9THJ image
Deposition Date 2025-12-03
Release Date 2026-01-28
Last Version Date 2026-01-28
Entry Detail
PDB ID:
9THJ
Keywords:
Title:
Crystal structure of H5N1 influenza polymerase PB2 domain in complex with compound 3
Biological Source:
Expression System(s):
Method Details:
Experimental Method:
Resolution:
0.91 Å
R-Value Free:
0.17
R-Value Work:
0.14
R-Value Observed:
0.14
Space Group:
P 61
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Polymerase basic protein 2
Gene (Uniprot):PB2
Chain IDs:A
Chain Length:163
Number of Molecules:1
Biological Source:Influenza A virus (A/duck/Shantou/4610/2003(H5N1))
Primary Citation
Discovery of Potent and Efficacious Influenza PB2 Inhibitors.
Acs Med.Chem.Lett. 17 249 256 (2026)
PMID: 41531980 DOI: 10.1021/acsmedchemlett.5c00674

Abstact

In pursuit of potent, efficacious influenza inhibitors with novel mechanisms, we replaced the 7-azaindole core of the PB2 inhibitor pimodivir (VX-787/JNJ872) with a 7-fluoro-substituted indazole to mitigate CYP3A- and aldehyde oxidase-mediated metabolism by lowering lipophilicity and blocking the metabolic soft spot. We further introduced a cyclopropyl-fused ring onto the bridged bicyclo[2.2.2]-octane to retain potency while reducing glucuronidation. This design converged in compound 3, where the indazole scaffold and fused cyclopropyl ring acted synergistically to improve the potency and pharmacokinetic properties. In a lethal influenza mouse challenge model, compound 3 achieved approximately a 7-fold reduction in the effective dose compared with pimodivir. It also showed significantly improved activity against selected influenza A strains versus pimodivir, highlighting its potential as a differentiated PB2 inhibitor.

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Primary Citation of related structures
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