9QQV | pdb_00009qqv

Structure of the F13 protein of Vaccinia virus in complex with G243-1720

• PDB DOI: https://doi.org/10.2210/pdb9QQV/pdb

• Classification: VIRAL PROTEIN
• Organism(s): Vaccinia virus Western Reserve
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2025-04-02 Released: 2025-12-24 
• Deposition Author(s): Vernuccio, R., Guardado-Calvo, P.
• Funding Organization(s): Agence Nationale de la Recherche (ANR)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.40 Å
• R-Value Free: 
  0.273 (Depositor), 0.270 (DCC) 
• R-Value Work: 
  0.226 (Depositor), 0.226 (DCC) 
• R-Value Observed: 
  0.228 (Depositor) 

Starting Model: experimental

Literature

Development of a replication-defective mpox virus platform for fundamental and therapeutic research

Chen, J., Hu, L., Vernuccio, R., Shi, N., Tian, J., Zhang, Y., Tian, S., Cao, X., Ha, Z., Lu, J., Battini, L., Raynal, B., Haouz, A., Xue, J., Cai, Q., Zhao, Y., Lu, Y., Smith, G.L., Xie, Y., Lu, H., Guardado-Calvo, P., Zhang, P., Zhang, R.

(2025) Nat Commun 

• DOI: https://doi.org/10.1038/s41467-025-67487-w

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 45.27 kDa 
• Atom Count: 2,901 
• Modeled Residue Count: 357 
• Deposited Residue Count: 399 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Envelope phospholipase OPG057	A	399	Vaccinia virus Western Reserve	Mutation(s): 0  Gene Names: OPG057, VACWR052, F13L EC: 3.1.1 (PDB Primary Data), 3.1.4.4 (PDB Primary Data)
UniProt
Find proteins for P04021 (Vaccinia virus (strain Western Reserve)) Explore P04021  Go to UniProtKB:  P04021

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
A1I9D (Subject of Investigation/LOI)	F [auth A]	4-(azepan-1-ylcarbonyl)-~{N}-(2-chloranyl-4-methyl-phenyl)-1,2,5-trimethyl-pyrrole-3-sulfonamide C21 H28 Cl N3 O3 S QJDVOMDNBMNOMJ-UHFFFAOYSA-N
CIT	C [auth A]	CITRIC ACID C6 H8 O7 KRKNYBCHXYNGOX-UHFFFAOYSA-N
GOL	B [auth A], D [auth A], E [auth A]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.40 Å
• R-Value Free:  0.273 (Depositor), 0.270 (DCC) 
• R-Value Work:  0.226 (Depositor), 0.226 (DCC) 
• R-Value Observed: 0.228 (Depositor) 

Space Group: F 4 3 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 281.495	α = 90
b = 281.495	β = 90
c = 281.495	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
Aimless	data scaling
PHENIX	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-12-24 
Deposition Author(s): Vernuccio, R., Guardado-Calvo, P.

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Funding Organization	Location	Grant Number
Agence Nationale de la Recherche (ANR)	France	ANR-22-CE11-0003

Revision History  

• Version 1.0: 2025-12-24
  Type: Initial release