› 6grb

X-ray diffraction
2.4Å resolution

eukaryotic junction-resolving enzyme GEN-1 binding with Potassium

Released:
DOI: 10.2210/pdb6grb/pdb
PDB entry 6grb coloured by chain, front view.
PDB entry 6grb coloured by chain, side view.
PDB entry 6grb coloured by chain, top view.
Source organisms:
Primary publication:
A monovalent ion in the DNA binding interface of the eukaryotic junction-resolving enzyme GEN1.
Liu Y, Freeman AD, Déclais AC, Lilley DMJ
Nucleic Acids Res 46 11089-11098 (2018)
PMID: 30247722

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-119967 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
Nuclease-like protein Chain: A
Molecule details ›
Chain: A
Length: 530 amino acids
Theoretical weight: 58.73 KDa
Source organism: Chaetomium thermophilum var. thermophilum DSM 1495
Expression system: Escherichia coli
UniProt:
  • Canonical: G0RYN2 (Residues: 1-530; Coverage: 58%)
Gene name: CTHT_0007290
Sequence domains:
DNA (5'-D(*TP*GP*AP*GP*CP*GP*GP*TP*GP*GP*TP*TP*GP*GP*T)-3') Chain: H
Molecule details ›
Chain: H
Length: 15 nucleotides
Theoretical weight: 4.71 KDa
Source organism: Homo sapiens
Expression system: Not provided
DNA (5'-D(*TP*AP*CP*CP*CP*AP*CP*CP*AP*CP*CP*GP*CP*TP*CP*A)-3') Chain: R
Molecule details ›
Chain: R
Length: 16 nucleotides
Theoretical weight: 4.75 KDa
Source organism: Homo sapiens
Expression system: Not provided

Ligands and Environments

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

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I24
Spacegroup: P3121
Unit cell:
a: 97.96Å b: 97.96Å c: 119.761Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.248 0.246 0.273
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

4 citation in other articles

Human ANKLE1 Is a Nuclease Specific for Branched DNA.
Song et al. (2020)
3 more

1 mention without citation

A monovalent ion in the DNA binding interface of the eukaryotic junction-resolving enzyme GEN1.
Liu et al. (2018)