4Z5V

Crystal Structure of MHV ns2 PDE Domain


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.049 Å
  • R-Value Free: 0.266 
  • R-Value Work: 0.226 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Crystal structure of the mouse hepatitis virus ns2 phosphodiesterase domain that antagonizes RNase L activation

Sui, B.K.Huang, J.H.Jha, B.K.Yin, P.Zhou, M.Fu, Z.F.Silverman, R.H.Weiss, S.R.Peng, G.Q.Zhao, L.

(2016) J.Gen.Virol. 97: 880-886

  • DOI: 10.1099/jgv.0.000395

  • PubMed Abstract: 
  • Prior studies have demonstrated that the mouse hepatitis virus (MHV) A59 strain ns2 protein is a member of the 2H phosphoesterase family and exhibits 2',5'-phosphodiesterase (PDE) activity. During the IFN antiviral response, ns2 cleaves 2',5'-oligoad ...

    Prior studies have demonstrated that the mouse hepatitis virus (MHV) A59 strain ns2 protein is a member of the 2H phosphoesterase family and exhibits 2',5'-phosphodiesterase (PDE) activity. During the IFN antiviral response, ns2 cleaves 2',5'-oligoadenylate (2-5A), a key mediator of RNase L activation, thereby subverting the activation of RNase L and evading host innate immunity. However, the mechanism of 2-5A cleavage by ns2 remains unclear. Here, we present the crystal structure of the MHV ns2 PDE domain and demonstrate a PDE fold similar to that of the cellular protein, a kinase anchoring protein 7 central domain (AKAP7(CD)) and rotavirus VP3 carboxy-terminal domain. The structure displays a pair of strictly conserved HxT/Sx motifs and forms a deep, positively charged catalytic groove with β-sheets and an arginine-containing loop. These findings provide insight into the structural basis for 2-5A binding of MHV ns2.


    Organizational Affiliation

    1​State Key Laboratory of Agricultural Microbiology, College of Veterinary Medicine, Huazhong Agricultural University, Wuhan 430070, PRChina.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Non-structural protein 2a
A, B
208Murine coronavirus (strain A59)
Find proteins for P19738 (Murine coronavirus (strain A59))
Go to UniProtKB:  P19738
Small Molecules
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
MSE
Query on MSE
A, B
L-PEPTIDE LINKINGC5 H11 N O2 SeMET
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.049 Å
  • R-Value Free: 0.266 
  • R-Value Work: 0.226 
  • Space Group: P 41 2 2
Unit Cell:
Length (Å)Angle (°)
a = 101.042α = 90.00
b = 101.042β = 90.00
c = 165.806γ = 90.00
Software Package:
Software NamePurpose
PHENIXphasing
HKL-2000data processing
PHENIXrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2016-02-10
    Type: Initial release
  • Version 1.1: 2016-05-04
    Type: Database references