Cereblon in complex with DDB1, cc-90009, and GSPT1

Structure

x-ray diffraction · 6 distinct chains.

Ligands and binding sites

• V4M · 2-(4-chlorophenyl)-N-({2-[(3S)-2,6-dioxopiperidin-3-yl]-1-oxo-2,3-dihydro-1H-isoindol-5-yl}methyl)-2,2-difluoroacetamide · ligand · 2 copies · chains X, Z, A, C
• ZN · Zinc ion · metal · 2 copies · chains Z, C

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

Compared structures

• 6XK9 · Cereblon in complex with DDB1, CC-90009, and GSPT1 · the same entry in another collection · chain C against C, TM-score 1.00
• Q96SW2 · AlphaFold monomer V2.0 prediction for protein cereblon (Q96SW2) · a predicted model of the same protein · chain C against A, TM-score 0.99
• P15170 · AlphaFold monomer V2.0 prediction for eukaryotic peptide chain release factor GTP-binding… · a predicted model of the same protein · chain X against A, TM-score 0.96
• Q16531 · AlphaFold monomer V2.0 prediction for DNA damage-binding protein 1 (Q16531) · a predicted model of the same protein · chain Y against A, TM-score 0.85

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 P15170
• Every structure of UniProt Q16531
• Every structure of UniProt Q96SW2
• Elsewhere: RCSB PDB 6XK9 · PDBe 6XK9 · UniProt P15170 · UniProt Q16531 · UniProt Q96SW2