5TJW

Influenza A virus Nucleoprotein in Complex with Inhibitory Nanobody


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.231 Å
  • R-Value Free: 0.262 
  • R-Value Work: 0.204 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

The Antiviral Mechanism of an Influenza A Virus Nucleoprotein-Specific Single-Domain Antibody Fragment.

Hanke, L.Knockenhauer, K.E.Brewer, R.C.van Diest, E.Schmidt, F.I.Schwartz, T.U.Ploegh, H.L.

(2016) MBio 7: --

  • DOI: 10.1128/mBio.01569-16

  • PubMed Abstract: 
  • Alpaca-derived single-domain antibody fragments (VHHs) that target the influenza A virus nucleoprotein (NP) can protect cells from infection when expressed in the cytosol. We found that one such VHH, αNP-VHH1, exhibits antiviral activity similar to t ...

    Alpaca-derived single-domain antibody fragments (VHHs) that target the influenza A virus nucleoprotein (NP) can protect cells from infection when expressed in the cytosol. We found that one such VHH, αNP-VHH1, exhibits antiviral activity similar to that of Mx proteins by blocking nuclear import of incoming viral ribonucleoproteins (vRNPs) and viral transcription and replication in the nucleus. We determined a 3.2-Å crystal structure of αNP-VHH1 in complex with influenza A virus NP. The VHH binds to a nonconserved region on the body domain of NP, which has been associated with binding to host factors and serves as a determinant of host range. Several of the NP/VHH interface residues determine sensitivity of NP to antiviral Mx GTPases. The structure of the NP/αNP-VHH1 complex affords a plausible explanation for the inhibitory properties of the VHH and suggests a rationale for the antiviral properties of Mx proteins. Such knowledge can be leveraged for much-needed novel antiviral strategies.


    Organizational Affiliation

    Whitehead Institute for Biomedical Research, Cambridge, Massachusetts, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Nucleoprotein
A
507Influenza A virus (strain A/Wilson-Smith/1933 H1N1)Gene Names: NP
Find proteins for Q1K9H2 (Influenza A virus (strain A/Wilson-Smith/1933 H1N1))
Go to UniProtKB:  Q1K9H2
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
NP-specific inhibitory VHH
K
137N/AN/A
Protein Feature View is not available: No corresponding UniProt sequence found.
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.231 Å
  • R-Value Free: 0.262 
  • R-Value Work: 0.204 
  • Space Group: P 21 3
  • Diffraction Data DOI: 
    10.15785/SBGRID/450 SBGrid
Unit Cell:
Length (Å)Angle (°)
a = 137.548α = 90.00
b = 137.548β = 90.00
c = 137.548γ = 90.00
Software Package:
Software NamePurpose
SCALEPACKdata scaling
HKL-2000data reduction
PHASERphasing
PHENIXrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2016-12-21
    Type: Initial release
  • Version 1.1: 2017-01-04
    Type: Database references
  • Version 1.2: 2017-11-01
    Type: Author supporting evidence