› 8ov6

Electron Microscopy
3.77Å resolution

Ternary structure of intramolecular bivalent glue degrader IBG1 bound to BRD4 and DCAF16:DDB1deltaBPB

Released:
DOI: 10.2210/pdb8ov6/pdb
PDB entry 8ov6 coloured by chain, front view.
PDB entry 8ov6 coloured by chain, side view.
PDB entry 8ov6 coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Targeted protein degradation via intramolecular bivalent glues.
Hsia O, Hinterndorfer M, Cowan AD, Iso K, Ishida T, Sundaramoorthy R, Nakasone MA, Imrichova H, Schätz C, Rukavina A, Husnjak K, Wegner M, Correa-Sáez A, Craigon C, Casement R, Maniaci C, Testa A, Kaulich M, Dikic I, Winter GE, Ciulli A
Nature (2024)
PMID: 38383787
Related structures: EMD-17172

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
PDBe Complex ID:
PDB-CPX-271790 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
DNA damage-binding protein 1 Chain: A
Molecule details ›
Chain: A
Length: 836 amino acids
Theoretical weight: 93.35 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: Q16531 (Residues: 1-1140; Coverage: 73%)
  • Best match: Q16531-2 (Residues: 59-451)
Gene names: DDB1, XAP1
Sequence domains:
DDB1- and CUL4-associated factor 16 Chain: B
Molecule details ›
Chain: B
Length: 218 amino acids
Theoretical weight: 24.33 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: Q9NXF7 (Residues: 1-216; Coverage: 100%)
Gene names: C4orf30, DCAF16
Sequence domains: DDB1- and CUL4-associated factor 16
Bromodomain-containing protein 4 Chain: C
Molecule details ›
Chain: C
Length: 419 amino acids
Theoretical weight: 47.2 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: O60885 (Residues: 42-459; Coverage: 31%)
Gene names: BRD4, HUNK1
Sequence domains: Bromodomain

Ligands and Environments

2 bound ligands:
Ligand ZN 1 x ZN
Ligand U79 1 x U79
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 3.77Å
Relevant EMDB volumes: EMD-17172
Expression systems:
  • Trichoplusia ni
  • Escherichia coli BL21(DE3)

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