PDBe 5szc

X-ray diffraction
1.19Å resolution

Structure of human Dpf3 double-PHD domain bound to histone H3 tail peptide with monomethylated K4 and acetylated K14

Released:
Source organism: Homo sapiens
Entry authors: Singh N, Local A, Shiau A, Ren B, Corbett KD

Function and Biology Details

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Zinc finger protein DPF3 Chain: A
Molecule details ›
Chain: A
Length: 115 amino acids
Theoretical weight: 12.88 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q92784 (Residues: 254-368; Coverage: 30%)
Gene names: BAF45C, CERD4, DPF3
Sequence domains: PHD-finger
Histone H3.1 Chain: H
Molecule details ›
Chain: H
Length: 18 amino acids
Theoretical weight: 2 KDa
Source organism: Homo sapiens
Expression system: Not provided
UniProt:
  • Canonical: P68431 (Residues: 2-19; Coverage: 13%)
Gene names: H3FA, H3FB, H3FC, H3FD, H3FF, H3FH, H3FI, H3FJ, H3FK, H3FL, HIST1H3A, HIST1H3B, HIST1H3C, HIST1H3D, HIST1H3E, HIST1H3F, HIST1H3G, HIST1H3H, HIST1H3I, HIST1H3J

Ligands and Environments

2 bound ligands:

2 modified residues:

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRL BEAMLINE BL9-2
Spacegroup: P43212
Unit cell:
a: 39.321Å b: 39.321Å c: 147.571Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.149 0.147 0.167
Expression systems:
  • Escherichia coli
  • Not provided