HHsearch alignment for GI: 254780636 and conserved domain: cd06142
>cd06142 RNaseD_exo Ribonuclease (RNase) D is a bacterial enzyme involved in the maturation of small stable RNAs and the 3' maturation of tRNA. It contains a DEDDy-type DnaQ-like 3'-5' exonuclease domain possessing three conserved sequence motifs termed ExoI, ExoII and ExoIII, with a specific YX(3)D 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. In vivo, RNase D only becomes essential upon removal of other ribonucleases. Eukaryotic RNase D homologs include yeast Rrp6p, human PM/Scl-100 and the Drosophila melanogaster egalitarian protein.
Probab=100.00 E-value=0 Score=313.18 Aligned_cols=175 Identities=36% Similarity=0.526 Sum_probs=160.5
Q ss_pred CCHHH-HCCCCCCEEEECCCCCCCCCCCEEEEEEEEECCCCEEEECCCCCCCCCHHHHHHHHCCCCCEEECCCCHHHHHH
Q ss_conf 88578-42489827997177789854450799998418942899746577857067767773236402301000016888
Q gi|254780636|r 11 IPAEC-AARYVDAIAVDTETLGLMPRRDRLCIVQLSPGDGTVDIIRIAAGQKNAPNLVGMLVDEKREKIFHYGRFDIAVL 89 (207)
Q Consensus 11 l~~~~-~l~~~~~iaiDtEt~~l~~~~~~l~LiQl~~~~~~~~l~~~~~~~~~~~~L~~ll~d~~i~KV~Hn~~~D~~~L 89 (207)
T Consensus 2 l~~~~~~l~~~~~i~~DtE~~~~~~~~~~l~LiQia~~~-~~ylid~~~~~-~~~~L~~lL~d~~i~KVgh~~~~Dl~~L 79 (178)
T cd06142 2 LADLCERLAGAGVIAVDTEFMRLRTYYPRLCLIQISTGG-QAYLIDPLAIG-DLSPLKELLADPNIVKVFHAAREDLELL 79 (178)
T ss_pred HHHHHHHHCCCCEEEEECCCCCCCCCCCEEEEEEEEECC-CEEEEECCCCC-CHHHHHHHHCCCCCEEEEEEHHHHHHHH
T ss_conf 899999970799489989867885588728999998689-06999531234-4699999975999439996279999999
Q ss_pred HHHHHCCCCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCCCCEECCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 65420000000457898865211000000887776542002467520036565443236899998645999999999999
Q gi|254780636|r 90 FYTFGVRVRPVFCTKIASRLTRTYTNQHGLKDNLKELLGINISKAQQSSDWSADDLSDEQLQYAASDVVHLHALRLQFTE 169 (207)
Q Consensus 90 ~~~~gi~~~~i~DT~ias~l~~~~~~~~~L~~L~~~~lg~~ldK~~q~SdW~~rpLs~~Qi~YAA~Dv~~l~~L~~~l~~ 169 (207)
T Consensus 80 ~~~~~~~~~~v~Dt~ia~~~l~-~~~~~~L~~L~~~~lg~~l~K~~q~s~W~~rPLs~~qi~YAa~Da~~l~~l~~~l~~ 158 (178)
T cd06142 80 KRDFGILPVNLFDTQIAARLLG-LGDSVGLAALVEELLGVELDKGEQRSDWLKRPLTDEQLEYAANDVRYLLPLYEKLKE 158 (178)
T ss_pred HHHHCCCCCCEEEHHHHHHHCC-CCCCHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 9973967654530899999828-867378999999992987777736466433678289999999979999999999999
Q ss_pred HHHHCCCHHHHHHHHHHHH
Q ss_conf 9997491899999996400
Q gi|254780636|r 170 KLQRLGRSDLATSCCNFLM 188 (207)
Q Consensus 170 ~L~~~~~~~~~~~e~~~l~ 188 (207)
T Consensus 159 ~L~~~~~~~~~~~e~~~~~ 177 (178)
T cd06142 159 ELEEEGRLEWAEEECELLL 177 (178)
T ss_pred HHHHCCHHHHHHHHHHHCC
T ss_conf 9998683999999998626