>cd05777 DNA_polB_delta_exo The 3'-5' exonuclease domain of eukaryotic DNA polymerase delta. DNA polymerase delta is a family-B DNA polymerase with a catalytic subunit that contains a DEDDy-type DnaQ-like 3'-5' exonuclease domain. It is one of the three DNA-dependent type B DNA polymerases (alpha and epsilon are the other two) that have been identified as essential for nuclear DNA replication in eukaryotes. DNA polymerase delta is the enzyme responsible for both elongation and maturation of Okazaki fragments on the lagging strand. It is also implicated in mismatch repair (MMR) and base excision repair (BER). The catalytic subunit displays both polymerase and 3'-5' exonuclease activities. The exonuclease domain contains three 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 necessary for metal binding and catalysis. The exonuclease domain of family B polyme

Probab=97.50 E-value=0.00015 Score=51.72 Aligned_cols=168 Identities=17% Similarity=0.200 Sum_probs=81.4 Q ss_pred HHCCCCCCCCCCCCC-----CCCCCCCCCCEEECCCCCCCCCCCCCCEECCCCCCCC-CCCCC-CCCCHHHHHHHHHHHH Q ss_conf 866852323322243-----3110012442010257766544345502313744333-45650-0178899997444420 Q gi|254780277|r 385 ETIGSASFKIITDTM-----DAFHSKPIAIAISTLDQKDDTSFKVETIFIDLSVHTS-QDSTG-KNTLTKEILSYLKKFF 457 (976) Q Consensus 385 ~~~~~ia~DtETt~l-----d~~~~~ivGisls~~~~~~~~~~~~~~~yip~~~~~~-~d~~~-~~~~~~evl~~L~~ll 457 (976) T Consensus 5 pplki~sfDIE~~s~~g~fP~p~~D~Ii~I~~~~~~~~~~~~~~-~~v~~-l~~~~~i~~~~V~~~~tE~eLL~~F~~~i 82 (230) T cd05777 5 APLRILSFDIECAGRKGVFPEPEKDPVIQIANVVTRQGEGEPFI-RNIFT-LKTCAPIVGAQVFSFETEEELLLAWRDFV 82 (230) T ss_pred CCCEEEEEEEEECCCCCCCCCCCCCCEEEEEEEEEECCCCCCEE-EEEEE-ECCCCCCCCCEEEECCCHHHHHHHHHHHH T ss_conf 98049999999526999998988883489999998279776047-87898-26878889987998499999999999999 Q ss_pred C--CCCCHHHHCCC-CHHHHHHHH----CCCCC----------------------------------CC--CCCHHHHHH Q ss_conf 2--22100110032-123788986----18866----------------------------------64--210023455 Q gi|254780277|r 458 E--NEHFLKIGHNI-KYDKLVLHR----YGISM----------------------------------RG--FEDIMLMSY 494 (976) Q Consensus 458 e--~~~i~kIgHN~-KfD~~~L~~----~GI~l----------------------------------~~--i~DTmlaay 494 (976) T Consensus 83 ~~~dPDii-tGyN~~~FD~pYL~~Ra~~l~~~~~~~lgr~~~~~~~~~~~~~~s~~~g~~~~~~~~i~Gr~~lD~~~~~r 161 (230) T cd05777 83 QEVDPDII-TGYNICNFDLPYLLERAKALKLNTFPFLGRIKNIKSTIKDTTFSSKQMGTRETKEINIEGRIQFDLLQVIQ 161 (230) T ss_pred HHCCCCEE-EECCCCCCCHHHHHHHHHHHCCCCHHHHCCCCCCCCEEECCCCCCCCCCCCEEEEEEECCEEHHHHHHHHH T ss_conf 98099999-96366678878999999996886145417667876357416522231264002699875875999999999 Q ss_pred HHCCCCCCCCHHHHHHHHCCCCCCCCCCCCCCCCCCHHHC---CHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 4316876677246677622444223356543222100000---012333322211111245677632 Q gi|254780277|r 495 VLDSGRSSHDIASIAQKWLSYTRKEILKSRKSSIPIDKIS---DSQVQEHAIENSNVILQLWLLLRP 558 (976) Q Consensus 495 LLdp~~~~~~L~~la~~yL~~~~~e~~~~~k~~~~~~~i~---~e~~~~Yaa~Da~~t~~L~~~l~~ 558 (976) T Consensus 162 -~~~~l~sY~L~~Va~~~Lg~~K~d~~~~~--i~~~~~~~~~~~~~~~~Y~i~D~~L~~~L~~Kl~~ 225 (230) T cd05777 162 -RDYKLRSYSLNSVSAHFLGEQKEDVHYSI--ITDLQNGNPETRRRLAVYCLKDAYLPLRLLDKLMC 225 (230) T ss_pred -HHCCHHHCCHHHHHHHHHCCCCCCCCHHH--HHHHHHCCHHHHHHHHEECHHHHHHHHHHHHHHHH T ss_conf -75016336499999998389988799999--99999479646456006426877999999999877

HHsearch alignment for GI: 254780277 and conserved domain: cd05777