8XPI | pdb_00008xpi

Structure of the C-terminal domain of nsp4 from PEDV

• PDB DOI: https://doi.org/10.2210/pdb8XPI/pdb

• Classification: VIRAL PROTEIN
• Organism(s): Porcine epidemic diarrhea virus
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2024-01-03 Released: 2025-01-15 
• Deposition Author(s): Zhang, D., Zhang, Z.T., Shi, Y.J., Peng, G.Q.
• Funding Organization(s): National Natural Science Foundation of China (NSFC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.84 Å
• R-Value Free: 
  0.245 (Depositor), 0.245 (DCC) 
• R-Value Work: 
  0.201 (Depositor), 0.203 (DCC) 
• R-Value Observed: 
  0.203 (Depositor) 

Literature

Structure of the C-terminal domain of nsp4 from PEDV

Zhang, D., Zhang, Z.T., Shi, Y.J., Peng, G.Q.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 12.32 kDa 
• Atom Count: 752 
• Modeled Residue Count: 90 
• Deposited Residue Count: 107 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
ORF1ab polyprotein	A	107	Porcine epidemic diarrhea virus	Mutation(s): 0
UniProt
Find proteins for A0A0N7K4J8 (Porcine epidemic diarrhea virus) Explore A0A0N7K4J8  Go to UniProtKB:  A0A0N7K4J8

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.84 Å
• R-Value Free:  0.245 (Depositor), 0.245 (DCC) 
• R-Value Work:  0.201 (Depositor), 0.203 (DCC) 
• R-Value Observed: 0.203 (Depositor) 

Space Group: P 6₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 58.815	α = 90
b = 58.815	β = 90
c = 52.014	γ = 120

Software Package:

Software Name	Purpose
PHENIX	refinement
Aimless	data scaling
xia2	data reduction
PHASER	phasing

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2025-01-15 
Deposition Author(s): Zhang, D., Zhang, Z.T., Shi, Y.J., Peng, G.Q.

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Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	--

Revision History  

• Version 1.0: 2025-01-15
  Type: Initial release