7KOP

The crystal structure of the 2009/H1N1/California PA endonuclease I38T mutant in complex with SJ000988539

• PDB DOI: https://doi.org/10.2210/pdb7KOP/pdb

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


• Deposited: 2020-11-09 Released: 2021-11-10 
• Deposition Author(s): Cuypers, M.G., Slavish, P.J., Seetharaman, J., White, S.W.

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.33 Å
• R-Value Free: 0.228 
• R-Value Work: 0.207 
• R-Value Observed: 0.208 

Literature

The crystal structure of the 2009/H1N1/California PA endonuclease I38T mutant in complex with SJ000988539

Cuypers, M.G., Slavish, P.J., Seetharaman, J., White, S.W.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly 2  

Global Symmetry: Dihedral - D4  (Explore in 3D)
Global Stoichiometry: Homo 8-mer - A8 

Biological assembly 2 generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 24.4 kDa 
• Atom Count: 1,611 
• Modelled Residue Count: 185 
• Deposited Residue Count: 197 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Protein PA-X	A	197	Influenza A virus, Influenza A virus (A/Luxembourg/43/2009(H1N1)) This entity is chimeric	Mutation(s): 0  Gene Names: PA-X, 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
WTM (Subject of Investigation/LOI)	D [auth A]	2-(2-fluorophenyl)-5-hydroxy-N-[2-(2-methoxypyridin-4-yl)ethyl]-6-oxo-1,6-dihydropyrimidine-4-carboxamide C19 H17 F N4 O4 UVUDZFBAAXHOBN-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: 2.33 Å
• R-Value Free: 0.228 
• R-Value Work: 0.207 
• R-Value Observed: 0.208 
• Space Group: I 4 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 89.594	α = 90
b = 89.594	β = 90
c = 131.826	γ = 90

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Released Date: 2021-11-10 
Deposition Author(s): Cuypers, M.G., Slavish, P.J., Seetharaman, J., White, S.W.

Revision History  

• Version 1.0: 2021-11-10
  Type: Initial release
  
• Version 1.1: 2023-10-11
  Changes: Data collection, Database references
• Version 1.2: 2023-10-18
  Changes: Refinement description