› 4v2z

X-ray diffraction
1.45Å resolution

Cereblon isoform 4 from Magnetospirillum gryphiswaldense in complex with Pomalidomide

Released:
DOI: 10.2210/pdb4v2z/pdb
PDB entry 4v2z coloured by chain, front view.
PDB entry 4v2z coloured by chain, side view.
PDB entry 4v2z coloured by chain, top view.
Source organism: Magnetospirillum gryphiswaldense MSR-1
Primary publication:
Thalidomide mimics uridine binding to an aromatic cage in cereblon.
Hartmann MD, Boichenko I, Coles M, Zanini F, Lupas AN, Hernandez Alvarez B
J Struct Biol 188 225-32 (2014)
PMID: 25448889

Function and Biology Details

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

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-107419 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
CULT domain-containing protein Chains: A, B, C
Molecule details ›
Chains: A, B, C
Length: 125 amino acids
Theoretical weight: 13.7 KDa
Source organism: Magnetospirillum gryphiswaldense MSR-1
Expression system: Escherichia coli
UniProt:
  • Canonical: A4TVL0 (Residues: 1-124; Coverage: 100%)
Gene name: MGR_0879
Structure domains: Peptide methionine sulfoxide reductase.

Ligands and Environments

2 bound ligands:
Ligand ZN 3 x ZN
Ligand Y70 3 x Y70
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SLS BEAMLINE X10SA
Spacegroup: P212121
Unit cell:
a: 56.469Å b: 60.144Å c: 88.46Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.17 0.168 0.203
Expression system: Escherichia coli

Quick links

Citations

7 review citations

Thalidomide-induced teratogenesis: history and mechanisms.
Vargesson N. (2015)
6 more

1 mention without citation

In silico analysis of enantioselective binding of immunomodulatory imide drugs to cereblon.
Murai et al. (2016)