HHsearch alignment for GI: 254781149 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=96.62 E-value=0.0099 Score=39.25 Aligned_cols=118 Identities=16% Similarity=0.165 Sum_probs=69.8
Q ss_pred HHHHHHHHHHHCCCCEEEEECCCCHHHHHHHHHHHHHHHHC----CCCEEEECCCCCHHHHHHHHHHHHHCCCCCCCCHH
Q ss_conf 37777765530168368870687414889999999996302----23236411675348999999996302232347855
Q gi|254781149|r 129 LQSVDHLMGGVQLRELILIGARPSMGKTTFALSTALHMAMS----GHGVAFFSLEMDREKLGARALSNLLYPSSSRIPYL 204 (266)
Q Consensus 129 ~~~LD~~~gG~~~g~LiviaaRP~mGKTa~alnia~~~a~~----g~~Vl~fSlEMs~~ql~~R~ls~~t~~~~s~I~~~ 204 (266)
T Consensus 8 ~~aL~~isl~i~~Ge~~~iiG~nGsGKSTLl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~--~~~~~---~l~~~~l~ 82 (176)
T cd03238 8 VHNLQNLDVSIPLNVLVVVTGVSGSGKSTLVNEGLYASGKARLISFLPKFSRNKLIFIDQLQ--FLIDV---GLGYLTLG 82 (176)
T ss_pred EECCCCEEEEECCCCEEEEECCCCCCHHHHHHHHHHHHHCCHHHCCHHHCCCCCEEEHHHHH--HHHHC---CCCCCCCC
T ss_conf 35467548788899899999999998999999888761031120321013755368857799--99974---88667789
Q ss_pred HCCCCCCCHHHHHHHHHHHHHHHHCC--CEEECCCCCCH-----HHHHHHHHHHH
Q ss_conf 50178899899999999999997299--54747998898-----99999999999
Q gi|254781149|r 205 NLIRGEINQEQYRISQGICEKLQDFP--LIIDDRPSPGI-----MEFVHVANGLR 252 (266)
Q Consensus 205 ~l~~g~l~~~e~~~i~~a~~~l~~~p--l~IdD~~~~ti-----~~ira~aR~~k 252 (266)
T Consensus 83 ~-~~~~LSGGqkQRvaiAraL~~~p~~~ililDEPtsgLD~~~~~~l~~~l~~l~ 136 (176)
T cd03238 83 Q-KLSTLSGGELQRVKLASELFSEPPGTLFILDEPSTGLHQQDINQLLEVIKGLI 136 (176)
T ss_pred C-CCCCCCHHHHHHHHHHHHHHHCCCCCEEEECCCCCCCCHHHHHHHHHHHHHHH
T ss_conf 9-16868999999999999998689986899717744589879999999999999