5CLM

1,4-Oxazine BACE1 inhibitors


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.61 Å
  • R-Value Free: 0.250 
  • R-Value Work: 0.190 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

1,4-Oxazine beta-Secretase 1 (BACE1) Inhibitors: From Hit Generation to Orally Bioavailable Brain Penetrant Leads.

Rombouts, F.J.Tresadern, G.Delgado, O.Martinez-Lamenca, C.Van Gool, M.Garcia-Molina, A.Alonso de Diego, S.A.Oehlrich, D.Prokopcova, H.Alonso, J.M.Austin, N.Borghys, H.Van Brandt, S.Surkyn, M.De Cleyn, M.Vos, A.Alexander, R.Macdonald, G.Moechars, D.Gijsen, H.Trabanco, A.A.

(2015) J.Med.Chem. 58: 8216-8235

  • DOI: 10.1021/acs.jmedchem.5b01101

  • PubMed Abstract: 
  • 1,4-Oxazines are presented, which show good in vitro inhibition in enzymatic and cellular BACE1 assays. We describe lead optimization focused on reducing the amidine pKa while optimizing interactions in the BACE1 active site. Our strategy permitted m ...

    1,4-Oxazines are presented, which show good in vitro inhibition in enzymatic and cellular BACE1 assays. We describe lead optimization focused on reducing the amidine pKa while optimizing interactions in the BACE1 active site. Our strategy permitted modulation of properties such as permeation and especially P-glycoprotein efflux. This led to compounds which were orally bioavailable, centrally active, and which demonstrated robust lowering of brain and CSF Aβ levels, respectively, in mouse and dog models. The amyloid lowering potential of these molecules makes them valuable leads in the search for new BACE1 inhibitors for the treatment of Alzheimer's disease.


    Organizational Affiliation

    Neuroscience Medicinal Chemistry, Janssen Research & Development, Janssen Pharmaceutica NV , Turnhoutseweg 30, B-2340 Beerse, Belgium.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Beta-secretase 1
A
401Homo sapiensMutation(s): 2 
Gene Names: BACE1 (BACE, KIAA1149)
EC: 3.4.23.46
Find proteins for P56817 (Homo sapiens)
Go to Gene View: BACE1
Go to UniProtKB:  P56817
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
IOD
Query on IOD

Download SDF File 
Download CCD File 
A
IODIDE ION
I
XMBWDFGMSWQBCA-UHFFFAOYSA-M
 Ligand Interaction
52K
Query on 52K

Download SDF File 
Download CCD File 
A
N-{3-[(3R)-5-amino-3-methyl-3,6-dihydro-2H-1,4-oxazin-3-yl]phenyl}-5-chloropyridine-2-carboxamide
C17 H17 Cl N4 O2
ZZUPAAPYPBQGKS-KRWDZBQOSA-N
 Ligand Interaction
CL
Query on CL

Download SDF File 
Download CCD File 
A
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
52KIC50: 7.4 - 240 nM (97) BINDINGDB
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.61 Å
  • R-Value Free: 0.250 
  • R-Value Work: 0.190 
  • Space Group: P 61 2 2
Unit Cell:
Length (Å)Angle (°)
a = 100.824α = 90.00
b = 100.824β = 90.00
c = 170.104γ = 120.00
Software Package:
Software NamePurpose
XDSdata reduction
MOLREPphasing
XSCALEdata scaling
REFMACrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Revision History 

  • Version 1.0: 2015-09-30
    Type: Initial release
  • Version 1.1: 2015-11-04
    Type: Database references