› 3v7l

X-ray diffraction
2.66Å resolution

Apo Structure of Rat DNA polymerase beta K72E variant

Released:
DOI: 10.2210/pdb3v7l/pdb
PDB entry 3v7l coloured by chain, front view.
PDB entry 3v7l coloured by chain, side view.
PDB entry 3v7l coloured by chain, top view.
Source organism: Rattus norvegicus
Entry authors: Rangarajan S, Jaeger J

Function and Biology Details

Reactions catalysed: 
Deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1)
The C-O-P bond 3' to the apurinic or apyrimidinic site in DNA is broken by a beta-elimination reaction, leaving a 3'-terminal unsaturated sugar and a product with a terminal 5'-phosphate
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-139217 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
DNA polymerase beta Chain: A
Molecule details ›
Chain: A
Length: 340 amino acids
Theoretical weight: 39.06 KDa
Source organism: Rattus norvegicus
Expression system: Escherichia coli
UniProt:
  • Canonical: P06766 (Residues: 4-335; Coverage: 99%)
Gene name: Polb
Sequence domains:
Structure domains:

Ligands and Environments

3 bound ligands:
Ligand NA 2 x NA
Ligand CL 2 x CL
Ligand SO4 1 x SO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X4C
Spacegroup: P21
Unit cell:
a: 37.425Å b: 71.386Å c: 82.905Å
α: 90° β: 90.52° γ: 90°
R-values:
R R work R free
0.26 0.256 0.335
Expression system: Escherichia coli

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