5WE7 | pdb_00005we7

Crystal structure of the influenza virus PA endonuclease in complex with an inhibitor - SRI-29782

• PDB DOI: https://doi.org/10.2210/pdb5WE7/pdb

• Classification: HYDROLASE/HYDROLASE INHIBITOR
• Organism(s): Influenza A virus (A/California/04/2009(H1N1))
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2017-07-07 Released: 2018-01-03 
• Deposition Author(s): Kumar, G., White, S.W.
• Funding Organization(s): National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID), St. Jude Children's Research Hospital (ALSAC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.12 Å
• R-Value Free: 
  0.214 (Depositor), 0.210 (DCC) 
• R-Value Work: 
  0.192 (Depositor), 0.190 (DCC) 
• R-Value Observed: 
  0.193 (Depositor) 

Literature

Crystal structure of the influenza virus PA endonuclease in complex with an inhibitor - SRI-29782

Kumar, G., White, S.W.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 22.64 kDa 
• Atom Count: 1,528 
• Modeled Residue Count: 183 
• Deposited Residue Count: 187 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Polymerase acidic protein	A	187	Influenza A virus (A/California/04/2009(H1N1))	Mutation(s): 0  Gene Names: PA EC: 3.1
UniProt
Find proteins for C3W5S0 (Influenza A virus (strain swl A/California/04/2009 H1N1)) Explore C3W5S0  Go to UniProtKB:  C3W5S0

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
G3K (Subject of Investigation/LOI)	D [auth A]	2-{(2R)-1-[2-(4-chlorophenoxy)-2-methylpropanoyl]pyrrolidin-2-yl}-5-hydroxy-6-oxo-1,6-dihydropyrimidine-4-carboxylic acid C19 H20 Cl N3 O6 YQESBGYXTBAVMX-GFCCVEGCSA-N
MLT	E [auth A]	D-MALATE C4 H6 O5 BJEPYKJPYRNKOW-UWTATZPHSA-N
MN	B [auth A], C [auth A]	MANGANESE (II) ION Mn WAEMQWOKJMHJLA-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.12 Å
• R-Value Free:  0.214 (Depositor), 0.210 (DCC) 
• R-Value Work:  0.192 (Depositor), 0.190 (DCC) 
• R-Value Observed: 0.193 (Depositor) 

Space Group: P 3₂ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 60.923	α = 90
b = 60.923	β = 90
c = 95.361	γ = 120

Software Package:

Software Name	Purpose
HKL-2000	data scaling
PHENIX	refinement
PDB_EXTRACT	data extraction
HKL-2000	data reduction
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2018-01-03 
Deposition Author(s): Kumar, G., White, S.W.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)	United States	R01AI098757
St. Jude Children's Research Hospital (ALSAC)	United States	--
St. Jude Children's Research Hospital (ALSAC)	United States	--

Revision History  

• Version 1.0: 2018-01-03
  Type: Initial release
  
• Version 1.1: 2019-12-11
  Changes: Author supporting evidence
• Version 1.2: 2024-03-13
  Changes: Data collection, Database references