10ID | pdb_000010id

Membrane-bound, reversed VP5* trimer (rotavirus spike protein)

• PDB DOI: https://doi.org/10.2210/pdb10ID/pdb
• EM Map EMD-75186: EMDB EMDataResource

• Classification: VIRAL PROTEIN
• Organism(s): Simian rotavirus A strain RRV
• Expression System: Chlorocebus aethiops
• Mutation(s): No 


• Deposited: 2026-01-21 Released: 2026-02-04 
• Deposition Author(s): de Sautu, M., Leistner, C., Kirchhausen, T., Jenni, S., Harrison, S.C.
• Funding Organization(s): National Institutes of Health/National Cancer Institute (NIH/NCI), National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS), National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 9.54 Å
• Aggregation State: CELL 
• Reconstruction Method: SUBTOMOGRAM AVERAGING 

Literature

Mechanism of membrane perforation in rotavirus cell entry.

de Sautu, M., Leistner, C., Kirchhausen, T., Jenni, S., Harrison, S.C.

(2026) Science 393: 1128-1133

• PubMed: 42721255 
• DOI: https://doi.org/10.1126/science.aeg4851
• Primary Citation Related Structures: 
  10IC, 10ID


• PubMed Abstract: 
  

  Cell entry of nonenveloped animal viruses requires translocation of a macromolecular assembly across a cellular membrane. Double-stranded RNA viruses introduce into the target cell an inner capsid particle that does not uncoat further. Instead, it extrudes capped viral mRNA by virtue of polymerase and capping activities within it. As described here, we used cryogenic electron tomography to visualize the full course of rhesus rotavirus entry, from cell attachment and virion uptake to release of the subviral particle. The cryo-tomograms and subtomogram averaging of classified subparticles link high-resolution structures of the virion and its components with time series from live-cell fluorescence microscopy. We outline the mechanism of each step in the entry process, including the membrane perforation step that transfers a subviral particle into the cytosol.

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Organizational Affiliation: 
• Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, MA, USA.
Laboratory of Molecular Medicine, Boston Children's Hospital, Boston, MA, USA.
Harvard Cryo-EM Center for Structural Biology, Harvard Medical School, Boston, MA, USA.
Department of Cell Biology, Harvard Medical School, Boston, MA, USA.
Department of Pediatrics, Harvard Medical School, Boston, MA, USA.
Program in Cellular and Molecular Medicine, Boston Children's Hospital, Boston, MA, USA.
Howard Hughes Medical Institute, Harvard Medical School, Boston, MA, USA.

Biological Assembly 1  

Global Symmetry: Cyclic - C3  (Explore in 3D)
Global Stoichiometry: Homo 3-mer - A3 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 259.97 kDa 
• Atom Count: 6,552 
• Modeled Residue Count: 825 
• Deposited Residue Count: 2,328 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Outer capsid protein VP4	A [auth 2], B [auth 3], C [auth 4]	776	Simian rotavirus A strain RRV	Mutation(s): 0
UniProt
Find proteins for P12473 (Rotavirus A (strain RVA/Monkey/United States/RRV/1975/G3P5B[3])) Explore P12473  Go to UniProtKB:  P12473

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 9.54 Å
• Aggregation State: CELL 
• Reconstruction Method: SUBTOMOGRAM AVERAGING 

EM Software:

Task	Software Package	Version
RECONSTRUCTION	Warp

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2026-02-04 
Deposition Author(s): de Sautu, M., Leistner, C., Kirchhausen, T., Jenni, S., Harrison, S.C.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Cancer Institute (NIH/NCI)	United States	R01 CA13202
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	R35 GM139386
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)	United States	AI163019

Revision History  

• Version 1.0: 2026-02-04
  Type: Initial release
  
• Version 1.1: 2026-03-04
  Changes: Data collection, Database references
• Version 1.2: 2026-09-23
  Changes: Data collection, Database references