HHsearch alignment for GI: 254780127 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=99.77 E-value=8.2e-17 Score=129.39 Aligned_cols=150 Identities=20% Similarity=0.145 Sum_probs=111.4
Q ss_pred CEEEEEECCCCCCCCCCCCCHHHCCCCEEEEEEEEECCCEEEEEECCCCCHHHHHHHHHHCCCCCEEEEEEHHHHHHHHH
Q ss_conf 78999804067887000460000268829999999838228999788842217999998648898199863077599999
Q gi|254780127|r 2 SKLFIDIETRSPQPLPKVGVWAYAEQAVITLCAYAWDDEPVKLWDRTEQSAMPSDLLQYLRDETVMCVAHNSLFERILFK 81 (675)
Q Consensus 2 k~l~lD~ET~s~~dl~~~Gl~~y~~~~~I~~i~~a~~~~~~~~~d~~~~~~~~~~l~~~L~~~~~~kv~HNa~FD~~vL~ 81 (675)
T Consensus 13 ~~i~~DtE~~~--------~~~~--~~~l~LiQia~~-~~~ylid~~~~~~-~~~L~~lL~d~~i~KVgh~~~~Dl~~L~ 80 (178)
T cd06142 13 GVIAVDTEFMR--------LRTY--YPRLCLIQISTG-GQAYLIDPLAIGD-LSPLKELLADPNIVKVFHAAREDLELLK 80 (178)
T ss_pred CEEEEECCCCC--------CCCC--CCEEEEEEEEEC-CCEEEEECCCCCC-HHHHHHHHCCCCCEEEEEEHHHHHHHHH
T ss_conf 94899898678--------8558--872899999868-9069995312344-6999999759994399962799999999
Q ss_pred HHCCCCCCCCCEEEHHHHHHHHCC--CCCHHHHHH-HHCCCCCCHHHHHCHHHHHHHHHHHHHHCCCCCCCCCCHHHHHH
Q ss_conf 862998786504545889998588--999789999-80889865276637657664100233201345311258768999
Q gi|254780127|r 82 KTLGIDIPSKRWICTSVLARTNGL--PSSLKNACL-ALNFSEHLTKMEEGKALIARFCKGSIDSPPYDCTRANHVQAWQL 158 (675)
Q Consensus 82 ~~lGi~i~~~~~~DTmi~A~~l~~--p~sL~~la~-~lgl~~~~~kd~~gk~li~~~~~~~~~~~~~~~~~~~~~~~~~~ 158 (675)
T Consensus 81 ~~~~~~~--~~v~Dt~ia~~~l~~~~~~~L~~L~~~~lg~~l~K~~---------------q~-----s~W~~rP-Ls~~ 137 (178)
T cd06142 81 RDFGILP--VNLFDTQIAARLLGLGDSVGLAALVEELLGVELDKGE---------------QR-----SDWLKRP-LTDE 137 (178)
T ss_pred HHHCCCC--CCEEEHHHHHHHCCCCCCHHHHHHHHHHHCCCCCCCC---------------CC-----CCCCCCC-CCHH
T ss_conf 9739676--5453089999982886737899999999298777773---------------64-----6643367-8289
Q ss_pred HHHHHHHHHHHHHHHHHHHCCCHHHHHH
Q ss_conf 8988775399999999872002143101
Q gi|254780127|r 159 FGEYCKRDVEATRELFKRLIPLSDGERD 186 (675)
Q Consensus 159 ~~~Ya~~Dv~~~~~L~~~L~~~~~~E~~ 186 (675)
T Consensus 138 qi~YAa~Da~~l~~l~~~l~~~L~~~~~ 165 (178)
T cd06142 138 QLEYAANDVRYLLPLYEKLKEELEEEGR 165 (178)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHCCH
T ss_conf 9999999799999999999999998683