HHsearch alignment for GI: 254780127 and conserved domain: cd06133
>cd06133 ERI-1_3'hExo_like This subfamily is composed of Caenorhabditis elegans ERI-1, human 3' exonuclease (3'hExo), Drosophila exonuclease snipper (snp), and similar proteins from eukaryotes and bacteria. These are DEDDh-type DnaQ-like 3'-5' exonucleases containing 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. ERI-1 has been implicated in the degradation of small interfering RNAs (RNAi). 3'hExo participates in the degradation of histone mRNAs. Snp is a non-essential exonuclease that efficiently degrades structured RNA and DNA substrates as long as there is a minimum of 2 nucleotides in the 3' overhang to initiate degradation. Snp is not a functional homolog of either ERI-1 or 3'hExo.
Probab=97.77 E-value=0.00075 Score=43.65 Aligned_cols=86 Identities=16% Similarity=0.163 Sum_probs=52.9
Q ss_pred HHHHHHCCCCCEEEEEEHHHHHHHHHH----HCCCCCC--CCCEEEHHHHHHH-HC--CCCCHHHHHHHHCCCCCCHHHH
Q ss_conf 999986488981998630775999998----6299878--6504545889998-58--8999789999808898652766
Q gi|254780127|r 56 DLLQYLRDETVMCVAHNSLFERILFKK----TLGIDIP--SKRWICTSVLART-NG--LPSSLKNACLALNFSEHLTKME 126 (675)
Q Consensus 56 ~l~~~L~~~~~~kv~HNa~FD~~vL~~----~lGi~i~--~~~~~DTmi~A~~-l~--~p~sL~~la~~lgl~~~~~kd~ 126 (675)
T Consensus 81 ~f~~~i~~~~~~~~~~~~~fD~~~l~~~~~~~~~~~~~~~~~~~iD~~~~~~~~~~~~~~~sL~~l~~~~gi~~~~~--- 157 (176)
T cd06133 81 EFLEWLGKNGKYAFVTWGDWDLKDLLQNQCKYKIINLPPFFRQWIDLKKEFAKFYGLKKRTGLSKALEYLGLEFEGR--- 157 (176)
T ss_pred HHHHHHCCCCCEEEEEECCCHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCHHHHHHHCCCCCCCC---
T ss_conf 99999726985799960600299999999997899887301112049999999818888989999999869999998---
Q ss_pred HCHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 376576641002332013453112587689998988775399999999872
Q gi|254780127|r 127 EGKALIARFCKGSIDSPPYDCTRANHVQAWQLFGEYCKRDVEATRELFKRL 177 (675)
Q Consensus 127 ~gk~li~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ya~~Dv~~~~~L~~~L 177 (675)
T Consensus 158 ---------------------------------~H~AL~DA~~ta~v~~~l 175 (176)
T cd06133 158 ---------------------------------HHRGLDDARNIARILKRL 175 (176)
T ss_pred ---------------------------------CCCCHHHHHHHHHHHHHH
T ss_conf ---------------------------------858599999999999987