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Title: Aminomethyl-Derived Beta Secretase (BACE1) Inhibitors: Engaging Gly230 without an Anilide Functionality

Abstract

A growing subset of $$β$$-secretase (BACE1) inhibitors for the treatment of Alzheimer’s disease (AD) utilizes an anilide chemotype that engages a key residue (Gly230) in the BACE1 binding site. Although the anilide moiety affords excellent potency, it simultaneously introduces a third hydrogen bond donor that limits brain availability and provides a potential metabolic site leading to the formation of an aniline, a structural motif of prospective safety concern. We report herein an alternative aminomethyl linker that delivers similar potency and improved brain penetration relative to the amide moiety. Optimization of this series identified analogues with an excellent balance of ADME properties and potency; however, potential drug–drug interactions (DDI) were predicted based on CYP 2D6 affinities. Generation and analysis of key BACE1 and CYP 2D6 crystal structures identified strategies to obviate the DDI liability, leading to compound 16, which exhibits robust in vivo efficacy as a BACE1 inhibitor.

Authors:
ORCiD logo [1];  [2];  [2];  [1];  [1];  [1];  [1];  [2];  [2];  [2];  [1];  [2];  [1];  [3];  [3];  [2];  [2];  [2];  [2];  [1] more »;  [1];  [2];  [1] « less
  1. Pfizer Worldwide Research and Development, Cambridge, MA (United States)
  2. Pfizer Worldwide Research and Development, Groton, CT (United States)
  3. The Scripps Research Inst., La Jolla, CA (United States)
Publication Date:
Research Org.:
Argonne National Laboratory (ANL), Argonne, IL (United States). Advanced Photon Source (APS); SLAC National Accelerator Laboratory (SLAC), Menlo Park, CA (United States). Stanford Synchrotron Radiation Lightsource (SSRL)
Sponsoring Org.:
Industrial Macromolecular Crystallography Association; USDOE Office of Science (SC), Basic Energy Sciences (BES); National Institutes of Health (NIH); USDOE Office of Science (SC), Biological and Environmental Research (BER); National Center for Research Resources, Biomedical Technology Program; National Institute of General Medical Sciences (NIGMS)
OSTI Identifier:
1506536
Grant/Contract Number:  
AC02-06CH11357; GM031001; AC02-76SF00515
Resource Type:
Accepted Manuscript
Journal Name:
Journal of Medicinal Chemistry
Additional Journal Information:
Journal Volume: 60; Journal Issue: 1; Journal ID: ISSN 0022-2623
Publisher:
American Chemical Society (ACS)
Country of Publication:
United States
Language:
ENGLISH
Subject:
37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CHEMISTRY; Substituents; Inhibitors; Inhibition; Amines; Selectivity

Citation Formats

Butler, Christopher R., Ogilvie, Kevin, Martinez-Alsina, Luis, Barreiro, Gabriela, Beck, Elizabeth M., Nolan, Charles E., Atchison, Kevin, Benvenuti, Eric, Buzon, Leanne, Doran, Shawn, Gonzales, Cathleen, Helal, Christopher J., Hou, Xinjun, Hsu, Mei-Hui, Johnson, Eric F., Lapham, Kimberly, Lanyon, Lorraine, Parris, Kevin, O’Neill, Brian T., Riddell, David, Robshaw, Ashley, Vajdos, Felix, and Brodney, Michael A. Aminomethyl-Derived Beta Secretase (BACE1) Inhibitors: Engaging Gly230 without an Anilide Functionality. United States: N. p., 2016. Web. doi:10.1021/acs.jmedchem.6b01451.
Butler, Christopher R., Ogilvie, Kevin, Martinez-Alsina, Luis, Barreiro, Gabriela, Beck, Elizabeth M., Nolan, Charles E., Atchison, Kevin, Benvenuti, Eric, Buzon, Leanne, Doran, Shawn, Gonzales, Cathleen, Helal, Christopher J., Hou, Xinjun, Hsu, Mei-Hui, Johnson, Eric F., Lapham, Kimberly, Lanyon, Lorraine, Parris, Kevin, O’Neill, Brian T., Riddell, David, Robshaw, Ashley, Vajdos, Felix, & Brodney, Michael A. Aminomethyl-Derived Beta Secretase (BACE1) Inhibitors: Engaging Gly230 without an Anilide Functionality. United States. https://doi.org/10.1021/acs.jmedchem.6b01451
Butler, Christopher R., Ogilvie, Kevin, Martinez-Alsina, Luis, Barreiro, Gabriela, Beck, Elizabeth M., Nolan, Charles E., Atchison, Kevin, Benvenuti, Eric, Buzon, Leanne, Doran, Shawn, Gonzales, Cathleen, Helal, Christopher J., Hou, Xinjun, Hsu, Mei-Hui, Johnson, Eric F., Lapham, Kimberly, Lanyon, Lorraine, Parris, Kevin, O’Neill, Brian T., Riddell, David, Robshaw, Ashley, Vajdos, Felix, and Brodney, Michael A. Tue . "Aminomethyl-Derived Beta Secretase (BACE1) Inhibitors: Engaging Gly230 without an Anilide Functionality". United States. https://doi.org/10.1021/acs.jmedchem.6b01451. https://www.osti.gov/servlets/purl/1506536.
@article{osti_1506536,
title = {Aminomethyl-Derived Beta Secretase (BACE1) Inhibitors: Engaging Gly230 without an Anilide Functionality},
author = {Butler, Christopher R. and Ogilvie, Kevin and Martinez-Alsina, Luis and Barreiro, Gabriela and Beck, Elizabeth M. and Nolan, Charles E. and Atchison, Kevin and Benvenuti, Eric and Buzon, Leanne and Doran, Shawn and Gonzales, Cathleen and Helal, Christopher J. and Hou, Xinjun and Hsu, Mei-Hui and Johnson, Eric F. and Lapham, Kimberly and Lanyon, Lorraine and Parris, Kevin and O’Neill, Brian T. and Riddell, David and Robshaw, Ashley and Vajdos, Felix and Brodney, Michael A.},
abstractNote = {A growing subset of $β$-secretase (BACE1) inhibitors for the treatment of Alzheimer’s disease (AD) utilizes an anilide chemotype that engages a key residue (Gly230) in the BACE1 binding site. Although the anilide moiety affords excellent potency, it simultaneously introduces a third hydrogen bond donor that limits brain availability and provides a potential metabolic site leading to the formation of an aniline, a structural motif of prospective safety concern. We report herein an alternative aminomethyl linker that delivers similar potency and improved brain penetration relative to the amide moiety. Optimization of this series identified analogues with an excellent balance of ADME properties and potency; however, potential drug–drug interactions (DDI) were predicted based on CYP 2D6 affinities. Generation and analysis of key BACE1 and CYP 2D6 crystal structures identified strategies to obviate the DDI liability, leading to compound 16, which exhibits robust in vivo efficacy as a BACE1 inhibitor.},
doi = {10.1021/acs.jmedchem.6b01451},
journal = {Journal of Medicinal Chemistry},
number = 1,
volume = 60,
place = {United States},
year = {Tue Dec 20 00:00:00 EST 2016},
month = {Tue Dec 20 00:00:00 EST 2016}
}

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β-Secretase (BACE1) Inhibitors with High in Vivo Efficacy Suitable for Clinical Evaluation in Alzheimer’s Disease
journal, May 2013

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Discovery of a Series of Efficient, Centrally Efficacious BACE1 Inhibitors through Structure-Based Drug Design
journal, February 2015

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A mutation in APP protects against Alzheimer’s disease and age-related cognitive decline
journal, July 2012

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Pharmacological BACE1 and BACE2 inhibition induces hair depigmentation by inhibiting PMEL17 processing in mice
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Molecular genetics of CYP2D6: Clinical relevance with focus on psychotropic drugs: Molecular genetics of CYP2D6
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BACE2 processes PMEL to form the melanosome amyloid matrix in pigment cells
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Characterization of Potassium Channel Modulators with QPatch Automated Patch-Clamp Technology: System Characteristics and Performance
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Revisiting the peripheral sink hypothesis: inhibiting BACE1 activity in the periphery does not alter β-amyloid levels in the CNS
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Cerebrospinal Fluid Amyloid-β (Aβ) as an Effect Biomarker for Brain Aβ Lowering Verified by Quantitative Preclinical Analyses
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