9PY0 image
Deposition Date 2025-08-06
Release Date 2026-01-07
Last Version Date 2026-01-07
Entry Detail
PDB ID:
9PY0
Title:
PRMT5 Bound to Compound 12 and MTA
Biological Source:
Source Organism:
Homo sapiens (Taxon ID: 9606)
Host Organism:
Method Details:
Experimental Method:
Resolution:
2.36 Å
R-Value Free:
0.28
R-Value Work:
0.23
R-Value Observed:
0.23
Space Group:
I 2 2 2
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Protein arginine N-methyltransferase 5
Gene (Uniprot):PRMT5
Chain IDs:A
Chain Length:645
Number of Molecules:1
Biological Source:Homo sapiens
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Methylosome protein 50
Gene (Uniprot):WDR77
Chain IDs:B
Chain Length:350
Number of Molecules:1
Biological Source:Homo sapiens
Primary Citation

Abstact

We describe the discovery of a series of potent, selective, and orally bioavailable bis-acyl hydrazide inhibitors targeting the PRMT5·MTA complex for the treatment of MTAP-deleted cancers. Key to this discovery was the identification of major metabolite M1, resulting from N-demethylation of lead inhibitor compound 12, as a potent hERG inhibitor. Leveraging the kinetic isotope effect, we generated methyl-d3 analog 16 which reduced the formation of M1 in vivo, resulting in acceptable safety margins and an improved pharmacokinetic profile. Our data suggest this strategy could be employed more broadly to reduce undesirable metabolism of methylated amines.

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Protein

Chemical

Disease

Primary Citation of related structures
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