› 4v2z

X-ray diffraction
1.45Å resolution

Cereblon isoform 4 from Magnetospirillum gryphiswaldense in complex with Pomalidomide

Released:
DOI: 10.2210/pdb4v2z/pdb
PDB 4v2z coloured by chain and viewed from the front.
PDB 4v2z coloured by chain and viewed from the side.
PDB 4v2z coloured by chain and viewed from the top.
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. 188 225-232 (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)
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

6 review citations

Molecular Mechanisms of the Teratogenic Effects of Thalidomide.
Asatsuma-Okumura et al. (2020)
5 more

1 mention without citation

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