9Q3V | pdb_00009q3v

Cryo EM structure of elk ACE2 in complex with XBB 1.5 spike RBD

• PDB DOI: https://doi.org/10.2210/pdb9Q3V/pdb
• EM Map EMD-72208: EMDB EMDataResource

• Classification: VIRAL PROTEIN
• Organism(s): Severe acute respiratory syndrome coronavirus 2, Cervus canadensis
• Expression System: Cricetulus griseus
• Mutation(s): No 


• Deposited: 2025-08-19 Released: 2026-02-25 
• Deposition Author(s): Ye, K., Tao, Y.J., Wan, X.F.
• Funding Organization(s): United States Department of Agriculture (USDA), Robert A. Welch Foundation

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.30 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Starting Model: experimental

Literature

Species- and variant-specific ACE2 compatibility shapes SARS-CoV-2 spillover potential in North American cervids

Espada, C., Ye, K., Long, Y., Pasai, K., DeLiberto, T.J., Heale, J., Wiese, R., Yang, Q., Zhou, M., Streich, S., Tao, Y.J., Chandler, J.C., Wan, X.F.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 98.49 kDa 
• Atom Count: 6,482 
• Modeled Residue Count: 789 
• Deposited Residue Count: 845 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Spike protein	A [auth B]	223	Severe acute respiratory syndrome coronavirus 2	Mutation(s): 0  Gene Names: S, 2

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Angiotensin-converting enzyme 2	B [auth A]	622	Cervus canadensis	Mutation(s): 0  Gene Names: ACE2 EC: 3.4
Glycosylation
Glycosylation Sites: 4

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAG (Subject of Investigation/LOI)	C [auth A], D [auth A], E [auth A], F [auth A]	2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.30 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

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

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2026-02-25 
Deposition Author(s): Ye, K., Tao, Y.J., Wan, X.F.

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Funding Organization	Location	Grant Number
United States Department of Agriculture (USDA)	United States	--
Robert A. Welch Foundation	United States	--

Revision History  

• Version 1.0: 2026-02-25
  Type: Initial release