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 7D3M | pdb_00007d3m

FOOT AND MOUTH DISEASE VIRUS O/TIBET/99-BOUND THE SINGLE CHAIN FRAGMEN ANTIBODY R50


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.94 Å
  • Resolution: 3.94 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report

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

Literature

Structures of Foot-and-mouth Disease Virus with neutralizing antibodies derived from recovered natural host reveal a mechanism for cross-serotype neutralization.

He, Y., Li, K., Cao, Y., Sun, Z., Li, P., Bao, H., Wang, S., Zhu, G., Bai, X., Sun, P., Liu, X., Yang, C., Liu, Z., Lu, Z., Rao, Z., Lou, Z.

(2021) PLoS Pathog 17: e1009507-e1009507

  • DOI: https://doi.org/10.1371/journal.ppat.1009507
  • Primary Citation Related Structures: 
    7D3K, 7D3L, 7D3M, 7D3R

  • PubMed Abstract: 

    The development of a universal vaccine against foot-and-mouth disease virus (FMDV) is hindered by cross-serotype antigenic diversity and by a lack of knowledge regarding neutralization of the virus in natural hosts. In this study, we isolated serotype O-specific neutralizing antibodies (NAbs) (F145 and B77) from recovered natural bovine hosts by using the single B cell antibody isolation technique. We also identified a serotype O/A cross-reacting NAb (R50) and determined virus-NAb complex structures by cryo-electron microscopy at near-atomic resolution. F145 and B77 were shown to engage the capsid of FMDV-O near the icosahedral threefold axis, binding to the BC/HI-loop of VP2. In contrast, R50 engages the capsids of both FMDV-O and FMDV-A between the 2- and 5-fold axes and binds to the BC/EF/GH-loop of VP1 and to the GH-loop of VP3 from two adjacent protomers, revealing a previously unknown antigenic site. The cross-serotype neutralizing epitope recognized by R50 is highly conserved among serotype O/A. These findings help to elucidate FMDV neutralization by natural hosts and provide epitope information for the development of a universal vaccine for cross-serotype protection against FMDV.


  • Organizational Affiliation: 
    • State Key Laboratory of Medicinal Chemical Biology and Drug Discovery Center for Infectious Disease, College of Pharmacy, Nankai University, Tianjin, China.

Macromolecule Content 

  • Total Structure Weight: 111.3 kDa 
  • Atom Count: 6,923 
  • Modeled Residue Count: 907 
  • Deposited Residue Count: 1,026 
  • Unique protein chains: 6

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
O/TIBET/99 VP1A [auth 1]213Foot-and-mouth disease virusMutation(s): 0 
UniProt
Find proteins for G3E3P7 (Foot-and-mouth disease virus serotype O)
Explore G3E3P7 
Go to UniProtKB:  G3E3P7
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UniProt GroupG3E3P7
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Reference Sequence
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Entity ID: 2
MoleculeChains  Sequence LengthOrganismDetailsImage
O/TIBET/99 VP2B [auth 2]218Foot-and-mouth disease virusMutation(s): 0 
UniProt
Find proteins for Q06F56 (Foot-and-mouth disease virus serotype O)
Explore Q06F56 
Go to UniProtKB:  Q06F56
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UniProt GroupQ06F56
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Reference Sequence
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Entity ID: 3
MoleculeChains  Sequence LengthOrganismDetailsImage
O/TIBET/99 VP3C [auth 3]220Foot-and-mouth disease virusMutation(s): 0 
UniProt
Find proteins for A0A1C6ZW60 (Foot-and-mouth disease virus serotype O)
Explore A0A1C6ZW60 
Go to UniProtKB:  A0A1C6ZW60
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UniProt GroupA0A1C6ZW60
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Reference Sequence
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Entity ID: 4
MoleculeChains  Sequence LengthOrganismDetailsImage
O/TIBET/99 VP4D [auth 4]85Foot-and-mouth disease virusMutation(s): 0 
UniProt
Find proteins for P87677 (Foot-and-mouth disease virus serotype O)
Explore P87677 
Go to UniProtKB:  P87677
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UniProt GroupP87677
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Reference Sequence
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Entity ID: 5
MoleculeChains  Sequence LengthOrganismDetailsImage
R50 VHE [auth H]167Bos taurusMutation(s): 0 
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Reference Sequence
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Entity ID: 6
MoleculeChains  Sequence LengthOrganismDetailsImage
R50 VLF [auth L]123Bos taurusMutation(s): 0 
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.94 Å
  • Resolution: 3.94 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History 

Deposition Data

  • Released Date: 2021-04-14 
  • Deposition Author(s): He, Y., Lou, Z.

Revision History  (Full details and data files)

  • Version 1.0: 2021-04-14
    Type: Initial release
  • Version 1.1: 2021-05-12
    Changes: Database references
  • Version 1.2: 2024-10-30
    Changes: Data collection, Database references, Derived calculations, Structure summary