8AOP image
Entry Detail
PDB ID:
8AOP
Title:
Cereblon isoform 4 from Magnetospirillum gryphiswaldense in complex with compound 14r
Biological Source:
PDB Version:
Deposition Date:
2022-08-08
Release Date:
2023-01-11
Method Details:
Experimental Method:
Resolution:
1.94 Å
R-Value Free:
0.22
R-Value Work:
0.19
Space Group:
P 21 21 21
Macromolecular Entities
Polymer Type:polypeptide(L)
Description:Cereblon isoform 4
Chain IDs:A, B, C
Chain Length:124
Number of Molecules:3
Biological Source:Magnetospirillum gryphiswaldense MSR-1
Primary Citation
Synthesis of novel glutarimide ligands for the E3 ligase substrate receptor Cereblon (CRBN): Investigation of their binding mode and antiproliferative effects against myeloma cell lines.
Eur.J.Med.Chem. 246 114990 114990 (2023)
PMID: 36476642 DOI: 10.1016/j.ejmech.2022.114990

Abstact

To expand the chemical toolkit for targeted protein degradation, we report the generation of a new series of non-thalidomide Cereblon (CRBN) ligands. Readily available 2-methylidene glutarimide was converted to a series of 2-((hetero)aryl(methyl))thio glutarimides via the thio-Michael addition reaction. The compounds thus synthesized were evaluated for their affinity to the thalidomide-binding domain of human CRBN and their binding modes studied via X-ray crystallography. This helped identify several promising glutarimide derivatives which bind stronger to CRBN compared to thalidomide and contain a functional group which permits further chemical conjugation. Oxidation of the sulfur atom in a select group of 2-((hetero)aryl(methyl))thio glutarimides produced the respective sulfones which were found to possess a markedly stronger antiproliferative profile against multiple myeloma cell lines and a sophisticated structural binding mode with additional hydrogen bonding interactions. The newly identified Cereblon ligands form the basis for the synthesis of novel PROTAC protein degraders.

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