HHsearch alignment for GI: 254781193 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=97.96 E-value=0.00038 Score=45.21 Aligned_cols=87 Identities=18% Similarity=0.138 Sum_probs=55.4
Q ss_pred HHHHHHHCCCCCEEEEEEHHHHHHHHHH----HCCCCCC--CCCEEEHHHHHHHH-C--CCCCHHHHHHHCCCCCCHHHH
Q ss_conf 9999986388981999730774999998----6089988--42033168899986-7--899968989982998110043
Q gi|254781193|r 55 QVLKEALENTDVTIVAHNSYFERTVLKA----CFNLDIP--IHRWICTLVLARSN-G--LPSALKAVGEALKLSSQKMEE 125 (675)
Q Consensus 55 ~~l~~~L~~~~~~kV~HNa~FD~~~L~~----~~Gi~i~--~~~~~DTmi~A~~l-~--~~~sL~~la~~l~l~~~k~~~ 125 (675)
T Consensus 80 ~~f~~~i~~~~~~~~~~~~~fD~~~l~~~~~~~~~~~~~~~~~~~iD~~~~~~~~~~~~~~~sL~~l~~~~gi~~~~--- 156 (176)
T cd06133 80 KEFLEWLGKNGKYAFVTWGDWDLKDLLQNQCKYKIINLPPFFRQWIDLKKEFAKFYGLKKRTGLSKALEYLGLEFEG--- 156 (176)
T ss_pred HHHHHHHCCCCCEEEEEECCCHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCHHHHHHHCCCCCCC---
T ss_conf 99999972698579996060029999999999789988730111204999999981888898999999986999999---
Q ss_pred HHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHC
Q ss_conf 79999862021123433234678585328999999899899999999630
Q gi|254781193|r 126 GKELIARFCKGETHECLYDRNKPNHREAWRLFGEYCKGDVTVTREIFKRL 175 (675)
Q Consensus 126 ~k~l~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~Ya~~Dv~~t~~L~~~l 175 (675)
T Consensus 157 ----------------------~~---------H~AL~DA~~ta~v~~~l 175 (176)
T cd06133 157 ----------------------RH---------HRGLDDARNIARILKRL 175 (176)
T ss_pred ----------------------CC---------CCCHHHHHHHHHHHHHH
T ss_conf ----------------------88---------58599999999999987