5VU2

Electron cryo-microscopy of "immature" Chikungunya VLP


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 6.80 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

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This is version 1.3 of the entry. See complete history


Literature

Structural studies of Chikungunya virus maturation.

Yap, M.L.Klose, T.Urakami, A.Hasan, S.S.Akahata, W.Rossmann, M.G.

(2017) Proc Natl Acad Sci U S A 114: 13703-13707

  • DOI: https://doi.org/10.1073/pnas.1713166114
  • Primary Citation of Related Structures:  
    5VU2

  • PubMed Abstract: 

    Cleavage of the alphavirus precursor glycoprotein p62 into the E2 and E3 glycoproteins before assembly with the nucleocapsid is the key to producing fusion-competent mature spikes on alphaviruses. Here we present a cryo-EM, 6.8-Å resolution structure of an "immature" Chikungunya virus in which the cleavage site has been mutated to inhibit proteolysis. The spikes in the immature virus have a larger radius and are less compact than in the mature virus. Furthermore, domains B on the E2 glycoproteins have less freedom of movement in the immature virus, keeping the fusion loops protected under domain B. In addition, the nucleocapsid of the immature virus is more compact than in the mature virus, protecting a conserved ribosome-binding site in the capsid protein from exposure. These differences suggest that the posttranslational processing of the spikes and nucleocapsid is necessary to produce infectious virus.


  • Organizational Affiliation

    Department of Biological Sciences, Purdue University, West Lafayette, IN 47907.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
E1 envelope glycoprotein866Chikungunya virus strain Senegal 37997Mutation(s): 0 
UniProt
Find proteins for A0A0H4CWF2 (Chikungunya virus)
Explore A0A0H4CWF2 
Go to UniProtKB:  A0A0H4CWF2
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A0H4CWF2
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
E3 envelope glycoproteinC [auth U],
D [auth V],
G [auth W],
J [auth X]
60Chikungunya virus strain Senegal 37997Mutation(s): 0 
Gene Names: CHIKVgp2
UniProt
Find proteins for Q5XXP3 (Chikungunya virus (strain 37997))
Explore Q5XXP3 
Go to UniProtKB:  Q5XXP3
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UniProt GroupQ5XXP3
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
capsid proteinM [auth I],
N [auth J],
O [auth K],
P [auth L]
149Chikungunya virus strain Senegal 37997Mutation(s): 0 
UniProt
Find proteins for Q5XXP3 (Chikungunya virus (strain 37997))
Explore Q5XXP3 
Go to UniProtKB:  Q5XXP3
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Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ5XXP3
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  • Reference Sequence
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
E1 envelope glycoproteinQ [auth E],
S [auth F],
U [auth G],
W [auth H]
46Chikungunya virus strain Senegal 37997Mutation(s): 0 
UniProt
Find proteins for Q5XXP3 (Chikungunya virus (strain 37997))
Explore Q5XXP3 
Go to UniProtKB:  Q5XXP3
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UniProt GroupQ5XXP3
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
E2 envelope glycoproteinR [auth Q],
T [auth R],
V [auth S],
X [auth T]
81Chikungunya virus strain Senegal 37997Mutation(s): 0 
UniProt
Find proteins for Q5XXP3 (Chikungunya virus (strain 37997))
Explore Q5XXP3 
Go to UniProtKB:  Q5XXP3
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Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ5XXP3
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 6.80 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONjspr

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)United StatesAI095366

Revision History  (Full details and data files)

  • Version 1.0: 2017-12-06
    Type: Initial release
  • Version 1.1: 2017-12-20
    Changes: Database references
  • Version 1.2: 2018-01-03
    Changes: Database references
  • Version 1.3: 2019-12-11
    Changes: Author supporting evidence