4I00

Crystal structure of influenza A neuraminidase N3-H274Y complexed with zanamivir

• PDB DOI: https://doi.org/10.2210/pdb4I00/pdb

• Classification: HYDROLASE/HYDROLASE INHIBITOR
• Organism(s): Influenza A virus (A/swine/Missouri/2124514/2006(H2N3))
• Mutation(s): Yes 


• Deposited: 2012-11-16 Released: 2013-11-13 
• Deposition Author(s): Li, Q., Qi, J., Vavricka, C.J., Gao, G.F.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free: 0.176 
• R-Value Work: 0.153 
• R-Value Observed: 0.154 

Biological Assembly 1  

Global Symmetry: Cyclic - C4  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

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

Macromolecule Content

• Total Structure Weight: 44.91 kDa 
• Atom Count: 3,551 
• Modelled Residue Count: 388 
• Deposited Residue Count: 388 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Neuraminidase	A	388	Influenza A virus (A/swine/Missouri/2124514/2006(H2N3))	Mutation(s): 1  Gene Names: NA
UniProt
Find proteins for A9YN63 (Influenza A virus) Explore A9YN63  Go to UniProtKB:  A9YN63

Oligosaccharides

Help

Entity ID: 2
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose	B, C	3		N-Glycosylation
Glycosylation Resources
GlyTouCan:  G21290RB GlyCosmos:  G21290RB GlyGen:  G21290RB

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ZMR	F [auth A]	ZANAMIVIR C12 H20 N4 O7 ARAIBEBZBOPLMB-UFGQHTETSA-N
CA	D [auth A], E [auth A]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free: 0.176 
• R-Value Work: 0.153 
• R-Value Observed: 0.154 
• Space Group: I 4

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 106.334	α = 90
b = 106.334	β = 90
c = 64.75	γ = 90

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Released Date: 2013-11-13 
Deposition Author(s): Li, Q., Qi, J., Vavricka, C.J., Gao, G.F.

Revision History  

• Version 1.0: 2013-11-13
  Type: Initial release
  
• Version 1.1: 2018-03-21
  Changes: Data collection
• Version 2.0: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Atomic model, Data collection, Database references, Derived calculations, Structure summary
• Version 2.1: 2023-11-08
  Changes: Data collection, Database references, Refinement description, Structure summary