5N16

First Bromodomain (BD1) from Candida albicans Bdf1 bound to a dibenzothiazepinone (compound 1)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.76 Å
  • R-Value Free: 0.215 
  • R-Value Work: 0.178 

wwPDB Validation 3D Report Full Report


This is version 2.0 of the entry. See complete history

Literature

Selective BET bromodomain inhibition as an antifungal therapeutic strategy.

Mietton, F.Ferri, E.Champleboux, M.Zala, N.Maubon, D.Zhou, Y.Harbut, M.Spittler, D.Garnaud, C.Courcon, M.Chauvel, M.d'Enfert, C.Kashemirov, B.A.Hull, M.Cornet, M.McKenna, C.E.Govin, J.Petosa, C.

(2017) Nat Commun 8: 15482-15482

  • DOI: 10.1038/ncomms15482
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Invasive fungal infections cause significant morbidity and mortality among immunocompromised individuals, posing an urgent need for new antifungal therapeutic strategies. Here we investigate a chromatin-interacting module, the bromodomain (BD) from t ...

    Invasive fungal infections cause significant morbidity and mortality among immunocompromised individuals, posing an urgent need for new antifungal therapeutic strategies. Here we investigate a chromatin-interacting module, the bromodomain (BD) from the BET family of proteins, as a potential antifungal target in Candida albicans, a major human fungal pathogen. We show that the BET protein Bdf1 is essential in C. albicans and that mutations inactivating its two BDs result in a loss of viability in vitro and decreased virulence in mice. We report small-molecule compounds that inhibit C. albicans Bdf1 with high selectivity over human BDs. Crystal structures of the Bdf1 BDs reveal binding modes for these inhibitors that are sterically incompatible with the human BET-binding pockets. Furthermore, we report a dibenzothiazepinone compound that phenocopies the effects of a Bdf1 BD-inactivating mutation on C. albicans viability. These findings establish BET inhibition as a promising antifungal therapeutic strategy and identify Bdf1 as an antifungal drug target that can be selectively inhibited without antagonizing human BET function.


    Organizational Affiliation

    Institut de Biosciences et Biotechnologies de Grenoble, Laboratoire Biologie à Grande Échelle, Université de Grenoble Alpes, CEA, Inserm, 38000 Grenoble, France.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Bromodomain-containing factor 1
A, B, C, D
138Candida albicans (strain SC5314 / ATCC MYA-2876)Mutation(s): 0 
Gene Names: BDF1
Find proteins for Q5A4W8 (Candida albicans (strain SC5314 / ATCC MYA-2876))
Go to UniProtKB:  Q5A4W8
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
GOL
Query on GOL

Download SDF File 
Download CCD File 
C
GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
NI
Query on NI

Download SDF File 
Download CCD File 
A, B, C, D
NICKEL (II) ION
Ni
VEQPNABPJHWNSG-UHFFFAOYSA-N
 Ligand Interaction
8FN
Query on 8FN

Download SDF File 
Download CCD File 
A, C, D
5-cyclopropyl-2-(5-pyrazin-2-yl-1,2,4-oxadiazol-3-yl)benzo[b][1,4]benzothiazepin-6-one
C22 H15 N5 O2 S
ASTXHKRSUWDWQE-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.76 Å
  • R-Value Free: 0.215 
  • R-Value Work: 0.178 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 75.435α = 90.00
b = 77.292β = 90.00
c = 102.593γ = 90.00
Software Package:
Software NamePurpose
PHENIXrefinement
PHASERphasing
XDSdata reduction
XSCALEdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
French National Research AgencyFranceANR-14-CE16-0027-01

Revision History 

  • Version 1.0: 2017-05-31
    Type: Initial release
  • Version 1.1: 2017-06-07
    Type: Data collection
  • Version 2.0: 2017-09-06
    Type: Atomic model, Author supporting evidence