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: 174.95 kDa 
• Atom Count: 12376 
• Residue Count: 1498 
• Unique protein chains: 2

5T08

Crystal structure of H6 hemagglutinin G225D mutant from Taiwan (2013) H6N1 influenza virus

• DOI: 10.2210/pdb5T08/pdb

• Classification: IMMUNE SYSTEM
• Organism(s): H6N1 subtype
• Expression System: Trichoplusia ni
• Mutation(s): Yes 


• Deposited: 2016-08-15 Released: 2017-06-14 
• Deposition Author(s): Wilson, I.A., Tzarum, N., Zhu, X.
• Funding Organization(s): National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.19 Å
• R-Value Free: 0.250 
• R-Value Work: 0.215 
• R-Value Observed: 0.217 

Literature

A single mutation in Taiwanese H6N1 influenza hemagglutinin switches binding to human-type receptors.

de Vries, R.P., Tzarum, N., Peng, W., Thompson, A.J., Ambepitiya Wickramasinghe, I.N., de la Pena, A.T.T., van Breemen, M.J., Bouwman, K.M., Zhu, X., McBride, R., Yu, W., Sanders, R.W., Verheije, M.H., Wilson, I.A., Paulson, J.C.

(2017) EMBO Mol Med 9: 1314-1325

• PubMed: 28694323 
• DOI: 10.15252/emmm.201707726
• Structures With Same Primary Citation


• PubMed Abstract: 
  

In June 2013, the first case of human infection with an avian H6N1 virus was reported in a Taiwanese woman. Although this was a single non-fatal case, the virus continues to circulate in Taiwanese poultry. As with any emerging avian virus that infects humans, there is concern that acquisition of human-type receptor specificity could enable transmission in the human population. Despite mutations in the receptor-binding pocket of the human H6N1 isolate, it has retained avian-type (NeuAcα2-3Gal) receptor specificity. However, we show here that a single nucleotide substitution, resulting in a change from Gly to Asp at position 225 (G225D), completely switches specificity to human-type (NeuAcα2-6Gal) receptors. Significantly, G225D H6 loses binding to chicken trachea epithelium and is now able to bind to human tracheal tissue. Structural analysis reveals that Asp225 directly interacts with the penultimate Gal of the human-type receptor, stabilizing human receptor binding.

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Organizational Affiliation: 

Departments of Molecular Medicine & Immunology and Microbiology, The Scripps Research Institute, La Jolla, CA, USA [e-mail] [e-mail].

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
Hemagglutinin	A, C, E	333	H6N1 subtype	Mutation(s): 1  Gene Names: HA
Find proteins for A0A0J9X268 (H6N1 subtype) Go to UniProtKB:  A0A0J9X268

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details
Hemagglutinin HA2 chain	B, D, F	180	H6N1 subtype	Mutation(s): 0  Gene Names: HA
Find proteins for A0A0J9X267 (H6N1 subtype) Go to UniProtKB:  A0A0J9X267

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAG	A, E	N-ACETYL-D-GLUCOSAMINE C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.19 Å
• R-Value Free: 0.250 
• R-Value Work: 0.215 
• R-Value Observed: 0.217 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 185.065	α = 90
b = 98.364	β = 126.48
c = 133.239	γ = 90

Software Package:

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

Structure Validation

Entry History & Funding Information

Deposition Data

• Deposited Date: 2016-08-15 
• Released Date: 2017-06-14 
Deposition Author(s): Wilson, I.A., Tzarum, N., Zhu, X.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)	United States	R56 AI117675
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)	United States	AI114730

Revision History 

• Version 1.0: 2017-06-14
  Type: Initial release
  
• Version 1.1: 2017-07-26
  Changes: Author supporting evidence, Database references
• Version 1.2: 2017-09-13
  Changes: Database references
• Version 1.3: 2017-11-22
  Changes: Refinement description
• Version 1.4: 2019-12-11
  Changes: Author supporting evidence