9S67 | pdb_00009s67

CryoEM structure of WIV1 spike monomer in complex with neutralizing antibody VA14_26

• PDB DOI: https://doi.org/10.2210/pdb9S67/pdb
• EM Map EMD-54623: EMDB EMDataResource

• Classification: IMMUNE SYSTEM
• Organism(s): Homo sapiens, Bat SARS-like coronavirus WIV1
• Expression System: Homo sapiens
• Mutation(s): Yes 


• Deposited: 2025-07-31 Released: 2026-07-08 
• Deposition Author(s): Upadhyay, A., Alguel, Y., Cherepanov, P.
• Funding Organization(s): Wellcome Trust, Medical Research Council (MRC, United Kingdom), Cancer Research UK

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 4.12 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Starting Model: experimental

Literature

Mechanisms for cross-neutralisation of diverse bat sarbecoviruses

Upadhyay, A., Seow, J., Alguel, Y., Newman, J., Thakur, N., Tam, J.C.H., Nans, A., Bailey, D., Cherepanov, P., Doores, K.J.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 3-mer - A1B1C1 Pseudo Symmetry: Asymmetric - C1 
Pseudo Stoichiometry: Hetero 3-mer - A2B1 

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

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 187.96 kDa 
• Atom Count: 7,889 
• Modeled Residue Count: 997 
• Deposited Residue Count: 1,690 
• Unique protein chains: 3

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
VA14_26 Antibody Light Chain	A	213	Homo sapiens	Mutation(s): 0

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
VA14_26 antibody Heavy Chain	B	238	Homo sapiens	Mutation(s): 0

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Spike glycoprotein	C	1,239	Bat SARS-like coronavirus WIV1	Mutation(s): 3
UniProt
Find proteins for U5WI05 (Bat SARS-like coronavirus WIV1) Explore U5WI05  Go to UniProtKB:  U5WI05
Glycosylation
Glycosylation Sites: 8

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAG	D [auth C], E [auth C], F [auth C], G [auth C], H [auth C], I [auth C], J [auth C], K [auth C]	2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 4.12 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
RECONSTRUCTION	cryoSPARC	4.6.2
MODEL REFINEMENT	PHENIX	1.21.2_5419

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2026-07-08 
Deposition Author(s): Upadhyay, A., Alguel, Y., Cherepanov, P.

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Funding Organization	Location	Grant Number
Wellcome Trust	United Kingdom	CC2058
Medical Research Council (MRC, United Kingdom)	United Kingdom	CC2058
Cancer Research UK	United Kingdom	CC2058

Revision History  

• Version 1.0: 2026-07-08
  Type: Initial release