>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=98.60 E-value=6.6e-07 Score=63.13 Aligned_cols=144 Identities=19% Similarity=0.178 Sum_probs=94.3 Q ss_pred EECCCCCCCCCCCEEEEEEEEEECCCCEECCEEEEEEECCCCCCCCCHHHHHHHCCCHHHHHHCCCCHHHHHHHHHHHHH Q ss_conf 97527889877260489999998389728040022662178887785789898579988996079997999999999951 Q gi|254780661|r 8 YDYETFGRDVALDRPAQFAGVRVDRQWEKIESTEVFFCKPADDYLPDPEAVFITGITPQKALRDGVVEAEFSRRIHQFFS 87 (471) Q Consensus 8 ~D~ETtG~~~~~~~iiq~~~i~~d~~~~~~~~~~~~~~~~~~~~~p~p~a~~v~git~~~~~~~~~~~~e~~~~i~~~~~ 87 (471) T Consensus 3 lDCEMv~t~~g-~~LaRvsvV--d~~g~vl--~D~-~V~P~~~V--~DyrT~~SGIt~~~l~~a~~~~~~~~~~l~~li~ 74 (150) T cd06145 3 LDCEMCYTTDG-LELTRVTVV--DENGKVV--LDE-LVKPDGEI--VDYNTRFSGITEEMLENVTTTLEDVQKKLLSLIS 74 (150) T ss_pred CCCEEEEECCC-CEEEEEEEE--CCCCCEE--EEE-EECCCCCC--EECCCCCCCCCHHHHHCCCCCHHHHHHHHHHHCC T ss_conf 61367752799-889999999--3899898--774-33499772--1320104578988985465889999999998759 Q ss_pred CCCCEEEEEECHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHH- Q ss_conf 1796599950557899999999985078532132568871001588886555653210024444454433108989987- Q gi|254780661|r 88 VPNTCIIGYNNIRFDDYYSRNIFYRNFYDSYRWSWDNGNSRWDLLDVMRAIYAFSPDGIQWPSRDDGATSFKLQDLALA- 166 (471) Q Consensus 88 ~~~~~~ig~N~~~FD~~~lr~~~~r~~~~~y~~~~~~~~~~~D~l~~~~~~~~~~p~~~~~~~~~~~~~~~kL~~la~~- 166 (471) T Consensus 75 -~~~IlVGH~-L~nDL~aL~i~------H~---------~v~DTa~-------l~~~~------~~~~~~~sLk~L~~~~ 124 (150) T cd06145 75 -PDTILVGHS-LENDLKALKLI------HP---------RVIDTAI-------LFPHP------RGPPYKPSLKNLAKKY 124 (150) T ss_pred -CCCEEEECC-CCCCHHHHHCC------CC---------CEEEHHH-------HHHHC------CCCCCCHHHHHHHHHH T ss_conf -998899626-43477776155------87---------6157166-------21103------7999897899999998 Q ss_pred HCCCCC---CCCHHHHHHHHHHHHHH Q ss_conf 188764---31013331899999999 Q gi|254780661|r 167 NGIEHV---NAHDAKADVYATLALVW 189 (471) Q Consensus 167 n~i~~~---~aH~A~~D~~~t~~l~k 189 (471) T Consensus 125 L~~~IQ~~~~gHdsvEDA~aam~L~k 150 (150) T cd06145 125 LGRDIQQGEGGHDSVEDARAALELVK 150 (150) T ss_pred HCHHHCCCCCCCCCHHHHHHHHHHHC T ss_conf 28774399988183999999999759

HHsearch alignment for GI: 254780661 and conserved domain: cd06145