› 3bep

X-ray diffraction
1.92Å resolution

Structure of a sliding clamp on DNA

Released:
DOI: 10.2210/pdb3bep/pdb
PDB entry 3bep coloured by chain, front view.
PDB entry 3bep coloured by chain, side view.
PDB entry 3bep coloured by chain, top view.
Source organism: Escherichia coli
Primary publication:
Structure of a sliding clamp on DNA.
Georgescu RE, Kim SS, Yurieva O, Kuriyan J, Kong XP, O'Donnell M
Cell 132 43-54 (2008)
PMID: 18191219

Function and Biology Details

Reaction catalysed: 
Deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1)
Biochemical function:
Biological process:
Cellular component:
Sequence domains:
Structure domain:

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-116091 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
Beta sliding clamp Chains: A, B
Molecule details ›
Chains: A, B
Length: 366 amino acids
Theoretical weight: 40.63 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli BL21
UniProt:
  • Canonical: P0A988 (Residues: 1-366; Coverage: 100%)
Gene names: JW3678, b3701, dnaN
Sequence domains:
Structure domains: DNA Polymerase III, subunit A, domain 2
DNA (5'-D(P*DCP*DCP*DCP*DAP*DTP*DCP*DGP*DTP*DAP*DT)-3') Chain: C
Molecule details ›
Chain: C
Length: 10 nucleotides
Theoretical weight: 2.98 KDa
Source organism: Escherichia coli
Expression system: Not provided
DNA (5'-D(*DTP*DTP*DTP*DTP*DAP*DTP*DAP*DCP*DGP*DAP*DTP*DGP*DGP*DG)-3') Chain: D
Molecule details ›
Chain: D
Length: 14 nucleotides
Theoretical weight: 4.33 KDa
Source organism: Escherichia coli
Expression system: Not provided

Ligands and Environments

1 bound ligand:
Ligand 5CY 1 x 5CY
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X4A
Spacegroup: P1
Unit cell:
a: 40.203Å b: 70.08Å c: 73.872Å
α: 113.284° β: 92.073° γ: 99.361°
R-values:
R R work R free
0.21 0.21 0.268
Expression systems:
  • Escherichia coli BL21
  • Not provided

Quick links

Citations

16 review citations

Regulation of PCNA-protein interactions for genome stability.
Mailand et al. (2013)
15 more

27 mentions without citation

Coordinating DNA polymerase traffic during high and low fidelity synthesis.
Sutton MD. (2010)
26 more