>cd06128 DNA_polA_exo The 3'-5' exonuclease domain of family-A DNA polymerases has a fundamental role in reducing polymerase errors and is involved in proofreading activity. Family-A DNA polymerases contain a DnaQ-like exonuclease domain in the same polypeptide chain as the polymerase domain, similar to family-B DNA polymerases. The exonuclease domain contains three conserved sequence motifs termed ExoI, ExoII and ExoIII, which are clustered around the active site and contain four invariant acidic residues that serve as ligands for the two metal ions required for catalysis. The Klenow fragment (KF) of Escherichia coli pol I, the Thermus aquaticus (Taq) pol I, and Bacillus stearothermophilus (BF) pol I are examples of family-A DNA polymerases. They are involved in nucleotide excision repair and in the processing of Okazaki fragments that are generated during lagging strand synthesis. The N-terminal domains of BF pol I and Taq pol I resemble the fold of the 3'-5' exonuclease domain of KF

Probab=98.22 E-value=3.7e-05 Score=51.87 Aligned_cols=139 Identities=15% Similarity=0.112 Sum_probs=82.2 Q ss_pred EEEEECCCCCCCCCCCEEEEEEEEEECCCCEECCEEEEEEECCCCCCCCCHHHHHHHCCCHHHHHHCCCCHHHHHHHHHH Q ss_conf 79997527889877260489999998389728040022662178887785789898579988996079997999999999 Q gi|254780661|r 5 FVIYDYETFGRDVALDRPAQFAGVRVDRQWEKIESTEVFFCKPADDYLPDPEAVFITGITPQKALRDGVVEAEFSRRIHQ 84 (471) Q Consensus 5 ~v~~D~ETtG~~~~~~~iiq~~~i~~d~~~~~~~~~~~~~~~~~~~~~p~p~a~~v~git~~~~~~~~~~~~e~~~~i~~ 84 (471) T Consensus 3 ~~a~DtETt~ld~~~a~iVGis~s-~~~~-------~a~YiP~~h~~~~~----------~~~-----l~~~~vl~~L~p 59 (166) T cd06128 3 VFAFDTETDSLDNISANLVGLSFA-IEPG-------VAAYIPVAHDYLDA----------PDQ-----ISRERALELLKP 59 (166) T ss_pred EEEEECCCCCCCCCCCEEEEEEEE-CCCC-------EEEEEECCCCCCCC----------HHH-----HHHHHHHHHHHH T ss_conf 899978879989043549999998-0089-------69999526776675----------257-----789999999999 Q ss_pred HHHCCCCEEEEEECHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHH Q ss_conf 95117965999505578999999999850785321325688710015888865556532100244444544331089899 Q gi|254780661|r 85 FFSVPNTCIIGYNNIRFDDYYSRNIFYRNFYDSYRWSWDNGNSRWDLLDVMRAIYAFSPDGIQWPSRDDGATSFKLQDLA 164 (471) Q Consensus 85 ~~~~~~~~~ig~N~~~FD~~~lr~~~~r~~~~~y~~~~~~~~~~~D~l~~~~~~~~~~p~~~~~~~~~~~~~~~kL~~la 164 (471) T Consensus 60 ~led~~i~KighN-lK~D~~vL~----~~Gi~l-------~g~~fDTMlaay---lldp~----------~~~h~Ld~La 114 (166) T cd06128 60 LLEDEKALKVGQN-LKYDRGILA----NYGIEL-------RGIAFDTMLESY---ILNSV----------AGRHDMDSLA 114 (166) T ss_pred HHCCCCCCEEEEC-HHHHHHHHH----HCCCCC-------CCCCCCHHHHHH---HCCCC----------CCCCCHHHHH T ss_conf 9739997645311-566799996----199668-------999845767987---62899----------9889969999 Q ss_pred HHHC-C---------------------CCCC-CCHHHHHHHHHHHHHHHH Q ss_conf 8718-8---------------------7643-101333189999999999 Q gi|254780661|r 165 LANG-I---------------------EHVN-AHDAKADVYATLALVWLI 191 (471) Q Consensus 165 ~~n~-i---------------------~~~~-aH~A~~D~~~t~~l~k~i 191 (471) T Consensus 115 ~~~L~~~~i~~~dl~GkGk~q~~f~~v~i~~~~~YA~eDAd~t~rL~~~l 164 (166) T cd06128 115 ERWLKHKTITFEEIAGKGKNQLTFNQIALEEAGRYAAEDADVTLQLHLKM 164 (166) T ss_pred HHHCCCCCEEHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHH T ss_conf 99839987059998378857589322899999998999999999999853

HHsearch alignment for GI: 254780661 and conserved domain: cd06128