9OEG | pdb_00009oeg

Structure of the human astrovirus VA1 capsid spike bound to antibody 2A2

PDB DOI: https://doi.org/10.2210/pdb9OEG/pdb
EM Map EMD-70398: EMDB EMDataResource

Classification: VIRAL PROTEIN
Organism(s): Mus musculus, Astrovirus VA1
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2025-04-28 Released: 2026-07-08
Deposition Author(s): Ghosh, A., Dzimianski, J.V., Balasco Serrao, V.H., DuBois, R.M.
Funding Organization(s): National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.05 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

Starting Models: experimental, in silico
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wwPDB Validation 3D Report Full Report

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This is version 1.0 of the entry. See complete history.

Literature

Cryo-EM Structures of the Human Astrovirus VA1 Capsid Spike Bound to Neutralizing Antibodies: Implications for Therapeutic Strategies

Ghosh, A., Dzimianski, J.V., Lopez, T., Espinosa, R., Balasco Serrao, V.H., Arias, C.F., DuBois, R.M.

To be published.

Macromolecule Content

Total Structure Weight: 159.94 kDa
Atom Count: 7,796
Modeled Residue Count: 992
Deposited Residue Count: 1,456
Unique protein chains: 3

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
2A2 heavy chain	A [auth H], F [auth J]	224	Mus musculus	Mutation(s): 0

Find similar proteins by:

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
2A2 light chain	B [auth K], C [auth L]	215	Mus musculus	Mutation(s): 0

Find similar proteins by:

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Capsid polyprotein VP90	D [auth A], E [auth B]	289	Astrovirus VA1	Mutation(s): 0
UniProt
Find proteins for C7BG48 (Human astrovirus VA1) Explore C7BG48 Go to UniProtKB: C7BG48
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	C7BG48
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 3.05 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
RECONSTRUCTION	cryoSPARC	4.5.3
MODEL REFINEMENT	ISOLDE
MODEL REFINEMENT	PHENIX	1.21.2-5419

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2026-07-08

Deposition Author(s):

Dzimianski, J.V.

Balasco Serrao, V.H.

Funding Organization	Location	Grant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)	United States	R01AI144090

Revision History (Full details and data files)

Version 1.0: 2026-07-08
Type: Initial release

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.