3D6R

Structure of an avian influenza A virus NS1 protein effector domain

• PDB DOI:  https://doi.org/10.2210/pdb3D6R/pdb

• Classification: VIRAL PROTEIN
• Organism(s): Influenza A virus (A/duck/Alberta/60/1976(H12N5))
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2008-05-20 Released: 2008-08-12 
• Deposition Author(s): Hale, B.G., Barclay, W.S., Randall, R.E., Russell, R.J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 0.224 
• R-Value Work: 0.183 
• R-Value Observed: 0.185 

Literature

Structure of an avian influenza A virus NS1 protein effector domain.

Hale, B.G., Barclay, W.S., Randall, R.E., Russell, R.J.

(2008) Virology 378: 1-5

• PubMed: 18585749 
• DOI: https://doi.org/10.1016/j.virol.2008.05.026
• Primary Citation of Related Structures:  
  3D6R


• PubMed Abstract: 
  

Influenza A virus NS1 protein is a multifunctional virulence factor. Here, we report a crystal structure for the NS1 effector domain of avian influenza virus A/Duck/Albany/76. Comparison of this structure with that reported for a human strain shows both proteins share a common monomer conformation, albeit with subtle differences. Strikingly, our data reveal a novel helix-helix dimeric interface between monomers of the avian NS1 protein, which is also found in the human NS1 crystal lattice. We re-evaluate the current model of NS1 dimeric assembly, and provide biochemical evidence to show tryptophan-187 (a residue located at the helix-helix interface) is essential for dimerization of this effector domain.

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Organizational Affiliation: 

Centre for Biomolecular Sciences, University of St. Andrews, St. Andrews, Fife, KY16 9ST, UK.

Biological Assembly 1  

Global Symmetry: Dihedral - D2  (3D View)
Global Stoichiometry: Homo 4-mer - A4 

Biological assembly 1 generated by PISA (software)

Biological Assembly 2  

Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Homo 4-mer - A4 

Biological assembly 2 generated by PISA (software)

Biological Assembly 3  

Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 3 generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 35.51 kDa 
• Atom Count: 2,286 
• Modelled Residue Count: 241 
• Deposited Residue Count: 316 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Non-structural protein 1	A [auth B], B [auth A]	158	Influenza A virus (A/duck/Alberta/60/1976(H12N5))	Mutation(s): 0  Gene Names: NS
UniProt
Find proteins for P69270 (Influenza A virus (strain A/Duck/Alberta/60/1976 H12N5)) Explore P69270  Go to UniProtKB:  P69270

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 0.224 
• R-Value Work: 0.183 
• R-Value Observed: 0.185 
• Space Group: P 6₅ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 65.249	α = 90
b = 65.249	β = 90
c = 338.767	γ = 120

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Released Date: 2008-08-12 
Deposition Author(s): Hale, B.G., Barclay, W.S., Randall, R.E., Russell, R.J.

Revision History  

• Version 1.0: 2008-08-12
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance