE~Sr~~LAl~~~~~~~~~~p~~ifDEiDagi~G~~a~~v~~~l~~ls~-~~Qvi~ITH~pqvAa~a~~h~~v 502 (554)
T Consensus 170 LSGGqkQRvaiAraL~~-~~~~P~lllLDEPTs~LD~~~~~~l~~~l~~l~~~G~Tvi~itH~l~~~~~aD~IivL 244 (261)
T cd03271 170 LSGGEAQRIKLAKELSK-RSTGKTLYILDEPTTGLHFHDVKKLLEVLQRLVDKGNTVVVIEHNLDVIKCADWIIDL 244 (261)
T ss_pred CCHHHHHHHHHHHHHHH-CCCCCCEEEECCCCCCCCHHHHHHHHHHHHHHHHCCCEEEEEEECHHHHHHCCEEEEC
T ss_conf 68899999999999972-5888967995486345998999999999999997899999984778899738999993