HHsearch alignment for GI: 254780818 and conserved domain: cd06145
>cd06145 REX1_like This subfamily is composed of RNA exonuclease 1 (REX1 or Rex1p), REX3 (or Rex3p), and similar eukaryotic proteins. In yeast, REX1 and REX3 are required for 5S rRNA and MRP (mitochondrial RNA processing) RNA maturation, respectively. They 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. REX1 is the major exonuclease responsible for pre-tRNA trail trimming and may also be involved in nuclear CCA turnover. REX proteins function in the processing and maturation of many RNA species, similar to the function of E.coli RNase T.
Probab=99.42 E-value=5.5e-13 Score=101.13 Aligned_cols=145 Identities=18% Similarity=0.314 Sum_probs=105.1
Q ss_pred EEEECCCCCCCCCCCEEEEEEEEEEECCEECCCE-EEEEECCCCCCCCHHHEEECCCCCCCCCCCC-CCCHHHHHHHHHH
Q ss_conf 9998467888888888999999999999880313-7989858882288657242021012322485-2100234477753
Q gi|254780818|r 10 IVFDIETTGLDSKNDRIIEIGAVELLDYSKTNRT-FQVFLCPNGRKNSPEALKLHGITDEFLKDKP-SFSSIFSEFWDFF 87 (245)
Q Consensus 10 iv~D~ETTGl~~~~d~Iieigav~i~~~~~~~~~-f~~~i~P~~~~i~~~~~~ihGIt~~~l~~~p-~f~ev~~~f~~fi 87 (245)
T Consensus 1 ~AlDCEMv~t~~-g~---~LaRvsvVd~--~g~vl~D~~V~P~-~~V~DyrT~~SGIt~~~l~~a~~~~~~~~~~l~~li 73 (150)
T cd06145 1 FALDCEMCYTTD-GL---ELTRVTVVDE--NGKVVLDELVKPD-GEIVDYNTRFSGITEEMLENVTTTLEDVQKKLLSLI 73 (150)
T ss_pred CCCCCEEEEECC-CC---EEEEEEEECC--CCCEEEEEEECCC-CCCEECCCCCCCCCHHHHHCCCCCHHHHHHHHHHHC
T ss_conf 956136775279-98---8999999938--9989877433499-772132010457898898546588999999999875
Q ss_pred HCCCCEEEEECCCCCCCEEEECHHCCCCCCCCCCHHCCCHHCCCCC-CCCCCCCHHHHHHHH-CCCCCC-CCCCCCHHHH
Q ss_conf 0023202310232243112100000112222100001100000001-776422237899971-875455-5666402699
Q gi|254780818|r 88 NEQNAEWIAHNAKFDVGFINAELQRINKDPLDPSRIIDTLSIARRK-HPSSRNDLNSLCKRY-GITISH-RSKHGALLDS 164 (245)
Q Consensus 88 ~~~~~~lVaHNa~FD~~fL~~el~r~~~~~~~~~~~iDTl~lar~~-~p~~~~~L~~l~~~~-~i~~~~-r~~H~Al~Da 164 (245)
T Consensus 74 ~-~~~IlVGH~L~nDL~aL~-------i~---H~~v~DTa~l~~~~~~~~~~~sLk~L~~~~L~~~IQ~~~~gHdsvEDA 142 (150)
T cd06145 74 S-PDTILVGHSLENDLKALK-------LI---HPRVIDTAILFPHPRGPPYKPSLKNLAKKYLGRDIQQGEGGHDSVEDA 142 (150)
T ss_pred C-CCCEEEECCCCCCHHHHH-------CC---CCCEEEHHHHHHHCCCCCCCHHHHHHHHHHHCHHHCCCCCCCCCHHHH
T ss_conf 9-998899626434777761-------55---876157166211037999897899999998287743999881839999
Q ss_pred HHHHHHHH
Q ss_conf 99999999
Q gi|254780818|r 165 HLLSDVYI 172 (245)
Q Consensus 165 ~~~a~v~~ 172 (245)
T Consensus 143 ~aam~L~k 150 (150)
T cd06145 143 RAALELVK 150 (150)
T ss_pred HHHHHHHC
T ss_conf 99999759