>cd06126 DEDDy DEDDy exonucleases, part of the DnaQ-like (or DEDD) exonuclease superfamily, catalyze the excision of nucleoside monophosphates at the DNA or RNA termini in the 3'-5' direction. They contain four invariant acidic residues in three conserved sequence motifs termed ExoI, ExoII and ExoIII. DEDDy exonucleases are classified as such because of the presence of a specific YX(3)D pattern at ExoIII. The four conserved acidic residues serve as ligands for the two metal ions required for catalysis. DEDDy exonucleases include the proofreading domains of DNA polymerases (families A and B), as well as RNases such as RNase D and Rrp6p. The Egalitarian (Egl) and Bacillus-like DNA Polymerase I subfamilies do not possess a completely conserved YX(3)D pattern at the ExoIII motif. In addition, Bacillus-like DNA polymerases contain inactive 3'-5' exonuclease domains which do not possess the metal-binding residues necessary for activity.

Probab=99.26 E-value=4.1e-10 Score=83.86 Aligned_cols=147 Identities=20% Similarity=0.190 Sum_probs=96.3 Q ss_pred EEEEEECCCCCCCCCCCCCHHHCCCCEEEEEEEEECCEEEEEEECCCC----------HHHHHHHHHHHCCCCCEEEEEE Q ss_conf 899981417898700044001127981999999984803999978881----------0437999998638898199973 Q gi|254781193|r 3 TLFIDFETRSPIDLTKCGICKYAEDVCVILFAFGFDDHPVELWDCVHD----------PVMPQVLKEALENTDVTIVAHN 72 (675) Q Consensus 3 ~i~lD~ET~~~~dl~~~Gl~~y~~~~~i~~i~~a~~~~~v~~~d~~~~----------~~~~~~l~~~L~~~~~~kV~HN 72 (675) T Consensus 1 vl~fDiE~~~~~~----~----~~~~pI~~i~~~~~~g~~~~~~~~~~~~~~~~~~~E~~ll~~f~~~i~~~~dii~GyN 72 (181) T cd06126 1 VVAFDIETTPLVG----G----GGKGPIILIQLAVSAGEKFLLDVLTLTLDAVDSADEKELLGELKAILEDYDDIKVGYN 72 (181) T ss_pred CEEEEEECCCCCC----C----CCCCCEEEEEEEECCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHHCCCCEEEEEC T ss_conf 9289862379899----9----8999889999996599789998624346755678999999999999830899899979 Q ss_pred H-HHHHHHHHHH---CCCCC----------------CCCCEEEHHHHHHHHC---CCCCHHHHHHHCCCCCCHHH-HHHH Q ss_conf 0-7749999986---08998----------------8420331688999867---89996898998299811004-3799 Q gi|254781193|r 73 S-YFERTVLKAC---FNLDI----------------PIHRWICTLVLARSNG---LPSALKAVGEALKLSSQKME-EGKE 128 (675) Q Consensus 73 a-~FD~~~L~~~---~Gi~i----------------~~~~~~DTmi~A~~l~---~~~sL~~la~~l~l~~~k~~-~~k~ 128 (675) T Consensus 73 ~~~FDlpyL~~R~~~l~~~~~~~~~~~~~~~~~~~~~gr~~~D~~~~~~~~~~~~~~~~L~~va~~~l-g~~K~~~~~~~ 151 (181) T cd06126 73 IDSFDLPYLLNRAGELGIPLRRGRDRSSGSREEINIKGRILFDLLLAAKRLGVALPSYSLDALAEQLL-GEGKEKVDQLA 151 (181) T ss_pred CCCCCHHHHHHHHHHHCCCCHHCCCCCCCCCCEEEECCCCCCCHHHHHHHHCCCCCCCCHHHHHHHHC-CCCCCCCCHHH T ss_conf 97787999999999958970102266656550486348523219999998413646535999999974-99956699999 Q ss_pred HHHHHCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 998620211234332346785853289999998998999999996 Q gi|254781193|r 129 LIARFCKGETHECLYDRNKPNHREAWRLFGEYCKGDVTVTREIFK 173 (675) Q Consensus 129 l~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~Ya~~Dv~~t~~L~~ 173 (675) T Consensus 152 i~~~--------------w~~~~-~~~~~~~Y~~~Da~~tl~l~l 181 (181) T cd06126 152 IKQA--------------WRARP-LLERLAEYAAADAYATLQIYL 181 (181) T ss_pred HHHH--------------HHCCC-CHHHHHHHHHHHHHHHHHHHC T ss_conf 9998--------------86798-669999999999999999769

HHsearch alignment for GI: 254781193 and conserved domain: cd06126