8XZ0 | pdb_00008xz0

Crystal complex structure of SARS-CoV-2 S bound to human ezrin

• PDB DOI: https://doi.org/10.2210/pdb8XZ0/pdb

• Classification: VIRAL PROTEIN/PROTEIN BINDING
• Organism(s): Homo sapiens, Severe acute respiratory syndrome coronavirus 2
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2024-01-20 Released: 2025-10-08 
• Deposition Author(s): Wang, J.M., Ma, W.F.
• Funding Organization(s): Other government

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.04 Å
• R-Value Free: 
  0.253 (Depositor), 0.253 (DCC) 
• R-Value Work: 
  0.215 (Depositor), 0.224 (DCC) 
• R-Value Observed: 
  0.217 (Depositor) 

Starting Model: experimental

Literature

Crystal complex structure of SARS-CoV-2 S bound to human ezrin

Wang, J.M., Ma, W.F.

To be published.

Biological Assembly 1  

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

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

Macromolecule Content 

• Total Structure Weight: 36.57 kDa 
• Atom Count: 2,503 
• Modeled Residue Count: 303 
• Deposited Residue Count: 310 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Ezrin	A	296	Homo sapiens	Mutation(s): 0  Gene Names: EZR, VIL2
UniProt & NIH Common Fund Data Resources
Find proteins for P15311 (Homo sapiens) Explore P15311  Go to UniProtKB:  P15311
PHAROS:  P15311 GTEx:  ENSG00000092820

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Spike protein S2'	B	14	Severe acute respiratory syndrome coronavirus 2	Mutation(s): 0
UniProt
Find proteins for P0DTC2 (Severe acute respiratory syndrome coronavirus 2) Explore P0DTC2  Go to UniProtKB:  P0DTC2

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.04 Å
• R-Value Free:  0.253 (Depositor), 0.253 (DCC) 
• R-Value Work:  0.215 (Depositor), 0.224 (DCC) 
• R-Value Observed: 0.217 (Depositor) 

Space Group: P 4₃

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 77.507	α = 90
b = 77.507	β = 90
c = 55.995	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-3000	data reduction
HKL-3000	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-10-08 
Deposition Author(s): Wang, J.M., Ma, W.F.

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Funding Organization	Location	Grant Number
Other government	China	--

Revision History  

• Version 1.0: 2025-10-08
  Type: Initial release