› 5dmu

X-ray diffraction
1.95Å resolution

Structure of the NHEJ polymerase from Methanocella paludicola

Released:
DOI: 10.2210/pdb5dmu/pdb
PDB entry 5dmu coloured by chain, front view.
PDB entry 5dmu coloured by chain, side view.
PDB entry 5dmu coloured by chain, top view.
Source organism: Methanocella paludicola SANAE
Primary publication:
Molecular basis for DNA strand displacement by NHEJ repair polymerases.
Bartlett EJ, Brissett NC, Plocinski P, Carlberg T, Doherty AJ
Nucleic Acids Res 44 2173-86 (2016)
PMID: 26405198

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domain:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-112334 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
DNA ligase D polymerase domain-containing protein Chain: A
Molecule details ›
Chain: A
Length: 301 amino acids
Theoretical weight: 34.15 KDa
Source organism: Methanocella paludicola SANAE
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: D1Z0H5 (Residues: 1-293; Coverage: 99%)
Gene name: MCP_2125
Sequence domains: LigD, primase-polymerase domain

Ligands and Environments

4 bound ligands:
Ligand EDO 2 x EDO
Ligand GOL 1 x GOL
Ligand SO4 2 x SO4
Ligand NA 1 x NA
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU MICROMAX-007 HF
Spacegroup: P21
Unit cell:
a: 44.42Å b: 60.55Å c: 59.41Å
α: 90° β: 101.02° γ: 90°
R-values:
R R work R free
0.15 0.148 0.195
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

8 review citations

Molecular Bases of Drug Resistance in Hepatocellular Carcinoma.
Marin et al. (2020)
7 more

2 mentions without citation

Molecular basis for DNA strand displacement by NHEJ repair polymerases.
Bartlett et al. (2016)
1 more