5T0D

Crystal structure of H6 hemagglutinin G225D mutant from Taiwan (2013) H6N1 influenza virus in complex with 3'-SLN


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.864 Å
  • R-Value Free: 0.245 
  • R-Value Work: 0.206 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

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

  • DOI: 10.15252/emmm.201707726
  • Primary Citation of Related Structures:  

  • 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 infect ...

    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 (NeuAc╬▒2-3Gal) 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 (NeuAc╬▒2-6Gal) 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.


    Organizational Affiliation

    Departments of Molecular Medicine & Immunology and Microbiology, The Scripps Research Institute, La Jolla, CA, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Hemagglutinin
A, C, E
333H6N1 subtypeMutation(s): 1 
Gene Names: HA
Find proteins for A0A0J9X268 (H6N1 subtype)
Go to UniProtKB:  A0A0J9X268
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Hemagglutinin HA2 chain
B, D, F
180H6N1 subtypeMutation(s): 0 
Gene Names: HA
Find proteins for A0A0J9X267 (H6N1 subtype)
Go to UniProtKB:  A0A0J9X267
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
GAL
Query on GAL

Download SDF File 
Download CCD File 
A
BETA-D-GALACTOSE
C6 H12 O6
WQZGKKKJIJFFOK-FPRJBGLDSA-N
 Ligand Interaction
NAG
Query on NAG

Download SDF File 
Download CCD File 
A, E
N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
 Ligand Interaction
SIA
Query on SIA

Download SDF File 
Download CCD File 
A
O-SIALIC ACID
C11 H19 N O9
SQVRNKJHWKZAKO-YRMXFSIDSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.864 Å
  • R-Value Free: 0.245 
  • R-Value Work: 0.206 
  • Space Group: C 1 2 1
Unit Cell:
Length (Å)Angle (°)
a = 185.056α = 90.00
b = 98.733β = 126.76
c = 132.787γ = 90.00
Software Package:
Software NamePurpose
PHASERphasing
HKL-2000data scaling
PHENIXrefinement
HKL-2000data reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute Of Allergy and Infectious DiseasesUnited StatesR56 AI117675
National Institutes of Health/National Institute Of Allergy and Infectious DiseasesUnited StatesAI114730

Revision History 

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