HHsearch alignment for GI: 254780275 and conserved domain: COG0691

>COG0691 SmpB tmRNA-binding protein [Posttranslational modification, protein turnover, chaperones].
Probab=100.00  E-value=0  Score=430.06  Aligned_cols=150  Identities=54%  Similarity=0.886  Sum_probs=145.9

Q ss_pred             CCCEEEEEECCEEEEEEEEEEEECCEEEEEHHHHHHHHCCCEEEEEEEEEECCEEEEEECCCCCHHCCCCCCCCCHHHHH
Q ss_conf             98428984123331025766562241775043666762982001115886566077740303720002332110001345
Q gi|254780275|r    9 PPKKVVSDNRKARYNYHIVRSFEAGIVLTGTEVKSLRVSKVNISDSYATFENDEIWLTNSYIPEYLQANRFNHYPRRNRK   88 (159)
Q Consensus         9 ~~~~ii~~NkkA~~~Y~i~e~~eAGIvL~G~EVKSiR~g~v~l~~sy~~~~~~E~~L~n~~I~~y~~~~~~~~~p~R~RK   88 (159)
T Consensus         3 ~~~~~ia~NkkA~~dY~I~e~~EAGivL~GtEVKSlRag~~nl~dsy~~i~~gE~~L~n~hI~py~~~~~~nhdp~R~RK   82 (153)
T COG0691           3 MGSKTIAQNKKARHDYFIEETFEAGIVLQGTEVKSLRAGKANLKDSYARIKKGEAWLINAHISPYEAGNRFNHDPRRTRK   82 (153)
T ss_pred             CCCCEECCCCHHHCCEEEEEEEECCEEEEEEEEEEHHCCCCCCCCCEEEEECCEEEEEECCCCHHHHCCCCCCCCCHHHH
T ss_conf             65531000621421200103103206881017624131675711126998688099972624346617845688421666


Q ss_pred             HHCCHHHHHHHHHHHHCCCCEEEEEEEEEECCCEEEEEEEEECCCCCCCCHHHHHHHHHHHHHHHHHHHCC
Q ss_conf             53038999999986303893399996378079819999987224321100798987278888998876449
Q gi|254780275|r   89 LLLSKREIHRLYAAVRRDGMTLVPMKIYFNAKGLAKIDLALAQGKKNYDKRETEKKRDWDRQKHRILREHN  159 (159)
Q Consensus        89 LLL~k~EI~kl~~~~~~kG~TiVPlkly~~~~g~~Kv~IalaKGKK~~DKR~~iK~rd~~re~~R~~K~~n  159 (159)
T Consensus        83 LLLhk~EI~kL~~kv~~~G~TlVpL~lY~k-~g~vKvei~lakGKK~~DKRe~iK~r~~~Re~~r~mk~~~  152 (153)
T COG0691          83 LLLHKREIDKLIGKVEQEGYTLVPLKLYFK-KGKVKVEIGLAKGKKLHDKRETIKERDWKREKARLMKNRR  152 (153)
T ss_pred             HHCCHHHHHHHHHHHHCCCEEEEEEHHHCC-CCEEEEEEEEECCCCHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_conf             610799999999887518748985066410-8757899987047600136788988888899999876413