Biological Assembly 1  

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

Global Symmetry: Cyclic - C6  (3D View)
Global Stoichiometry: Homo 6-mer - A6 

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

Macromolecule Content

• Total Structure Weight: 400.93 kDa 
• Atom Count: 23688 
• Modelled Residue Count: 2928 
• Deposited Residue Count: 3498 
• Unique protein chains: 1

4EO2

Structure of the bacteriophage C1 tail knob protein, gp12

• PDB DOI: 10.2210/pdb4EO2/pdb

• Classification: STRUCTURAL PROTEIN, VIRAL PROTEIN
• Organism(s): Streptococcus virus C1
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2012-04-13 Released: 2012-08-22 
• Deposition Author(s): Aksyuk, A.A., Rossmann, M.G.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.01 Å
• R-Value Free: 0.282 
• R-Value Work: 0.238 
• R-Value Observed: 0.241 

Literature

Structural investigations of a Podoviridae streptococcus phage C1, implications for the mechanism of viral entry.

Aksyuk, A.A., Bowman, V.D., Kaufmann, B., Fields, C., Klose, T., Holdaway, H.A., Fischetti, V.A., Rossmann, M.G.

(2012) Proc Natl Acad Sci U S A 109: 14001-14006

• PubMed: 22891295 
• DOI: 10.1073/pnas.1207730109
• Primary Citation of Related Structures:  
  4EO2, 4EP0


• PubMed Abstract: 
  

The Podoviridae phage C1 was one of the earliest isolated bacteriophages and the first virus documented to be active against streptococci. The icosahedral and asymmetric reconstructions of the virus were calculated using cryo-electron microscopy. The capsid protein has an HK97 fold arranged into a T = 4 icosahedral lattice. The C1 tail is terminated with a ϕ29-like knob, surrounded by a skirt of twelve long appendages with novel morphology. Several C1 structural proteins have been identified, including a candidate for an appendage. The crystal structure of the knob has an N-terminal domain with a fold observed previously in tube forming proteins of Siphoviridae and Myoviridae phages. The structure of C1 suggests the mechanisms by which the virus digests the cell wall and ejects its genome. Although there is little sequence similarity to other phages, conservation of the structural proteins demonstrates a common origin of the head and tail, but more recent evolution of the appendages.

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Organizational Affiliation: 

Department of Biological Sciences, Purdue University, West Lafayette, IN 47907-2032, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Major tail protein	A, B, C, D, E, F	583	Streptococcus virus C1	Mutation(s): 0  Gene Names: orf12
UniProt
Find proteins for Q7Y3F0 (Streptococcus virus C1) Explore Q7Y3F0  Go to UniProtKB:  Q7Y3F0

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.01 Å
• R-Value Free: 0.282 
• R-Value Work: 0.238 
• R-Value Observed: 0.241 
• Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 205.614	α = 90
b = 209.64	β = 90
c = 102.975	γ = 90

Software Package:

Software Name	Purpose
HKL-2000	data collection
SHELXCD	phasing
SHELXE	model building
RESOLVE	model building
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling
RESOLVE	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2012-04-13 
• Released Date: 2012-08-22 
Deposition Author(s): Aksyuk, A.A., Rossmann, M.G.

Revision History  

• Version 1.0: 2012-08-22
  Type: Initial release
  
• Version 1.1: 2012-08-29
  Changes: Database references
• Version 1.2: 2012-09-12
  Changes: Database references
• Version 1.3: 2017-11-15
  Changes: Refinement description