9HPI image
Deposition Date 2024-12-13
Release Date 2025-12-03
Last Version Date 2025-12-03
Entry Detail
PDB ID:
9HPI
Keywords:
Title:
Cryo-EM structure of DDB1dB-CRBN-MRT-0031619, conformation 1
Biological Source:
Source Organism:
Homo sapiens (Taxon ID: 9606)
Host Organism:
Method Details:
Experimental Method:
Resolution:
2.93 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:DNA damage-binding protein 1
Gene (Uniprot):DDB1
Mutagens:aa396-705 replaced with GNGNSG
Chain IDs:A
Chain Length:836
Number of Molecules:1
Biological Source:Homo sapiens
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Protein cereblon
Gene (Uniprot):CRBN
Chain IDs:B, C
Chain Length:403
Number of Molecules:2
Biological Source:Homo sapiens
Primary Citation
A degron-mimicking molecular glue drives CRBN homo-dimerization and degradation.
Nat Commun 16 10157 10157 (2025)
PMID: 41258141 DOI: 10.1038/s41467-025-65094-3

Abstact

Cereblon (CRBN) is an E3 ubiquitin ligase widely harnessed for targeted protein degradation (TPD). We report the discovery of a molecular glue degrader (MGD), MRT-31619, that drives homo-dimerization of CRBN and promotes its fast, potent, and selective degradation by the ubiquitin proteasome system. Interestingly, the cryo-electron microscopy (cryo-EM) structure of the CRBN homodimer reveals a unique mechanism whereby two molecular glues assemble into a helix-like structure and drive ternary complex formation by mimicking a neosubstrate G-loop degron. This CRBN chemical knockout offers a valuable tool to elucidate the molecular mechanism of MGDs, to investigate its endogenous substrates and understand their physiological roles.

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Primary Citation of related structures
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