Biological Assembly 1  

Global Symmetry: Icosahedral - I  (3D View)
Global Stoichiometry: Homo 540-mer - A540 

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

Macromolecule Content

• Total Structure Weight: 390.12 kDa 
• Atom Count: 27,273 
• Modelled Residue Count: 3,345 
• Deposited Residue Count: 3,546 
• Unique protein chains: 1

 1HB5

quasi-atomic resolution model of bacteriophage PRD1 P3-shell, obtained by combined cryo-EM and X-ray crystallography.

• PDB DOI: 10.2210/pdb1HB5/pdb
• EM Map EMD-1014: EMDB EMDataResource

• Classification: VIRUS
• Organism(s): Enterobacteria phage PRD1
• Expression System: Salmonella enterica subsp. enterica serovar Typhimurium
• Mutation(s): No 


• Deposited: 2001-04-11 Released: 2001-12-05 
• Deposition Author(s): San Martin, C., Burnett, R.M., De Haas, F., Heinkel, R., Rutten, T., Fuller, S.D., Butcher, S.J., Bamford, D.H.

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 12.0 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Combined Em/X-Ray Imaging Yields a Quasi-Atomic Model of the Adenovirus-Related Bacteriophage Prd1 and Shows Key Capsid and Membrane Interactions.

Martin, C.S., Burnett, R.M., De Haas, F., Heinkel, R., Rutten, T., Fuller, S.D., Butcher, S.J., Bamford, D.H.

(2001) Structure 9: 917

• PubMed: 11591347 
• DOI: 10.1016/s0969-2126(01)00642-6
• Primary Citation of Related Structures:  
  1HB5, 1HB7, 1HB9


• PubMed Abstract: 
  

The dsDNA bacteriophage PRD1 has a membrane inside its icosahedral capsid. While its large size (66 MDa) hinders the study of the complete virion at atomic resolution, a 1.65-A crystallographic structure of its major coat protein, P3, is available. Cryo-electron microscopy (cryo-EM) and three-dimensional reconstruction have shown the capsid at 20-28 A resolution. Striking architectural similarities between PRD1 and the mammalian adenovirus indicate a common ancestor.

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Related Citations: 

• The X-Ray Crystal Structure of P3, the Major Coat Protein of the Lipid-Containing Bacteriophage Prd1, at 1.65 A Resolution.
  Benson, S.D., Bamford, J.K.H., Bamford, D.H., Burnett, R.M.
  (2002) Acta Crystallogr D Biol Crystallogr 58: 39

• Viral Evolution Revealed by Bacteriophage Prd1 and Human Adenovirus Coat Protein Structures.
  Benson, S.D., Bamford, J.K., Bamford, D.H., Burnett, R.M.
  (1999) Cell 98: 825

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Organizational Affiliation: 

The Wistar Institute, 3601 Spruce Street, Philadelphia, PA 19104, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
BACTERIOPHAGE PRD1 P3-SHELL	A, B, C, D, E, F, G, H, I	394	Enterobacteria phage PRD1	Mutation(s): 0  Gene Names: III
UniProt
Find proteins for P22535 (Enterobacteria phage PRD1) Explore P22535  Go to UniProtKB:  P22535

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 12.0 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Structure Validation

Entry History 

Deposition Data

• Released Date: 2001-12-05 
Deposition Author(s): San Martin, C., Burnett, R.M., De Haas, F., Heinkel, R., Rutten, T., Fuller, S.D., Butcher, S.J., Bamford, D.H.

Revision History  

• Version 1.0: 2001-12-05
  Type: Initial release
  
• Version 1.1: 2012-04-18
  Changes: Database references, Other, Version format compliance
• Version 1.2: 2017-04-19
  Changes: Other
• Version 1.3: 2017-08-30
  Changes: Data collection, Refinement description
• Version 1.4: 2018-01-31
  Changes: Data processing