› 7kso

Electron Microscopy
3.9Å resolution

Cryo-EM structure of PRC2:EZH1-AEBP2-JARID2

Released:
DOI: 10.2210/pdb7kso/pdb
PDB entry 7kso coloured by chain, front view.
PDB entry 7kso coloured by chain, side view.
PDB entry 7kso coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structures of monomeric and dimeric PRC2:EZH1 reveal flexible modules involved in chromatin compaction.
Grau D, Zhang Y, Lee CH, Valencia-Sánchez M, Zhang J, Wang M, Holder M, Svetlov V, Tan D, Nudler E, Reinberg D, Walz T, Armache KJ
OpenAccess logo Nat Commun 12 714 (2021)
PMID: 33514705
Related structures: EMD-23021

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 hexamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-131027 (preferred)
Entry contents:
6 distinct polypeptide molecules
Macromolecules (6 distinct):
Histone-lysine N-methyltransferase EZH1 Chain: A
Molecule details ›
Chain: A
Length: 747 amino acids
Theoretical weight: 85.39 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: Q92800 (Residues: 1-747; Coverage: 100%)
Gene names: EZH1, KIAA0388
Sequence domains:
Polycomb protein EED Chain: B
Molecule details ›
Chain: B
Length: 441 amino acids
Theoretical weight: 50.27 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: O75530 (Residues: 1-441; Coverage: 100%)
Gene name: EED
Sequence domains: WD domain, G-beta repeat
Polycomb protein SUZ12 Chain: C
Molecule details ›
Chain: C
Length: 739 amino acids
Theoretical weight: 83.18 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: Q15022 (Residues: 1-739; Coverage: 100%)
Gene names: CHET9, JJAZ1, KIAA0160, SUZ12
Sequence domains: VEFS-Box of polycomb protein
Histone-binding protein RBBP4 Chain: D
Molecule details ›
Chain: D
Length: 425 amino acids
Theoretical weight: 47.71 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: Q09028 (Residues: 1-425; Coverage: 100%)
Gene names: RBAP48, RBBP4
Sequence domains:
Zinc finger protein AEBP2 Chain: E
Molecule details ›
Chain: E
Length: 295 amino acids
Theoretical weight: 33.01 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q6ZN18 (Residues: 209-503; Coverage: 57%)
Gene name: AEBP2
Protein Jumonji Chain: F
Molecule details ›
Chain: F
Length: 1246 amino acids
Theoretical weight: 138.98 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q92833 (Residues: 1-1246; Coverage: 100%)
Gene names: JARID2, JMJ
Sequence domains:

Ligands and Environments

1 bound ligand:
Ligand ZN 8 x ZN
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 3.9Å
Relevant EMDB volumes: EMD-23021
Expression systems:
  • Spodoptera frugiperda
  • Escherichia coli

Quick links

Citations

11 review citations

Evolutionary adaptation of the Polycomb repressive complex 2.
Fischer et al. (2022)
10 more

3 mentions without citation

The engagement of histone lysine methyltransferases with nucleosomes: structural basis, regulatory mechanisms, and therapeutic implications.
Li et al. (2023)
2 more