5T08

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

• PDB DOI: https://doi.org/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 

Biological Assembly 1  

Global Symmetry: Cyclic - C3  (Explore in 3D)
Global Stoichiometry: Hetero 6-mer - A3B3 

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

Macromolecule Content

• Total Structure Weight: 174.95 kDa 
• Atom Count: 12,376 
• Modelled Residue Count: 1,498 
• Deposited Residue Count: 1,539 
• Unique protein chains: 2

Macromolecules

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

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

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAG	G [auth A], H [auth A], I [auth E], J [auth E]	2-acetamido-2-deoxy-beta-D-glucopyranose 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

• 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
• Version 1.5: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Data collection, Derived calculations, Structure summary
• Version 1.6: 2023-10-04
  Changes: Data collection, Database references, Refinement description, Structure summary