4IDU

crystal structure of Schmallenberg virus nucleoprotein


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.08 Å
  • R-Value Free: 0.364 
  • 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
SBV nucleoprotein
A, C, D
233Bovine Schmallenberg virusMutation(s): 0 
Gene Names: N
Find proteins for H2AM13 (Bovine Schmallenberg virus)
Go to UniProtKB:  H2AM13
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
SBV nucleoprotein
B
233Bovine Schmallenberg virusMutation(s): 0 
Gene Names: N
Find proteins for H2AM13 (Bovine Schmallenberg virus)
Go to UniProtKB:  H2AM13
Small Molecules
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
MSE
Query on MSE
B
L-PEPTIDE LINKINGC5 H11 N O2 SeMET
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.08 Å
  • R-Value Free: 0.364 
  • R-Value Work: 0.321 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 76.320α = 90.00
b = 86.440β = 101.26
c = 77.400γ = 90.00
Software Package:
Software NamePurpose
EDNAdata collection
SHELXSphasing
SCALAdata scaling
REFMACrefinement
MOSFLMdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

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