› 4yyi

X-ray diffraction
1.5Å resolution

Crystal structure of BRD9 Bromodomain bound to an acetylated peptide

Released:
DOI: 10.2210/pdb4yyi/pdb
PDB entry 4yyi coloured by chain, front view.
PDB entry 4yyi coloured by chain, side view.
PDB entry 4yyi coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
A Subset of Human Bromodomains Recognizes Butyryllysine and Crotonyllysine Histone Peptide Modifications.
Flynn EM, Huang OW, Poy F, Oppikofer M, Bellon SF, Tang Y, Cochran AG
Structure 23 1801-1814 (2015)
PMID: 26365797

Function and Biology Details

Biochemical function:
  • not assigned
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-158687 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Bromodomain-containing protein 9 Chains: A, B, D, E
Molecule details ›
Chains: A, B, D, E
Length: 108 amino acids
Theoretical weight: 12.44 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q9H8M2 (Residues: 134-239; Coverage: 18%)
Gene names: BRD9, UNQ3040/PRO9856
Sequence domains: Bromodomain
Structure domains: Bromodomain-like
Histone H4 Chains: C, F
Molecule details ›
Chains: C, F
Length: 11 amino acids
Theoretical weight: 1.06 KDa
Source organism: Homo sapiens
Expression system: Not provided
UniProt:
  • Canonical: P62805 (Residues: 2-12; Coverage: 11%)
Gene names: H4-16, H4/A, H4/B, H4/C, H4/D, H4/E, H4/G, H4/H, H4/I, H4/J, H4/K, H4/M, H4/N, H4/O, H4C1, H4C11, H4C12, H4C13, H4C14, H4C15, H4C16, H4C2, H4C3, H4C4, H4C5, H4C6, H4C8, H4C9, H4F2, H4FA, H4FB, H4FC, H4FD, H4FE, H4FG, H4FH, H4FI, H4FJ, H4FK, H4FM, H4FN, H4FO, HIST1H4A, HIST1H4B, HIST1H4C, HIST1H4D, HIST1H4E, HIST1H4F, HIST1H4H, HIST1H4I, HIST1H4J, HIST1H4K, HIST1H4L, HIST2H4, HIST2H4A, HIST2H4B, HIST4H4

Ligands and Environments

No bound ligands
1 modified residue:
Ligand ALY 4 x ALY

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 23-ID-D
Spacegroup: P1
Unit cell:
a: 24.746Å b: 34.602Å c: 129.361Å
α: 88.79° β: 90° γ: 68.92°
R-values:
R R work R free
0.208 0.206 0.242
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

Quick links

Citations

38 review citations

Metabolic regulation of gene expression through histone acylations.
Sabari et al. (2017)
37 more

3 mentions without citation

Biological function and histone recognition of family IV bromodomain-containing proteins.
Lloyd et al. (2018)
2 more