4WCG

The binding mode of Cyprinid Herpesvirus3 ORF112-Zalpha to Z-DNA


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.50 Å
  • R-Value Free: 0.207 
  • R-Value Work: 0.178 
  • R-Value Observed: 0.179 

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This is version 1.1 of the entry. See complete history


Literature

The Structure of the Cyprinid herpesvirus 3 ORF112-Z alpha Z-DNA Complex Reveals a Mechanism of Nucleic Acids Recognition Conserved with E3L, a Poxvirus Inhibitor of Interferon Response.

Kus, K.Rakus, K.Boutier, M.Tsigkri, T.Gabriel, L.Vanderplasschen, A.Athanasiadis, A.

(2015) J Biol Chem 290: 30713-30725

  • DOI: 10.1074/jbc.M115.679407
  • Primary Citation of Related Structures:  
    4WCG

  • PubMed Abstract: 
  • In vertebrate species, the innate immune system down-regulates protein translation in response to viral infection through the action of the double-stranded RNA (dsRNA)-activated protein kinase (PKR). In some teleost species another protein kinase, Z-DNA-dependent protein kinase (PKZ), plays a similar role but instead of dsRNA binding domains, PKZ has Zα domains ...

    In vertebrate species, the innate immune system down-regulates protein translation in response to viral infection through the action of the double-stranded RNA (dsRNA)-activated protein kinase (PKR). In some teleost species another protein kinase, Z-DNA-dependent protein kinase (PKZ), plays a similar role but instead of dsRNA binding domains, PKZ has Zα domains. These domains recognize the left-handed conformer of dsDNA and dsRNA known as Z-DNA/Z-RNA. Cyprinid herpesvirus 3 infects common and koi carp, which have PKZ, and encodes the ORF112 protein that itself bears a Zα domain, a putative competitive inhibitor of PKZ. Here we present the crystal structure of ORF112-Zα in complex with an 18-bp CpG DNA repeat, at 1.5 Å. We demonstrate that the bound DNA is in the left-handed conformation and identify key interactions for the specificity of ORF112. Localization of ORF112 protein in stress granules induced in Cyprinid herpesvirus 3-infected fish cells suggests a functional behavior similar to that of Zα domains of the interferon-regulated, nucleic acid surveillance proteins ADAR1 and DAI.


    Organizational Affiliation

    From the Instituto Gulbenkian de Ciência, 2781-156, Oeiras, Portugal and alekos@igc.gulbenkian.pt.



Macromolecules

Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
ORF112A, B98Cyprinid herpesvirus 3Mutation(s): 0 
Gene Names: KHVJ122ORF112CyHV3_ORF112
UniProt
Find proteins for A4FTK7 (Cyprinid herpesvirus 3)
Explore A4FTK7 
Go to UniProtKB:  A4FTK7
Protein Feature View
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  • Reference Sequence
  • Find similar nucleic acids by:  Sequence   |   Structure
  • Entity ID: 2
    MoleculeChainsLengthOrganismImage
    DNA (5'-D(P*CP*GP*CP*GP*CP*G)-3')C, D19synthetic construct
    Protein Feature View
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    • Reference Sequence
    Small Molecules
    Experimental Data & Validation

    Experimental Data

    • Method: X-RAY DIFFRACTION
    • Resolution: 1.50 Å
    • R-Value Free: 0.207 
    • R-Value Work: 0.178 
    • R-Value Observed: 0.179 
    • Space Group: P 32 2 1
    Unit Cell:
    Length ( Å )Angle ( ˚ )
    a = 44.821α = 90
    b = 44.821β = 90
    c = 140.082γ = 120
    Software Package:
    Software NamePurpose
    XDSdata reduction
    SCALAdata scaling
    PHENIXrefinement
    PDB_EXTRACTdata extraction
    PHASERphasing
    XSCALEdata scaling
    XSCALEdata reduction

    Structure Validation

    View Full Validation Report




    Entry History & Funding Information

    Deposition Data


    Funding OrganizationLocationGrant Number
    Foundation for Science and Technology (FCT)PortugalSFRH/BD/51626/2011
    Foundation for Science and Technology (FCT)PortugalPTDC/BIA-PRO/112962/2009

    Revision History  (Full details and data files)

    • Version 1.0: 2015-11-18
      Type: Initial release
    • Version 1.1: 2016-01-13
      Changes: Database references