5D8A

Crystal structure of recombinant foot-and-mouth-disease virus A22-H2093F empty capsid


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å
  • R-Value Free: 0.212 
  • R-Value Work: 0.206 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structure-based energetics of protein interfaces guides foot-and-mouth disease virus vaccine design.

Kotecha, A.Seago, J.Scott, K.Burman, A.Loureiro, S.Ren, J.Porta, C.Ginn, H.M.Jackson, T.Perez-Martin, E.Siebert, C.A.Paul, G.Huiskonen, J.T.Jones, I.M.Esnouf, R.M.Fry, E.E.Maree, F.F.Charleston, B.Stuart, D.I.

(2015) Nat.Struct.Mol.Biol. 22: 788-794

  • DOI: 10.1038/nsmb.3096
  • Primary Citation of Related Structures:  5AC9, 5ACA, 5DDJ

  • PubMed Abstract: 
  • Virus capsids are primed for disassembly, yet capsid integrity is key to generating a protective immune response. Foot-and-mouth disease virus (FMDV) capsids comprise identical pentameric protein subunits held together by tenuous noncovalent interact ...

    Virus capsids are primed for disassembly, yet capsid integrity is key to generating a protective immune response. Foot-and-mouth disease virus (FMDV) capsids comprise identical pentameric protein subunits held together by tenuous noncovalent interactions and are often unstable. Chemically inactivated or recombinant empty capsids, which could form the basis of future vaccines, are even less stable than live virus. Here we devised a computational method to assess the relative stability of protein-protein interfaces and used it to design improved candidate vaccines for two poorly stable, but globally important, serotypes of FMDV: O and SAT2. We used a restrained molecular dynamics strategy to rank mutations predicted to strengthen the pentamer interfaces and applied the results to produce stabilized capsids. Structural analyses and stability assays confirmed the predictions, and vaccinated animals generated improved neutralizing-antibody responses to stabilized particles compared to parental viruses and wild-type capsids.


    Organizational Affiliation

    Division of Structural Biology, University of Oxford, Oxford, UK.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
VP1
A
211Foot-and-mouth disease virus - type AN/A
Find proteins for Q6PN23 (Foot-and-mouth disease virus - type A)
Go to UniProtKB:  Q6PN23
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
VP2
B
218Foot-and-mouth disease virus - type AN/A
Find proteins for Q6PN23 (Foot-and-mouth disease virus - type A)
Go to UniProtKB:  Q6PN23
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
VP3
C
221Foot-and-mouth disease virus - type AN/A
Find proteins for Q6PN23 (Foot-and-mouth disease virus - type A)
Go to UniProtKB:  Q6PN23
Entity ID: 4
MoleculeChainsSequence LengthOrganismDetails
VP4
D
85Foot-and-mouth disease virus - type AN/A
Find proteins for Q6PN23 (Foot-and-mouth disease virus - type A)
Go to UniProtKB:  Q6PN23
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å
  • R-Value Free: 0.212 
  • R-Value Work: 0.206 
  • Space Group: I 2 2 2
Unit Cell:
Length (Å)Angle (°)
a = 327.570α = 90.00
b = 341.290β = 90.00
c = 363.580γ = 90.00
Software Package:
Software NamePurpose
CNSphasing
PDB_EXTRACTdata extraction
SCALEPACKdata scaling
CNSrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationCountryGrant Number
Wellcome TrustUnited Kingdom089755

Revision History 

  • Version 1.0: 2015-09-23
    Type: Initial release
  • Version 1.1: 2015-09-30
    Type: Database references
  • Version 1.2: 2015-10-14
    Type: Database references