7E6V

The crystal structure of foot-and-mouth disease virus(FMDV) 2C protein 97-318aa


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.83 Å
  • R-Value Free: 0.249 
  • R-Value Work: 0.201 
  • R-Value Observed: 0.203 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

An anti-picornaviral strategy based on the crystal structure of foot-and-mouth disease virus 2C protein.

Zhang, C.Yang, F.Wojdyla, J.A.Qin, B.Zhang, W.Zheng, M.Cao, W.Wang, M.Gao, X.Zheng, H.Cui, S.

(2022) Cell Rep 40: 111030-111030

  • DOI: https://doi.org/10.1016/j.celrep.2022.111030
  • Primary Citation of Related Structures:  
    7E6V

  • PubMed Abstract: 

    The foot-and-mouth disease virus (FMDV) 2C protein shares conserved motifs with enterovirus 2Cs despite low sequence identity. Here, we determine the crystal structure of an FMDV 2C fragment to 1.83 Å resolution, which comprises an ATPase domain, a region equivalent to the enterovirus 2C zinc-finger (ZFER), and a C-terminal domain harboring a loop (PBL) that occupies a hydrophobic cleft (Pocket) in an adjacent 2C molecule. Mutations at ZFER, PBL, and Pocket affect FMDV 2C ATPase activity and are lethal to FMDV infectious clones. Because the PBL-Pocket interaction between FMDV 2C molecules is essential for its functions, we design an anti-FMDV peptide derived from PBL (PBL-peptide). PBL-peptide inhibits FMDV 2C ATPase activity, binds FMDV 2C with nanomolar affinity, and disrupts FMDV 2C oligomerization. FMDV 2C targets lipid droplets (LDs) and induces LD clustering in cells, and PBL-peptide disrupts FMDV 2C-induced LD clustering. Finally, we demonstrate that PBL-peptide exhibits anti-FMDV activity in cells.


  • Organizational Affiliation

    NHC Key Laboratory of Systems Biology of Pathogens, Institute of Pathogen Biology, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing 100730, China.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Protein 2C
A, B
223Foot-and-mouth disease virus SAT 2Mutation(s): 2 
EC: 2.7.7.48 (PDB Primary Data), 3.4.22.28 (PDB Primary Data), 3.4.22.46 (PDB Primary Data), 3.6.1.15 (PDB Primary Data)
UniProt
Find proteins for B8Y0J7 (Foot-and-mouth disease virus SAT 2)
Explore B8Y0J7 
Go to UniProtKB:  B8Y0J7
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupB8Y0J7
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Modified Residues  1 Unique
IDChains TypeFormula2D DiagramParent
MSE
Query on MSE
A, B
L-PEPTIDE LINKINGC5 H11 N O2 SeMET
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.83 Å
  • R-Value Free: 0.249 
  • R-Value Work: 0.201 
  • R-Value Observed: 0.203 
  • Space Group: P 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 36.72α = 77.22
b = 40.737β = 84.38
c = 72.937γ = 89.96
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
PDB_EXTRACTdata extraction
XDSdata scaling
PHENIXphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2022-06-29
    Type: Initial release
  • Version 1.1: 2022-07-06
    Changes: Structure summary
  • Version 1.2: 2022-07-13
    Changes: Database references, Structure summary
  • Version 1.3: 2022-07-20
    Changes: Database references