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Qiu H, Ali Z, Bowlan J, Caldwell R, Gardberg A, Glaser N, Goutopoulos A, Head J, Johnson T, Maurer C, Georgi K, Grenningloh R, Fang Z, Morandi F, Rohdich F, Schmidt R, Follis AV, Sherer B. Discovery of Covalent Bruton's Tyrosine Kinase Inhibitors with Decreased CYP2C8 Inhibitory Activity. ChemMedChem 2021; 16:3653-3662. [PMID: 34582626 DOI: 10.1002/cmdc.202100453] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/22/2021] [Revised: 09/27/2021] [Indexed: 11/07/2022]
Abstract
Bruton's tyrosine kinase (BTK) is a member of the Tec kinase family that is expressed in cells of hematopoietic lineage. Evidence has shown that inhibition of BTK has clinical benefit for the treatment of a wide array of autoimmune and inflammatory diseases. Previously we reported the discovery of a novel nicotinamide selectivity pocket (SP) series of potent and selective covalent irreversible BTK inhibitors. The top molecule 1 of that series strongly inhibited CYP2C8 (IC50 =100 nM), which was attributed to the bridged linker group. However, our effort on the linker replacement turned out to be fruitless. With the study of the X-ray crystal structure of compound 1, we envisioned the opportunity of removal of this liability via transposition of the linker moiety in 1 from C6 to C5 position of the pyridine core. With this strategy, our optimization led to the discovery of a novel series, in which the top molecule 18 A displayed reduced CYP inhibitory activity and good potency. To further explore this new series, different warheads besides acrylamide, for example cyanamide, were also tested. However, this effort didn't lead to the discovery of molecules with better potency than 18 A. The loss of potency in those molecules could be related to the reduced reactivity of the warhead or reversible binding mode. Further profiling of 18 A disclosed that it had a strong hERG (human Ether-a-go-go Related Gene) inhibition, which could be related to the phenoxyphenyl group.
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Affiliation(s)
- Hui Qiu
- EMD Serono Research & Development Institute, 45 A Middlesex Turnpike, Billerica, MA, 01821, USA
| | - Zahid Ali
- EMD Serono Research & Development Institute, 45 A Middlesex Turnpike, Billerica, MA, 01821, USA
| | - Julian Bowlan
- Repare Therapeutics, 1 Broadway, 15th Floor, Cambridge, MA, 02142, USA
| | - Richard Caldwell
- EMD Serono Research & Development Institute, 45 A Middlesex Turnpike, Billerica, MA, 01821, USA
| | - Anna Gardberg
- Constellation Pharmaceuticals, 215 First Street, Suite 200, Cambridge, MA, 02142, USA
| | - Nina Glaser
- Merck KGaA, Frankfurter Str. 250, Darmstadt, 64293, Germany
| | - Andreas Goutopoulos
- EMD Serono Research & Development Institute, 45 A Middlesex Turnpike, Billerica, MA, 01821, USA
| | - Jared Head
- EMD Serono Research & Development Institute, 45 A Middlesex Turnpike, Billerica, MA, 01821, USA
| | - Theresa Johnson
- EMD Serono Research & Development Institute, 45 A Middlesex Turnpike, Billerica, MA, 01821, USA
| | | | - Katrin Georgi
- Merck KGaA, Frankfurter Str. 250, Darmstadt, 64293, Germany
| | - Roland Grenningloh
- EMD Serono Research & Development Institute, 45 A Middlesex Turnpike, Billerica, MA, 01821, USA
| | - Zhizhou Fang
- Merck KGaA, Frankfurter Str. 250, Darmstadt, 64293, Germany
| | - Federica Morandi
- Cellular Enzymology, F. Hoffmann-La Roche AG, Konzern-Hauptsitz, Grenzacherstrasse 124, 4070, Basel, Switzerland
| | - Felix Rohdich
- Merck KGaA, Frankfurter Str. 250, Darmstadt, 64293, Germany
| | - Ralf Schmidt
- Merck KGaA, Frankfurter Str. 250, Darmstadt, 64293, Germany
| | - Ariele Viacava Follis
- EMD Serono Research & Development Institute, 45 A Middlesex Turnpike, Billerica, MA, 01821, USA
| | - Brian Sherer
- EMD Serono Research & Development Institute, 45 A Middlesex Turnpike, Billerica, MA, 01821, USA
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Qiu H, Ali Z, Bender A, Caldwell R, Chen YY, Fang Z, Gardberg A, Glaser N, Goettsche A, Goutopoulos A, Grenningloh R, Hanschke B, Head J, Johnson T, Jones C, Jones R, Kulkarni S, Maurer C, Morandi F, Neagu C, Poetzsch S, Potnick J, Schmidt R, Roe K, Viacava Follis A, Wing C, Zhu X, Sherer B. Discovery of potent and selective reversible Bruton's tyrosine kinase inhibitors. Bioorg Med Chem 2021; 40:116163. [PMID: 33932711 DOI: 10.1016/j.bmc.2021.116163] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/07/2021] [Revised: 04/06/2021] [Accepted: 04/11/2021] [Indexed: 11/29/2022]
Abstract
Bruton's tyrosine kinase (BTK) is a cytoplasmic, non-receptor tyrosine kinase member of the TEC family of tyrosine kinases. Pre-clinical and clinical data have shown that targeting BTK can be used for the treatment for B-cell disorders. Here we disclose the discovery of a novel imidazo[4,5-b]pyridine series of potent, selective reversible BTK inhibitors through a rational design approach. From a starting hit molecule 1, medicinal chemistry optimization led to the development of a lead compound 30, which exhibited 58 nM BTK inhibitory potency in human whole blood and high kinome selectivity. Additionally, the compound demonstrated favorable pharmacokinetics (PK), and showed potent dose-dependent efficacy in a rat CIA model.
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Affiliation(s)
- Hui Qiu
- EMD Serono Research & Development Institute, 45A Middlesex Turnpike, Billerica, MA 01821, USA(1).
| | - Zahid Ali
- EMD Serono Research & Development Institute, 45A Middlesex Turnpike, Billerica, MA 01821, USA(1)
| | - Andrew Bender
- EMD Serono Research & Development Institute, 45A Middlesex Turnpike, Billerica, MA 01821, USA(1)
| | - Richard Caldwell
- EMD Serono Research & Development Institute, 45A Middlesex Turnpike, Billerica, MA 01821, USA(1)
| | - Yi-Ying Chen
- Stoke Therapeutics, 45 Wiggins Ave, Bedford, MA 01730, USA
| | - Zhizhou Fang
- Merck KGaA, Frankfurter Strasse 250, Darmstadt, Hessen, DE 64293, Germany
| | - Anna Gardberg
- Constellation Pharmaceuticals, 215 First St #200, Cambridge, MA 02142, USA
| | - Nina Glaser
- Merck KGaA, Frankfurter Strasse 250, Darmstadt, Hessen, DE 64293, Germany
| | - Anja Goettsche
- Merck KGaA, Frankfurter Strasse 250, Darmstadt, Hessen, DE 64293, Germany
| | - Andreas Goutopoulos
- EMD Serono Research & Development Institute, 45A Middlesex Turnpike, Billerica, MA 01821, USA(1)
| | - Roland Grenningloh
- EMD Serono Research & Development Institute, 45A Middlesex Turnpike, Billerica, MA 01821, USA(1)
| | - Bettina Hanschke
- Merck KGaA, Frankfurter Strasse 250, Darmstadt, Hessen, DE 64293, Germany
| | - Jared Head
- EMD Serono Research & Development Institute, 45A Middlesex Turnpike, Billerica, MA 01821, USA(1)
| | - Theresa Johnson
- EMD Serono Research & Development Institute, 45A Middlesex Turnpike, Billerica, MA 01821, USA(1)
| | - Christopher Jones
- EMD Serono Research & Development Institute, 45A Middlesex Turnpike, Billerica, MA 01821, USA(1)
| | - Reinaldo Jones
- EMD Serono Research & Development Institute, 45A Middlesex Turnpike, Billerica, MA 01821, USA(1)
| | - Shashank Kulkarni
- EMD Serono Research & Development Institute, 45A Middlesex Turnpike, Billerica, MA 01821, USA(1)
| | - Christine Maurer
- Merck KGaA, Frankfurter Strasse 250, Darmstadt, Hessen, DE 64293, Germany
| | - Federica Morandi
- Roche Pharma Research and Early Development, Grenzacherstrasse 124, Basel, Basel-Stadt, CH 4070, Switzerland
| | - Constantin Neagu
- EMD Serono Research & Development Institute, 45A Middlesex Turnpike, Billerica, MA 01821, USA(1)
| | - Sven Poetzsch
- Merck KGaA, Frankfurter Strasse 250, Darmstadt, Hessen, DE 64293, Germany
| | - Justin Potnick
- EMD Serono Research & Development Institute, 45A Middlesex Turnpike, Billerica, MA 01821, USA(1)
| | - Ralf Schmidt
- EMD Serono Research & Development Institute, 45A Middlesex Turnpike, Billerica, MA 01821, USA(1)
| | - Katherine Roe
- EMD Serono Research & Development Institute, 45A Middlesex Turnpike, Billerica, MA 01821, USA(1)
| | - Ariele Viacava Follis
- EMD Serono Research & Development Institute, 45A Middlesex Turnpike, Billerica, MA 01821, USA(1)
| | - Carolyn Wing
- EMD Serono Research & Development Institute, 45A Middlesex Turnpike, Billerica, MA 01821, USA(1)
| | - Xiaohua Zhu
- EMD Serono Research & Development Institute, 45A Middlesex Turnpike, Billerica, MA 01821, USA(1)
| | - Brian Sherer
- EMD Serono Research & Development Institute, 45A Middlesex Turnpike, Billerica, MA 01821, USA(1)
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Liu J, Chen C, Wang D, Zhang J, Zhang T. Emerging small-molecule inhibitors of the Bruton's tyrosine kinase (BTK): Current development. Eur J Med Chem 2021; 217:113329. [PMID: 33740548 DOI: 10.1016/j.ejmech.2021.113329] [Citation(s) in RCA: 37] [Impact Index Per Article: 12.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/30/2020] [Revised: 02/12/2021] [Accepted: 02/21/2021] [Indexed: 12/29/2022]
Abstract
Therapy based on Bruton's tyrosine kinase (BTK) inhibitors one of the major treatment options currently recommended for lymphoma patients. The first generation of BTK inhibitor, Ibrutinib, achieved remarkable progress in the treatment of B-cell malignancies, but still has problems with drug-resistance or off-target induced serious side effects. Therefore, numerous new BTK inhibitors were developed to address this unmet medical need. In parallel, the effect of BTK inhibitors against immune-related diseases has been evaluated in clinical trials. This review summarizes recent progress in the research and development of BTK inhibitors, with a focus on structural characteristics and structure-activity relationships. The structure-refinement process of representative pharmacophores as well as their effects on binding affinity, biological activity and pharmacokinetics profiles were analyzed. The advantages and disadvantages of reversible/irreversible BTK inhibitors and their potential implications were discussed to provide a reference for the rational design and development of novel potent BTK inhibitors.
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Affiliation(s)
- Jiakuo Liu
- Pharmaceutical Department, PLA Strategic Support Force Medical Center, No.9 Anxiangbeili Road, Chaoyang District, Beijing, 100101, PR China
| | - Chengjuan Chen
- State Key Laboratory of Bioactive Substance and Function of Natural Medicines, Institute of Materia Medica, Chinese Academy of Medical Sciences, Peking Union Medical College, Beijing, 100050, PR China
| | - Dongmei Wang
- State Key Laboratory of Bioactive Substance and Function of Natural Medicines, Institute of Materia Medica, Chinese Academy of Medical Sciences, Peking Union Medical College, Beijing, 100050, PR China
| | - Jie Zhang
- Pharmaceutical Department, PLA Strategic Support Force Medical Center, No.9 Anxiangbeili Road, Chaoyang District, Beijing, 100101, PR China.
| | - Tiantai Zhang
- State Key Laboratory of Bioactive Substance and Function of Natural Medicines, Institute of Materia Medica, Chinese Academy of Medical Sciences, Peking Union Medical College, Beijing, 100050, PR China.
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Erlanson DA, de Esch IJP, Jahnke W, Johnson CN, Mortenson PN. Fragment-to-Lead Medicinal Chemistry Publications in 2018. J Med Chem 2020; 63:4430-4444. [PMID: 31913033 DOI: 10.1021/acs.jmedchem.9b01581] [Citation(s) in RCA: 49] [Impact Index Per Article: 12.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/08/2023]
Abstract
This Perspective, the fourth in an annual series, summarizes fragment-to-lead (F2L) success stories published during 2018. Topics such as target class, screening methods, physicochemical properties, and ligand efficiency are discussed for the 2018 examples as well as for the combined 111 F2L examples covering 2015-2018. While the overall properties of fragments and leads have remained constant, a number of new trends are noted, for example, broadening of target class coverage and application of FBDD to covalent inhibitors. Moreover, several studies make use of fragment hits that were previously described in the literature, illustrating that fragments are versatile starting points that can be optimized to structurally diverse leads. By focusing on success stories, the hope is that this Perspective will identify and inform best practices in fragment-based drug discovery.
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Affiliation(s)
- Daniel A Erlanson
- Frontier Medicines, 151 Oyster Point Boulevard, South San Francisco, California 94080, United States
| | - Iwan J P de Esch
- Division of Medicinal Chemistry, Amsterdam Institute for Molecules, Medicines and Systems (AIMMS), Vrije Universiteit Amsterdam, De Boelelaan 1108, 1081 HZ, Amsterdam, The Netherlands
| | - Wolfgang Jahnke
- Novartis Institutes for Biomedical Research, Chemical Biology and Therapeutics, 4002 Basel, Switzerland
| | - Christopher N Johnson
- Astex Pharmaceuticals, 436 Cambridge Science Park, Milton Road, Cambridge CB4 0QA, United Kingdom
| | - Paul N Mortenson
- Astex Pharmaceuticals, 436 Cambridge Science Park, Milton Road, Cambridge CB4 0QA, United Kingdom
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Qiu H, Caldwell R, Liu-Bujalski L, Goutopoulos A, Jones R, Potnick J, Sherer B, Bender A, Grenningloh R, Xu D, Gardberg A, Mochalkin I, Johnson T, Viacava Follis A, Head J, Morandi F. Discovery of Affinity-Based Probes for Btk Occupancy Assays. ChemMedChem 2019; 14:217-223. [DOI: 10.1002/cmdc.201800714] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/07/2018] [Indexed: 01/08/2023]
Affiliation(s)
- Hui Qiu
- EMD Serono Research & Development Institute; 45A Middlesex Turnpike Billerica MA 01821 USA
| | - Richard Caldwell
- EMD Serono Research & Development Institute; 45A Middlesex Turnpike Billerica MA 01821 USA
| | - Lesley Liu-Bujalski
- EMD Serono Research & Development Institute; 45A Middlesex Turnpike Billerica MA 01821 USA
| | - Andreas Goutopoulos
- EMD Serono Research & Development Institute; 45A Middlesex Turnpike Billerica MA 01821 USA
| | - Reinaldo Jones
- EMD Serono Research & Development Institute; 45A Middlesex Turnpike Billerica MA 01821 USA
| | - Justin Potnick
- EMD Serono Research & Development Institute; 45A Middlesex Turnpike Billerica MA 01821 USA
| | - Brian Sherer
- EMD Serono Research & Development Institute; 45A Middlesex Turnpike Billerica MA 01821 USA
| | - Andrew Bender
- EMD Serono Research & Development Institute; 45A Middlesex Turnpike Billerica MA 01821 USA
| | - Roland Grenningloh
- EMD Serono Research & Development Institute; 45A Middlesex Turnpike Billerica MA 01821 USA
| | - Daigen Xu
- EMD Serono Research & Development Institute; 45A Middlesex Turnpike Billerica MA 01821 USA
| | - Anna Gardberg
- Constellation Pharmaceuticals; 215 First Street, Suite 200 Cambridge MA 02142 USA
| | - Igor Mochalkin
- EMD Serono Research & Development Institute; 45A Middlesex Turnpike Billerica MA 01821 USA
| | - Theresa Johnson
- EMD Serono Research & Development Institute; 45A Middlesex Turnpike Billerica MA 01821 USA
| | - Ariele Viacava Follis
- EMD Serono Research & Development Institute; 45A Middlesex Turnpike Billerica MA 01821 USA
| | - Jared Head
- EMD Serono Research & Development Institute; 45A Middlesex Turnpike Billerica MA 01821 USA
| | - Federica Morandi
- Cellular Enzymology; F. Hoffmann-La Roche AG; Konzern-Hauptsitz; Grenzacherstrasse 124 4070 Basel Switzerland
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