7SFW

CryoEM structure of Venezuelan Equine Encephalitis virus (VEEV) TC-83 strain VLP in complex with Fab hVEEV-63 (focus refine of the asymmetric unit)


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.20 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Neutralizing antibodies protect mice against Venezuelan equine encephalitis virus aerosol challenge.

Kafai, N.M.Williamson, L.E.Binshtein, E.Sukupolvi-Petty, S.Gardner, C.L.Liu, J.Mackin, S.Kim, A.S.Kose, N.Carnahan, R.H.Jung, A.Droit, L.Reed, D.S.Handley, S.A.Klimstra, W.B.Crowe, J.E.Diamond, M.S.

(2022) J Exp Med 219

  • DOI: https://doi.org/10.1084/jem.20212532
  • Primary Citation of Related Structures:  
    7SFU, 7SFV, 7SFW

  • PubMed Abstract: 

    Venezuelan equine encephalitis virus (VEEV) remains a risk for epidemic emergence or use as an aerosolized bioweapon. To develop possible countermeasures, we isolated VEEV-specific neutralizing monoclonal antibodies (mAbs) from mice and a human immunized with attenuated VEEV strains. Functional assays and epitope mapping established that potently inhibitory anti-VEEV mAbs bind distinct antigenic sites in the A or B domains of the E2 glycoprotein and block multiple steps in the viral replication cycle including attachment, fusion, and egress. A 3.2-Å cryo-electron microscopy reconstruction of VEEV virus-like particles bound by a human Fab suggests that antibody engagement of the B domain may result in cross-linking of neighboring spikes to prevent conformational requirements for viral fusion. Prophylaxis or postexposure therapy with these mAbs protected mice against lethal aerosol challenge with VEEV. Our study defines functional and structural mechanisms of mAb protection and suggests that multiple antigenic determinants on VEEV can be targeted for vaccine or antibody-based therapeutic development.


  • Organizational Affiliation

    Department of Medicine, Washington University School of Medicine, St. Louis, MO.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Spike glycoprotein E1
A, D, G, J
442Venezuelan equine encephalitis virus (strain TC-83)Mutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for P05674 (Venezuelan equine encephalitis virus (strain TC-83))
Explore P05674 
Go to UniProtKB:  P05674
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP05674
Sequence Annotations
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Spike glycoprotein E2
B, E, H, K
423Venezuelan equine encephalitis virus (strain TC-83)Mutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for P05674 (Venezuelan equine encephalitis virus (strain TC-83))
Explore P05674 
Go to UniProtKB:  P05674
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP05674
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  • Reference Sequence
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Capsid protein
C, F, I, L
275Venezuelan equine encephalitis virus (strain TC-83)Mutation(s): 0 
EC: 3.4.21.90
Membrane Entity: Yes 
UniProt
Find proteins for P05674 (Venezuelan equine encephalitis virus (strain TC-83))
Explore P05674 
Go to UniProtKB:  P05674
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP05674
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  • Reference Sequence
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
hVEEV-63 Fab heavy chain
M, O, Q, S
122Homo sapiensMutation(s): 0 
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  • Reference Sequence
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
hVEEV-63 Fab light chain
N, P, R, T
107Homo sapiensMutation(s): 0 
Entity Groups  
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
NAG (Subject of Investigation/LOI)
Query on NAG

Download Ideal Coordinates CCD File 
AA [auth G]
BA [auth H]
CA [auth H]
DA [auth J]
EA [auth K]
AA [auth G],
BA [auth H],
CA [auth H],
DA [auth J],
EA [auth K],
FA [auth K],
U [auth A],
V [auth B],
W [auth B],
X [auth D],
Y [auth E],
Z [auth E]
2-acetamido-2-deoxy-beta-D-glucopyranose
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.20 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX
RECONSTRUCTIONRELION3.1

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)United StatesU19 AI142790

Revision History  (Full details and data files)

  • Version 1.0: 2022-03-16
    Type: Initial release
  • Version 1.1: 2022-07-06
    Changes: Database references