HHsearch alignment for GI: 254780766 and conserved domain: cd03238
>cd03238 ABC_UvrA The excision repair protein UvrA; 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=98.48 E-value=9e-07 Score=63.41 Aligned_cols=77 Identities=21% Similarity=0.318 Sum_probs=59.4
Q ss_pred HHCCCHHHHHHHHHHHHHHHHHHHHHCCCCC--EEEEECCHHCCCHHHHHHHHHHHHHC---CCCEEEEECCHHHHHHHH
Q ss_conf 3122058999999999999999998708997--89980122015989999999997417---980999806967854321
Q gi|254780766|r 285 AHGSTGEQKVVLVGIFLAHARLISNTTGFAP--ILLLDEISAHLDEDKRNALFRIVTDI---GSQIFMTGTDKSVFDSLN 359 (375)
Q Consensus 285 ~~~S~Gqqk~~~l~l~La~~~~~~~~~~~~p--ilLiDdi~s~LD~~~~~~ll~~l~~~---~~Qv~iTt~~~~~~~~~~ 359 (375)
T Consensus 86 ~~LSGGqkQRvaiAraL~~---------~p~~~ililDEPtsgLD~~~~~~l~~~l~~l~~~g~TvI~vtHd~~~~~~-a 155 (176)
T cd03238 86 STLSGGELQRVKLASELFS---------EPPGTLFILDEPSTGLHQQDINQLLEVIKGLIDLGNTVILIEHNLDVLSS-A 155 (176)
T ss_pred CCCCHHHHHHHHHHHHHHH---------CCCCCEEEECCCCCCCCHHHHHHHHHHHHHHHHCCCEEEEEECCHHHHHH-C
T ss_conf 8689999999999999986---------89986899717744589879999999999999879989999478799983-9
Q ss_pred CCEEEEEECCCEEE
Q ss_conf 26007997289689
Q gi|254780766|r 360 ETAKFMRISNHQAL 373 (375)
Q Consensus 360 ~~~~~~~i~~g~~~ 373 (375)
T Consensus 156 Dr--ii~l~~G~i~ 167 (176)
T cd03238 156 DW--IIDFGPGSGK 167 (176)
T ss_pred CE--EEEECCCCCC
T ss_conf 99--9994599766