5ACA

Structure-based energetics of protein interfaces guide Foot-and-Mouth disease virus vaccine design


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.50 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

Structure-Based Energetics of Protein Interfaces Guide Foot-and-Mouth Disease 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

  • DOI: 10.1038/nsmb.3096
  • Primary Citation of Related Structures:  
    5AC9, 5ACA, 5D8A, 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 interactions and are often unstable ...

    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

    Diamond Light Source, Didcot, UK.



Macromolecules
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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
VP1A [auth 1]214Foot-and-mouth disease virus SAT 2Mutation(s): 0 
EC: 2.7.7.48 (UniProt), 3.4.22.28 (UniProt), 3.4.22.46 (UniProt), 3.6.1.15 (UniProt)
UniProt
Find proteins for Q719N0 (Foot-and-mouth disease virus - type SAT 2)
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Go to UniProtKB:  Q719N0
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ719N0
Protein Feature View
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  • Reference Sequence
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
VP2B [auth 2]207Foot-and-mouth disease virus SAT 2Mutation(s): 1 
EC: 2.7.7.48 (UniProt), 3.4.22.28 (UniProt), 3.4.22.46 (UniProt), 3.6.1.15 (UniProt)
UniProt
Find proteins for Q719N0 (Foot-and-mouth disease virus - type SAT 2)
Explore Q719N0 
Go to UniProtKB:  Q719N0
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UniProt GroupQ719N0
Protein Feature View
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
VP3C [auth 3]222Foot-and-mouth disease virus SAT 2Mutation(s): 0 
UniProt
Find proteins for Q1L764 (Foot-and-mouth disease virus - type SAT 2)
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Go to UniProtKB:  Q1L764
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UniProt GroupQ1L764
Protein Feature View
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  • Reference Sequence
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
VP4D [auth 4]85Foot-and-mouth disease virus SAT 2Mutation(s): 0 
UniProt
Find proteins for Q1L764 (Foot-and-mouth disease virus - type SAT 2)
Explore Q1L764 
Go to UniProtKB:  Q1L764
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UniProt GroupQ1L764
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.50 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History 

Revision History  (Full details and data files)

  • Version 1.0: 2015-09-23
    Type: Initial release
  • Version 1.1: 2015-09-30
    Changes: Database references
  • Version 1.2: 2015-10-21
    Changes: Database references
  • Version 1.3: 2017-08-30
    Changes: Data collection, Refinement description