3iay

X-ray diffraction
2Å resolution

Ternary complex of DNA polymerase delta

Released:
Source organism: Saccharomyces cerevisiae
Primary publication:
Structural basis of high-fidelity DNA synthesis by yeast DNA polymerase delta.
OpenAccess logo Nat. Struct. Mol. Biol. 16 979-86 (2009)
PMID: 19718023

Function and Biology Details

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
DNA polymerase delta catalytic subunit Chain: A
Molecule details ›
Chain: A
Length: 919 amino acids
Theoretical weight: 104.48 KDa
Source organism: Saccharomyces cerevisiae
Expression system: Saccharomyces cerevisiae
UniProt:
  • Canonical: P15436 (Residues: 67-985; Coverage: 84%)
Gene names: CDC2, D2366, POL3, TEX1, YDL102W
Sequence domains:
Structure domains:
5'-D(*AP*TP*CP*CP*TP*CP*CP*CP*CP*TP*AP*(DOC))-3' Chain: P
Molecule details ›
Chain: P
Length: 12 nucleotides
Theoretical weight: 3.5 KDa
Source organism: Saccharomyces cerevisiae
Expression system: Not provided
5'-D(*TP*AP*AP*GP*GP*TP*AP*GP*GP*GP*GP*AP*GP*GP*AP*T)-3' Chain: T
Molecule details ›
Chain: T
Length: 16 nucleotides
Theoretical weight: 5.07 KDa
Source organism: Saccharomyces cerevisiae
Expression system: Not provided

Ligands and Environments

3 bound ligands:
1 modified residue:

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X29A, NSLS BEAMLINE X12B, APS BEAMLINE 17-ID, null
Spacegroup: P21
Unit cell:
a: 81.077Å b: 85.948Å c: 86.872Å
α: 90° β: 111.1° γ: 90°
R-values:
R R work R free
0.195 0.193 0.236
Expression systems:
  • Saccharomyces cerevisiae
  • Not provided