Skip to main content

 8GSP | pdb_00008gsp

Complex of FMDV A/WH/CHA/09 and bovine neutralizing scFv antibody W2


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.75 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report

Validation slider image for 8GSP

This is version 1.2 of the entry. See complete history. 

Literature

Conserved antigen structures and antibody-driven variations on foot-and-mouth disease virus serotype A revealed by bovine neutralizing monoclonal antibodies.

Li, K., He, Y., Wang, L., Li, P., Bao, H., Huang, S., Zhou, S., Zhu, G., Song, Y., Li, Y., Wang, S., Zhang, Q., Sun, P., Bai, X., Zhao, Z., Lou, Z., Cao, Y., Lu, Z., Liu, Z.

(2023) PLoS Pathog 19: e1011811-e1011811

  • DOI: https://doi.org/10.1371/journal.ppat.1011811
  • Primary Citation Related Structures: 
    8GRR, 8GSP

  • PubMed Abstract: 

    Foot-and-mouth disease virus (FMDV) serotype A is antigenically most variable within serotypes. The structures of conserved and variable antigenic sites were not well resolved. Here, a historical A/AF72 strain from A22 lineage and a latest A/GDMM/2013 strain from G2 genotype of Sea97 lineage were respectively used as bait antigen to screen single B cell antibodies from bovine sequentially vaccinated with A/WH/CHA/09 (G1 genotype of Sea97 lineage), A/GDMM/2013 and A/AF72 antigens. Total of 39 strain-specific and 5 broad neutralizing antibodies (bnAbs) were isolated and characterized. Two conserved antigenic sites were revealed by the Cryo-EM structures of FMDV serotype A with two bnAbs W2 and W125. The contact sites with both VH and VL of W125 were closely around icosahedral threefold axis and covered the B-C, E-F, and H-I loops on VP2 and the B-B knob and H-I loop on VP3; while contact sites with only VH of W2 concentrated on B-B knob, B-C and E-F loops on VP3 scattering around the three-fold axis of viral particle. Additional highly conserved epitopes also involved key residues of VP158, VP1147 and both VP272 / VP1147 as determined respectively by bnAb W153, W145 and W151-resistant mutants. Furthermore, the epitopes recognized by 20 strain-specific neutralization antibodies involved the key residues located on VP3 68 for A/AF72 (11/20) and VP3 175 position for A/GDMM/2013 (9/19), respectively, which revealed antigenic variation between different strains of serotype A. Analysis of antibody-driven variations on capsid of two virus strains showed a relatively stable VP2 and more variable VP3 and VP1. This study provided important information on conserve and variable antigen structures to design broad-spectrum molecular vaccine against FMDV serotype A.


  • Organizational Affiliation: 
    • State Key Laboratory for Animal Disease Control and Prevention, College of Veterinary Medicine, Lanzhou University, National Foot-and-Mouth Diseases Reference Laboratory, Lanzhou Veterinary Research Institute, Chinese Academy of Agricultural Sciences, Lanzhou (P.R. China).

Macromolecule Content 

  • Total Structure Weight: 107.74 kDa 
  • Atom Count: 6,891 
  • Modeled Residue Count: 894 
  • Deposited Residue Count: 990 
  • Unique protein chains: 6

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
A/WH/CHA/09 VP1A [auth 1]212Foot-and-mouth disease virus AMutation(s): 0 
UniProt
Find proteins for E7D6A4 (Foot-and-mouth disease virus A)
Explore E7D6A4 
Go to UniProtKB:  E7D6A4
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupE7D6A4
Sequence Annotations
Expand
Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 2
MoleculeChains  Sequence LengthOrganismDetailsImage
A/WH/CHA/09 VP2B [auth 2]218Foot-and-mouth disease virus AMutation(s): 0 
EC: 2.7.7.48
UniProt
Find proteins for D0E7R9 (Foot-and-mouth disease virus A)
Explore D0E7R9 
Go to UniProtKB:  D0E7R9
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupD0E7R9
Sequence Annotations
Expand
Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 3
MoleculeChains  Sequence LengthOrganismDetailsImage
A/WH/CHA/09 VP3C [auth 3]221Foot-and-mouth disease virus AMutation(s): 0 
EC: 2.7.7.48
UniProt
Find proteins for D0E7S2 (Foot-and-mouth disease virus A)
Explore D0E7S2 
Go to UniProtKB:  D0E7S2
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupD0E7S2
Sequence Annotations
Expand
Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 4
MoleculeChains  Sequence LengthOrganismDetailsImage
A/WH/CHA/09 VP4D [auth 4]85Foot-and-mouth disease virus AMutation(s): 0 
UniProt
Find proteins for E6Y5R3 (Foot-and-mouth disease virus A)
Explore E6Y5R3 
Go to UniProtKB:  E6Y5R3
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupE6Y5R3
Sequence Annotations
Expand
Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 5
MoleculeChains  Sequence LengthOrganismDetailsImage
IG HEAVY CHAIN VARIABLE REGIONE [auth H]130Bos taurusMutation(s): 0 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations
Expand
Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 6
MoleculeChains  Sequence LengthOrganismDetailsImage
IG LAMDA CHAIN VARIABLE REGIONF [auth L]124Bos taurusMutation(s): 0 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations
Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.75 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History 

& Funding Information

Deposition Data

  • Released Date: 2023-10-11 
  • Deposition Author(s): He, Y., Li, K.

Funding OrganizationLocationGrant Number
Not funded--

Revision History  (Full details and data files)

  • Version 1.0: 2023-10-11
    Type: Initial release
  • Version 1.1: 2023-12-06
    Changes: Database references
  • Version 1.2: 2024-11-13
    Changes: Data collection, Structure summary