6TZC

Crystal Structure of African Swine Fever Virus A179L with the Autophagy Regulator Beclin


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.41 Å
  • R-Value Free: 0.253 
  • R-Value Work: 0.214 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Crystal Structure of African Swine Fever Virus A179L with the Autophagy Regulator Beclin.

Banjara, S.Shimmon, G.L.Dixon, L.K.Netherton, C.L.Hinds, M.G.Kvansakul, M.

(2019) Viruses 11: --

  • DOI: 10.3390/v11090789

  • PubMed Abstract: 
  • Subversion of programmed cell death-based host defence systems is a prominent feature of infections by large DNA viruses. African swine fever virus (ASFV) is a large DNA virus and sole member of the <i>Asfarviridae </i> family that harbours the B-ce ...

    Subversion of programmed cell death-based host defence systems is a prominent feature of infections by large DNA viruses. African swine fever virus (ASFV) is a large DNA virus and sole member of the Asfarviridae family that harbours the B-cell lymphoma 2 or Bcl-2 homolog A179L. A179L has been shown to bind to a range of cell death-inducing host proteins, including pro-apoptotic Bcl-2 proteins as well as the autophagy regulator Beclin. Here we report the crystal structure of A179L bound to the Beclin BH3 motif. A179L engages Beclin using the same canonical ligand-binding groove that is utilized to bind to pro-apoptotic Bcl-2 proteins. The mode of binding of Beclin to A179L mirrors that of Beclin binding to human Bcl-2 and Bcl-x L as well as murine γ-herpesvirus 68. The introduction of bulky hydrophobic residues into the A179L ligand-binding groove via site-directed mutagenesis ablates binding of Beclin to A179L, leading to a loss of the ability of A179L to modulate autophagosome formation in Vero cells during starvation. Our findings provide a mechanistic understanding for the potent autophagy inhibitory activity of A179L and serve as a platform for more detailed investigations into the role of autophagy during ASFV infection.


    Organizational Affiliation

    Pirbright Institute, Ash Road, Pirbright, Surrey GU24 0NF, UK.,Department of Biochemistry & Genetics, La Trobe Institute for Molecular Science, La Trobe University, Melbourne, Victoria 3086, Australia.,Bio21 Molecular Science and Biotechnology Institute, The University of Melbourne, Parkville, Victoria 3050, Australia. hinds.mark.g@gmail.com.,Department of Biochemistry & Genetics, La Trobe Institute for Molecular Science, La Trobe University, Melbourne, Victoria 3086, Australia. m.kvansakul@latrobe.edu.au.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Maltose/maltodextrin-binding periplasmic protein
A
371Escherichia coli (strain K12)Mutation(s): 0 
Gene Names: malE
Find proteins for P0AEX9 (Escherichia coli (strain K12))
Go to UniProtKB:  P0AEX9
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Apoptosis regulator Bcl-2 homolog
B
154African swine fever virus (strain Badajoz 1971 Vero-adapted)Mutation(s): 0 
Find proteins for P42485 (African swine fever virus (strain Badajoz 1971 Vero-adapted))
Go to UniProtKB:  P42485
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Beclin-1
C
26Sus scrofaMutation(s): 0 
Gene Names: BECN1 (ATG6)
Find proteins for Q4A1L5 (Sus scrofa)
Go to Gene View: BECN1
Go to UniProtKB:  Q4A1L5
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
MAL
Query on MAL

Download SDF File 
Download CCD File 
A
MALTOSE
C12 H22 O11
GUBGYTABKSRVRQ-ASMJPISFSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.41 Å
  • R-Value Free: 0.253 
  • R-Value Work: 0.214 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 54.565α = 90.00
b = 44.347β = 94.53
c = 129.022γ = 90.00
Software Package:
Software NamePurpose
AMBERrefinement
PHASERphasing
Aimlessdata scaling
PHENIXrefinement
XDSdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Australian Research Council (ARC)AustraliaFT130101349

Revision History 

  • Version 1.0: 2019-11-20
    Type: Initial release
  • Version 1.1: 2020-01-01
    Type: Author supporting evidence