9FHS | pdb_00009fhs

Structure of the F13 protein of Vaccinia virus (F432 crystal form)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.82 Å
  • R-Value Free: 
    0.232 (Depositor), 0.235 (DCC) 
  • R-Value Work: 
    0.203 (Depositor), 0.206 (DCC) 
  • R-Value Observed: 
    0.205 (Depositor) 

Starting Model: in silico
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wwPDB Validation 3D Report Full Report

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Ligand Structure Quality Assessment 


This is version 1.1 of the entry. See complete history

Literature

Structural insights into tecovirimat antiviral activity and poxvirus resistance.

Vernuccio, R.Martinez Leon, A.Poojari, C.S.Buchrieser, J.Selverian, C.N.Jaleta, Y.Meola, A.Guivel-Benhassine, F.Porrot, F.Haouz, A.Chevreuil, M.Raynal, B.Mercer, J.Simon-Loriere, E.Chandran, K.Schwartz, O.Hub, J.S.Guardado-Calvo, P.

(2025) Nat Microbiol 10: 734-748

  • DOI: https://doi.org/10.1038/s41564-025-01936-6
  • Primary Citation Related Structures: 
    9FHK, 9FHS, 9FIZ, 9FJ0, 9FJ1, 9FJA, 9HAH

  • PubMed Abstract: 

    Mpox is a zoonotic disease endemic to Central and West Africa. Since 2022, two human-adapted monkeypox virus (MPXV) strains have caused large outbreaks outside these regions. Tecovirimat is the most widely used drug to treat mpox. It blocks viral egress by targeting the viral phospholipase F13; however, the structural details are unknown, and mutations in the F13 gene can result in resistance against tecovirimat, raising public health concerns. Here we report the structure of an F13 homodimer using X-ray crystallography, both alone (2.1 Å) and in complex with tecovirimat (2.6 Å). Combined with molecular dynamics simulations and dimerization assays, we show that tecovirimat acts as a molecular glue that promotes dimerization of the phospholipase. Tecovirimat resistance mutations identified in clinical MPXV isolates map to the F13 dimer interface and prevent drug-induced dimerization in solution and in cells. These findings explain how tecovirimat works, allow for better monitoring of resistant MPXV strains and pave the way for developing more potent and resilient therapeutics.


  • Organizational Affiliation
    • G5 Structural Biology of Infectious Diseases, Institut Pasteur, Université Paris Cité, Paris, France.

Macromolecule Content 

  • Total Structure Weight: 45.66 kDa 
  • Atom Count: 3,027 
  • Modeled Residue Count: 367 
  • Deposited Residue Count: 399 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Envelope phospholipase OPG057399Vaccinia virus Western ReserveMutation(s): 0 
Gene Names: OPG057VACWR052F13L
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
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP04021
Sequence Annotations
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Reference Sequence

Small Molecules

Ligands 2 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
CIT
(Subject of Investigation/LOI)

Query on CIT



Download:Ideal Coordinates CCD File
B [auth A]CITRIC ACID
C6 H8 O7
KRKNYBCHXYNGOX-UHFFFAOYSA-N
GOL
(Subject of Investigation/LOI)

Query on GOL



Download:Ideal Coordinates CCD File
C [auth A]
D [auth A]
E [auth A]
F [auth A]
G [auth A]
C [auth A],
D [auth A],
E [auth A],
F [auth A],
G [auth A],
H [auth A],
I [auth A],
J [auth A],
K [auth A],
L [auth A],
M [auth A],
N [auth A]
GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.82 Å
  • R-Value Free:  0.232 (Depositor), 0.235 (DCC) 
  • R-Value Work:  0.203 (Depositor), 0.206 (DCC) 
  • R-Value Observed: 0.205 (Depositor) 
Space Group: F 4 3 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 280.363α = 90
b = 280.363β = 90
c = 280.363γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
PHENIXphasing

Structure Validation

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Ligand Structure Quality Assessment 


Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Agence Nationale de la Recherche (ANR)FranceANR-22-CE11-0003

Revision History  (Full details and data files)

  • Version 1.0: 2025-03-12
    Type: Initial release
  • Version 1.1: 2025-03-19
    Changes: Database references