Cereblon in complex with SALL4 and (S)-5-hydroxythalidomide

Structure

x-ray diffraction · 2 distinct chains · 11% helix, 43% strand (DSSP).

Ligands and binding sites

• F4U · 2-[(3~{S})-2,6-bis(oxidanylidene)piperidin-3-yl]-5-oxidanyl-isoindole-1,3-dione · ligand · chains A, B
• ZN · Zinc ion · metal · 2 copies · chains A, B
• SO4 · Sulfate ion · ion · 2 copies · chains A, B

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Pockets

2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.

Interfaces

1 interface between chains.

• A–B · 521 Ų buried · 9 hydrogen bonds · protein-protein

Compared structures

• 7BQV · Cereblon in complex with SALL4 and (S)-5-hydroxythalidomide · the same entry in another collection · chain A against A, TM-score 1.00
• Q96SW2 · AlphaFold monomer V2.0 prediction for protein cereblon (Q96SW2) · a predicted model of the same protein · chain A against A, TM-score 0.96
• Q9UJQ4 · AlphaFold monomer V2.0 prediction for sal-like protein 4 (Q9UJQ4) · a predicted model of the same protein · chain B against A, TM-score 0.79

Analyse

• Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
• Every structure of UniProt Q96SW2
• Every structure of UniProt Q9UJQ4
• Elsewhere: RCSB PDB 7BQV · PDBe 7BQV · UniProt Q96SW2 · UniProt Q9UJQ4