4IDX

hexameric crystal structure of Schmallenberg virus nucleoprotein

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.21 Å
  • R-Value Free: 0.374 
  • R-Value Work: 0.321 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history. 

Literature

Structure of Schmallenberg orthobunyavirus nucleoprotein suggests a novel mechanism of genome encapsidation

Dong, H., Li, P., Elliott, R.M., Dong, C.

(2013) J.Virol. 87: 5593-5601

  • DOI: 10.1128/JVI.00223-13
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 

    • Schmallenberg virus (SBV), a newly emerged orthobunyavirus (family Bunyaviridae), has spread rapidly across Europe and has caused congenital abnormalities in the offspring of cattle, sheep, and goats. Like other orthobunyaviruses, SBV contains a trip ...

    Schmallenberg virus (SBV), a newly emerged orthobunyavirus (family Bunyaviridae), has spread rapidly across Europe and has caused congenital abnormalities in the offspring of cattle, sheep, and goats. Like other orthobunyaviruses, SBV contains a tripartite negative-sense RNA genome that encodes four structural and two nonstructural proteins. The nucleoprotein (N) encapsidates the three viral genomic RNA segments and plays a crucial role in viral RNA transcription and replication. Here we report the crystal structure of the bacterially expressed SBV nucleoprotein to a 3.06-Å resolution. The protomer is composed of two domains (N-terminal and C-terminal domains) with flexible N-terminal and C-terminal arms. The N protein has a novel fold and forms a central positively charged cleft for genomic RNA binding. The nucleoprotein purified under native conditions forms a tetramer, while the nucleoprotein obtained following denaturation and refolding forms a hexamer. Our structural and functional analyses demonstrate that both N-terminal and C-terminal arms are involved in N-N interaction and oligomerization and play an essential role in viral RNA synthesis, suggesting a novel mechanism for viral RNA encapsidation and transcription.

    Organizational Affiliation: 

    Biomedical Research Centre, Norwich Medical School, University of East Anglia, Norwich Research Park, Norwich, United Kingdom.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Nucleocapsid protein
B, A, C
233Bovine Schmallenberg virus (isolate Bovine/BH80/Germany/2011)Mutation(s): 0 
Gene Names: N
Find proteins for H2AM13 (Bovine Schmallenberg virus (isolate Bovine/BH80/Germany/2011))
Go to UniProtKB:  H2AM13
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.21 Å
  • R-Value Free: 0.374 
  • R-Value Work: 0.321 
  • Space Group: I 4 2 2
Unit Cell:
Length (Å)Angle (°)
a = 159.200α = 90.00
b = 159.200β = 90.00
c = 157.800γ = 90.00
Software Package:
Software NamePurpose
PHASESphasing
SCALAdata scaling
EDNAdata collection
REFMACrefinement
MOSFLMdata reduction

Structure Validation

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Entry History 

Deposition Data

  • Deposited Date: 2012-12-13 
  • Released Date: 2013-04-24 
  • Deposition Author(s): Dong, H., Dong, C.

Revision History 

  • Version 1.0: 2013-04-24
    Type: Initial release
  • Version 1.1: 2013-10-02
    Type: Database references