3ZLA

Crystal structure of the nucleocapsid protein from Bunyamwera virus bound to RNA


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.2 Å
  • R-Value Free: 0.297 
  • R-Value Work: 0.247 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

Nucleocapsid Protein Structures from Orthobunyaviruses Reveal Insight Into Ribonucleoprotein Architecture and RNA Polymerization.

Ariza, A.Tanner, S.J.Walter, C.T.Dent, K.C.Shepherd, D.A.Wu, W.Matthews, S.V.Hiscox, J.A.Green, T.J.Luo, M.Elliott, R.M.Fooks, A.R.Ashcroft, A.E.Stonehouse, N.J.Ranson, N.A.Barr, J.N.Edwards, T.A.

(2013) Nucleic Acids Res. 41: 5912

  • DOI: 10.1093/nar/gkt268
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • All orthobunyaviruses possess three genome segments of single-stranded negative sense RNA that are encapsidated with the virus-encoded nucleocapsid (N) protein to form a ribonucleoprotein (RNP) complex, which is uncharacterized at high resolution. We ...

    All orthobunyaviruses possess three genome segments of single-stranded negative sense RNA that are encapsidated with the virus-encoded nucleocapsid (N) protein to form a ribonucleoprotein (RNP) complex, which is uncharacterized at high resolution. We report the crystal structure of both the Bunyamwera virus (BUNV) N-RNA complex and the unbound Schmallenberg virus (SBV) N protein, at resolutions of 3.20 and 2.75 Å, respectively. Both N proteins crystallized as ring-like tetramers and exhibit a high degree of structural similarity despite classification into different orthobunyavirus serogroups. The structures represent a new RNA-binding protein fold. BUNV N possesses a positively charged groove into which RNA is deeply sequestered, with the bases facing away from the solvent. This location is highly inaccessible, implying that RNA polymerization and other critical base pairing events in the virus life cycle require RNP disassembly. Mutational analysis of N protein supports a correlation between structure and function. Comparison between these crystal structures and electron microscopy images of both soluble tetramers and authentic RNPs suggests the N protein does not bind RNA as a repeating monomer; thus, it represents a newly described architecture for bunyavirus RNP assembly, with implications for many other segmented negative-strand RNA viruses.


    Organizational Affiliation

    School of Molecular and Cellular Biology, University of Leeds, Leeds LS2 9JT, UK.




Macromolecules

Find similar proteins by: Sequence  |  Structure


Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
NUCLEOPROTEIN
A, B, C, D, E, F, G, H
235Bunyamwera virusMutation(s): 0 
Gene Names: N
Find proteins for P16495 (Bunyamwera virus)
Go to UniProtKB:  P16495
Entity ID: 2
MoleculeChainsLengthOrganism
RNAI,J44Escherichia coli BL21(DE3)
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.2 Å
  • R-Value Free: 0.297 
  • R-Value Work: 0.247 
  • Space Group: C 1 2 1
Unit Cell:
Length (Å)Angle (°)
a = 382.240α = 90.00
b = 88.724β = 94.30
c = 88.790γ = 90.00
Software Package:
Software NamePurpose
PHASERphasing
REFMACrefinement
Aimlessdata scaling
XDSdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2013-05-01
    Type: Initial release
  • Version 1.1: 2013-08-14
    Type: Database references
  • Version 1.2: 2014-12-17
    Type: Data collection
  • Version 1.3: 2017-09-13
    Type: Data collection