Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report

Global Symmetry: Icosahedral - I  (3D View)
Global Stoichiometry: Homo 60-mer - A60 

Biological assembly 1 assigned by authors and generated by (software)

Macromolecule Content

• Total Structure Weight: 291.09 kDa 
• Atom Count: 17840 
• Modelled Residue Count: 2240 
• Deposited Residue Count: 2615 
• Unique protein chains: 1

2C9G

THE QUASI-ATOMIC MODEL OF THE ADENOVIRUS TYPE 3 PENTON BASE DODECAHEDRON

• PDB DOI: 10.2210/pdb2C9G/pdb
• EM Map EMD-1178:EMDBEMDataResource

• Classification: VIRUS/VIRAL PROTEIN
• Organism(s): Human adenovirus 2
• Expression System: Trichoplusia ni
• Mutation(s): No 


• Deposited: 2005-12-12 Released: 2006-01-04 
• Deposition Author(s): Fuschiotti, P., Schoehn, G., Fender, P., Fabry, C.M.S., Hewat, E.A., Chroboczek, J., Ruigrok, R.W.H., Conway, J.F.

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 9.30 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Structure of the Dodecahedral Penton Particle from Human Adenovirus Type 3.

Fuschiotti, P., Schoehn, G., Fender, P., Fabry, C.M.S., Hewat, E.A., Chroboczek, J., Ruigrok, R.W.H., Conway, J.F.

(2006) J Mol Biol 356: 510

• PubMed: 16375921 
• DOI: 10.1016/j.jmb.2005.11.048
• Primary Citation of Related Structures:  
  2C9F, 2C9G


• PubMed Abstract: 
  

The sub-viral dodecahedral particle of human adenovirus type 3, composed of the viral penton base and fiber proteins, shares an important characteristic of the entire virus: it can attach to cells and penetrate them. Structure determination of the fiberless dodecahedron by cryo-electron microscopy to 9 Angstroms resolution reveals tightly bound pentamer subunits, with only minimal interfaces between penton bases stabilizing the fragile dodecahedron. The internal cavity of the dodecahedron is approximately 80 Angstroms in diameter, and the interior surface is accessible to solvent through perforations of approximately 20 Angstroms diameter between the pentamer towers. We observe weak density beneath pentamers that we attribute to a penton base peptide including residues 38-48. The intact amino-terminal domain appears to interfere with pentamer-pentamer interactions and its absence by mutation or proteolysis is essential for dodecamer assembly. Differences between the 9 Angstroms dodecahedron structure and the adenovirus serotype 2 (Ad2) crystallographic model correlate closely with differences in sequence. The 3D structure of the dodecahedron including fibers at 16 Angstroms resolution reveals extra density on the top of the penton base that can be attributed to the fiber N terminus. The fiber itself exhibits striations that correlate with features of the atomic structure of the partial Ad2 fiber and that represent a repeat motif present in the amino acid sequence. These new observations offer important insights into particle assembly and stability, as well as the practicality of using the dodecahedron in targeted drug delivery. The structural work provides a sound basis for manipulating the properties of this particle and thereby enhancing its value for such therapeutic use.

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Organizational Affiliation: 

Laboratoire de Microscopie Electronique Structurale, Institut de Biologie Structurale, UMR 5075 CNRS-CEA-UJF, Grenoble, France.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
PENTON PROTEIN	A, B, C, D, E	523	Human adenovirus 2	Mutation(s): 0  Gene Names: L2
UniProt
Find proteins for P03276 (Human adenovirus C serotype 2) Explore P03276  Go to UniProtKB:  P03276

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 9.30 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2005-12-12 
• Released Date: 2006-01-04 
Deposition Author(s): Fuschiotti, P., Schoehn, G., Fender, P., Fabry, C.M.S., Hewat, E.A., Chroboczek, J., Ruigrok, R.W.H., Conway, J.F.

Revision History  

• Version 1.0: 2006-01-04
  Type: Initial release
  
• Version 1.1: 2011-05-08
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2017-08-23
  Changes: Data collection
• Version 1.4: 2017-08-30
  Changes: Data collection
• Version 1.5: 2019-10-02
  Changes: Data collection, Other
• Version 1.6: 2019-10-23
  Changes: Data collection, Other