› 6iid

X-ray diffraction
2.99Å resolution

Human EXOG-H140A in complex with RNA-DNA chimeric duplex

Released:
DOI: 10.2210/pdb6iid/pdb
PDB entry 6iid coloured by chain, front view.
PDB entry 6iid coloured by chain, side view.
PDB entry 6iid 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-113219 (preferred)
Entry contents:
1 distinct polypeptide molecule
1 distinct DNA molecule
1 distinct DNA/RNA hybrid molecule
Macromolecules (3 distinct):
Nuclease EXOG, mitochondrial Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
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*TP*GP*AP*CP*AP*TP*CP*CP*CP*G)-3') Chains: F, H, J, L
Molecule details ›
Chains: F, H, J, L
Length: 12 nucleotides
Theoretical weight: 3.62 KDa
Source organism: synthetic construct
Expression system: Not provided
DNA/RNA (5'-R(P*CP*GP*GP*GP*A)-D(P*T)-R(P*G)-D(P*T)-R(P*CP*AP*CP*G)-3') Chains: E, G, I, K
Molecule details ›
Chains: E, G, I, K
Length: 12 nucleotides
Theoretical weight: 3.74 KDa
Source organism: synthetic construct
Expression system: Not provided

Ligands and Environments

1 bound ligand:
Ligand MG 4 x MG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: NSRRC BEAMLINE BL15A1
Spacegroup: P1
Unit cell:
a: 73.71Å b: 75.953Å c: 81.152Å
α: 72.96° β: 90.01° γ: 70.75°
R-values:
R R work R free
0.202 0.199 0.252
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

2 mentions without citation

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