HHsearch alignment for GI: 254781193 and conserved domain: cd06135
>cd06135 Orn Oligoribonuclease (Orn) is a DEDDh-type DnaQ-like 3'-5' exoribonuclease that is responsible for degrading small oligoribonucleotides to mononucleotides. It contains three conserved sequence motifs termed ExoI, ExoII and ExoIII, with a specific Hx(4)D conserved pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis. Orn is essential for E.coli survival. The human homolog, also called Sfn (small fragment nuclease), is able to hydrolyze short single-stranded RNA and DNA oligomers. It plays a role in cellular nucleotide recycling.
Probab=92.93 E-value=0.39 Score=25.75 Aligned_cols=53 Identities=13% Similarity=0.177 Sum_probs=28.1
Q ss_pred HHHHHCCCCCEEEEEEHHHHHHHHHHHCCCCCCCCCEEEHHHHHHHHCCCCCHHHHHHHCC
Q ss_conf 9998638898199973077499999860899884203316889998678999689899829
Q gi|254781193|r 57 LKEALENTDVTIVAHNSYFERTVLKACFNLDIPIHRWICTLVLARSNGLPSALKAVGEALK 117 (675)
Q Consensus 57 l~~~L~~~~~~kV~HNa~FD~~~L~~~~Gi~i~~~~~~DTmi~A~~l~~~~sL~~la~~l~ 117 (675)
T Consensus 86 i~~~~~~~~~pLaGNSV~~Dr~FL~k~----mP~---l~~~lhYR~iD-VSsikel~~rw~ 138 (173)
T cd06135 86 IKKYVPKGKSPLAGNSVHQDRRFLDKY----MPE---LEEYLHYRILD-VSSIKELARRWY 138 (173)
T ss_pred HHHHCCCCCCCCCCCCHHHHHHHHHHH----CCH---HHHHCCCEEEE-HHHHHHHHHHHC
T ss_conf 999767998531576487709999985----806---79759870466-777999999869