8gpn

Electron Microscopy
3.2Å resolution

Human menin in complex with H3K79Me2 nucleosome

Released:
Source organisms:
Primary publication:
Menin "reads" H3K79me2 mark in a nucleosomal context.
Science 379 717-723 (2023)
PMID: 36795828
Related structures: EMD-34195

Function and Biology Details

Structure analysis Details

Assembly composition:
hetero undecamer (preferred)
PDBe Complex ID:
PDB-CPX-122601 (preferred)
Entry contents:
5 distinct polypeptide molecules
2 distinct DNA molecules
Macromolecules (7 distinct):
Histone H3.2 Chains: A, E
Molecule details ›
Chains: A, E
Length: 136 amino acids
Theoretical weight: 15.45 KDa
Source organism: Xenopus laevis
Expression system: Escherichia coli 'BL21-Gold(DE3)pLysS AG'
UniProt:
  • Canonical: P84233 (Residues: 1-136; Coverage: 100%)
Sequence domains: Core histone H2A/H2B/H3/H4
Histone H4 Chains: B, F
Molecule details ›
Chains: B, F
Length: 103 amino acids
Theoretical weight: 11.39 KDa
Source organism: Xenopus laevis
Expression system: Escherichia coli 'BL21-Gold(DE3)pLysS AG'
UniProt:
  • Canonical: P62799 (Residues: 1-103; Coverage: 100%)
Sequence domains: Centromere kinetochore component CENP-T histone fold
Histone H2A type 1 Chains: C, G
Molecule details ›
Chains: C, G
Length: 130 amino acids
Theoretical weight: 13.99 KDa
Source organism: Xenopus laevis
Expression system: Escherichia coli 'BL21-Gold(DE3)pLysS AG'
UniProt:
  • Canonical: P06897 (Residues: 1-130; Coverage: 100%)
Sequence domains:
Histone H2B 1.1 Chains: D, H
Molecule details ›
Chains: D, H
Length: 126 amino acids
Theoretical weight: 13.97 KDa
Source organism: Xenopus laevis
Expression system: Escherichia coli 'BL21-Gold(DE3)pLysS AG'
UniProt:
  • Canonical: P02281 (Residues: 1-126; Coverage: 100%)
Sequence domains: Core histone H2A/H2B/H3/H4
Menin Chain: K
Molecule details ›
Chain: K
Length: 611 amino acids
Theoretical weight: 67.67 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli 'BL21-Gold(DE3)pLysS AG'
UniProt:
  • Canonical: O00255 (Residues: 1-610; Coverage: 100%)
Gene names: MEN1, SCG2
Sequence domains: Menin
DNA (177-MER) Chain: I
Molecule details ›
Chain: I
Length: 177 nucleotides
Theoretical weight: 54.3 KDa
DNA (177-MER) Chain: J
Molecule details ›
Chain: J
Length: 177 nucleotides
Theoretical weight: 54.99 KDa

Ligands and Environments

No bound ligands
1 modified residue:

Experiments and Validation Details

Entry percentile scores
Resolution: 3.2Å
Relevant EMDB volumes: EMD-34195
Expression system: Escherichia coli 'BL21-Gold(DE3)pLysS AG'