3UEZ

Crystal structure of the human Colony-Stimulating Factor 1 (hCSF-1) cytokine in complex with the viral receptor BARF1


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.414 Å
  • R-Value Free: 0.274 
  • R-Value Work: 0.231 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Allosteric competitive inactivation of hematopoietic CSF-1 signaling by the viral decoy receptor BARF1

Elegheert, J.Bracke, N.Pouliot, P.Gutsche, I.Shkumatov, A.V.Tarbouriech, N.Verstraete, K.Bekaert, A.Burmeister, W.P.Svergun, D.I.Lambrecht, B.N.Vergauwen, B.Savvides, S.N.

(2012) Nat.Struct.Mol.Biol. 19: 938-947

  • DOI: 10.1038/nsmb.2367
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Hematopoietic human colony-stimulating factor 1 (hCSF-1) is essential for innate and adaptive immunity against viral and microbial infections and cancer. The human pathogen Epstein-Barr virus secretes the lytic-cycle protein BARF1 that neutralizes hC ...

    Hematopoietic human colony-stimulating factor 1 (hCSF-1) is essential for innate and adaptive immunity against viral and microbial infections and cancer. The human pathogen Epstein-Barr virus secretes the lytic-cycle protein BARF1 that neutralizes hCSF-1 to achieve immunomodulation. Here we show that BARF1 binds the dimer interface of hCSF-1 with picomolar affinity, away from the cognate receptor-binding site, to establish a long-lived complex featuring three hCSF-1 at the periphery of the BARF1 toroid. BARF1 locks dimeric hCSF-1 into an inactive conformation, rendering it unable to signal via its cognate receptor on human monocytes. This reveals a new functional role for hCSF-1 cooperativity in signaling. We propose a new viral strategy paradigm featuring an allosteric decoy receptor of the competitive type, which couples efficient sequestration and inactivation of the host growth factor to abrogate cooperative assembly of the cognate signaling complex.


    Organizational Affiliation

    Laboratory for Protein Biochemistry and Biomolecular Engineering, Department of Biochemistry & Microbiology, Ghent University, Ghent, Belgium.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Secreted protein BARF1
A, B, C, D
208Epstein-Barr virus (strain B95-8)Mutation(s): 1 
Find proteins for P03228 (Epstein-Barr virus (strain B95-8))
Go to UniProtKB:  P03228
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Macrophage colony-stimulating factor 1
E, F, G, H
153Homo sapiensMutation(s): 0 
Gene Names: CSF1
Find proteins for P09603 (Homo sapiens)
Go to Gene View: CSF1
Go to UniProtKB:  P09603
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
BMA
Query on BMA

Download SDF File 
Download CCD File 
A, B, C, D
BETA-D-MANNOSE
C6 H12 O6
WQZGKKKJIJFFOK-RWOPYEJCSA-N
 Ligand Interaction
NAG
Query on NAG

Download SDF File 
Download CCD File 
A, B, C, D
N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.414 Å
  • R-Value Free: 0.274 
  • R-Value Work: 0.231 
  • Space Group: H 3
Unit Cell:
Length (Å)Angle (°)
a = 235.240α = 90.00
b = 235.240β = 90.00
c = 95.710γ = 120.00
Software Package:
Software NamePurpose
PHENIXrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2012-08-22
    Type: Initial release
  • Version 1.1: 2013-07-17
    Type: Database references