HHsearch alignment for GI: 254780334 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=97.88  E-value=0.00019  Score=51.95  Aligned_cols=135  Identities=17%  Similarity=0.216  Sum_probs=68.6

Q ss_pred             CCCCCCEEEEECCCCCCHHHHHHHHHHHHHCCCCCEEEEE--CC---CCHHHHHHHHHHCCCCCC----CHHEEC--CCC
Q ss_conf             8578708999549875188999999999850398199998--64---630478888752015775----100003--478
Q gi|254780334|r   86 GFVRGSVILVGGDPGIGKSTLLMQTAASLAYKKHRITYVS--GE---EAIGQIRLRAQRLNTINS----SVYIAI--ETN  154 (479)
Q Consensus        86 Gl~~Gs~~Li~G~PGvGKSTL~Lqia~~~a~~g~~vlYvS--~E---Es~~Qi~~Ra~Rl~~~~~----~i~~~~--e~~  154 (479)
T Consensus        17 ~i~~Ge~~~iiG~nGsGKSTLl~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~l~~~-~~~~l~~~~l~~~~~~LSGGqkQ   94 (176)
T cd03238          17 SIPLNVLVVVTGVSGSGKSTLVNEGLYASGKARL-ISFLPKFSRNKLIFIDQLQFL-IDVGLGYLTLGQKLSTLSGGELQ   94 (176)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHHHHHHCCHH-HCCHHHCCCCCEEEHHHHHHH-HHCCCCCCCCCCCCCCCCHHHHH
T ss_conf             8889989999999999899999988876103112-032101375536885779999-97488667789916868999999


Q ss_pred             HHHHHHHHHHCCCCCEEEECHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHCCCEEEEEEEECCCCCCCCHHHHHHHH
Q ss_conf             89999999731698289972168766542044556367999999999997530797899986303665433114578775
Q gi|254780334|r  155 VEDIIATLITNEKPDLVIIDSIQTLWSQTAESSPGTVIQVRTSVQAMIQYAKKNGVAMVLVGHVTKEGQIAGPRVIEHMV  234 (479)
Q Consensus       155 l~~il~~~i~~~~~~~vVIDSIQtl~~~~~~s~~GsvsQvre~~~~L~~~AK~~~i~vilighvTK~G~iAGp~~LeH~V  234 (479)
T Consensus        95 RvaiAraL~~~p~~~ililDEPts----gLD-----~~~~~~l~~~l~~l-~~~g~TvI~vtHd--------~~~~~~-a  155 (176)
T cd03238          95 RVKLASELFSEPPGTLFILDEPST----GLH-----QQDINQLLEVIKGL-IDLGNTVILIEHN--------LDVLSS-A  155 (176)
T ss_pred             HHHHHHHHHHCCCCCEEEECCCCC----CCC-----HHHHHHHHHHHHHH-HHCCCEEEEEECC--------HHHHHH-C
T ss_conf             999999998689986899717744----589-----87999999999999-9879989999478--------799983-9


Q ss_pred             HEEEEEE
Q ss_conf             3027851
Q gi|254780334|r  235 DAVLYFE  241 (479)
Q Consensus       235 D~vl~~e  241 (479)
T Consensus       156 Drii~l~  162 (176)
T cd03238         156 DWIIDFG  162 (176)
T ss_pred             CEEEEEC
T ss_conf             9999945