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X-ray diffraction
3.33Å resolution

Crystal structure of DDB1-CRBN-BRD4(BD1) complex bound to dBET6 PROTAC.

Released:

Function and Biology Details

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
PDBe Complex ID:
PDB-CPX-130135 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
DNA damage-binding protein 1 Chain: A
Molecule details ›
Chain: A
Length: 864 amino acids
Theoretical weight: 96.43 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: Q16531 (Residues: 1-395, 706-1140; Coverage: 73%)
Gene names: DDB1, XAP1
Sequence domains:
Structure domains:
Protein cereblon Chain: B
Molecule details ›
Chain: B
Length: 463 amino acids
Theoretical weight: 53.01 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: Q96SW2 (Residues: 1-442; Coverage: 100%)
Gene names: AD-006, CRBN
Sequence domains:
Structure domains:
Bromodomain-containing protein 4 Chain: C
Molecule details ›
Chain: C
Length: 127 amino acids
Theoretical weight: 15.1 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: O60885 (Residues: 42-168; Coverage: 9%)
Gene names: BRD4, HUNK1
Sequence domains: Bromodomain
Structure domains: Bromodomain-like

Ligands and Environments

2 bound ligands:
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 24-ID-E
Spacegroup: P6522
Unit cell:
a: 115.406Å b: 115.406Å c: 588.143Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.201 0.199 0.234
Expression systems:
  • Trichoplusia ni
  • Escherichia coli