PDBe 5oy3

X-ray diffraction
2.14Å resolution

The structural basis of the histone demethylase KDM6B histone 3 lysine 27 specificity

Released:
Source organism: Homo sapiens
Entry authors: Jones SE, Olsen L, Gajhede M

Function and Biology Details

Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domain:

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Lysine-specific demethylase 6B Chain: A
Molecule details ›
Chain: A
Length: 509 amino acids
Theoretical weight: 57.92 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: O15054 (Residues: 1141-1643; Coverage: 31%)
Gene names: JMJD3, KDM6B, KIAA0346
Sequence domains: JmjC domain, hydroxylase
Histone H3.1 Chain: B
Molecule details ›
Chain: B
Length: 17 amino acids
Theoretical weight: 1.82 KDa
Source organism: Homo sapiens
Expression system: Not provided
UniProt:
  • Canonical: P68431 (Residues: 18-34; 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


No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID23-2
Spacegroup: P41212
Unit cell:
a: 68.908Å b: 68.908Å c: 228.476Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.169 0.165 0.221
Expression systems:
  • Spodoptera frugiperda
  • Not provided