› 8rox

Electron Microscopy
3.3Å resolution

Structure of the human DDB1-DDA1-DCAF15 E3 ubiquitin ligase bound to compound furan 12

Released:
DOI: 10.2210/pdb8rox/pdb
PDB entry 8rox coloured by chain, front view.
PDB entry 8rox coloured by chain, side view.
PDB entry 8rox coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Optimization of Potent Ligands for the E3 Ligase DCAF15 and Evaluation of Their Use in Heterobifunctional Degraders.
Lucas SCC, Ahmed A, Ashraf SN, Argyrou A, Bauer MR, De Donatis GM, Demanze S, Eisele F, Fusani L, Hock A, Kadamur G, Li S, Macmillan-Jones A, Michaelides IN, Phillips C, Rehnström M, Richter M, Rodrigo-Brenni MC, Shilliday F, Wang P, Storer RI
J Med Chem (2024)
PMID: 38513086
Related structures: EMD-19406

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
PDBe Complex ID:
PDB-CPX-242669 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
DDB1- and CUL4-associated factor 15 Chain: A
Molecule details ›
Chain: A
Length: 603 amino acids
Theoretical weight: 66.82 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: Q66K64 (Residues: 1-600; Coverage: 100%)
Gene names: C19orf72, DCAF15
Sequence domains: DDB1-and CUL4-substrate receptor 15, WD repeat
DNA damage-binding protein 1 Chain: B
Molecule details ›
Chain: B
Length: 836 amino acids
Theoretical weight: 93.35 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: Q16531 (Residues: 1-395, 706-1140; Coverage: 73%)
Gene names: DDB1, XAP1
Sequence domains:
DET1- and DDB1-associated protein 1 Chain: D
Molecule details ›
Chain: D
Length: 102 amino acids
Theoretical weight: 11.86 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: Q9BW61 (Residues: 1-102; Coverage: 100%)
Gene names: C19orf58, DDA1, PCIA1
Sequence domains: Det1 complexing ubiquitin ligase

Ligands and Environments

1 bound ligand:
Ligand A1H17 1 x A1H17
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 3.3Å
Relevant EMDB volumes: EMD-19406
Expression system: Spodoptera frugiperda

Quick links