4JGZ

Crystal structure of human coxsackievirus A16 uncoating intermediate (space group I222)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3 Å
  • R-Value Free: 0.311 
  • R-Value Work: 0.286 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Picornavirus uncoating intermediate captured in atomic detail.

Ren, J.Wang, X.Hu, Z.Gao, Q.Sun, Y.Li, X.Porta, C.Walter, T.S.Gilbert, R.J.Zhao, Y.Axford, D.Williams, M.McAuley, K.Rowlands, D.J.Yin, W.Wang, J.Stuart, D.I.Rao, Z.Fry, E.E.

(2013) Nat Commun 4: 1929-1929

  • DOI: 10.1038/ncomms2889
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • It remains largely mysterious how the genomes of non-enveloped eukaryotic viruses are transferred across a membrane into the host cell. Picornaviruses are simple models for such viruses, and initiate this uncoating process through particle expansion, ...

    It remains largely mysterious how the genomes of non-enveloped eukaryotic viruses are transferred across a membrane into the host cell. Picornaviruses are simple models for such viruses, and initiate this uncoating process through particle expansion, which reveals channels through which internal capsid proteins and the viral genome presumably exit the particle, although this has not been clearly seen until now. Here we present the atomic structure of an uncoating intermediate for the major human picornavirus pathogen CAV16, which reveals VP1 partly extruded from the capsid, poised to embed in the host membrane. Together with previous low-resolution results, we are able to propose a detailed hypothesis for the ordered egress of the internal proteins, using two distinct sets of channels through the capsid, and suggest a structural link to the condensed RNA within the particle, which may be involved in triggering RNA release.


    Organizational Affiliation

    Division of Structural Biology, University of Oxford, Headington, Oxford, UK.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Polyprotein, capsid protein VP1
A
297Coxsackievirus A16Mutation(s): 0 
Find proteins for I3W9E1 (Coxsackievirus A16)
Go to UniProtKB:  I3W9E1
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Polyprotein, capsid protein VP2
B
254Coxsackievirus A16Mutation(s): 0 
Find proteins for I3W9E1 (Coxsackievirus A16)
Go to UniProtKB:  I3W9E1
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Polyprotein, capsid protein VP3
C
242Coxsackievirus A16Mutation(s): 0 
Find proteins for I3W9E1 (Coxsackievirus A16)
Go to UniProtKB:  I3W9E1
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3 Å
  • R-Value Free: 0.311 
  • R-Value Work: 0.286 
  • Space Group: I 2 2 2
Unit Cell:
Length (Å)Angle (°)
a = 338.400α = 90.00
b = 360.200β = 90.00
c = 366.000γ = 90.00
Software Package:
Software NamePurpose
HKL-2000data reduction
CNSrefinement
SCALEPACKdata scaling
CNSphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2013-06-05
    Type: Initial release
  • Version 1.1: 2013-06-19
    Type: Database references