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