› 5t4i

X-ray diffraction
2.39Å resolution

A Novel domain in human EXOG converts apoptotic endonuclease to DNA-repair enzyme

Released:
DOI: 10.2210/pdb5t4i/pdb
PDB entry 5t4i coloured by chain, front view.
PDB entry 5t4i coloured by chain, side view.
PDB entry 5t4i coloured by chain, top view.
Source organisms:
Primary publication:
A domain in human EXOG converts apoptotic endonuclease to DNA-repair exonuclease.
Szymanski MR, Yu W, Gmyrek AM, White MA, Molineux IJ, Lee JC, Yin YW
Nat Commun 8 14959 (2017)
PMID: 28466855

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-119138 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
Nuclease EXOG, mitochondrial Chains: A, B
Molecule details ›
Chains: A, B
Length: 317 amino acids
Theoretical weight: 36.28 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q9Y2C4 (Residues: 59-368; Coverage: 84%)
Gene names: ENDOGL1, ENDOGL2, ENGL, EXOG
Sequence domains:
DNA (5'-D(P*CP*TP*GP*AP*CP*GP*TP*GP*C)-3') Chains: C, E
Molecule details ›
Chains: C, E
Length: 9 nucleotides
Theoretical weight: 2.73 KDa
Source organism: DNA launch vector pDE-GFP2
Expression system: Not provided
DNA (5'-D(*GP*CP*AP*CP*GP*TP*CP*AP*G)-3') Chains: D, F
Molecule details ›
Chains: D, F
Length: 9 nucleotides
Theoretical weight: 2.74 KDa
Source organism: DNA launch vector pDE-GFP2
Expression system: Not provided

Ligands and Environments

1 bound ligand:
Ligand MN 2 x MN
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 19-ID
Spacegroup: P212121
Unit cell:
a: 73.508Å b: 79.723Å c: 138.87Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.193 0.19 0.229
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

4 review citations

Mitochondrial Gene Expression and Beyond-Novel Aspects of Cellular Physiology.
Kotrys et al. (2019)
3 more

2 mentions without citation

A domain in human EXOG converts apoptotic endonuclease to DNA-repair exonuclease.
Szymanski et al. (2017)
1 more