Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

Global Symmetry: Cyclic - C3  (3D View)
Global Stoichiometry: Hetero 6-mer - A3B 

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

Macromolecule Content

• Total Structure Weight: 171.48 kDa 
• Atom Count: 11544 
• Residue Count: 1456 
• Unique protein chains: 2

4F3Z

Crystal structure of a swine H1N2 influenza virus hemagglutinin

• DOI: 10.2210/pdb4F3Z/pdb

• Classification: VIRAL PROTEIN
• Organism(s): Influenza A virus (A/Swine/Indiana/P12439/00 (H1N2))
• Expression System: Trichoplusia ni
• Mutation(s): Yes 


• Deposited: 2012-05-09 Released: 2012-07-04 
• Deposition Author(s): Xu, R., Wilson, I.A.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.20 Å
• R-Value Free: 0.293 
• R-Value Work: 0.234 
• R-Value Observed: 0.237 

Literature

Functional Balance of the Hemagglutinin and Neuraminidase Activities Accompanies the Emergence of the 2009 H1N1 Influenza Pandemic.

Xu, R., Zhu, X., McBride, R., Nycholat, C.M., Yu, W., Paulson, J.C., Wilson, I.A.

(2012) J Virol 86: 9221-9232

• PubMed: 22718832 
• DOI: 10.1128/JVI.00697-12
• Structures With Same Primary Citation


• PubMed Abstract: 
  

The 2009 H1N1 influenza pandemic is the first human pandemic in decades and was of swine origin. Although swine are believed to be an intermediate host in the emergence of new human influenza viruses, there is still little known about the host barriers that keep swine influenza viruses from entering the human population. We surveyed swine progenitors and human viruses from the 2009 pandemic and measured the activities of the hemagglutinin (HA) and neuraminidase (NA), which are the two viral surface proteins that interact with host glycan receptors. A functional balance of these two activities (HA binding and NA cleavage) is found in human viruses but not in the swine progenitors. The human 2009 H1N1 pandemic virus exhibited both low HA avidity for glycan receptors as a result of mutations near the receptor binding site and weak NA enzymatic activity. Thus, a functional match between the hemagglutinin and neuraminidase appears to be necessary for efficient transmission between humans and may be an indicator of the pandemic potential of zoonotic viruses.

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Organizational Affiliation: 

Department of Molecular Biology, Scripps Research Institute, La Jolla, California, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
Hemagglutinin	A, C, E	329	Influenza A virus (A/Swine/Indiana/P12439/00 (H1N2))	Mutation(s): 2  Gene Names: HA
Find proteins for Q8QT89 (Influenza A virus) Explore Q8QT89  Go to UniProtKB:  Q8QT89

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details
Hemagglutinin	B, D, F	179	Influenza A virus (A/Swine/Indiana/P12439/00 (H1N2))	Mutation(s): 0  Gene Names: HA
Find proteins for Q8QT89 (Influenza A virus) Explore Q8QT89  Go to UniProtKB:  Q8QT89

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAG	C	2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.20 Å
• R-Value Free: 0.293 
• R-Value Work: 0.234 
• R-Value Observed: 0.237 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 93.44	α = 90
b = 94.92	β = 90
c = 220.53	γ = 90

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2012-05-09 
• Released Date: 2012-07-04 
Deposition Author(s): Xu, R., Wilson, I.A.

Revision History 

• Version 1.0: 2012-07-04
  Type: Initial release
  
• Version 1.1: 2012-08-22
  Changes: Database references
• Version 1.2: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Data collection, Database references, Derived calculations, Structure summary