>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=99.09 E-value=5.3e-09 Score=77.74 Aligned_cols=146 Identities=20% Similarity=0.146 Sum_probs=93.2 Q ss_pred EEEEEECCCCCCCCCCCCCHHHCCCCEEEEEEEEECCCEEEEEECCCC----------CHHHHHHHHHHCCCCCEEEEEE Q ss_conf 899980406788700046000026882999999983822899978884----------2217999998648898199863 Q gi|254780127|r 3 KLFIDIETRSPQPLPKVGVWAYAEQAVITLCAYAWDDEPVKLWDRTEQ----------SAMPSDLLQYLRDETVMCVAHN 72 (675) Q Consensus 3 ~l~lD~ET~s~~dl~~~Gl~~y~~~~~I~~i~~a~~~~~~~~~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 VVAFDIETTPLVGG--------GGKGPIILIQLAVSAGEKFLLDVLTLTLDAVDSADEKELLGELKAILEDYDDIKVGYN 72 (181) T ss_pred CEEEEEECCCCCCC--------CCCCCEEEEEEEECCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHHCCCCEEEEEC T ss_conf 92898623798999--------8999889999996599789998624346755678999999999999830899899979 Q ss_pred H-HHHHHHHHHH---CCCCC----------------CCCCEEEHHHHHHHHC---CCCCHHHHHHHH-CCCCCCHHHHHC Q ss_conf 0-7759999986---29987----------------8650454588999858---899978999980-889865276637 Q gi|254780127|r 73 S-LFERILFKKT---LGIDI----------------PSKRWICTSVLARTNG---LPSSLKNACLAL-NFSEHLTKMEEG 128 (675) Q Consensus 73 a-~FD~~vL~~~---lGi~i----------------~~~~~~DTmi~A~~l~---~p~sL~~la~~l-gl~~~~~kd~~g 128 (675) T Consensus 73 ~~~FDlpyL~~R~~~l~~~~~~~~~~~~~~~~~~~~~gr~~~D~~~~~~~~~~~~~~~~L~~va~~~lg~~K~~~---~~ 149 (181) T cd06126 73 IDSFDLPYLLNRAGELGIPLRRGRDRSSGSREEINIKGRILFDLLLAAKRLGVALPSYSLDALAEQLLGEGKEKV---DQ 149 (181) T ss_pred CCCCCHHHHHHHHHHHCCCCHHCCCCCCCCCCEEEECCCCCCCHHHHHHHHCCCCCCCCHHHHHHHHCCCCCCCC---CH T ss_conf 977879999999999589701022666565504863485232199999984136465359999999749995669---99 Q ss_pred HHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 6576641002332013453112587689998988775399999999 Q gi|254780127|r 129 KALIARFCKGSIDSPPYDCTRANHVQAWQLFGEYCKRDVEATRELF 174 (675) Q Consensus 129 k~li~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ya~~Dv~~~~~L~ 174 (675) T Consensus 150 ~~i~--------------~~w~~~~-~~~~~~~Y~~~Da~~tl~l~ 180 (181) T cd06126 150 LAIK--------------QAWRARP-LLERLAEYAAADAYATLQIY 180 (181) T ss_pred HHHH--------------HHHHCCC-CHHHHHHHHHHHHHHHHHHH T ss_conf 9999--------------9886798-66999999999999999976

HHsearch alignment for GI: 254780127 and conserved domain: cd06126