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Takács G, Havasi D, Sándor M, Dohánics Z, Balogh GT, Kiss R. DIY Virtual Chemical Libraries - Novel Starting Points for Drug Discovery. ACS Med Chem Lett 2023; 14:1188-1197. [PMID: 37736187 PMCID: PMC10510501 DOI: 10.1021/acsmedchemlett.3c00146] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/18/2023] [Accepted: 08/28/2023] [Indexed: 09/23/2023] Open
Abstract
The advancement of in silico technologies such as library enumeration and synthetic feasibility prediction has made drug discovery pipelines rely more and more on virtual libraries, which provide a significantly larger pool of compounds than in-stock supplier catalogs. Virtual libraries from external sources, however, may be associated with long delivery time and high cost. In this study, we present a Do-It-Yourself (DIY) combinatorial chemistry library containing over 14 million almost completely novel products built from 1000 low-cost building blocks based on robust reactions frequently applied at medicinal chemistry laboratories. The applicability of the DIY library for various drug discovery approaches is demonstrated by extensive physicochemical property, structural diversity profiling, and the generation of focused libraries. We found that internally built DIY chemical libraries present a viable alternative of external virtual catalogs by providing access to a large number of low-cost and quickly accessible potential chemical starting points for drug discovery.
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Affiliation(s)
- Gergely Takács
- Department
of Chemical and Environmental Process Engineering, Faculty of Chemical
Technology and Biotechnology, Budapest University
of Technology and Economics, Műegyetem rakpart 3, Budapest 1111, Hungary
- Mcule.com
Kft, Bartók Béla
út 105-113, Budapest 1115, Hungary
| | - Dávid Havasi
- Department
of Chemical and Environmental Process Engineering, Faculty of Chemical
Technology and Biotechnology, Budapest University
of Technology and Economics, Műegyetem rakpart 3, Budapest 1111, Hungary
- Mcule.com
Kft, Bartók Béla
út 105-113, Budapest 1115, Hungary
| | - Márk Sándor
- Mcule.com
Kft, Bartók Béla
út 105-113, Budapest 1115, Hungary
| | - Zsolt Dohánics
- Mcule.com
Kft, Bartók Béla
út 105-113, Budapest 1115, Hungary
| | - György T. Balogh
- Department
of Chemical and Environmental Process Engineering, Faculty of Chemical
Technology and Biotechnology, Budapest University
of Technology and Economics, Műegyetem rakpart 3, Budapest 1111, Hungary
- Department
of Pharmaceutical Chemistry, Faculty of Pharmaceutical Sciences, Semmelweis University, Hőgyes Endre utca 7-9, Budapest 1092, Hungary
| | - Róbert Kiss
- Mcule.com
Kft, Bartók Béla
út 105-113, Budapest 1115, Hungary
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Banerjee A, Chatterjee I, Panda G. Total synthesis of selected tyrosine‐derived alkaloids: A comparative analysis of tyrosine‐based chiral pool vs other synthetic approaches. ChemistrySelect 2022. [DOI: 10.1002/slct.202202750] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
Affiliation(s)
- Arpita Banerjee
- Indranil Chatterjee and Gautam Panda Medicinal and Process Chemistry Division CSIR-Central Drug Research Institute Sector 10, Jankipuram Extension, Sitapur Road Lucknow 226031 India
| | - Indranil Chatterjee
- Indranil Chatterjee and Gautam Panda Medicinal and Process Chemistry Division CSIR-Central Drug Research Institute Sector 10, Jankipuram Extension, Sitapur Road Lucknow 226031 India
| | - Gautam Panda
- Indranil Chatterjee and Gautam Panda Medicinal and Process Chemistry Division CSIR-Central Drug Research Institute Sector 10, Jankipuram Extension, Sitapur Road Lucknow 226031 India
- Academy of Scientific and Innovative Research New Delhi 110001 India
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3
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Kumar A, Bhattacherjee S, Ganesher A, Manda SLK, Banerjee A, Panda G. Use of Non‐Aromatic Hydrophobic α‐Amino Acids (α‐AA) and Non‐Amino Acid Derived Synthons: Comparative Studies Towards Total Syntheses of Selected Bioactive Natural Alkaloids. ChemistrySelect 2022. [DOI: 10.1002/slct.202104281] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
Affiliation(s)
- Amit Kumar
- Medicinal and Process Chemistry Division CSIR-Central Drug Research Institute, Jankipuram Extension Lucknow 226031 UP India
| | - Sandeep Bhattacherjee
- Medicinal and Process Chemistry Division CSIR-Central Drug Research Institute, Jankipuram Extension Lucknow 226031 UP India
| | - Asha Ganesher
- Medicinal and Process Chemistry Division CSIR-Central Drug Research Institute, Jankipuram Extension Lucknow 226031 UP India
| | - Srinivas Lavanya Kumar Manda
- Medicinal and Process Chemistry Division CSIR-Central Drug Research Institute, Jankipuram Extension Lucknow 226031 UP India
| | - Arpita Banerjee
- Medicinal and Process Chemistry Division CSIR-Central Drug Research Institute, Jankipuram Extension Lucknow 226031 UP India
| | - Gautam Panda
- Medicinal and Process Chemistry Division CSIR-Central Drug Research Institute, Jankipuram Extension Lucknow 226031 UP India
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4
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Shuvalov VY, Samsonenko AL, Rozhkova YS, Morozov VV, Shklyaev YV, Fisyuk AS. Synthesis of 3‐Aminopyrido[2,1‐
a
]isoquinolin‐4‐one Derivatives
via
Condensation of Azlactones with 1‐Alkyl‐3,4‐dihydroisoquinolines. ChemistrySelect 2021. [DOI: 10.1002/slct.202103028] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Affiliation(s)
- Vladislav Yu. Shuvalov
- Laboratory of New Organic Materials Omsk State Technical University 11 Mira Ave. 644050 Omsk Russian Federation
| | - Anna L. Samsonenko
- Department Department of Organic Chemistry Omsk F. M. Dostoevsky State University 55a Mira Ave. 644077 Omsk Russian Federation
| | - Yuliya S. Rozhkova
- Institute of Technical Chemistry UB RAS 3 Akademika Korolyeva St. 614013 Perm Russian Federation
| | - Vyacheslav V. Morozov
- Institute of Technical Chemistry UB RAS 3 Akademika Korolyeva St. 614013 Perm Russian Federation
| | - Yurii V. Shklyaev
- Institute of Technical Chemistry UB RAS 3 Akademika Korolyeva St. 614013 Perm Russian Federation
| | - Alexander S. Fisyuk
- Department Department of Organic Chemistry Omsk F. M. Dostoevsky State University 55a Mira Ave. 644077 Omsk Russian Federation
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Banerjee A, Panda G. Total synthesis of selected bioactive alkaloids, their structure–function relationships and molecular target interactions: A comparative synthetic analysis of tryptophan originated chiral pool approaches vs other synthons. RESULTS IN CHEMISTRY 2021. [DOI: 10.1016/j.rechem.2021.100215] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022] Open
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Idrees M, Mohammad AR, Karodia N, Rahman A. Multimodal Role of Amino Acids in Microbial Control and Drug Development. Antibiotics (Basel) 2020; 9:E330. [PMID: 32560458 PMCID: PMC7345125 DOI: 10.3390/antibiotics9060330] [Citation(s) in RCA: 32] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/06/2020] [Revised: 06/09/2020] [Accepted: 06/16/2020] [Indexed: 12/16/2022] Open
Abstract
Amino acids are ubiquitous vital biomolecules found in all kinds of living organisms including those in the microbial world. They are utilised as nutrients and control many biological functions in microorganisms such as cell division, cell wall formation, cell growth and metabolism, intermicrobial communication (quorum sensing), and microbial-host interactions. Amino acids in the form of enzymes also play a key role in enabling microbes to resist antimicrobial drugs. Antimicrobial resistance (AMR) and microbial biofilms are posing a great threat to the world's human and animal population and are of prime concern to scientists and medical professionals. Although amino acids play an important role in the development of microbial resistance, they also offer a solution to the very same problem i.e., amino acids have been used to develop antimicrobial peptides as they are highly effective and less prone to microbial resistance. Other important applications of amino acids include their role as anti-biofilm agents, drug excipients, drug solubility enhancers, and drug adjuvants. This review aims to explore the emerging paradigm of amino acids as potential therapeutic moieties.
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Affiliation(s)
- Muhammad Idrees
- Faculty of Science and Technology, University of Wolverhampton, Wolverhampton WV1 1LY, UK; (M.I.); (N.K.)
| | | | - Nazira Karodia
- Faculty of Science and Technology, University of Wolverhampton, Wolverhampton WV1 1LY, UK; (M.I.); (N.K.)
| | - Ayesha Rahman
- Faculty of Science and Technology, University of Wolverhampton, Wolverhampton WV1 1LY, UK; (M.I.); (N.K.)
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Smolobochkin AV, Turmanov RA, Gazizov AS, Kuznetsova EA, Burilov AR, Pudovik MA. Reaction of N-(4,4-Diethoxybutyl)phosphamides with Chloro(diphenyl)phosphine. Synthesis of 2-(Diphenylphosphoryl)pyrrolidines. RUSSIAN JOURNAL OF ORGANIC CHEMISTRY 2020. [DOI: 10.1134/s107042802006024x] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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8
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Lin Q, Hu B, Xu X, Dong S, Liu X, Feng X. Chiral N, N'-dioxide/Mg(OTf) 2 complex-catalyzed asymmetric [2,3]-rearrangement of in situ generated ammonium salts. Chem Sci 2020; 11:3068-3073. [PMID: 34122811 PMCID: PMC8157646 DOI: 10.1039/c9sc06342k] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/16/2019] [Accepted: 02/18/2020] [Indexed: 11/21/2022] Open
Abstract
Catalytic enantioselective [2,3]-rearrangements of in situ generated ammonium ylides from glycine pyrazoleamides and allyl bromides were achieved by employing a chiral N,N'-dioxide/MgII complex as the catalyst. This protocol provided a facile and efficient synthesis route to a series of anti-α-amino acid derivatives in good yields with high stereoselectivities. Moreover, a possible catalytic cycle was proposed to illustrate the reaction process and the origin of stereoselectivity.
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Affiliation(s)
- Qianchi Lin
- Key Laboratory of Green Chemistry & Technology, Ministry of Education, College of Chemistry, Sichuan University Chengdu 610064 China
| | - Bowen Hu
- Key Laboratory of Green Chemistry & Technology, Ministry of Education, College of Chemistry, Sichuan University Chengdu 610064 China
| | - Xi Xu
- Key Laboratory of Green Chemistry & Technology, Ministry of Education, College of Chemistry, Sichuan University Chengdu 610064 China
| | - Shunxi Dong
- Key Laboratory of Green Chemistry & Technology, Ministry of Education, College of Chemistry, Sichuan University Chengdu 610064 China
| | - Xiaohua Liu
- Key Laboratory of Green Chemistry & Technology, Ministry of Education, College of Chemistry, Sichuan University Chengdu 610064 China
| | - Xiaoming Feng
- Key Laboratory of Green Chemistry & Technology, Ministry of Education, College of Chemistry, Sichuan University Chengdu 610064 China
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9
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Kumar Manda SL, Tripathi S, Ghoshal A, Ambule MD, Srivastava AK, Panda G. A Comparative Synthetic Strategy Perspective on α-Amino Acid- and Non-Amino Acid-Derived Synthons towards Total Syntheses of Selected Natural Macrolides. Chemistry 2020; 26:5131-5156. [PMID: 31846112 DOI: 10.1002/chem.201904564] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/05/2019] [Revised: 11/19/2019] [Indexed: 12/29/2022]
Abstract
Macrocyclic alkaloids (macrolides) and cyclopeptides have an immense range of applications in drug discovery research because of their natural abundance and potential biological and physicochemical properties. Presently, more than 100 approved drugs or clinical drug candidates contain macrocyclic scaffolds as the biologically active component. This review provides an interesting perspective about the use of amino acid-derived chiral pools versus other methods derived from miscellaneous synthons towards the total synthesis of non-peptidic macrolides. The synthetic routes and the key strategies involved in the total syntheses of ten natural macrolides have been discussed. Both the amino acid-derived and non-amino acid-derived synthetic routes have been illustrated to present a comparative study between the two approaches.
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Affiliation(s)
- Srinivas Lavanya Kumar Manda
- Division of Medicinal and Process Chemistry, CSIR-Central Drug Research Institute, Sector-10, Jankipuram Extension, Lucknow, 226031, India.,Chemical Sciences Division, Academy of Scientific and Innovative Research (AcSIR), New Delhi, 110025, India
| | - Shashank Tripathi
- Division of Medicinal and Process Chemistry, CSIR-Central Drug Research Institute, Sector-10, Jankipuram Extension, Lucknow, 226031, India.,Chemical Sciences Division, Academy of Scientific and Innovative Research (AcSIR), New Delhi, 110025, India
| | - Anirban Ghoshal
- Division of Medicinal and Process Chemistry, CSIR-Central Drug Research Institute, Sector-10, Jankipuram Extension, Lucknow, 226031, India.,Chemical Sciences Division, Academy of Scientific and Innovative Research (AcSIR), New Delhi, 110025, India
| | - Mayur D Ambule
- Division of Medicinal and Process Chemistry, CSIR-Central Drug Research Institute, Sector-10, Jankipuram Extension, Lucknow, 226031, India.,Chemical Sciences Division, Academy of Scientific and Innovative Research (AcSIR), New Delhi, 110025, India
| | - Ajay Kumar Srivastava
- Division of Medicinal and Process Chemistry, CSIR-Central Drug Research Institute, Sector-10, Jankipuram Extension, Lucknow, 226031, India.,Chemical Sciences Division, Academy of Scientific and Innovative Research (AcSIR), New Delhi, 110025, India
| | - Gautam Panda
- Division of Medicinal and Process Chemistry, CSIR-Central Drug Research Institute, Sector-10, Jankipuram Extension, Lucknow, 226031, India.,Chemical Sciences Division, Academy of Scientific and Innovative Research (AcSIR), New Delhi, 110025, India
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Arimitsu S, Oshiro K, Endo K, Gima E, Poorsadeghi S. Preparation of Enantiomerically Pure β,β‐Diaryl β‐Hydroxy‐α‐Amino Acids and Evaluation of Their Potential as Organocatalysts. ASIAN J ORG CHEM 2020. [DOI: 10.1002/ajoc.201900694] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
Affiliation(s)
- Satoru Arimitsu
- Department of Chemistry Biology and Marine ScienceUniversity of the Ryukyus 1 Senbaru, Nakagami Nishihara, Okinawa 903-0123 Japan
| | - Koki Oshiro
- Department of Chemistry Biology and Marine ScienceUniversity of the Ryukyus 1 Senbaru, Nakagami Nishihara, Okinawa 903-0123 Japan
| | - Katsuki Endo
- Department of Chemistry Biology and Marine ScienceUniversity of the Ryukyus 1 Senbaru, Nakagami Nishihara, Okinawa 903-0123 Japan
| | - Emi Gima
- Department of Chemistry Biology and Marine ScienceUniversity of the Ryukyus 1 Senbaru, Nakagami Nishihara, Okinawa 903-0123 Japan
| | - Samira Poorsadeghi
- Department of Chemistry Biology and Marine ScienceUniversity of the Ryukyus 1 Senbaru, Nakagami Nishihara, Okinawa 903-0123 Japan
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