8DDB image
Deposition Date 2022-06-17
Release Date 2022-12-21
Last Version Date 2023-10-25
Entry Detail
PDB ID:
8DDB
Keywords:
VIRAL PROTEIN,HYDROLASE/INHIBITOR
Title:
The N-terminal domain of PA endonuclease from the influenza H1N1 viral polymerase in complex with 4-(benzyloxy)-6-bromo-3-hydroxypicolinic acid
Biological Source:
Source Organism:
Influenza A virus (A/California/04/2009(H1N1)) (Taxon ID: 641501)
Host Organism:
Escherichia coli BL21
Method Details:
Experimental Method:
X-RAY DIFFRACTION
Resolution:
2.15 Å
R-Value Free:
0.24
R-Value Work:
0.19
R-Value Observed:
0.19
Space Group:
P 62 2 2
8DDB validation report
Macromolecular Entities
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Polymerase acidic protein
Gene (Uniprot):PA
Chain IDs:A
Chain Length:191
Number of Molecules:1
Biological Source:Influenza A virus (A/California/04/2009(H1N1))
UniProt ID:C3W5S0
Ligand Molecules
ACT
MN
R6X
SO4
Primary Citation
Carboxylic Acid Isostere Derivatives of Hydroxypyridinones as Core Scaffolds for Influenza Endonuclease Inhibitors.
Acs Med.Chem.Lett. 14 75 82 (2023)
PMID: 36655124 DOI: 10.1021/acsmedchemlett.2c00434

Abstact

Among the most important influenza virus targets is the RNA-dependent RNA polymerase acidic N-terminal (PAN) endonuclease, which is a critical component of the viral replication machinery. To inhibit the activity of this metalloenzyme, small-molecule inhibitors employ metal-binding pharmacophores (MBPs) that coordinate to the dinuclear Mn2+ active site. In this study, several metal-binding isosteres (MBIs) were examined where the carboxylic acid moiety of a hydroxypyridinone MBP is replaced with other groups to modulate the physicochemical properties of the compound. MBIs were evaluated for their ability to inhibit PAN using a FRET-based enzymatic assay, and their mode of binding in PAN was determined using X-ray crystallography.

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Protein

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Disease

Primary Citation of related structures
8CTF
7V04
8DAL