6IIJ

Cryo-EM structure of CV-A10 mature virion


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.84 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Coxsackievirus A10 atomic structure facilitating the discovery of a broad-spectrum inhibitor against human enteroviruses.

Chen, J.Ye, X.Zhang, X.Y.Zhu, Z.Zhang, X.Xu, Z.Ding, Z.Zou, G.Liu, Q.Kong, L.Jiang, W.Zhu, W.Cong, Y.Huang, Z.

(2019) Cell Discov 5: 4-4

  • DOI: 10.1038/s41421-018-0073-7
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Coxsackievirus A10 (CV-A10) belongs to the <i>Enterovirus </i> species A and is a causative agent of hand, foot, and mouth disease. Here we present cryo-EM structures of CV-A10 mature virion and native empty particle (NEP) at 2.84 and 3.12 Å, respec ...

    Coxsackievirus A10 (CV-A10) belongs to the Enterovirus species A and is a causative agent of hand, foot, and mouth disease. Here we present cryo-EM structures of CV-A10 mature virion and native empty particle (NEP) at 2.84 and 3.12 Å, respectively. Our CV-A10 mature virion structure reveals a density corresponding to a lipidic pocket factor of 18 carbon atoms in the hydrophobic pocket formed within viral protein 1. By structure-guided high-throughput drug screening and subsequent verification in cell-based infection-inhibition assays, we identified four compounds that inhibited CV-A10 infection in vitro. These compounds represent a new class of anti-enteroviral drug leads. Notably, one of the compounds, ICA135, also exerted broad-spectrum inhibitory effects on a number of representative viruses from all four species (A-D) of human enteroviruses. Our findings should facilitate the development of broadly effective drugs and vaccines for enterovirus infections.


    Organizational Affiliation

    1National Center for Protein Science Shanghai, State Key Laboratory of Molecular Biology, CAS Center for Excellence in Molecular Cell Science, Shanghai Institute of Biochemistry and Cell Biology, Chinese Academy of Sciences, University of Chinese Academy of Sciences, Shanghai, China.,4Shanghai Science Research Center, Chinese Academy of Sciences, Shanghai, China.,2CAS Key Laboratory of Molecular Virology & Immunology, Institut Pasteur of Shanghai, Chinese Academy of Sciences, University of Chinese Academy of Sciences, Shanghai, China.,5Markey Center for Structural Biology, Department of Biological Sciences, Purdue University, West Lafayette, IN USA.,3CAS Key Laboratory of Receptor Research, Drug Discovery and Design Center, Shanghai Institute of Materia Medica, Chinese Academy of Sciences, University of Chinese Academy of Sciences, Shanghai, China.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
VP1
A
297Coxsackievirus A10Mutation(s): 0 
Find proteins for A0A1B3Z4Y8 (Coxsackievirus A10)
Go to UniProtKB:  A0A1B3Z4Y8
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
VP2
B
255Coxsackievirus A10Mutation(s): 0 
Find proteins for A0A1B3Z4Y8 (Coxsackievirus A10)
Go to UniProtKB:  A0A1B3Z4Y8
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
VP3
C
240Coxsackievirus A10Mutation(s): 0 
Find proteins for A0A1B3Z4Y8 (Coxsackievirus A10)
Go to UniProtKB:  A0A1B3Z4Y8
Entity ID: 4
MoleculeChainsSequence LengthOrganismDetails
VP4
D
69Coxsackievirus A10Mutation(s): 0 
Find proteins for A0A1B3Z4Y8 (Coxsackievirus A10)
Go to UniProtKB:  A0A1B3Z4Y8
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SPH
Query on SPH

Download SDF File 
Download CCD File 
A
SPHINGOSINE
C18 H37 N O2
WWUZIQQURGPMPG-MSOLQXFVSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.84 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
Software Package:
Software NamePurpose
PHENIXrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2018-11-07
    Type: Initial release
  • Version 1.1: 2019-05-22
    Type: Data collection, Database references