8E21

The crystal structure of wild type PA endonuclease (2009/H1N1/CALIFORNIA) in complex with compound SJ001023034

• PDB DOI: https://doi.org/10.2210/pdb8E21/pdb

• Classification: VIRAL PROTEIN
• Organism(s): Influenza A virus (A/Luxembourg/43/2009(H1N1))
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2022-08-12 Released: 2022-09-14 
• Deposition Author(s): Cuypers, M.G., Slavish, J.P., Rankovic, Z., White, S.W.
• Funding Organization(s): National Institutes of Health/National Cancer Institute (NIH/NCI)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.61 Å
• R-Value Free: 0.276 
• R-Value Work: 0.221 
• R-Value Observed: 0.223 

Literature

The crystal structure of wild type PA endonuclease (2009/H1N1/CALIFORNIA) in complex with compound SJ001023034

Cuypers, M.G., Slavish, J.P., Rankovic, Z., White, S.W.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 24.44 kDa 
• Atom Count: 1,514 
• Modelled Residue Count: 180 
• Deposited Residue Count: 197 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Polymerase acidic protein	A	197	Influenza A virus (A/Luxembourg/43/2009(H1N1))	Mutation(s): 0  Gene Names: PA
UniProt
Find proteins for C6H0Y9 (Influenza A virus) Explore C6H0Y9  Go to UniProtKB:  C6H0Y9

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
QQ4	E [auth A]	Hexa Vinylpyrrolidone K15 C36 H56 N6 O6 OFPQNVWJHZVWCZ-CMPUJJQDSA-N
U9U (Subject of Investigation/LOI)	D [auth A]	5-hydroxy-6-oxo-N-[2-(pyridin-4-yl)ethyl]-2-{[2-(trifluoromethyl)phenyl]methyl}-3,6-dihydropyrimidine-4-carboxamide C20 H17 F3 N4 O3 FACMTIGIIYGQOE-UHFFFAOYSA-N
SO4	F [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
MN	B [auth A], C [auth A]	MANGANESE (II) ION Mn WAEMQWOKJMHJLA-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.61 Å
• R-Value Free: 0.276 
• R-Value Work: 0.221 
• R-Value Observed: 0.223 
• Space Group: I 4 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 90.523	α = 90
b = 90.523	β = 90
c = 134.983	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
Aimless	data scaling
MOLREP	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2022-09-14 
Deposition Author(s): Cuypers, M.G., Slavish, J.P., Rankovic, Z., White, S.W.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Cancer Institute (NIH/NCI)	United States	--

Revision History  

• Version 1.0: 2022-09-14
  Type: Initial release
  
• Version 1.1: 2023-10-11
  Changes: Data collection, Database references
• Version 1.2: 2023-10-18
  Changes: Refinement description