title: Deoxynucleotide triphosphate binding mode conserved in Y family DNA polymerases.
abstract: Although DNA polymerase eta (Pol eta) and other Y family polymerases differ in sequence and function from classical DNA polymerases, they all share a similar right-handed architecture with the palm, fingers, and thumb domains. Here, we examine the role in Saccharomyces cerevisiae Pol eta of three conserved residues, tyrosine 64, arginine 67, and lysine 279, which come into close contact with the triphosphate moiety of the incoming nucleotide, in nucleotide incorporation. We find that mutational alteration of these residues reduces the efficiency of correct nucleotide incorporation very considerably. The high degree of conservation of these residues among the various Y family DNA polymerases suggests that these residues are also crucial for nucleotide incorporation in the other members of the family. Furthermore, we note that tyrosine 64 and arginine 67 are functionally equivalent to the deoxynucleotide triphosphate binding residues arginine 518 and histidine 506 in T7 DNA polymerase, respectively.
authors.affiliation: Sealy Center for Molecular Science, University of Texas Medical Branch at Galveston, Galveston, Texas 77555-1061, USA.
authors.forename: Robert E
authors.initials: RE
authors.lastname: Johnson
authors.forename: José
authors.initials: J
authors.lastname: Trincao
authors.forename: Aneel K
authors.initials: AK
authors.lastname: Aggarwal
authors.forename: Satya
authors.initials: S
authors.lastname: Prakash
authors.forename: Louise
authors.initials: L
authors.lastname: Prakash
mesh_terms: D000595:Amino Acid Sequence; D001483:Base Sequence; D020134:Catalytic Domain / Q000235:genetics; D017124:Conserved Sequence; D004271:DNA, Fungal / Q000235:genetics; D004259:DNA-Directed DNA Polymerase / Q000737:chemistry / Q000145:classification / Q000235:genetics / Q000378:metabolism*; D008958:Models, Molecular; D008969:Molecular Sequence Data; D016297:Mutagenesis, Site-Directed; D009711:Nucleotides / Q000737:chemistry / Q000378:metabolism*; D017434:Protein Structure, Tertiary; D012441:Saccharomyces cerevisiae / Q000201:enzymology / Q000235:genetics; D017386:Sequence Homology, Amino Acid; D000099270:Y-Family DNA Polymerases
chemical_list: D004271:DNA, Fungal; D004259:DNA-Directed DNA Polymerase; D009711:Nucleotides; C112338:Rad30 protein; D000099270:Y-Family DNA Polymerases