3fdt

X-ray diffraction
2Å resolution

Crystal structure of the complex of human chromobox homolog 5 (CBX5) with H3K9(me)3 peptide

Released:

Function and Biology Details

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

Structure analysis Details

Assembly composition:
Non-polymer only dimer (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Chromobox protein homolog 5 Chain: A
Molecule details ›
Chain: A
Length: 59 amino acids
Theoretical weight: 7.21 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P45973 (Residues: 18-75; Coverage: 30%)
Gene names: CBX5, HP1A
Sequence domains: Chromo (CHRromatin Organisation MOdifier) domain
Structure domains: OB fold (Dihydrolipoamide Acetyltransferase, E2P)
Histone H3.1 Chain: T
Molecule details ›
Chain: T
Length: 15 amino acids
Theoretical weight: 1.61 KDa
Source organism: synthetic construct
Expression system: Not provided
UniProt:
  • Canonical: P68431 (Residues: 2-16; Coverage: 11%)
Gene names: H3C1, H3C10, H3C11, H3C12, H3C2, H3C3, H3C4, H3C6, H3C7, H3C8, H3FA, H3FB, H3FC HIST1H3C, H3FD, H3FF, H3FH, H3FI, H3FJ, H3FK, H3FL, HIST1H3A, HIST1H3B, HIST1H3D, HIST1H3E, HIST1H3F, HIST1H3G, HIST1H3H, HIST1H3I, HIST1H3J

Ligands and Environments

No bound ligands

1 modified residue:

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 23-ID-B
Spacegroup: P41212
Unit cell:
a: 73.123Å b: 73.123Å c: 28.413Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.199 0.197 0.257
Expression systems:
  • Escherichia coli
  • Not provided