4JUJ

Crystal structure of 1918 pandemic influenza virus hemagglutinin mutant D225G complexed with human receptor analogue LSTc

• PDB DOI: https://doi.org/10.2210/pdb4JUJ/pdb

• Classification: VIRAL PROTEIN
• Organism(s): Influenza A virus (A/South Carolina/1/1918(H1N1))
• Expression System: Trichoplusia ni
• Mutation(s): Yes 


• Deposited: 2013-03-25 Released: 2013-05-01 
• Deposition Author(s): Zhang, W., Shi, Y., Qi, J., Gao, F., Li, Q., Fan, Z., Yan, J., Gao, G.F.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.01 Å
• R-Value Free: 0.247 
• R-Value Work: 0.202 
• R-Value Observed: 0.204 

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: 168.1 kDa 
• Atom Count: 11,784 
• Modelled Residue Count: 1,471 
• Deposited Residue Count: 1,482 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Hemagglutinin	A, C, E	324	Influenza A virus (A/South Carolina/1/1918(H1N1))	Mutation(s): 1  Gene Names: HA
UniProt
Find proteins for Q9WFX3 (Influenza A virus (strain A/Brevig Mission/1/1918 H1N1)) Explore Q9WFX3  Go to UniProtKB:  Q9WFX3

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Hemagglutinin	B, D, F	170	Influenza A virus (A/South Carolina/1/1918(H1N1))	Mutation(s): 0  Gene Names: HA
UniProt
Find proteins for Q9WFX3 (Influenza A virus (strain A/Brevig Mission/1/1918 H1N1)) Explore Q9WFX3  Go to UniProtKB:  Q9WFX3

Oligosaccharides

Help

Entity ID: 3
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	G, I, K	2		N-Glycosylation
Glycosylation Resources
GlyTouCan:  G42666HT GlyCosmos:  G42666HT GlyGen:  G42666HT

Entity ID: 4
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
N-acetyl-alpha-neuraminic acid-(2-6)-beta-D-galactopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	H, J	3		N/A
Glycosylation Resources
GlyTouCan:  G73578JC GlyCosmos:  G73578JC GlyGen:  G73578JC

Biologically Interesting Molecules (External Reference) 1 Unique

Entity ID: 4
ID	Chains	Name	Type/Class	2D Diagram	3D Interactions
PRD_900046	H, J	6'-sialyl-N-acetyllactosamine	Oligosaccharide / Glycan component

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.01 Å
• R-Value Free: 0.247 
• R-Value Work: 0.202 
• R-Value Observed: 0.204 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 71.911	α = 90
b = 242.149	β = 119.66
c = 71.754	γ = 90

Software Package:

Software Name	Purpose
MAR345dtb	data collection
PHASER	phasing
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2013-05-01 
Deposition Author(s): Zhang, W., Shi, Y., Qi, J., Gao, F., Li, Q., Fan, Z., Yan, J., Gao, G.F.

Revision History  

• Version 1.0: 2013-05-01
  Type: Initial release
  
• Version 1.1: 2013-08-07
  Changes: Database references
• Version 2.0: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Advisory, Atomic model, Data collection, Database references, Derived calculations, Structure summary
• Version 2.1: 2020-09-09
  Changes: Structure summary
• Version 2.2: 2023-11-08
  Changes: Data collection, Database references, Refinement description