3TIR

Pseudo-atomic model of the Rous Sarcoma Virus capsid hexamer


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 4.10 Å
  • R-Value Free: 0.391 
  • R-Value Work: 0.394 

wwPDB Validation 3D Report Full Report



Literature

A structural model for the generation of continuous curvature on the surface of a retroviral capsid.

Bailey, G.D.Hyun, J.K.Mitra, A.K.Kingston, R.L.

(2012) J Mol Biol 417: 212-223

  • DOI: 10.1016/j.jmb.2012.01.014
  • Structures With Same Primary Citation

  • PubMed Abstract: 
  • The genome of a retrovirus is surrounded by a convex protein shell, or capsid, that helps facilitate infection. The major part of the capsid surface is formed by interlocking capsid protein (CA) hexamers. We report electron and X-ray crystallographic ...

    The genome of a retrovirus is surrounded by a convex protein shell, or capsid, that helps facilitate infection. The major part of the capsid surface is formed by interlocking capsid protein (CA) hexamers. We report electron and X-ray crystallographic analysis of a variety of specimens assembled in vitro from Rous sarcoma virus (RSV) CA. These specimens all contain CA hexamers arranged in planar layers, modeling the authentic capsid surface. The specimens differ only in the number of layers incorporated and in the disposition of each layer with respect to its neighbor. The body of each hexamer, formed by the N-terminal domain of CA, is connected to neighboring hexamers through C-terminal domain dimerization. The resulting layer structure is very malleable due to inter-domain flexibility. A helix-capping hydrogen bond between the two domains of RSV CA creates a pivot point, which is central to controlling their relative movement. A similar mechanism for the governance of inter-domain motion was recently described for the human immunodeficiency virus type 1 (HIV-1) capsid, although there is negligible sequence identity between RSV and HIV-1 CA in the region of contact, and the amino acids involved in creating the pivot are not conserved. Our observations allow development of a physically realistic model for the way neighboring hexamers can tilt out of plane, deforming the hexamer layer and generating the continuously curved surfaces that are a feature of all retroviral capsids.


    Organizational Affiliation

    OncImmune Ltd, City Hospital, Nottingham NG5 1PB, UK.



Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Rous Sarcoma Virus Capsid Protein p27
A
226Rous sarcoma virus - Prague CMutation(s): 0 
Gene Names: CAgag-pro-polgag-pol
EC: 3.4.23 (UniProt), 2.7.7.49 (UniProt), 2.7.7.7 (UniProt), 3.1.26.4 (UniProt), 2.7.7 (UniProt), 3.1 (UniProt)
Find proteins for P03354 (Rous sarcoma virus (strain Prague C))
Go to UniProtKB:  P03354
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 4.10 Å
  • R-Value Free: 0.391 
  • R-Value Work: 0.394 
  • Space Group: P 6
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 92.559α = 90
b = 92.559β = 90
c = 49.985γ = 120
Software Package:
Software NamePurpose
MAR345dtbdata collection
PHASERphasing
REFMACrefinement
HKL-2000data reduction
HKL-2000data scaling

Structure Validation

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Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2012-04-04
    Type: Initial release