9AY1 image
Deposition Date 2024-03-07
Release Date 2025-06-11
Last Version Date 2025-12-24
Entry Detail
PDB ID:
9AY1
Keywords:
Title:
Cryo-EM structure of SINV/EEEV in complex with a potently neutralizing human antibody IgG EEEV-373
Biological Source:
Source Organism:
Host Organism:
Method Details:
Experimental Method:
Resolution:
4.60 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:IgG EEEV-373 Heavy chain
Chain IDs:A (auth: 1)
Chain Length:228
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:IgG EEEV-373 Light chain
Chain IDs:B (auth: 2)
Chain Length:214
Number of Molecules:1
Biological Source:Homo sapiens
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Spike glycoprotein E1
Chain IDs:C (auth: A), D (auth: B), E (auth: C), F (auth: D)
Chain Length:400
Number of Molecules:4
Biological Source:Eastern equine encephalitis virus
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:E2 glycoprotein
Gene (Uniprot):E2
Chain IDs:G (auth: a), H (auth: b), I (auth: c), J (auth: d)
Chain Length:400
Number of Molecules:4
Biological Source:Eastern equine encephalitis virus
Primary Citation
Structural elucidation of a unique binding mode by an intact alphavirus human IgG molecule to a quaternary epitope.
Nat Commun 16 7716 7716 (2025)
PMID: 40830099 DOI: 10.1038/s41467-025-60505-x

Abstact

Eastern equine encephalitis virus (EEEV) is a mosquito-transmitted alphavirus that can cause severe encephalitis in humans and horses with a high case fatality rate. There are no licensed EEEV vaccines or therapeutics for human use, warranting the need to better understand the human immune response against EEEV. Here we present a cryo-EM reconstruction of the chimeric virus, Sindbis (SINV)/EEEV, in complex with a potently neutralizing and efficacious intact human IgG1 antibody in a mouse model of infection and disease. This antibody requires bivalency to recognize a quaternary epitope on the E2 glycoprotein and cross-links two virus spikes across the icosahedral two-fold axis through a unique binding mode. Kinetic analysis of the binding interaction provides insights into this distinguishing feature. Mechanistically, the antibody inhibits viral entry into cells through blockade of receptor binding and early fusion events but does not block egress, thereby, exclusively targeting an epitope found on intact virions. The discovery of the quaternary epitope and unique binding mode recognized by this antibody together advance our understanding of the complexity of antibody-antigen interactions and can aid in vaccine design to elicit recognition of distinct epitopes of clinically relevant alphaviruses.

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Primary Citation of related structures
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