3EE8 | pdb_00003ee8

Structure of NS1 effector domain

• PDB DOI: https://doi.org/10.2210/pdb3EE8/pdb

• Classification: VIRAL PROTEIN
• Organism(s): Influenza A virus (A/Udorn/307/1972(H3N2))
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2008-09-04 Released: 2009-01-13 
• Deposition Author(s): Xia, S., Monzingo, A.F., Robertus, J.D.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.60 Å
• R-Value Free: 
  0.284 (Depositor), 0.280 (DCC) 
• R-Value Work: 
  0.197 (Depositor), 0.203 (DCC) 
• R-Value Observed: 
  0.201 (Depositor) 

Starting Model: experimental

Literature

Structure of NS1A effector domain from the influenza A/Udorn/72 virus.

Xia, S., Monzingo, A.F., Robertus, J.D.

(2009) Acta Crystallogr D Biol Crystallogr 65: 11-17

• PubMed: 19153461 
• DOI: https://doi.org/10.1107/S0907444908032186
• Primary Citation Related Structures: 
  3EE8, 3EE9


• PubMed Abstract: 
  

  The nonstructural protein NS1A from influenza virus is a multifunctional virulence factor and a potent inhibitor of host immunity. It has two functional domains: an N-terminal 73-amino-acid RNA-binding domain and a C-terminal effector domain. Here, the crystallographic structure of the NS1A effector domain of influenza A/Udorn/72 virus is presented. Structure comparison with the NS1 effector domain from mouse-adapted influenza A/Puerto Rico/8/34 (PR8) virus strain reveals a similar monomer conformation but a different dimer interface. Further analysis and evaluation shows that the dimer interface observed in the structure of the PR8 NS1 effector domain is likely to be a crystallographic packing effect. A hypothetical model of the intact NS1 dimer is presented.

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Organizational Affiliation: 
• Institute for Cellular and Molecular Biology, Department of Chemistry and Biochemistry, University of Texas, 1 University Station A5300, Austin, TX 78712, USA.

Biological Assembly 1  

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

Biological assembly 1 generated by PISA (software)

Biological Assembly 2  

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

Biological assembly 2 generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 27.59 kDa 
• Atom Count: 1,943 
• Modeled Residue Count: 243 
• Deposited Residue Count: 244 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Non-structural protein 1	A, B	122	Influenza A virus (A/Udorn/307/1972(H3N2))	Mutation(s): 0  Gene Names: NS
UniProt
Find proteins for P03495 (Influenza A virus (strain A/Udorn/307/1972 H3N2)) Explore P03495  Go to UniProtKB:  P03495

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.60 Å
• R-Value Free:  0.284 (Depositor), 0.280 (DCC) 
• R-Value Work:  0.197 (Depositor), 0.203 (DCC) 
• R-Value Observed: 0.201 (Depositor) 

Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 62.818	α = 90
b = 74.028	β = 90
c = 121.88	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
PDB_EXTRACT	data extraction
MAR345dtb	data collection
DENZO	data reduction
SCALEPACK	data scaling
HKL-2000	data scaling
MOLREP	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2009-01-13 
Deposition Author(s): Xia, S., Monzingo, A.F., Robertus, J.D.

Revision History  

• Version 1.0: 2009-01-13
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2017-10-25
  Changes: Refinement description
• Version 1.3: 2023-08-30
  Changes: Data collection, Database references, Refinement description