› 5zki

X-ray diffraction
2.32Å resolution

Human EXOG-H140A in complex with duplex DNA

Released:
DOI: 10.2210/pdb5zki/pdb
PDB entry 5zki coloured by chain, front view.
PDB entry 5zki coloured by chain, side view.
PDB entry 5zki coloured by chain, top view.
Source organisms:
Primary publication:
A unique exonuclease ExoG cleaves between RNA and DNA in mitochondrial DNA replication.
Wu CC, Lin JLJ, Yang-Yen HF, Yuan HS
Nucleic Acids Res 47 5405-5419 (2019)
PMID: 30949702

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero hexamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-119514 (preferred)
Entry contents:
1 distinct polypeptide molecule
1 distinct DNA molecule
Macromolecules (2 distinct):
Nuclease EXOG, mitochondrial Chains: A, B
Molecule details ›
Chains: A, B
Length: 348 amino acids
Theoretical weight: 39.22 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q9Y2C4 (Residues: 42-368; Coverage: 89%)
Gene names: ENDOGL1, ENDOGL2, ENGL, EXOG
Sequence domains:
DNA (5'-D(*CP*GP*GP*GP*AP*TP*AP*TP*CP*CP*CP*G)-3') Chains: C, D, E, F
Molecule details ›
Chains: C, D, E, F
Length: 12 nucleotides
Theoretical weight: 3.66 KDa
Source organism: synthetic construct
Expression system: Not provided

Ligands and Environments

2 bound ligands:
Ligand CL 2 x CL
Ligand MG 3 x MG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: NSRRC BEAMLINE TPS 05A
Spacegroup: P212121
Unit cell:
a: 73.497Å b: 91.123Å c: 129.451Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.182 0.18 0.218
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

4 review citations

Mitochondrial DNA Repair in Neurodegenerative Diseases and Ageing.
Bazzani et al. (2022)
3 more

1 mention without citation

A unique exonuclease ExoG cleaves between RNA and DNA in mitochondrial DNA replication.
Wu et al. (2019)