PDBe 4khs

X-ray diffraction
2.12Å resolution

Ternary complex of RB69 mutant L415F with a ribonucleotide at 0 position

Released:
Source organism: Enterobacteria phage RB69
Primary publication:
Structure-function analysis of ribonucleotide bypass by B family DNA replicases.
Proc. Natl. Acad. Sci. U.S.A. 110 16802-7 (2013)
PMID: 24082122

Function and Biology Details

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Entry contents:
1 distinct polypeptide molecule
1 distinct DNA molecule
1 distinct DNA/RNA hybrid molecule
Macromolecules (3 distinct):
DNA-directed DNA polymerase Chain: A
Molecule details ›
Chain: A
Length: 903 amino acids
Theoretical weight: 104.69 KDa
Source organism: Enterobacteria phage RB69
Expression system: Escherichia coli
UniProt:
  • Canonical: Q38087 (Residues: 1-903; Coverage: 100%)
Gene name: 43
Sequence domains:
Structure domains:
DNA (5'-D(*GP*CP*GP*GP*AP*CP*TP*GP*CP*TP*TP*AP*CP*C)-3') Chain: P
Molecule details ›
Chain: P
Length: 14 nucleotides
Theoretical weight: 4.26 KDa
Source organism: Enterobacteria phage RB69
Expression system: Not provided
DNA/RNA (5'-D(*AP*C)-R(P*A)-D(P*GP*GP*TP*AP*AP*GP*CP*AP*GP*TP*CP*CP*GP*CP*G)-3') Chain: T
Molecule details ›
Chain: T
Length: 18 nucleotides
Theoretical weight: 5.57 KDa
Source organism: Enterobacteria phage RB69
Expression system: Not provided

Ligands and Environments


No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU MICROMAX-007 HF
Spacegroup: P212121
Unit cell:
a: 80.699Å b: 119.572Å c: 127.8Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.18 0.176 0.216
Expression systems:
  • Escherichia coli
  • Not provided