28ZE | pdb_000028ze

Crystal structure of the Norovirus GII.17 P domain in complex with Difucosyllactose

• PDB DOI: https://doi.org/10.2210/pdb28ZE/pdb

• Classification: VIRAL PROTEIN
• Organism(s): Norovirus GII.17
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2026-03-02 Released: 2026-11-11 
• Deposition Author(s): Pisapia, L., Varrot, A.
• Funding Organization(s): European Union (EU)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.43 Å
• R-Value Free: 
  0.159 (Depositor), 0.159 (DCC) 
• R-Value Work: 
  0.130 (Depositor), 0.130 (DCC) 

Starting Model: experimental

Literature

Crystal structure of the Norovirus GII.17 P domain in complex with Difucosyllactose

Pisapia, L., Flatau, H.N., Lin, S., Khanzhin, N., Imberty, A., Fragai, M., Angulo, J., Varrot, A.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

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

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 69.38 kDa 
• Atom Count: 5,928 
• Modeled Residue Count: 612 
• Deposited Residue Count: 616 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
VP1	A, B	308	Norovirus GII.17	Mutation(s): 0

Oligosaccharides

Help  

Entity ID: 2
Molecule	Chains	Length	2D Diagram	Glycosylation	D Interactions
alpha-L-fucopyranose-(1-2)-beta-D-galactopyranose-(1-4)-[alpha-L-fucopyranose-(1-3)]beta-D-glucopyranose	C, D	4		N/A

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.43 Å
• R-Value Free:  0.159 (Depositor), 0.159 (DCC) 
• R-Value Work:  0.130 (Depositor), 0.130 (DCC) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 59.407	α = 90
b = 86.161	β = 106.189
c = 64.056	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
Aimless	data scaling
PHASER	phasing

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2026-11-11 
Deposition Author(s): Pisapia, L., Varrot, A.

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Funding Organization	Location	Grant Number
European Union (EU)	European Union	101072717

Revision History  

• Version 1.0: 2026-11-11
  Type: Initial release