6LHP

The cryo-EM structure of coxsackievirus A16 mature virion in complex with Fab 14B10

  • Classification: VIRUS
  • Organism(s): Mus musculus, Coxsackievirus A16
  • Mutation(s): No 

  • Deposited: 2019-12-09 Released: 2020-02-05 
  • Deposition Author(s): He, M.Z., Xu, L.F., Zheng, Q.B., Zhu, R., Yin, Z.C., Cheng, T., Li, S.W.
  • Funding Organization(s): National Natural Science Foundation of China (NSFC), National Science Foundation (NSF, China), National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS), National Institutes of Health/National Institute of Dental and Craniofacial Research (NIH/NIDCR), National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)

Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.30 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Identification of Antibodies with Non-overlapping Neutralization Sites that Target Coxsackievirus A16.

He, M.Xu, L.Zheng, Q.Zhu, R.Yin, Z.Zha, Z.Lin, Y.Yang, L.Huang, Y.Ye, X.Li, S.Hou, W.Wu, Y.Han, J.Liu, D.Li, Z.Chen, Z.Yu, H.Que, Y.Wang, Y.Yan, X.Zhang, J.Gu, Y.Zhou, Z.H.Cheng, T.Li, S.Xia, N.

(2020) Cell Host Microbe 27: 249

  • DOI: 10.1016/j.chom.2020.01.003
  • Structures With Same Primary Citation

  • PubMed Abstract: 
  • Hand, foot, and mouth disease is a common childhood illness primarily caused by coxsackievirus A16 (CVA16), for which there are no current vaccines or treatments. We identify three CVA16-specific neutralizing monoclonal antibodies (nAbs) with therape ...

    Hand, foot, and mouth disease is a common childhood illness primarily caused by coxsackievirus A16 (CVA16), for which there are no current vaccines or treatments. We identify three CVA16-specific neutralizing monoclonal antibodies (nAbs) with therapeutic potential: 18A7, 14B10, and NA9D7. We present atomic structures of these nAbs bound to all three viral particle forms-the mature virion, A-particle, and empty particle-and show that each Fab can simultaneously occupy the mature virion. Additionally, 14B10 or NA9D7 provide 100% protection against lethal CVA16 infection in a neonatal mouse model. 18A7 binds to a non-conserved epitope present in all three particles, whereas 14B10 and NA9D7 recognize broad protective epitopes but only bind the mature virion. NA9D7 targets an immunodominant site, which may overlap the receptor-binding site. These findings indicate that CVA16 vaccines should be based on mature virions and that these antibodies could be used to discriminate optimal virion-based immunogens.


    Organizational Affiliation

    State Key Laboratory of Molecular Vaccinology and Molecular Diagnostics, National Institute of Diagnostics and Vaccine Development in Infectious Diseases, School of Life Sciences, School of Public Health, Xiamen University, Xiamen 361102, China. Electronic address: nsxia@xmu.edu.cn.



Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
light chain variable region of Fab 14B10
L
107Mus musculusMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.

Find similar proteins by: Sequence  |  Structure

Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
heavy chain variable region of Fab 14B10
H
115Mus musculusMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.

Find similar proteins by: Sequence  |  Structure

Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
VP1 protein
A
297Coxsackievirus A16Mutation(s): 0 
Find proteins for A0A2S1BJ89 (Coxsackievirus A16)
Go to UniProtKB:  A0A2S1BJ89

Find similar proteins by: Sequence  |  Structure

Entity ID: 4
MoleculeChainsSequence LengthOrganismDetails
VP2 protein
B
254Coxsackievirus A16Mutation(s): 0 
EC: 3.4.22.29 (PDB Primary Data), 3.6.1.15 (PDB Primary Data), 3.4.22.28 (PDB Primary Data), 2.7.7.48 (PDB Primary Data)
Find proteins for A0A1D3TZV2 (Coxsackievirus A16)
Go to UniProtKB:  A0A1D3TZV2

Find similar proteins by: Sequence  |  Structure

Entity ID: 5
MoleculeChainsSequence LengthOrganismDetails
VP3 protein
C
242Coxsackievirus A16Mutation(s): 0 
EC: 3.4.22.29 (PDB Primary Data), 3.6.1.15 (PDB Primary Data), 3.4.22.28 (PDB Primary Data), 2.7.7.48 (PDB Primary Data)
Find proteins for A0A2R4NBT3 (Coxsackievirus A16)
Go to UniProtKB:  A0A2R4NBT3

Find similar proteins by: Sequence  |  Structure

Entity ID: 6
MoleculeChainsSequence LengthOrganismDetails
VP4 protein
D
69Coxsackievirus A16Mutation(s): 0 
Gene Names: VP4
Find proteins for A5HX42 (Coxsackievirus A16)
Go to UniProtKB:  A5HX42
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SPH
Query on SPH

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

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.30 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science Foundation of China (NSFC)China81991490
National Science Foundation (NSF, China)China2018ZX09711003-005-003
National Science Foundation (NSF, China)China2017ZX10304402-002-003
National Natural Science Foundation of China (NSFC)China31670933
National Natural Science Foundation of China (NSFC)China81801646
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesR37-GM33050
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesGM071940
National Institutes of Health/National Institute of Dental and Craniofacial Research (NIH/NIDCR)United StatesDE025567
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)United StatesAI094386

Revision History 

  • Version 1.0: 2020-02-05
    Type: Initial release
  • Version 1.1: 2020-02-19
    Changes: Database references
  • Version 1.2: 2020-02-26
    Changes: Database references