6G13 | pdb_00006g13

C-terminal domain of MERS-CoV nucleocapsid


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.97 Å
  • R-Value Free: 
    0.216 (Depositor), 0.226 (DCC) 
  • R-Value Work: 
    0.190 (Depositor), 0.192 (DCC) 
  • R-Value Observed: 
    0.191 (Depositor) 

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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This is version 1.1 of the entry. See complete history

Literature

Structure and oligomerization state of the C-terminal region of the Middle East respiratory syndrome coronavirus nucleoprotein.

Nguyen, T.H.V.Lichiere, J.Canard, B.Papageorgiou, N.Attoumani, S.Ferron, F.Coutard, B.

(2019) Acta Crystallogr D Struct Biol 75: 8-15

  • DOI: https://doi.org/10.1107/S2059798318014948
  • Primary Citation Related Structures: 
    6G13

  • PubMed Abstract: 

    Middle East respiratory syndrome coronavirus (MERS-CoV) is a human pathogen responsible for a severe respiratory illness that emerged in 2012. Structural information about the proteins that constitute the viral particle is scarce. In order to contribute to a better understanding of the nucleoprotein (N) in charge of RNA genome encapsidation, the structure of the C-terminal domain of N from MERS-CoV obtained using single-crystal X-ray diffraction is reported here at 1.97 Å resolution. The molecule is present as a dimer in the crystal structure and this oligomerization state is confirmed in solution, as measured by additional methods including small-angle X-ray scattering measurements. Comparisons with the structures of the C-terminal domains of N from other coronaviruses reveals a high degree of structural conservation despite low sequence conservation, and differences in electrostatic potential at the surface of the protein.


  • Organizational Affiliation
    • Aix-Marseille Université, AFMB UMR 7257, 13288 Marseilles, France.

Macromolecule Content 

  • Total Structure Weight: 57.42 kDa 
  • Atom Count: 3,970 
  • Modeled Residue Count: 452 
  • Deposited Residue Count: 504 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Nucleoprotein
A, B, C, D
126Middle East respiratory syndrome-related coronavirusMutation(s): 0 
UniProt
Find proteins for A0A0D3MU51 (Middle East respiratory syndrome-related coronavirus)
Explore A0A0D3MU51 
Go to UniProtKB:  A0A0D3MU51
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A0D3MU51
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.97 Å
  • R-Value Free:  0.216 (Depositor), 0.226 (DCC) 
  • R-Value Work:  0.190 (Depositor), 0.192 (DCC) 
  • R-Value Observed: 0.191 (Depositor) 
Space Group: P 31 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 120.68α = 90
b = 120.68β = 90
c = 92.646γ = 120
Software Package:
Software NamePurpose
BUSTERrefinement
XDSdata reduction
autoPROCdata scaling
PHASERphasing

Structure Validation

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Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
French National Research AgencyFranceANR-10-INSB-05-01

Revision History  (Full details and data files)

  • Version 1.0: 2019-02-27
    Type: Initial release
  • Version 1.1: 2024-01-17
    Changes: Data collection, Database references, Refinement description