› 5wf7

X-ray diffraction
2.5Å resolution

Chaetomium thermophilum Polycomb Repressive Complex 2 bound to GSK126

Released:
DOI: 10.2210/pdb5wf7/pdb
Model geometry
Fit model/data
PDB entry 5wf7 coloured by chain, front view.
PDB entry 5wf7 coloured by chain, side view.
PDB entry 5wf7 coloured by chain, top view.
Source organism: Thermochaetoides thermophila DSM 1495
Primary publication:
An Evolutionarily Conserved Structural Platform for PRC2 Inhibition by a Class of Ezh2 Inhibitors.
Bratkowski M, Yang X, Liu X
OpenAccess logo Sci Rep 8 9092 (2018)
PMID: 29904056

Function and Biology Details

Reaction catalysed: 
(1a) S-adenosyl-L-methionine + a [histone H3]-L-lysine(27) = S-adenosyl-L-homocysteine + a [histone H3]-N(6)-methyl-L-lysine(27)
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-123899 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Polycomb protein EED Chain: A
Molecule details ›
Chain: A
Length: 605 amino acids
Theoretical weight: 66.02 KDa
Source organism: Thermochaetoides thermophila DSM 1495
Expression system: Saccharomyces cerevisiae
UniProt:
  • Canonical: G0S8H7 (Residues: 1-565; Coverage: 100%)
Gene names: CTHT_0029920, EED
Sequence domains:
Histone-lysine N-methyltransferase EZH2; Polycomb protein SUZ12 Chain: B
Molecule details ›
Chain: B
Length: 937 amino acids
Theoretical weight: 106.87 KDa
Source organism: Thermochaetoides thermophila DSM 1495
Expression system: Saccharomyces cerevisiae
UniProt:
  • Canonical: G0SDW4 (Residues: 191-950; Coverage: 50%)
  • Canonical: G0RYC6 (Residues: 530-691; Coverage: 22%)
Gene names: CTHT_0006210, CTHT_0053230, EZH2, SUZ12
Sequence domains:

Ligands and Environments

2 bound ligands:
Ligand ZN 8 x ZN
Ligand A9G 1 x A9G
No modified residues

Experiments and Validation Details

wwPDB Validation report is not available for this entry.
X-ray source: APS BEAMLINE 19-ID
Spacegroup: C2221
Unit cell:
a: 115.875Å b: 136.303Å c: 223.209Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.194 0.191 0.247
Expression system: Saccharomyces cerevisiae

Quick links

Citations

9 review citations

PRC2 is high maintenance.
Yu et al. (2019)
8 more

2 mentions without citation

An Evolutionarily Conserved Structural Platform for PRC2 Inhibition by a Class of Ezh2 Inhibitors.
Bratkowski et al. (2018)
1 more

PDB-REDO

The sliders below show the change in model quality between original PDB entry and the PDB-REDO entry

Model Geometry
 
 
Data not available
DNA/RNA Geometry
 
 
Data not available
Fit model/data
 
 
Data not available
PDB-REDO