› 4xvk

X-ray diffraction
2.95Å resolution

Binary complex of human polymerase nu and DNA with the finger domain closed

Released:
DOI: 10.2210/pdb4xvk/pdb
PDB entry 4xvk coloured by chain, front view.
PDB entry 4xvk coloured by chain, side view.
PDB entry 4xvk coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
How a homolog of high-fidelity replicases conducts mutagenic DNA synthesis.
Lee YS, Gao Y, Yang W
Nat Struct Mol Biol 22 298-303 (2015)
PMID: 25775266

Function and Biology Details

Reaction catalysed: 
Deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1)
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-118292 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
DNA polymerase nu Chain: A
Molecule details ›
Chain: A
Length: 666 amino acids
Theoretical weight: 74.76 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: Q7Z5Q5 (Residues: 194-859; Coverage: 74%)
Gene name: POLN
Sequence domains:
DNA (5'-D(*GP*AP*TP*CP*TP*GP*AP*CP*GP*CP*TP*AP*CP*GP*G)-3') Chain: P
Molecule details ›
Chain: P
Length: 15 nucleotides
Theoretical weight: 4.61 KDa
Source organism: Homo sapiens
Expression system: Not provided
DNA (5'-D(*TP*CP*CP*GP*TP*AP*GP*CP*GP*TP*CP*A)-3') Chain: T
Molecule details ›
Chain: T
Length: 12 nucleotides
Theoretical weight: 3.64 KDa
Source organism: Homo sapiens
Expression system: Not provided

Ligands and Environments

2 bound ligands:
Ligand MES 1 x MES
Ligand NA 1 x NA
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 22-BM
Spacegroup: R32
Unit cell:
a: 290.876Å b: 290.876Å c: 110.161Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.223 0.222 0.241
Expression systems:
  • Homo sapiens
  • Not provided

Quick links

Citations

4 review citations

DNA polymerase θ (POLQ), double-strand break repair, and cancer.
Wood et al. (2016)
3 more

8 mentions without citation

Translesion and Repair DNA Polymerases: Diverse Structure and Mechanism.
Yang et al. (2018)
7 more