5TPX

Bromodomain from Plasmodium Faciparum Gcn5, complexed with compound


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.1 Å
  • R-Value Free: 0.236 
  • R-Value Work: 0.185 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

Discovery of a PCAF Bromodomain Chemical Probe.

Moustakim, M.Clark, P.G.Trulli, L.Fuentes de Arriba, A.L.Ehebauer, M.T.Chaikuad, A.Murphy, E.J.Mendez-Johnson, J.Daniels, D.Hou, C.D.Lin, Y.H.Walker, J.R.Hui, R.Yang, H.Dorrell, L.Rogers, C.M.Monteiro, O.P.Fedorov, O.Huber, K.V.Knapp, S.Heer, J.Dixon, D.J.Brennan, P.E.

(2017) Angew. Chem. Int. Ed. Engl. 56: 827-831

  • DOI: 10.1002/anie.201610816

  • PubMed Abstract: 
  • The p300/CBP-associated factor (PCAF) and related GCN5 bromodomain-containing lysine acetyl transferases are members of subfamily I of the bromodomain phylogenetic tree. Iterative cycles of rational inhibitor design and biophysical characterization l ...

    The p300/CBP-associated factor (PCAF) and related GCN5 bromodomain-containing lysine acetyl transferases are members of subfamily I of the bromodomain phylogenetic tree. Iterative cycles of rational inhibitor design and biophysical characterization led to the discovery of the triazolopthalazine-based L-45 (dubbed L-Moses) as the first potent, selective, and cell-active PCAF bromodomain (Brd) inhibitor. Synthesis from readily available (1R,2S)-(-)-norephedrine furnished L-45 in enantiopure form. L-45 was shown to disrupt PCAF-Brd histone H3.3 interaction in cells using a nanoBRET assay, and a co-crystal structure of L-45 with the homologous Brd PfGCN5 from Plasmodium falciparum rationalizes the high selectivity for PCAF and GCN5 bromodomains. Compound L-45 shows no observable cytotoxicity in peripheral blood mononuclear cells (PBMC), good cell-permeability, and metabolic stability in human and mouse liver microsomes, supporting its potential for in vivo use.


    Organizational Affiliation

    Structural Genomics Consortium & Target Discovery Institute, University of Oxford, NDM Research Building, Roosevelt Drive, Oxford, OX3 7DQ and OX3 7FZ, UK.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Histone acetyltransferase GCN5
A
123Plasmodium falciparum (isolate 3D7)Mutation(s): 0 
EC: 2.3.1.48
Find proteins for Q8IB67 (Plasmodium falciparum (isolate 3D7))
Go to UniProtKB:  Q8IB67
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SO4
Query on SO4

Download SDF File 
Download CCD File 
A
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
7H7
Query on 7H7

Download SDF File 
Download CCD File 
A
(1S,2S)-N~1~,N~1~-dimethyl-N~2~-(3-methyl[1,2,4]triazolo[3,4-a]phthalazin-6-yl)-1-phenylpropane-1,2-diamine
C21 H24 N6
MSFPLTWUFWOKBX-IFXJQAMLSA-N
 Ligand Interaction
CL
Query on CL

Download SDF File 
Download CCD File 
A
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.1 Å
  • R-Value Free: 0.236 
  • R-Value Work: 0.185 
  • Space Group: P 4 21 2
Unit Cell:
Length (Å)Angle (°)
a = 75.000α = 90.00
b = 75.000β = 90.00
c = 49.620γ = 90.00
Software Package:
Software NamePurpose
BUSTER-TNTrefinement
HKL-2000data collection
HKL-2000data scaling
PHASERphasing
DENZOdata reduction
PDB_EXTRACTdata extraction
SCALEPACKdata scaling
BUSTERrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2017-01-04
    Type: Initial release
  • Version 1.1: 2017-01-18
    Type: Database references
  • Version 1.2: 2017-11-22
    Type: Refinement description
  • Version 1.3: 2018-01-24
    Type: Structure summary