6uml

X-ray diffraction
3.58Å resolution

Structural Basis for Thalidomide Teratogenicity Revealed by the Cereblon-DDB1-SALL4-Pomalidomide Complex

Released:

Function and Biology Details

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
PDBe Complex ID:
PDB-CPX-172482 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
DNA damage-binding protein 1 Chain: A
Molecule details ›
Chain: A
Length: 1140 amino acids
Theoretical weight: 127.1 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: Q16531 (Residues: 1-1140; Coverage: 100%)
Gene names: DDB1, XAP1
Sequence domains:
Protein cereblon Chain: C
Molecule details ›
Chain: C
Length: 406 amino acids
Theoretical weight: 46.6 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: Q96SW2 (Residues: 40-442; Coverage: 91%)
Gene names: AD-006, CRBN
Sequence domains:
Sal-like protein 4 Chain: E
Molecule details ›
Chain: E
Length: 28 amino acids
Theoretical weight: 3.26 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q9UJQ4 (Residues: 405-432; Coverage: 3%)
Gene names: SALL4, ZNF797
Sequence domains: Zinc finger, C2H2 type

Ligands and Environments

2 bound ligands:
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 31-ID
Spacegroup: P21
Unit cell:
a: 77.409Å b: 127.725Å c: 110.174Å
α: 90° β: 109.694° γ: 90°
R-values:
R R work R free
0.207 0.204 0.267
Expression systems:
  • Spodoptera frugiperda
  • Escherichia coli