8YS2

Overall structure of Eastern Equine Encephalitis virus VLP in complex with the receptor VLDLR LA1-2


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 5.20 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


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Literature

The receptor VLDLR binds Eastern Equine Encephalitis virus through multiple distinct modes.

Cao, D.Ma, B.Cao, Z.Xu, X.Zhang, X.Xiang, Y.

(2024) Nat Commun 15: 6866-6866

  • DOI: https://doi.org/10.1038/s41467-024-51293-x
  • Primary Citation of Related Structures:  
    8XI4, 8XI5, 8YS2, 8YS4

  • PubMed Abstract: 

    Eastern Equine Encephalitis virus (EEEV) is an alphavirus that can cause severe diseases in infected humans. The very low-density lipoprotein receptor (VLDLR) was recently identified as a receptor of EEEV. Herein, we performed cryo-electron microscopy structural and biochemistry studies on the specific interactions between EEEV and VLDLR. Our results show that VLDLR binds EEEV at three different sites A, B and C through its membrane-distal LDLR class A (LA) repeats. Site A is located in the cleft in between the E1-E2 heterodimers. Site B is located near the connecting β ribbon of E2 and is in proximity to site A, while site C is on the domain B of E2. The binding of VLDLR LAs to EEEV is in complex modes, including the LA1-2 and LA3-5 mediated two major modes. Disruption of the LA1-2 mediated binding significantly affect the cell attachment of EEEV. However, the mutation W132G of VLDLR impairs the binding of LA3, drives the switch of the binding modes, and significantly enhances the attachment of EEEV to the cell. The W132G variant of VLDLR could be identified in human genome and SNP sequences, implying that people with similar mutations in VLDLR may be highly susceptible to EEEV infection.


  • Organizational Affiliation

    National Laboratory of Biomacromolecules, Key Laboratory of Biomacromolecules, CAS Center for Excellence in Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences (CAS), Beijing, 100101, P.R. China.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Spike glycoprotein E1
A, D, G, J
441Eastern equine encephalitis virusMutation(s): 0 
UniProt
Find proteins for Q4QXJ7 (Eastern equine encephalitis virus (strain Florida 91-469))
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Go to UniProtKB:  Q4QXJ7
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Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ4QXJ7
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Spike glycoprotein E2
B, E, H, K
420Eastern equine encephalitis virusMutation(s): 0 
UniProt
Find proteins for Q4QXJ7 (Eastern equine encephalitis virus (strain Florida 91-469))
Explore Q4QXJ7 
Go to UniProtKB:  Q4QXJ7
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UniProt GroupQ4QXJ7
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  • Reference Sequence
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Capsid protein
C, F, I, L
261Eastern equine encephalitis virusMutation(s): 1 
EC: 3.4.21.90
UniProt
Find proteins for Q4QXJ7 (Eastern equine encephalitis virus (strain Florida 91-469))
Explore Q4QXJ7 
Go to UniProtKB:  Q4QXJ7
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UniProt GroupQ4QXJ7
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  • Reference Sequence
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
Very low-density lipoprotein receptor
M, N, O, P
80Homo sapiensMutation(s): 0 
Gene Names: VLDLR
UniProt & NIH Common Fund Data Resources
Find proteins for P98155 (Homo sapiens)
Explore P98155 
Go to UniProtKB:  P98155
PHAROS:  P98155
GTEx:  ENSG00000147852 
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UniProt GroupP98155
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 5.20 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Ministry of Science and Technology (MoST, China)China--
National Natural Science Foundation of China (NSFC)China--
Chinese Academy of SciencesChina--

Revision History  (Full details and data files)

  • Version 1.0: 2024-08-28
    Type: Initial release