>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=98.32 E-value=2.9e-05 Score=52.62 Aligned_cols=137 Identities=21% Similarity=0.237 Sum_probs=80.6 Q ss_pred CCEEEEECCCCC-----CCCCCCEEEEEEEEEECCC-CEECCEEEEEEECCCCCCCCCHHHHHHHCCCHHHHHHCCCCHH Q ss_conf 837999752788-----9877260489999998389-7280400226621788877857898985799889960799979 Q gi|254780661|r 3 NHFVIYDYETFG-----RDVALDRPAQFAGVRVDRQ-WEKIESTEVFFCKPADDYLPDPEAVFITGITPQKALRDGVVEA 76 (471) Q Consensus 3 ~~~v~~D~ETtG-----~~~~~~~iiq~~~i~~d~~-~~~~~~~~~~~~~~~~~~~p~p~a~~v~git~~~~~~~~~~~~ 76 (471) T Consensus 7 lki~sfDIE~~s~~g~fP~p~~D~Ii~I~~~~~~~~~~~~~~~~-v-~~l-~~-~~~i~------~~---~V~~~-~tE~ 72 (230) T cd05777 7 LRILSFDIECAGRKGVFPEPEKDPVIQIANVVTRQGEGEPFIRN-I-FTL-KT-CAPIV------GA---QVFSF-ETEE 72 (230) T ss_pred CEEEEEEEEECCCCCCCCCCCCCCEEEEEEEEEECCCCCCEEEE-E-EEE-CC-CCCCC------CC---EEEEC-CCHH T ss_conf 04999999952699999898888348999999827977604787-8-982-68-78889------98---79984-9999 Q ss_pred HHHHHHHHHHHCCCC-EEEEEECHHHHHHHHHHHHHHHCCCCCC-----------C---C--------------CCCCCC Q ss_conf 999999999511796-5999505578999999999850785321-----------3---2--------------568871 Q gi|254780661|r 77 EFSRRIHQFFSVPNT-CIIGYNNIRFDDYYSRNIFYRNFYDSYR-----------W---S--------------WDNGNS 127 (471) Q Consensus 77 e~~~~i~~~~~~~~~-~~ig~N~~~FD~~~lr~~~~r~~~~~y~-----------~---~--------------~~~~~~ 127 (471) T Consensus 73 eLL~~F~~~i~~~dPDiitGyN~~~FD~pYL~~Ra~~l~~~~~~~lgr~~~~~~~~~~~~~~s~~~g~~~~~~~~i~Gr~ 152 (230) T cd05777 73 ELLLAWRDFVQEVDPDIITGYNICNFDLPYLLERAKALKLNTFPFLGRIKNIKSTIKDTTFSSKQMGTRETKEINIEGRI 152 (230) T ss_pred HHHHHHHHHHHHCCCCEEEECCCCCCCHHHHHHHHHHHCCCCHHHHCCCCCCCCEEECCCCCCCCCCCCEEEEEEECCEE T ss_conf 99999999999809999996366678878999999996886145417667876357416522231264002699875875 Q ss_pred CCCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHH Q ss_conf 0015888865556532100244444544331089899871 Q gi|254780661|r 128 RWDLLDVMRAIYAFSPDGIQWPSRDDGATSFKLQDLALAN 167 (471) Q Consensus 128 ~~D~l~~~~~~~~~~p~~~~~~~~~~~~~~~kL~~la~~n 167 (471) T Consensus 153 ~lD~~~~~r~~~~--------------l~sY~L~~Va~~~ 178 (230) T cd05777 153 QFDLLQVIQRDYK--------------LRSYSLNSVSAHF 178 (230) T ss_pred HHHHHHHHHHHCC--------------HHHCCHHHHHHHH T ss_conf 9999999997501--------------6336499999998

HHsearch alignment for GI: 254780661 and conserved domain: cd05777