5XLA

The structure of hemagglutinin G228S mutant from an avian-origin H4N6 influenza virus in complex with human receptor analog LSTc

• PDB DOI: https://doi.org/10.2210/pdb5XLA/pdb

• Classification: VIRAL PROTEIN
• Organism(s): Influenza A virus (A/duck/Czechoslovakia/1956(H4N6))
• Expression System: Trichoplusia ni
• Mutation(s): Yes 


• Deposited: 2017-05-10 Released: 2017-08-02 
• Deposition Author(s): Song, H., Qi, J., Gao, G.F.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free: 0.240 
• R-Value Work: 0.210 
• R-Value Observed: 0.212 

Biological Assembly 1  

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

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

Biological Assembly Evidence: gel filtration

Biological Assembly 2  

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

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 113.7 kDa 
• Atom Count: 8,332 
• Modelled Residue Count: 980 
• Deposited Residue Count: 1,006 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Hemagglutinin	A, B	503	Influenza A virus (A/duck/Czechoslovakia/1956(H4N6))	Mutation(s): 1  Gene Names: HA
UniProt
Find proteins for P19696 (Influenza A virus (strain A/Duck/Czechoslovakia/1956 H4N6)) Explore P19696  Go to UniProtKB:  P19696

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SIA	D [auth A], F [auth B]	N-acetyl-alpha-neuraminic acid C11 H19 N O9 SQVRNKJHWKZAKO-YRMXFSIDSA-N
NAG	C [auth A], E [auth B]	2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free: 0.240 
• R-Value Work: 0.210 
• R-Value Observed: 0.212 
• Space Group: H 3 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 100.722	α = 90
b = 100.722	β = 90
c = 686.66	γ = 120

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Released Date: 2017-08-02 
Deposition Author(s): Song, H., Qi, J., Gao, G.F.

Revision History  

• Version 1.0: 2017-08-02
  Type: Initial release
  
• Version 1.1: 2017-08-16
  Changes: Database references
• Version 1.2: 2017-08-23
  Changes: Data collection
• Version 1.3: 2018-02-07
  Changes: Structure summary
• Version 1.4: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Data collection, Derived calculations, Structure summary
• Version 1.5: 2023-11-22
  Changes: Data collection, Database references, Refinement description, Structure summary