1
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Ly HM, Desgagné M, Nguyen DT, Comeau C, Froehlich U, Marsault É, Boudreault PL. Insights on Structure-Passive Permeability Relationship in Pyrrole and Furan-Containing Macrocycles. J Med Chem 2024; 67:3711-3726. [PMID: 38417040 PMCID: PMC10946398 DOI: 10.1021/acs.jmedchem.3c02162] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/18/2023] [Revised: 12/19/2023] [Accepted: 01/11/2024] [Indexed: 03/01/2024]
Abstract
Macrocycles have recognized therapeutic potential, but their limited cellular permeability can hinder their development as oral drugs. To better understand the structure-permeability relationship of heterocycle-containing, semipeptidic macrocycles, a library was synthesized. These compounds were created by developing two novel reactions described herein: the reduction of activated oximes by LiBH4 and the aqueous reductive mono-N-alkylation of aldehydes using catalytic SmI2 and stoichiometric Zn. The permeability of the macrocycles was evaluated through a parallel artificial membrane permeability assay (PAMPA), and the results indicated that macrocycles with a furan incorporated into the structure have better passive permeability than those with a pyrrole moiety. Compounds bearing a 2,5-disubstituted pyrrole (endo orientation) were shown to be implicated in intramolecular H-bonds, enhancing their permeability. This study highlighted the impact of heterocycles moieties in semipeptides, creating highly permeable macrocycles, thus showing promising avenues for passive diffusion of drugs beyond the rule-of-five chemical space.
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Affiliation(s)
- Huy M Ly
- Département de Pharmacologie-Physiologie, Institut de Pharmacologie de Sherbrooke, Université de Sherbrooke, 3001 12e ave Nord, Sherbrooke, QC J1H5N4, Canada
| | - Michael Desgagné
- Département de Pharmacologie-Physiologie, Institut de Pharmacologie de Sherbrooke, Université de Sherbrooke, 3001 12e ave Nord, Sherbrooke, QC J1H5N4, Canada
| | - Duc Tai Nguyen
- Département de Pharmacologie-Physiologie, Institut de Pharmacologie de Sherbrooke, Université de Sherbrooke, 3001 12e ave Nord, Sherbrooke, QC J1H5N4, Canada
| | - Christian Comeau
- Département de Pharmacologie-Physiologie, Institut de Pharmacologie de Sherbrooke, Université de Sherbrooke, 3001 12e ave Nord, Sherbrooke, QC J1H5N4, Canada
| | - Ulrike Froehlich
- Département de Pharmacologie-Physiologie, Institut de Pharmacologie de Sherbrooke, Université de Sherbrooke, 3001 12e ave Nord, Sherbrooke, QC J1H5N4, Canada
| | - Éric Marsault
- Département de Pharmacologie-Physiologie, Institut de Pharmacologie de Sherbrooke, Université de Sherbrooke, 3001 12e ave Nord, Sherbrooke, QC J1H5N4, Canada
| | - Pierre-Luc Boudreault
- Département de Pharmacologie-Physiologie, Institut de Pharmacologie de Sherbrooke, Université de Sherbrooke, 3001 12e ave Nord, Sherbrooke, QC J1H5N4, Canada
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2
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Lee D, Choi J, Yang MJ, Park CJ, Seo J. Controlling the Chameleonic Behavior and Membrane Permeability of Cyclosporine Derivatives via Backbone and Side Chain Modifications. J Med Chem 2023; 66:13189-13204. [PMID: 37718494 DOI: 10.1021/acs.jmedchem.3c01140] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 09/19/2023]
Abstract
Some macrocycles exhibit enhanced membrane permeability through conformational switching in different environmental polarities, a trait known as chameleonic behavior. In this study, we demonstrate specific backbone and side chain modifications that can control chameleonic behavior and passive membrane permeability using a cyclosporin O (CsO) scaffold. To quantify chameleonic behavior, we used a ratio of the population of the closed conformation obtained in polar solvent and nonpolar solvent for each CsO derivative. We found that β-hydroxylation at position 1 (1 and 3) can encode chameleonicity and improve permeability. However, the conformational stabilization induced by adding an additional transannular H-bond (2 and 5) leads to a much slower rate of membrane permeation. Our CsO scaffold provides a platform for the systematic study of the relationship among conformation, membrane permeability, solubility, and protein binding. This knowledge contributes to the discovery of potent beyond the rule of five (bRo5) macrocycles capable of targeting undruggable targets.
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Affiliation(s)
- Dongjae Lee
- Department of Chemistry, Gwangju Institute of Science and Technology, Gwangju 61005, Republic of Korea
| | - Jieun Choi
- Department of Chemistry, Gwangju Institute of Science and Technology, Gwangju 61005, Republic of Korea
| | - Min June Yang
- Department of Chemistry, Gwangju Institute of Science and Technology, Gwangju 61005, Republic of Korea
| | - Chin-Ju Park
- Department of Chemistry, Gwangju Institute of Science and Technology, Gwangju 61005, Republic of Korea
| | - Jiwon Seo
- Department of Chemistry, Gwangju Institute of Science and Technology, Gwangju 61005, Republic of Korea
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3
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Vasco AV, Ceballos LG, Wessjohann LA, Rivera DG. Multicomponent Functionalization of the Octreotide Peptide Macrocyclic Scaffold. European J Org Chem 2022. [DOI: 10.1002/ejoc.202200687] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Affiliation(s)
- Aldrin V. Vasco
- Leibniz Institute of Plant Biochemistry: Leibniz-Institut fur Pflanzenbiochemie Bioorganic Chemistry GERMANY
| | | | - Ludger A. Wessjohann
- Leibniz Institute of Plant Biochemistry: Leibniz-Institut fur Pflanzenbiochemie Bioorganic Chemistry GERMANY
| | - Daniel García Rivera
- Universidad de la Habana Laboratory of Synthetic and Biomolecular Chemistry Zapata y G 10400 La Habana CUBA
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4
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Bohle F, Grimme S. Hydrocarbon Macrocycle Conformer Ensembles and 13 C-NMR Spectra. Angew Chem Int Ed Engl 2022; 61:e202113905. [PMID: 35099097 PMCID: PMC9303527 DOI: 10.1002/anie.202113905] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/13/2021] [Indexed: 12/27/2022]
Abstract
NMR as a routine analytical method provides important three-dimensional structure information of compounds in solution. Here we apply the recently released CRENSO computational workflow for the automated generation of conformer ensembles to the quantum mechanical calculation of 13 C-NMR spectra of a series of flexible cycloalkanes up to C20 H40 . We evaluate the computed chemical shifts in comparison with corresponding experimental data in chloroform. It is shown that accurate and properly averaged theoretical NMR data can be obtained in about a day of computation time on a standard workstation computer. The excellent agreement between theory and experiment enables one to deduce preferred conformations of large, non-rigid macrocycles under ambient conditions from our automated procedure.
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Affiliation(s)
- Fabian Bohle
- Mulliken Center for Theoretical Chemistry, Rheinische Friedrich-Wilhelms-Universität Bonn, Beringstr. 4, 53115, Bonn, Germany
| | - Stefan Grimme
- Mulliken Center for Theoretical Chemistry, Rheinische Friedrich-Wilhelms-Universität Bonn, Beringstr. 4, 53115, Bonn, Germany
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5
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Taechalertpaisarn J, Ono S, Okada O, Johnstone TC, Scott Lokey R. A New Amino Acid for Improving Permeability and Solubility in Macrocyclic Peptides through Side Chain-to-Backbone Hydrogen Bonding. J Med Chem 2022; 65:5072-5084. [PMID: 35275623 PMCID: PMC10681114 DOI: 10.1021/acs.jmedchem.2c00010] [Citation(s) in RCA: 15] [Impact Index Per Article: 7.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Abstract
Despite the notoriously poor membrane permeability of peptides, many cyclic peptide natural products show high passive membrane permeability and potently inhibit a variety of "undruggable" intracellular targets. A major impediment to the design of cyclic peptides with good permeability is the high desolvation energy associated with the peptide backbone amide NH groups. While several strategies have been proposed to mitigate this deleterious effect, only few studies have used polar side chains to sequester backbone NH groups. We investigated the ability of N,N-pyrrolidinylglutamine (Pye), whose side chain contains a powerful hydrogen-bond-accepting C═O amide group but no hydrogen-bond donors, to sequester exposed backbone NH groups in a series of cyclic hexapeptide diastereomers. Analyses revealed that specific Leu-to-Pye substitutions conferred dramatic improvements in aqueous solubility and permeability in a scaffold- and position-dependent manner. Therefore, this approach offers a complementary tool for improving membrane permeability and solubility in cyclic peptides.
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Affiliation(s)
- Jaru Taechalertpaisarn
- Department of Chemistry and Biochemistry, University of California, Santa Cruz, 1156 High Street, Santa Cruz, California 95064, United States
| | - Satoshi Ono
- Modality Laboratories, Innovative Research Division, Mitsubishi Tanabe Pharma Corporation, 1000 Kamoshidacho, Aoba-ku, Yokohama, Kanagawa 227-0033, Japan
| | - Okimasa Okada
- Modality Laboratories, Innovative Research Division, Mitsubishi Tanabe Pharma Corporation, 1000 Kamoshidacho, Aoba-ku, Yokohama, Kanagawa 227-0033, Japan
| | - Timothy C. Johnstone
- Department of Chemistry and Biochemistry, University of California, Santa Cruz, 1156 High Street, Santa Cruz, California 95064, United States
| | - R. Scott Lokey
- Department of Chemistry and Biochemistry, University of California, Santa Cruz, 1156 High Street, Santa Cruz, California 95064, United States
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6
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Bohle F, Grimme S. Hydrocarbon Macrocycle Conformer Ensembles and
13
C‐NMR Spectra. Angew Chem Int Ed Engl 2022. [DOI: 10.1002/ange.202113905] [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)
- Fabian Bohle
- Mulliken Center for Theoretical Chemistry Rheinische Friedrich-Wilhelms-Universität Bonn Beringstr. 4 53115 Bonn Germany
| | - Stefan Grimme
- Mulliken Center for Theoretical Chemistry Rheinische Friedrich-Wilhelms-Universität Bonn Beringstr. 4 53115 Bonn Germany
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7
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Kobori S, Huh S, Appavoo SD, Yudin AK. Two-Dimensional Barriers for Probing Conformational Shifts in Macrocycles. J Am Chem Soc 2021; 143:5166-5171. [PMID: 33754700 DOI: 10.1021/jacs.1c01248] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
Abstract
We describe the development and use of composite two-dimensional barriers in macrocyclic backbones. These tunable constructs derive their mode of action from heterocyclic rearrangements. The Boulton-Katritzky reaction has been identified as a particularly versatile means to effect a composite barrier, allowing the examination of the influence of heterocycle translocation on conformation. Kinetic studies using 1H NMR have revealed that the in-plane atom movement is fast in 17, 18, 19-membered rings but slows down in 16-membered rings. The analysis by NMR and MD simulation experiments is consistent with the maintenance of rare cis-amide motifs during conformational interconversion. Taken together, our investigation demonstrates that heterocyclic rearrangement reactions can be used to control macrocyclic backbones and provides fundamental insights that may be applicable to the development of a wide range of other conformational control elements.
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Affiliation(s)
- Shinya Kobori
- Davenport Research Laboratories, Department of Chemistry, University of Toronto, 80 St. George Street, Toronto, Ontario Canada, M5S 3H6
| | - Sungjoon Huh
- Davenport Research Laboratories, Department of Chemistry, University of Toronto, 80 St. George Street, Toronto, Ontario Canada, M5S 3H6
| | - Solomon D Appavoo
- Davenport Research Laboratories, Department of Chemistry, University of Toronto, 80 St. George Street, Toronto, Ontario Canada, M5S 3H6
| | - Andrei K Yudin
- Davenport Research Laboratories, Department of Chemistry, University of Toronto, 80 St. George Street, Toronto, Ontario Canada, M5S 3H6
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8
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Buckton LK, Rahimi MN, McAlpine SR. Cyclic Peptides as Drugs for Intracellular Targets: The Next Frontier in Peptide Therapeutic Development. Chemistry 2020; 27:1487-1513. [PMID: 32875673 DOI: 10.1002/chem.201905385] [Citation(s) in RCA: 81] [Impact Index Per Article: 20.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/27/2019] [Revised: 08/26/2020] [Indexed: 12/18/2022]
Abstract
Developing macrocyclic peptides that can reach intracellular targets is a significant challenge. This review discusses the most recent strategies used to develop cell permeable cyclic peptides that maintain binding to their biological target inside the cell. Macrocyclic peptides are unique from small molecules because traditional calculated physical properties are unsuccessful for predicting cell membrane permeability. Peptide synthesis and experimental membrane permeability is the only strategy that effectively differentiates between cell permeable and cell impermeable molecules. Discussed are chemical strategies, including backbone N-methylation and stereochemical changes, which have produced molecular scaffolds with improved cell permeability. However, these improvements often come at the expense of biological activity as chemical modifications alter the peptide conformation, frequently impacting the compound's ability to bind to the target. Highlighted is the most promising approach, which involves side-chain alterations that improve cell permeability without impact binding events.
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Affiliation(s)
- Laura K Buckton
- Department of Chemistry, University of New South Wales, Sydney, Gate 2 High Street, SEB 701, Kensington, NSW, 2052, Australia
| | - Marwa N Rahimi
- Department of Chemistry, University of New South Wales, Sydney, Gate 2 High Street, SEB 701, Kensington, NSW, 2052, Australia
| | - Shelli R McAlpine
- Department of Chemistry, University of New South Wales, Sydney, Gate 2 High Street, SEB 701, Kensington, NSW, 2052, Australia
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9
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Jwad R, Weissberger D, Hunter L. Strategies for Fine-Tuning the Conformations of Cyclic Peptides. Chem Rev 2020; 120:9743-9789. [PMID: 32786420 DOI: 10.1021/acs.chemrev.0c00013] [Citation(s) in RCA: 66] [Impact Index Per Article: 16.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Abstract
Cyclic peptides are promising scaffolds for drug development, attributable in part to their increased conformational order compared to linear peptides. However, when optimizing the target-binding or pharmacokinetic properties of cyclic peptides, it is frequently necessary to "fine-tune" their conformations, e.g., by imposing greater rigidity, by subtly altering certain side chain vectors, or by adjusting the global shape of the macrocycle. This review systematically examines the various types of structural modifications that can be made to cyclic peptides in order to achieve such conformational control.
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Affiliation(s)
- Rasha Jwad
- Department of Chemistry, College of Science, Al-Nahrain University, Baghdad, Iraq
| | - Daniel Weissberger
- School of Chemistry, University of New South Wales (UNSW) Sydney, New South Wales 2052, Australia
| | - Luke Hunter
- School of Chemistry, University of New South Wales (UNSW) Sydney, New South Wales 2052, Australia
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10
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Dókus LE, Yousef M, Bánóczi Z. Modulators of calpain activity: inhibitors and activators as potential drugs. Expert Opin Drug Discov 2020; 15:471-486. [DOI: 10.1080/17460441.2020.1722638] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022]
Affiliation(s)
- Levente Endre Dókus
- Department of Organic Chemistry, Institute of Chemistry, Eötvös Loránd University, Budapest, Hungary
| | - Mo’ath Yousef
- Department of Organic Chemistry, Institute of Chemistry, Eötvös Loránd University, Budapest, Hungary
| | - Zoltán Bánóczi
- Department of Organic Chemistry, Institute of Chemistry, Eötvös Loránd University, Budapest, Hungary
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11
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Ricardo MG, Moya CG, Pérez CS, Porzel A, Wessjohann LA, Rivera DG. Improved Stability and Tunable Functionalization of Parallel β-Sheets via Multicomponent N-Alkylation of the Turn Moiety. Angew Chem Int Ed Engl 2020; 59:259-263. [PMID: 31797518 PMCID: PMC6973259 DOI: 10.1002/anie.201912095] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/21/2019] [Indexed: 01/13/2023]
Abstract
In contrast to the myriad of methods available to produce α-helices and antiparallel β-sheets in synthetic peptides, just a few are known for the construction of stable, non-cyclic parallel β-sheets. Herein, we report an efficient on-resin approach for the assembly of parallel β-sheet peptides in which the N-alkylated turn moiety enhances the stability and gives access to a variety of functionalizations without modifying the parallel strands. The key synthetic step of this strategy is the multicomponent construction of an N-alkylated turn using the Ugi reaction on varied isocyano-resins. This four-component process assembles the orthogonally protected turn fragment and incorporates handles serving for labeling/conjugation purposes or for reducing peptide aggregation. NMR and circular dichroism analyses confirm the better-structured and more stable parallel β-sheets in the N-alkylated peptides compared to the non-functionalized variants.
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Affiliation(s)
- Manuel G. Ricardo
- Department of Bioorganic ChemistryLeibniz Institute of Plant BiochemistryWeinberg 306120Halle/SaaleGermany
- Faculty of ChemistryUniversity of Havana10400HavanaCuba
| | - Celia G. Moya
- Faculty of ChemistryUniversity of Havana10400HavanaCuba
| | | | - Andrea Porzel
- Department of Bioorganic ChemistryLeibniz Institute of Plant BiochemistryWeinberg 306120Halle/SaaleGermany
| | - Ludger A. Wessjohann
- Department of Bioorganic ChemistryLeibniz Institute of Plant BiochemistryWeinberg 306120Halle/SaaleGermany
| | - Daniel G. Rivera
- Department of Bioorganic ChemistryLeibniz Institute of Plant BiochemistryWeinberg 306120Halle/SaaleGermany
- Faculty of ChemistryUniversity of Havana10400HavanaCuba
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12
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Ricardo MG, Moya CG, Pérez CS, Porzel A, Wessjohann LA, Rivera DG. Improved Stability and Tunable Functionalization of Parallel β‐Sheets via Multicomponent N‐Alkylation of the Turn Moiety. Angew Chem Int Ed Engl 2020. [DOI: 10.1002/ange.201912095] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Affiliation(s)
- Manuel G. Ricardo
- Department of Bioorganic Chemistry Leibniz Institute of Plant Biochemistry Weinberg 3 06120 Halle/Saale Germany
- Faculty of Chemistry University of Havana 10400 Havana Cuba
| | - Celia G. Moya
- Faculty of Chemistry University of Havana 10400 Havana Cuba
| | | | - Andrea Porzel
- Department of Bioorganic Chemistry Leibniz Institute of Plant Biochemistry Weinberg 3 06120 Halle/Saale Germany
| | - Ludger A. Wessjohann
- Department of Bioorganic Chemistry Leibniz Institute of Plant Biochemistry Weinberg 3 06120 Halle/Saale Germany
| | - Daniel G. Rivera
- Department of Bioorganic Chemistry Leibniz Institute of Plant Biochemistry Weinberg 3 06120 Halle/Saale Germany
- Faculty of Chemistry University of Havana 10400 Havana Cuba
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13
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Vasco AV, Moya CG, Gröger S, Brandt W, Balbach J, Pérez CS, Wessjohann LA, Rivera DG. Insights into the secondary structures of lactam N-substituted stapled peptides. Org Biomol Chem 2020; 18:3838-3842. [DOI: 10.1039/d0ob00767f] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]
Abstract
NMR and CD studies together with molecular dynamics simulation reveal new insights into the s-cis/s-trans isomerism and the effect of the lactam bridge N-substituent on the secondary structure of stapled peptides.
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Affiliation(s)
- Aldrin V. Vasco
- Department of Bioorganic Chemistry
- Leibniz Institute of Plant Biochemistry
- Halle/Saale
- Germany
| | - Celia G. Moya
- Center for Natural Products Research
- Faculty of Chemistry
- University of Havana
- Havana
- Cuba
| | - Stefan Gröger
- Institute of Physics/Biophysics and Center for Structural and Dynamics of Proteins
- Martin Luther University Halle-Wittenberg
- Germany
| | - Wolfgang Brandt
- Department of Bioorganic Chemistry
- Leibniz Institute of Plant Biochemistry
- Halle/Saale
- Germany
| | - Jochen Balbach
- Institute of Physics/Biophysics and Center for Structural and Dynamics of Proteins
- Martin Luther University Halle-Wittenberg
- Germany
| | - Carlos S. Pérez
- Center for Natural Products Research
- Faculty of Chemistry
- University of Havana
- Havana
- Cuba
| | - Ludger A. Wessjohann
- Department of Bioorganic Chemistry
- Leibniz Institute of Plant Biochemistry
- Halle/Saale
- Germany
| | - Daniel G. Rivera
- Department of Bioorganic Chemistry
- Leibniz Institute of Plant Biochemistry
- Halle/Saale
- Germany
- Center for Natural Products Research
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14
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Ricardo MG, Vasco AV, Rivera DG, Wessjohann LA. Stabilization of Cyclic β-Hairpins by Ugi-Reaction-Derived N-Alkylated Peptides: The Quest for Functionalized β-Turns. Org Lett 2019; 21:7307-7310. [PMID: 31482710 DOI: 10.1021/acs.orglett.9b02592] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/16/2023]
Abstract
A solid-phase approach including on-resin Ugi reactions was developed for the construction of β-hairpins. Various N-alkylated dipeptide fragments proved capable of aligning antiparallel β-sheets in a macrocyclic scaffold, thus serving as β-hairpin templates. Gramicidin S was used as the model β-hairpin to compare the Ugi-derived β-turns with the type-II' β-turn. The results show that the multicomponent incorporation of such N-alkylated residues allows for the simultaneous stabilization and exo-cyclic functionalization of cyclic β-hairpins.
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Affiliation(s)
- Manuel G Ricardo
- Department of Bioorganic Chemistry , Leibniz Institute of Plant Biochemistry , Weinberg 3 , 06120 Halle/Saale , Germany.,Center for Natural Products Research, Faculty of Chemistry , University of Havana , Zapata y G , Havana 10400 , Cuba
| | - Aldrin V Vasco
- Department of Bioorganic Chemistry , Leibniz Institute of Plant Biochemistry , Weinberg 3 , 06120 Halle/Saale , Germany
| | - Daniel G Rivera
- Department of Bioorganic Chemistry , Leibniz Institute of Plant Biochemistry , Weinberg 3 , 06120 Halle/Saale , Germany.,Center for Natural Products Research, Faculty of Chemistry , University of Havana , Zapata y G , Havana 10400 , Cuba
| | - Ludger A Wessjohann
- Department of Bioorganic Chemistry , Leibniz Institute of Plant Biochemistry , Weinberg 3 , 06120 Halle/Saale , Germany
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15
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Appavoo SD, Huh S, Diaz DB, Yudin AK. Conformational Control of Macrocycles by Remote Structural Modification. Chem Rev 2019; 119:9724-9752. [DOI: 10.1021/acs.chemrev.8b00742] [Citation(s) in RCA: 58] [Impact Index Per Article: 11.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Solomon D. Appavoo
- Davenport Research Laboratories, Department of Chemistry, University of Toronto, 80 Saint George Street, Toronto, Ontario, Canada M5S 3H6
| | - Sungjoon Huh
- Davenport Research Laboratories, Department of Chemistry, University of Toronto, 80 Saint George Street, Toronto, Ontario, Canada M5S 3H6
| | - Diego B. Diaz
- Davenport Research Laboratories, Department of Chemistry, University of Toronto, 80 Saint George Street, Toronto, Ontario, Canada M5S 3H6
| | - Andrei K. Yudin
- Davenport Research Laboratories, Department of Chemistry, University of Toronto, 80 Saint George Street, Toronto, Ontario, Canada M5S 3H6
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16
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Liras S, Mcclure KF. Permeability of Cyclic Peptide Macrocycles and Cyclotides and Their Potential as Therapeutics. ACS Med Chem Lett 2019; 10:1026-1032. [PMID: 31312403 DOI: 10.1021/acsmedchemlett.9b00149] [Citation(s) in RCA: 17] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/02/2019] [Accepted: 06/14/2019] [Indexed: 12/15/2022] Open
Abstract
Macrocycles have emerged as a viable approach for the modulation of tough targets in drug discovery. In this Innovations article we discuss recent progress toward the design of cell permeable and orally bioavailable peptide macrocycles and cyclotides and provide a perspective for their potential as therapeutics. We highlight design concepts that may be broadly relevant to drug discovery efforts beyond the rule of five.
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Affiliation(s)
- Spiros Liras
- Biogen Inc., 225 Binney Street, Cambridge, Massachusetts 02142, United States
| | - Kim F. Mcclure
- Pinteon Therapeutics, 1188 Centre Street, Newton Centre, Massachusetts 02549, United States
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17
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Reguera L, Rivera DG. Multicomponent Reaction Toolbox for Peptide Macrocyclization and Stapling. Chem Rev 2019; 119:9836-9860. [PMID: 30990310 DOI: 10.1021/acs.chemrev.8b00744] [Citation(s) in RCA: 188] [Impact Index Per Article: 37.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Abstract
In the past decade, multicomponent reactions have experienced a renaissance as powerful peptide macrocyclization tools enabling the rapid creation of skeletal complexity and diversity with low synthetic cost. This review provides both a historical and modern overview of the development of the peptide multicomponent macrocyclization as a strategy capable to compete with the classic peptide cyclization methods in terms of chemical efficiency and synthetic scope. We prove that the utilization of multicomponent reactions for cyclizing peptides by either their termini or side chains provides a key advantage over those more established methods; that is, the possibility to explore the cyclic peptide chemotype space not only at the amino acid sequence but also at the ring-forming moiety. Owing to its multicomponent nature, this type of peptide cyclization process is well-suited to generate diversity at both the endo- and exo-cyclic fragments formed during the ring-closing step, which stands as a distinctive and useful characteristic for the creation and screening of cyclic peptide libraries. Examples of the novel multicomponent peptide stapling approach and heterocycle ring-forming macrocyclizations are included, along with multicomponent methods incorporating macrocyclization handles and the one-pot syntheses of macromulticyclic peptide cages. Interesting applications of this strategy in the field of drug discovery and chemical biology are provided.
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Affiliation(s)
- Leslie Reguera
- Center for Natural Product Research, Faculty of Chemistry , University of Havana , Zapata y G , Havana 10400 , Cuba
| | - Daniel G Rivera
- Center for Natural Product Research, Faculty of Chemistry , University of Havana , Zapata y G , Havana 10400 , Cuba
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18
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Yamaguchi A, Kaldas SJ, Appavoo SD, Diaz DB, Yudin AK. Conformationally stable peptide macrocycles assembled using the Petasis borono-Mannich reaction. Chem Commun (Camb) 2019; 55:10567-10570. [DOI: 10.1039/c9cc05934b] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
Abstract
Synthesis and the structural analysis of conformationally stable peptide macrocycles assembled using the Petasis borono-Mannich reaction are reported.
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Affiliation(s)
- Akitake Yamaguchi
- Davenport Research Laboratories
- Department of Chemistry, University of Toronto
- Toronto
- Canada
| | - Sherif J. Kaldas
- Davenport Research Laboratories
- Department of Chemistry, University of Toronto
- Toronto
- Canada
| | - Solomon D. Appavoo
- Davenport Research Laboratories
- Department of Chemistry, University of Toronto
- Toronto
- Canada
| | - Diego B. Diaz
- Davenport Research Laboratories
- Department of Chemistry, University of Toronto
- Toronto
- Canada
| | - Andrei K. Yudin
- Davenport Research Laboratories
- Department of Chemistry, University of Toronto
- Toronto
- Canada
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19
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Räder AFB, Weinmüller M, Reichart F, Schumacher-Klinger A, Merzbach S, Gilon C, Hoffman A, Kessler H. Orally Active Peptides: Is There a Magic Bullet? Angew Chem Int Ed Engl 2018; 57:14414-14438. [DOI: 10.1002/anie.201807298] [Citation(s) in RCA: 78] [Impact Index Per Article: 13.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/25/2018] [Indexed: 12/16/2022]
Affiliation(s)
- Andreas F. B. Räder
- Technische Universität München; Department Chemie; Institute for Advanced Study; Lichtenbergstrasse 4 85748 Garching Germany
| | - Michael Weinmüller
- Technische Universität München; Department Chemie; Institute for Advanced Study; Lichtenbergstrasse 4 85748 Garching Germany
| | - Florian Reichart
- Technische Universität München; Department Chemie; Institute for Advanced Study; Lichtenbergstrasse 4 85748 Garching Germany
| | | | - Shira Merzbach
- The Hebrew University of Jerusalem; Institutes of Chemistry and Drug Research; Israel
| | - Chaim Gilon
- The Hebrew University of Jerusalem; Institutes of Chemistry and Drug Research; Israel
| | - Amnon Hoffman
- The Hebrew University of Jerusalem; Institutes of Chemistry and Drug Research; Israel
| | - Horst Kessler
- Technische Universität München; Department Chemie; Institute for Advanced Study; Lichtenbergstrasse 4 85748 Garching Germany
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20
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Räder AFB, Weinmüller M, Reichart F, Schumacher-Klinger A, Merzbach S, Gilon C, Hoffman A, Kessler H. Oral aktive Peptide: Gibt es ein Patentrezept? Angew Chem Int Ed Engl 2018. [DOI: 10.1002/ange.201807298] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Affiliation(s)
- Andreas F. B. Räder
- Technische Universität München; Department Chemie; Institute for Advanced Study; Lichtenbergstraße 4 85748 Garching Deutschland
| | - Michael Weinmüller
- Technische Universität München; Department Chemie; Institute for Advanced Study; Lichtenbergstraße 4 85748 Garching Deutschland
| | - Florian Reichart
- Technische Universität München; Department Chemie; Institute for Advanced Study; Lichtenbergstraße 4 85748 Garching Deutschland
| | | | - Shira Merzbach
- Hebrew University of Jerusalem; Institutes of Chemistry and Drug Research; Israel
| | - Chaim Gilon
- Hebrew University of Jerusalem; Institutes of Chemistry and Drug Research; Israel
| | - Amnon Hoffman
- Hebrew University of Jerusalem; Institutes of Chemistry and Drug Research; Israel
| | - Horst Kessler
- Technische Universität München; Department Chemie; Institute for Advanced Study; Lichtenbergstraße 4 85748 Garching Deutschland
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21
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Belding L, Zaretsky S, Yudin AK, Dudding T. A Mechanistic Model for the Aziridine Aldehyde-Driven Macrocyclization of Peptides. J Org Chem 2018; 83:9119-9124. [PMID: 29966423 DOI: 10.1021/acs.joc.8b01198] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Aziridine aldehyde-driven macrocyclization of peptides is a powerful tool for the construction of biologically active macrocycles. While this process has been used to generate diverse collections of cyclic molecules, its mechanistic underpinnings have remained unclear. To enable progress in this area we have carried out a mechanistic study, which suggests that the cyclization owes its efficiency to a combination of electrostatic attraction between the termini of a nitrilium ion intermediate and intramolecular hydrogen bonding. Our model adequately explains the experimentally observed trends, including diastereoselectivity, and should facilitate the development of other macrocyclization reactions.
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Affiliation(s)
- Lee Belding
- Department of Chemistry , Brock University , St. Catharines , Ontario L2S 3A1 , Canada
| | - Serge Zaretsky
- Department of Chemistry , University of Toronto , Toronto , Ontario M5S 2J7 , Canada
| | - Andrei K Yudin
- Department of Chemistry , University of Toronto , Toronto , Ontario M5S 2J7 , Canada
| | - Travis Dudding
- Department of Chemistry , Brock University , St. Catharines , Ontario L2S 3A1 , Canada
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22
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Appavoo SD, Kaji T, Frost JR, Scully CCG, Yudin AK. Development of Endocyclic Control Elements for Peptide Macrocycles. J Am Chem Soc 2018; 140:8763-8770. [DOI: 10.1021/jacs.8b04412] [Citation(s) in RCA: 38] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/19/2023]
Affiliation(s)
- Solomon D. Appavoo
- Davenport Research Laboratories, Department of Chemistry, University of Toronto, 80 St. George Street, Toronto, Ontario M5S 3H6, Canada
| | - Takuya Kaji
- Davenport Research Laboratories, Department of Chemistry, University of Toronto, 80 St. George Street, Toronto, Ontario M5S 3H6, Canada
| | - John R. Frost
- Davenport Research Laboratories, Department of Chemistry, University of Toronto, 80 St. George Street, Toronto, Ontario M5S 3H6, Canada
| | - Conor C. G. Scully
- Davenport Research Laboratories, Department of Chemistry, University of Toronto, 80 St. George Street, Toronto, Ontario M5S 3H6, Canada
| | - Andrei K. Yudin
- Davenport Research Laboratories, Department of Chemistry, University of Toronto, 80 St. George Street, Toronto, Ontario M5S 3H6, Canada
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23
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Abstract
Artificial macrocycles recently became popular as a novel research field in drug discovery. As opposed to their natural twins, artificial macrocycles promise to have better control on synthesizability and control over their physicochemical properties resulting in druglike properties. Very few synthetic methods allow for the convergent, fast but diverse access to large macrocycles chemical space. One synthetic technology to access artificial macrocycles with potential biological activity, multicomponent reactions, is reviewed here, with a focus on our own work. We believe that synthetic chemists have to acquaint themselves more with structure and activity to leverage the design aspect of their daily work.
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Affiliation(s)
- Eman M M Abdelraheem
- University of Groningen, Department of Drug Design, A. Deusinglaan 1, 9713 AV Groningen, The Netherlands,
- Chemistry Department, Faculty of Science, Sohag University, Sohag, 82524, Egypt
| | - Shabnam Shaabani
- University of Groningen, Department of Drug Design, A. Deusinglaan 1, 9713 AV Groningen, The Netherlands,
| | - Alexander Dömling
- University of Groningen, Department of Drug Design, A. Deusinglaan 1, 9713 AV Groningen, The Netherlands,
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24
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Méndez Y, Chang J, Humpierre AR, Zanuy A, Garrido R, Vasco AV, Pedroso J, Santana D, Rodríguez LM, García-Rivera D, Valdés Y, Vérez-Bencomo V, Rivera DG. Multicomponent polysaccharide-protein bioconjugation in the development of antibacterial glycoconjugate vaccine candidates. Chem Sci 2018; 9:2581-2588. [PMID: 29719713 PMCID: PMC5897956 DOI: 10.1039/c7sc05467j] [Citation(s) in RCA: 37] [Impact Index Per Article: 6.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/26/2017] [Accepted: 01/19/2018] [Indexed: 12/21/2022] Open
Abstract
A new synthetic strategy for the development of multivalent antibacterial glycoconjugate vaccines is described. The approach comprises the utilization of an isocyanide-based multicomponent process for the conjugation of functionalized capsular polysaccharides of S. pneumoniae and S. Typhi to carrier proteins such as diphtheria and tetanus toxoids. For the first time, oxo- and carboxylic acid-functionalized polysaccharides could be either independently or simultaneously conjugated to immunogenic proteins by means of the Ugi-multicomponent reaction, thus leading to mono- or multivalent unimolecular glycoconjugates as vaccine candidates. Despite the high molecular weight of the two or three reacting biomolecules, the multicomponent bioconjugation proved highly efficient and reproducible. The Ugi-derived glycoconjugates showed notable antigenicity and elicited good titers of functional specific antibodies. To our knowledge, this is the only bioconjugation method that enables the incorporation of two different polysaccharidic antigens to a carrier protein in a single step. Applications in the field of self-adjuvanting, eventually anticancer, multicomponent vaccines are foreseeable.
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Affiliation(s)
- Yanira Méndez
- Center for Natural Products Research , Faculty of Chemistry , University of Havana , Zapata y G , Havana 10400 , Cuba .
| | - Janoi Chang
- Finlay Institute of Vaccines , Ave 27 Nr. 19805 , Havana 10600 , Cuba .
| | - Ana R Humpierre
- Center for Natural Products Research , Faculty of Chemistry , University of Havana , Zapata y G , Havana 10400 , Cuba .
| | - Abel Zanuy
- Finlay Institute of Vaccines , Ave 27 Nr. 19805 , Havana 10600 , Cuba .
| | - Raine Garrido
- Finlay Institute of Vaccines , Ave 27 Nr. 19805 , Havana 10600 , Cuba .
| | - Aldrin V Vasco
- Center for Natural Products Research , Faculty of Chemistry , University of Havana , Zapata y G , Havana 10400 , Cuba .
- Department of Bioorganic Chemistry , Leibniz Institute of Plant Biochemistry , Weinberg 3 , 06120 , Halle/Saale , Germany
| | - Jessy Pedroso
- Finlay Institute of Vaccines , Ave 27 Nr. 19805 , Havana 10600 , Cuba .
| | - Darielys Santana
- Finlay Institute of Vaccines , Ave 27 Nr. 19805 , Havana 10600 , Cuba .
| | - Laura M Rodríguez
- Finlay Institute of Vaccines , Ave 27 Nr. 19805 , Havana 10600 , Cuba .
| | | | - Yury Valdés
- Finlay Institute of Vaccines , Ave 27 Nr. 19805 , Havana 10600 , Cuba .
| | | | - Daniel G Rivera
- Center for Natural Products Research , Faculty of Chemistry , University of Havana , Zapata y G , Havana 10400 , Cuba .
- Department of Bioorganic Chemistry , Leibniz Institute of Plant Biochemistry , Weinberg 3 , 06120 , Halle/Saale , Germany
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25
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Kaldas SJ, Yudin AK. Achieving Skeletal Diversity in Peptide Macrocycles through The Use of Heterocyclic Grafts. Chemistry 2018; 24:7074-7082. [DOI: 10.1002/chem.201705418] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/14/2017] [Indexed: 11/11/2022]
Affiliation(s)
- Sherif J. Kaldas
- Davenport Research Laboratories, Department of Chemistry; University of Toronto; 80 St. George St. Toronto ON M5S 3H6 Canada
| | - Andrei K. Yudin
- Davenport Research Laboratories, Department of Chemistry; University of Toronto; 80 St. George St. Toronto ON M5S 3H6 Canada
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26
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Curtin BH, Manoni F, Park J, Sisto LJ, Lam YH, Gravel M, Roulston A, Harran PG. Assembly of Complex Macrocycles by Incrementally Amalgamating Unprotected Peptides with a Designed Four-Armed Insert. J Org Chem 2018; 83:3090-3108. [DOI: 10.1021/acs.joc.7b02958] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Brice H. Curtin
- Department of Chemistry and Biochemistry, University of California Los Angeles, Los Angeles, California 90095, United States
| | - Francesco Manoni
- Department of Chemistry and Biochemistry, University of California Los Angeles, Los Angeles, California 90095, United States
| | - Jiyong Park
- Department of Chemistry and Biochemistry, University of California Los Angeles, Los Angeles, California 90095, United States
| | - Luke J. Sisto
- Department of Chemistry and Biochemistry, University of California Los Angeles, Los Angeles, California 90095, United States
| | - Yu-hong Lam
- Department of Chemistry and Biochemistry, University of California Los Angeles, Los Angeles, California 90095, United States
| | - Michel Gravel
- Laboratory for Therapeutic Development, Rosalind and Morris Goodman Cancer Research Centre and Department of Biochemistry, McGill University, Montreal, Quebec H3G 1Y6, Canada
| | - Anne Roulston
- Laboratory for Therapeutic Development, Rosalind and Morris Goodman Cancer Research Centre and Department of Biochemistry, McGill University, Montreal, Quebec H3G 1Y6, Canada
| | - Patrick G. Harran
- Department of Chemistry and Biochemistry, University of California Los Angeles, Los Angeles, California 90095, United States
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27
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Buckton LK, McAlpine SR. Improving the Cell Permeability of Polar Cyclic Peptides by Replacing Residues with Alkylated Amino Acids, Asparagines, and d-Amino Acids. Org Lett 2018; 20:506-509. [DOI: 10.1021/acs.orglett.7b03363] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Affiliation(s)
- Laura K. Buckton
- School of Chemistry, University of New South Wales, Sydney NSW 2051, Australia
| | - Shelli R. McAlpine
- School of Chemistry, University of New South Wales, Sydney NSW 2051, Australia
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28
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Zaretsky S, Yudin AK. Recent advances in the synthesis of cyclic pseudopeptides. DRUG DISCOVERY TODAY. TECHNOLOGIES 2017; 26:3-10. [PMID: 29249240 DOI: 10.1016/j.ddtec.2017.11.004] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/15/2017] [Accepted: 11/15/2017] [Indexed: 06/07/2023]
Abstract
Constrained peptides pose tremendous value in drug discovery. For example, owing to their large surface areas, they offer novel ways at inhibiting protein-protein interactions. As this field has grown, it has become desirable to introduce non-peptidic functionality into these rings to enable differentiated structure activity relationships and improved pharmacokinetic properties. Recent advances in the synthesis of cyclic pseudopeptides include macrocyclization through cysteine alkylation, multicomponent reactions, decarboxylative couplings, and novel stapling chemistry.
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Affiliation(s)
- Serge Zaretsky
- University of Toronto, Lash Miller Chemical Labs, 80 St. George Street, Toronto, ON M5S 3H6, Canada.
| | - Andrei K Yudin
- University of Toronto, Lash Miller Chemical Labs, 80 St. George Street, Toronto, ON M5S 3H6, Canada.
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29
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Wessjohann LA, Kreye O, Rivera DG. One‐Pot Assembly of Amino Acid Bridged Hybrid Macromulticyclic Cages through Multiple Multicomponent Macrocyclizations. Angew Chem Int Ed Engl 2017. [DOI: 10.1002/ange.201610801] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Affiliation(s)
- Ludger A. Wessjohann
- Department of Bioorganic Chemistry Leibniz Institute of Plant Biochemistry Weinberg 3 06120 Halle/Saale Germany
| | - Oliver Kreye
- Department of Bioorganic Chemistry Leibniz Institute of Plant Biochemistry Weinberg 3 06120 Halle/Saale Germany
| | - Daniel G. Rivera
- Department of Bioorganic Chemistry Leibniz Institute of Plant Biochemistry Weinberg 3 06120 Halle/Saale Germany
- Center for Natural Products Research Faculty of Chemistry University of Havana Zapata y G 10400 La Habana Cuba
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30
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Wessjohann LA, Kreye O, Rivera DG. One‐Pot Assembly of Amino Acid Bridged Hybrid Macromulticyclic Cages through Multiple Multicomponent Macrocyclizations. Angew Chem Int Ed Engl 2017; 56:3501-3505. [DOI: 10.1002/anie.201610801] [Citation(s) in RCA: 36] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/04/2016] [Revised: 01/24/2017] [Indexed: 11/08/2022]
Affiliation(s)
- Ludger A. Wessjohann
- Department of Bioorganic Chemistry Leibniz Institute of Plant Biochemistry Weinberg 3 06120 Halle/Saale Germany
| | - Oliver Kreye
- Department of Bioorganic Chemistry Leibniz Institute of Plant Biochemistry Weinberg 3 06120 Halle/Saale Germany
| | - Daniel G. Rivera
- Department of Bioorganic Chemistry Leibniz Institute of Plant Biochemistry Weinberg 3 06120 Halle/Saale Germany
- Center for Natural Products Research Faculty of Chemistry University of Havana Zapata y G 10400 La Habana Cuba
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31
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Novel nanofibrous electrically conductive scaffolds based on poly(ethylene glycol)s-modified polythiophene and poly(ε-caprolactone) for tissue engineering applications. POLYMER 2016. [DOI: 10.1016/j.polymer.2016.11.012] [Citation(s) in RCA: 35] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/19/2023]
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32
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Frost JR, Scully CCG, Yudin AK. Oxadiazole grafts in peptide macrocycles. Nat Chem 2016; 8:1105-1111. [PMID: 27874866 DOI: 10.1038/nchem.2636] [Citation(s) in RCA: 128] [Impact Index Per Article: 16.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/03/2016] [Accepted: 09/05/2016] [Indexed: 02/08/2023]
Abstract
Synthetic methods that provide control over macrocycle conformation and, at the same time, mitigate the polarity of peptide bonds represent valuable tools for the discovery of new bioactive molecules. Here, we report a macrocyclization reaction between a linear peptide, an aldehyde and (N-isocyanimino)triphenylphosphorane. This process generates head-to-tail cyclic peptidomimetics in a single step. This method is tolerant to variation in the peptide and aldehyde components and has been applied for the synthesis of 15-, 18-, 21- and 24-membered rings. The resulting peptide macrocycles feature a 1,3,4-oxadiazole and a tertiary amine in their scaffolds. This non-canonical backbone region acts as an endocyclic control element that promotes and stabilizes a unique intramolecular hydrogen-bond network and can lead to macrocycles with conformationally rigid turn structures. Oxadiazole-containing macrocycles can also display a high passive membrane permeability, an important property for the development of bioavailable peptide-based therapeutics.
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Affiliation(s)
- John R Frost
- Davenport Research Laboratories, Department of Chemistry, University of Toronto, 80 St George Street, Toronto, Ontario M5S 3H6, Canada
| | - Conor C G Scully
- Davenport Research Laboratories, Department of Chemistry, University of Toronto, 80 St George Street, Toronto, Ontario M5S 3H6, Canada
| | - Andrei K Yudin
- Davenport Research Laboratories, Department of Chemistry, University of Toronto, 80 St George Street, Toronto, Ontario M5S 3H6, Canada
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33
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Morejón MC, Laub A, Westermann B, Rivera DG, Wessjohann LA. Solution- and Solid-Phase Macrocyclization of Peptides by the Ugi-Smiles Multicomponent Reaction: Synthesis of N-Aryl-Bridged Cyclic Lipopeptides. Org Lett 2016; 18:4096-9. [PMID: 27505031 DOI: 10.1021/acs.orglett.6b02001] [Citation(s) in RCA: 39] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
Abstract
A new multicomponent methodology for the solution- and solid-phase macrocyclization of peptides is described. The approach comprises the utilization of the Ugi-Smiles reaction for the cyclization of 3-nitrotyrosine-containing peptides either by the N-terminus or the lysine side-chain amino groups. Both the on-resin and solution cyclizations took place with good to excellent efficiency in the presence of an aldehyde and a lipidic isocyanide, while the use of paraformaldehyde required an aminocatalysis-mediated imine formation prior to the on-resin Ugi-Smiles ring closure. The introduction of a turn motif in the peptide sequence facilitated the cyclization step, shortened the reaction time, and delivered crude products with >90% purity. This powerful method provided a variety of structurally novel N-aryl-bridged cyclic lipopeptides occurring as single atropisomers.
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Affiliation(s)
- Micjel C Morejón
- Department of Bioorganic Chemistry, Leibniz Institute of Plant Biochemistry , Weinberg 3, 06120 Halle/Saale, Germany.,Center for Natural Products Research, Faculty of Chemistry, University of Havana , Zapata y G, 10400 Havana, Cuba
| | - Annegret Laub
- Department of Bioorganic Chemistry, Leibniz Institute of Plant Biochemistry , Weinberg 3, 06120 Halle/Saale, Germany
| | - Bernhard Westermann
- Department of Bioorganic Chemistry, Leibniz Institute of Plant Biochemistry , Weinberg 3, 06120 Halle/Saale, Germany
| | - Daniel G Rivera
- Department of Bioorganic Chemistry, Leibniz Institute of Plant Biochemistry , Weinberg 3, 06120 Halle/Saale, Germany.,Center for Natural Products Research, Faculty of Chemistry, University of Havana , Zapata y G, 10400 Havana, Cuba
| | - Ludger A Wessjohann
- Department of Bioorganic Chemistry, Leibniz Institute of Plant Biochemistry , Weinberg 3, 06120 Halle/Saale, Germany
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34
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Wessjohann LA, Morejón MC, Ojeda GM, Rhoden CRB, Rivera DG. Applications of Convertible Isonitriles in the Ligation and Macrocyclization of Multicomponent Reaction-Derived Peptides and Depsipeptides. J Org Chem 2016; 81:6535-45. [PMID: 27390908 DOI: 10.1021/acs.joc.6b01150] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Abstract
Peptide ligation and macrocyclization are among the most relevant approaches in the field of peptide chemistry. Whereas a variety of strategies relying on coupling reagents and native chemical ligation are available, there is a continuous need for efficient peptide ligation and cyclization methods. Herein we report on the utilization of convertible isonitriles as effective synthetic tools for the ligation and macrocyclization of peptides arising from isocyanide-based multicomponent reactions. The strategy relies on the use of convertible isonitriles-derived from Fukuyama amines-and peptide carboxylic acids in Ugi and Passerini reactions to afford N-alkylated peptides and depsipeptides, respectively, followed by conversion of the C-terminal amide onto either N-peptidoacyl indoles or pyrroles. Such activated peptides proved efficient in the ligation to peptidic, lipidic and fluorescently labeled amines and in macrocyclization protocols. As a result, a wide set of N-substituted peptides (with methyl, glycosyl and amino acids as N-substituents), cyclic N-methylated peptides and a depsipeptide were produced in good yields using conditions that involve either classical heating or microwave irradiation. This report improves the repertoire of peptide covalent modification methods by exploiting the synthetic potential of multicomponent reactions and convertible isonitriles.
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Affiliation(s)
- Ludger A Wessjohann
- Department of Bioorganic Chemistry, Leibniz Institute of Plant Biochemistry , Weinberg 3, 06120, Halle/Saale, Germany
| | - Micjel C Morejón
- Department of Bioorganic Chemistry, Leibniz Institute of Plant Biochemistry , Weinberg 3, 06120, Halle/Saale, Germany
| | - Gerardo M Ojeda
- Center for Natural Products Research, Faculty of Chemistry, University of Havana , Zapata y G, 10400, La Habana, Cuba
| | - Cristiano R B Rhoden
- Department of Bioorganic Chemistry, Leibniz Institute of Plant Biochemistry , Weinberg 3, 06120, Halle/Saale, Germany
| | - Daniel G Rivera
- Department of Bioorganic Chemistry, Leibniz Institute of Plant Biochemistry , Weinberg 3, 06120, Halle/Saale, Germany
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35
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Hickey JL, Zaretsky S, St. Denis MA, Kumar Chakka S, Morshed MM, Scully CCG, Roughton AL, Yudin AK. Passive Membrane Permeability of Macrocycles Can Be Controlled by Exocyclic Amide Bonds. J Med Chem 2016; 59:5368-76. [DOI: 10.1021/acs.jmedchem.6b00222] [Citation(s) in RCA: 39] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2023]
Affiliation(s)
- Jennifer L. Hickey
- Davenport
Research Laboratories, Department of Chemistry, University of Toronto, 80 St. George Street, Toronto, Ontario M5S 3H6, Canada
- Encycle Therapeutics Inc., 101
College Street, Suite 314, Toronto, Ontario M5G 1L7, Canada
| | - Serge Zaretsky
- Davenport
Research Laboratories, Department of Chemistry, University of Toronto, 80 St. George Street, Toronto, Ontario M5S 3H6, Canada
| | - Megan A. St. Denis
- Davenport
Research Laboratories, Department of Chemistry, University of Toronto, 80 St. George Street, Toronto, Ontario M5S 3H6, Canada
- Encycle Therapeutics Inc., 101
College Street, Suite 314, Toronto, Ontario M5G 1L7, Canada
| | - Sai Kumar Chakka
- Davenport
Research Laboratories, Department of Chemistry, University of Toronto, 80 St. George Street, Toronto, Ontario M5S 3H6, Canada
- Encycle Therapeutics Inc., 101
College Street, Suite 314, Toronto, Ontario M5G 1L7, Canada
| | - M. Monzur Morshed
- Davenport
Research Laboratories, Department of Chemistry, University of Toronto, 80 St. George Street, Toronto, Ontario M5S 3H6, Canada
- Encycle Therapeutics Inc., 101
College Street, Suite 314, Toronto, Ontario M5G 1L7, Canada
| | - Conor C. G. Scully
- Davenport
Research Laboratories, Department of Chemistry, University of Toronto, 80 St. George Street, Toronto, Ontario M5S 3H6, Canada
| | - Andrew L. Roughton
- Encycle Therapeutics Inc., 101
College Street, Suite 314, Toronto, Ontario M5G 1L7, Canada
| | - Andrei K. Yudin
- Davenport
Research Laboratories, Department of Chemistry, University of Toronto, 80 St. George Street, Toronto, Ontario M5S 3H6, Canada
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36
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Low KE, Ler S, Chen KJ, Campbell RL, Hickey JL, Tan J, Scully CCG, Davies PL, Yudin AK, Zaretsky S. Rational Design of Calpain Inhibitors Based on Calpastatin Peptidomimetics. J Med Chem 2016; 59:5403-15. [DOI: 10.1021/acs.jmedchem.6b00267] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/29/2023]
Affiliation(s)
- Kristin E. Low
- Department
of Biomedical and Molecular Sciences, Queen’s University, Kingston, Ontario K7L 3N6, Canada
| | - Spencer Ler
- Department
of Chemistry, University of Toronto, Toronto, Ontario M5S 3H6, Canada
| | - Kevin J. Chen
- Department
of Biomedical and Molecular Sciences, Queen’s University, Kingston, Ontario K7L 3N6, Canada
| | - Robert L. Campbell
- Department
of Biomedical and Molecular Sciences, Queen’s University, Kingston, Ontario K7L 3N6, Canada
| | - Jennifer L. Hickey
- Encycle Therapeutics Inc., 101
College Street, Suite 314, Toronto, Ontario M5G 1L7, Canada
| | - Joanne Tan
- Department
of Chemistry, University of Toronto, Toronto, Ontario M5S 3H6, Canada
| | - Conor C. G. Scully
- Department
of Chemistry, University of Toronto, Toronto, Ontario M5S 3H6, Canada
| | - Peter L. Davies
- Department
of Biomedical and Molecular Sciences, Queen’s University, Kingston, Ontario K7L 3N6, Canada
| | - Andrei K. Yudin
- Department
of Chemistry, University of Toronto, Toronto, Ontario M5S 3H6, Canada
| | - Serge Zaretsky
- Department
of Chemistry, University of Toronto, Toronto, Ontario M5S 3H6, Canada
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37
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Zaretsky S, Rai V, Gish G, Forbes MW, Kofler M, Yu JCY, Tan J, Hickey JL, Pawson T, Yudin AK. Twisted amide electrophiles enable cyclic peptide sequencing. Org Biomol Chem 2016; 13:7384-8. [PMID: 26077966 DOI: 10.1039/c5ob01050k] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Abstract
There is an ever-increasing interest in synthetic methods that not only enable peptide macrocyclization, but also facilitate downstream application of the synthesized molecules. We have found that aziridine amides are stereoelectronically attenuated in a macrocyclic environment such that non-specific interactions with biological nucleophiles are reduced or even shut down. The electrophilic reactivity, revealed at high pH, enables peptide sequencing by mass spectrometry, which will further broaden the utility of aziridine amide-containing libraries of macrocycles.
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Affiliation(s)
- Serge Zaretsky
- Davenport Research Laboratories, Department of Chemistry, University of Toronto, 80 St. George St., Toronto, ON M5S 3H6, Canada.
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38
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de la Torre AF, Rivera DG, Concepción O, Echemendia R, Correa AG, Paixão MW. Multicomponent Synthesis of Cyclic Depsipeptide Mimics by Ugi Reaction Including Cyclic Hemiacetals Derived from Asymmetric Organocatalysis. J Org Chem 2016; 81:803-9. [PMID: 26720907 DOI: 10.1021/acs.joc.5b02158] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/16/2023]
Abstract
The synthesis of novel cyclic depsipeptide mimics by means of an organocatalytic conjugate addition, leading to chiral cyclic hemiacetals, followed by a multicomponent reaction with α-amino acids and isocyanides, is described. The initial organocatalytic step is employed for the asymmetric derivatization of α,β-unsaturated aldehydes to 4,5-disubstituted 2-hydroxytetrahydropyrans, which are next used as chiral bifunctional substrates on the Ugi five-center three-component reaction, giving rise to nine-membered-ring lactones. This sequential approach proved to be suitable for the rapid generation of molecular complexity through the combination of aliphatic, dipeptidic, glucosidic, and lipidic isocyanides with several amino acids, thus giving access to amido-, glyco-, and lipo-depsipeptide scaffolds featuring natural product-like structures.
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Affiliation(s)
- Alexander F de la Torre
- Departamento de Química, Universidade Federal de São Carlos , São Carlos, SP, 13565-905, Brazil
| | - Daniel G Rivera
- Departamento de Química, Universidade Federal de São Carlos , São Carlos, SP, 13565-905, Brazil.,Center for Natural Products Research, Faculty of Chemistry, University of Havana , Zapata y G, 10400, La Habana, Cuba
| | - Odette Concepción
- Center for Natural Products Research, Faculty of Chemistry, University of Havana , Zapata y G, 10400, La Habana, Cuba
| | - Radell Echemendia
- Departamento de Química, Universidade Federal de São Carlos , São Carlos, SP, 13565-905, Brazil.,Center for Natural Products Research, Faculty of Chemistry, University of Havana , Zapata y G, 10400, La Habana, Cuba
| | - Arlene G Correa
- Departamento de Química, Universidade Federal de São Carlos , São Carlos, SP, 13565-905, Brazil
| | - Márcio W Paixão
- Departamento de Química, Universidade Federal de São Carlos , São Carlos, SP, 13565-905, Brazil
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39
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Zaretsky S, Hickey JL, Tan J, Pichugin D, St Denis MA, Ler S, Chung BKW, Scully CCG, Yudin AK. Mechanistic investigation of aziridine aldehyde-driven peptide macrocyclization: the imidoanhydride pathway. Chem Sci 2015; 6:5446-5455. [PMID: 29861887 PMCID: PMC5949604 DOI: 10.1039/c5sc01958c] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/01/2015] [Accepted: 07/07/2015] [Indexed: 01/30/2023] Open
Abstract
Aziridine aldehyde dimers, peptides, and isocyanides participate in a multicomponent reaction to yield peptide macrocycles. We have investigated the selectivity and kinetics of this process and performed a detailed analysis of its chemoselectivity. While the reactants encompass all of the elements of the traditional Ugi four-component condensation, there is a significant deviation from the previously proposed mechanism. Our results provide evidence for an imidoanhydride pathway in peptide macrocyclization and lend justification for the diastereoselectivity and high effective molarity observed in the reaction.
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Affiliation(s)
- Serge Zaretsky
- Davenport Research Laboratories , Department of Chemistry , University of Toronto , 80 St. George Street , Toronto , Ontario M5S 3H6 , Canada .
| | - Jennifer L Hickey
- Davenport Research Laboratories , Department of Chemistry , University of Toronto , 80 St. George Street , Toronto , Ontario M5S 3H6 , Canada .
- Encycle Therapeutics Inc. , 101 College Street, Suite 314 , Toronto , Ontario M5G 1L7 , Canada
| | - Joanne Tan
- Davenport Research Laboratories , Department of Chemistry , University of Toronto , 80 St. George Street , Toronto , Ontario M5S 3H6 , Canada .
| | - Dmitry Pichugin
- Center for Structural Investigations of Complex Organic Molecules and Polymers , Department of Chemistry , University of Toronto , 80 St. George Street , Toronto , Ontario M5S 3H6 , Canada
| | - Megan A St Denis
- Davenport Research Laboratories , Department of Chemistry , University of Toronto , 80 St. George Street , Toronto , Ontario M5S 3H6 , Canada .
- Encycle Therapeutics Inc. , 101 College Street, Suite 314 , Toronto , Ontario M5G 1L7 , Canada
| | - Spencer Ler
- Davenport Research Laboratories , Department of Chemistry , University of Toronto , 80 St. George Street , Toronto , Ontario M5S 3H6 , Canada .
| | - Benjamin K W Chung
- Davenport Research Laboratories , Department of Chemistry , University of Toronto , 80 St. George Street , Toronto , Ontario M5S 3H6 , Canada .
| | - Conor C G Scully
- Davenport Research Laboratories , Department of Chemistry , University of Toronto , 80 St. George Street , Toronto , Ontario M5S 3H6 , Canada .
| | - Andrei K Yudin
- Davenport Research Laboratories , Department of Chemistry , University of Toronto , 80 St. George Street , Toronto , Ontario M5S 3H6 , Canada .
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40
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Bockus AT, Schwochert JA, Pye CR, Townsend CE, Sok V, Bednarek MA, Lokey RS. Going Out on a Limb: Delineating The Effects of β-Branching, N-Methylation, and Side Chain Size on the Passive Permeability, Solubility, and Flexibility of Sanguinamide A Analogues. J Med Chem 2015; 58:7409-18. [PMID: 26308180 DOI: 10.1021/acs.jmedchem.5b00919] [Citation(s) in RCA: 87] [Impact Index Per Article: 9.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Abstract
It is well established that intramolecular hydrogen bonding and N-methylation play important roles in the passive permeability of cyclic peptides, but other structural features have been explored less intensively. Recent studies on the oral bioavailability of the cyclic heptapeptide sanguinamide A have raised the question of whether steric occlusion of polar groups via β-branching is an effective, yet untapped, tool in cyclic peptide permeability optimization. We report the structures of 17 sanguinamide A analogues designed to test the relative contributions of β-branching, N-methylation, and side chain size to passive membrane permeability and aqueous solubility. We demonstrate that β-branching has little effect on permeability compared to the effects of aliphatic carbon count and N-methylation of exposed NH groups. We highlight a new N-methylated analogue of sanguinamide A with a Leu substitution at position 2 that exhibits solvent-dependent flexibility and improved permeability over that of the natural product.
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Affiliation(s)
- Andrew T Bockus
- Department of Chemistry and Biochemistry, University of California , Santa Cruz, California 95064, United States
| | - Joshua A Schwochert
- Department of Chemistry and Biochemistry, University of California , Santa Cruz, California 95064, United States
| | - Cameron R Pye
- Department of Chemistry and Biochemistry, University of California , Santa Cruz, California 95064, United States
| | - Chad E Townsend
- Department of Chemistry and Biochemistry, University of California , Santa Cruz, California 95064, United States
| | - Vong Sok
- Department of Chemistry and Biochemistry, University of California , Santa Cruz, California 95064, United States
| | - Maria A Bednarek
- Department of Antibody Discovery & Protein Engineering, Medimmune Ltd , Cambridge CB21 6GH, United Kingdom
| | - R Scott Lokey
- Department of Chemistry and Biochemistry, University of California , Santa Cruz, California 95064, United States
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41
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Vasco AV, Pérez CS, Morales FE, Garay HE, Vasilev D, Gavín JA, Wessjohann LA, Rivera DG. Macrocyclization of Peptide Side Chains by the Ugi Reaction: Achieving Peptide Folding and Exocyclic N-Functionalization in One Shot. J Org Chem 2015; 80:6697-707. [DOI: 10.1021/acs.joc.5b00858] [Citation(s) in RCA: 46] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Aldrin V. Vasco
- Center
for Natural Products Research, Faculty of Chemistry, University of Havana, Zapata y G, 10400, La Habana, Cuba
- Facultad
de Ingeniería Química, Instituto Superior Politécnico José Antonio Echeverría, CUJAE, Calle 114 # 11901, 11500, La Habana, Cuba
| | - Carlos S. Pérez
- Center
for Natural Products Research, Faculty of Chemistry, University of Havana, Zapata y G, 10400, La Habana, Cuba
| | - Fidel E. Morales
- Center
for Natural Products Research, Faculty of Chemistry, University of Havana, Zapata y G, 10400, La Habana, Cuba
| | - Hilda E. Garay
- Synthetic Peptides
Group, Center for Genetic Engineering and Biotechnology, P.O. Box 6162, La Habana, Cuba
| | - Dimitar Vasilev
- Department
of Bioorganic Chemistry, Leibniz Institute of Plant Biochemistry, Weinberg 3, D-06120, Halle/Saale, Germany
| | - José A. Gavín
- Instituto
Universitario de Bioorgánica Antonio González and Departamento
de Química Orgánica, Universidad de La Laguna, 38206 La Laguna, Tenerife, Spain
| | - Ludger A. Wessjohann
- Department
of Bioorganic Chemistry, Leibniz Institute of Plant Biochemistry, Weinberg 3, D-06120, Halle/Saale, Germany
| | - Daniel G. Rivera
- Center
for Natural Products Research, Faculty of Chemistry, University of Havana, Zapata y G, 10400, La Habana, Cuba
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42
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43
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Preise 2015 der Canadian Society for Chemistry. Angew Chem Int Ed Engl 2015. [DOI: 10.1002/ange.201504360] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
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44
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Treder AP, Hickey JL, Tremblay MCJ, Zaretsky S, Scully CCG, Mancuso J, Doucet A, Yudin AK, Marsault E. Solid-Phase Parallel Synthesis of Functionalised Medium-to-Large Cyclic Peptidomimetics through Three-Component Coupling Driven by Aziridine Aldehyde Dimers. Chemistry 2015; 21:9249-55. [PMID: 26014974 DOI: 10.1002/chem.201500068] [Citation(s) in RCA: 28] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/07/2015] [Indexed: 11/06/2022]
Abstract
The first solid-phase parallel synthesis of macrocyclic peptides using three-component coupling driven by aziridine aldehyde dimers is described. The method supports the synthesis of 9- to 18-membered aziridine-containing macrocycles, which are then functionalized by nucleophilic opening of the aziridine ring. This constitutes a robust approach for the rapid parallel synthesis of macrocyclic peptides.
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Affiliation(s)
- Adam P Treder
- Institut de Pharmacologie de Sherbrooke, Université de Sherbrooke, 3001, 12e av nord Sherbrooke (QC) J1H 5N4 (Canada)
| | - Jennifer L Hickey
- Davenport Research Laboratories, Department of Chemistry, University of Toronto, 80 St. George Street, Toronto (ON) M5S 3H6 (Canada)
| | - Marie-Claude J Tremblay
- Institut de Pharmacologie de Sherbrooke, Université de Sherbrooke, 3001, 12e av nord Sherbrooke (QC) J1H 5N4 (Canada)
| | - Serge Zaretsky
- Davenport Research Laboratories, Department of Chemistry, University of Toronto, 80 St. George Street, Toronto (ON) M5S 3H6 (Canada)
| | - Conor C G Scully
- Davenport Research Laboratories, Department of Chemistry, University of Toronto, 80 St. George Street, Toronto (ON) M5S 3H6 (Canada)
| | - John Mancuso
- Institut de Pharmacologie de Sherbrooke, Université de Sherbrooke, 3001, 12e av nord Sherbrooke (QC) J1H 5N4 (Canada)
| | - Annie Doucet
- Institut de Pharmacologie de Sherbrooke, Université de Sherbrooke, 3001, 12e av nord Sherbrooke (QC) J1H 5N4 (Canada)
| | - Andrei K Yudin
- Davenport Research Laboratories, Department of Chemistry, University of Toronto, 80 St. George Street, Toronto (ON) M5S 3H6 (Canada)
| | - Eric Marsault
- Institut de Pharmacologie de Sherbrooke, Université de Sherbrooke, 3001, 12e av nord Sherbrooke (QC) J1H 5N4 (Canada).
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45
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Morales FE, Garay HE, Muñoz DF, Augusto YE, Otero-González AJ, Reyes Acosta O, Rivera DG. Aminocatalysis-Mediated on-Resin Ugi Reactions: Application in the Solid-Phase Synthesis of N-Substituted and Tetrazolo Lipopeptides and Peptidosteroids. Org Lett 2015; 17:2728-31. [PMID: 25994574 DOI: 10.1021/acs.orglett.5b01147] [Citation(s) in RCA: 36] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
A new solid-phase protocol for the synthesis of N-substituted and tetrazolo peptides is described. The strategy relies on the combination of aminocatalysis-mediated on-resin Ugi reactions and peptide couplings for the N-alkylation of peptides at selected sites, including the N-terminal double lipidation, the simultaneous lipidation/biotinylation, and the steroid/lipid conjugation via tetrazole ring formation. The solid-phase Ugi four-component reactions were enabled by on-resin transimination steps prior to addition of the acid and isocyanide components. The strategy proved to be suitable for the feasible incorporation of complex N-substituents at both termini and at internal positions, which is not easily achievable by other solid-phase methods.
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Affiliation(s)
- Fidel E Morales
- †Center for Natural Products Research, Faculty of Chemistry, University of Havana, Zapata y G, 10400, La Habana, Cuba.,‡Synthetic Peptides Group, Center for Genetic Engineering and Biotechnology, P.O. Box 6162, La Habana, Cuba
| | - Hilda E Garay
- ‡Synthetic Peptides Group, Center for Genetic Engineering and Biotechnology, P.O. Box 6162, La Habana, Cuba
| | - Daniela F Muñoz
- †Center for Natural Products Research, Faculty of Chemistry, University of Havana, Zapata y G, 10400, La Habana, Cuba
| | - Yarelys E Augusto
- †Center for Natural Products Research, Faculty of Chemistry, University of Havana, Zapata y G, 10400, La Habana, Cuba
| | | | - Osvaldo Reyes Acosta
- ‡Synthetic Peptides Group, Center for Genetic Engineering and Biotechnology, P.O. Box 6162, La Habana, Cuba
| | - Daniel G Rivera
- †Center for Natural Products Research, Faculty of Chemistry, University of Havana, Zapata y G, 10400, La Habana, Cuba
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46
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Bockus AT, Lexa KW, Pye CR, Kalgutkar AS, Gardner JW, Hund KCR, Hewitt WM, Schwochert JA, Glassey E, Price DA, Mathiowetz AM, Liras S, Jacobson MP, Lokey RS. Probing the Physicochemical Boundaries of Cell Permeability and Oral Bioavailability in Lipophilic Macrocycles Inspired by Natural Products. J Med Chem 2015; 58:4581-9. [DOI: 10.1021/acs.jmedchem.5b00128] [Citation(s) in RCA: 90] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2023]
Affiliation(s)
- Andrew T. Bockus
- Department
of Chemistry and Biochemistry, University of California—Santa Cruz, 1156 High Street, Santa Cruz, California 95064, United States
| | - Katrina W. Lexa
- Department
of Pharmaceutical Chemistry, University of California— San Francisco, 1700 4th Street, San Francisco, California 94158, United States
| | - Cameron R. Pye
- Department
of Chemistry and Biochemistry, University of California—Santa Cruz, 1156 High Street, Santa Cruz, California 95064, United States
| | - Amit S. Kalgutkar
- Pharmacokinetics
and Drug Metabolism, Pfizer Inc., Groton, Connecticut 06340, United States
| | - Jarret W. Gardner
- Department
of Chemistry and Biochemistry, University of California—Santa Cruz, 1156 High Street, Santa Cruz, California 95064, United States
| | - Kathryn C. R. Hund
- Department
of Chemistry and Biochemistry, University of California—Santa Cruz, 1156 High Street, Santa Cruz, California 95064, United States
| | - William M. Hewitt
- Department
of Chemistry and Biochemistry, University of California—Santa Cruz, 1156 High Street, Santa Cruz, California 95064, United States
| | - Joshua A. Schwochert
- Department
of Chemistry and Biochemistry, University of California—Santa Cruz, 1156 High Street, Santa Cruz, California 95064, United States
| | - Emerson Glassey
- Department
of Chemistry and Biochemistry, University of California—Santa Cruz, 1156 High Street, Santa Cruz, California 95064, United States
| | - David A. Price
- Worldwide
Medicinal Chemistry, Pfizer Inc., Groton, Connecticut 06340, United States
| | - Alan M. Mathiowetz
- Worldwide
Medicinal Chemistry, Pfizer Inc., Groton, Connecticut 06340, United States
| | - Spiros Liras
- Worldwide
Medicinal Chemistry, Pfizer Inc., Groton, Connecticut 06340, United States
| | - Matthew P. Jacobson
- Department
of Pharmaceutical Chemistry, University of California— San Francisco, 1700 4th Street, San Francisco, California 94158, United States
| | - R. Scott Lokey
- Department
of Chemistry and Biochemistry, University of California—Santa Cruz, 1156 High Street, Santa Cruz, California 95064, United States
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47
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Ricardo MG, Morales FE, Garay H, Reyes O, Vasilev D, Wessjohann LA, Rivera DG. Bidirectional macrocyclization of peptides by double multicomponent reactions. Org Biomol Chem 2015; 13:438-46. [DOI: 10.1039/c4ob01915f] [Citation(s) in RCA: 35] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2023]
Abstract
Peptide macrocyclization by multicomponent reactions.
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Affiliation(s)
- Manuel G. Ricardo
- Center for Natural Products Research
- Faculty of Chemistry
- University of Havana
- La Habana
- Cuba
| | - Fidel E. Morales
- Center for Natural Products Research
- Faculty of Chemistry
- University of Havana
- La Habana
- Cuba
| | - Hilda Garay
- Laboratory of Peptide Synthesis
- Physical-Chemistry Division
- Center for Genetic Engineering and Biotechnology
- La Habana
- Cuba
| | - Osvaldo Reyes
- Laboratory of Peptide Synthesis
- Physical-Chemistry Division
- Center for Genetic Engineering and Biotechnology
- La Habana
- Cuba
| | - Dimitar Vasilev
- Department of Bioorganic Chemistry
- Leibniz Institute of Plant Biochemistry
- Halle/Saale
- Germany
| | - Ludger A. Wessjohann
- Department of Bioorganic Chemistry
- Leibniz Institute of Plant Biochemistry
- Halle/Saale
- Germany
| | - Daniel G. Rivera
- Center for Natural Products Research
- Faculty of Chemistry
- University of Havana
- La Habana
- Cuba
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48
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Yudin AK. Macrocycles: lessons from the distant past, recent developments, and future directions. Chem Sci 2015; 6:30-49. [PMID: 28553456 PMCID: PMC5424464 DOI: 10.1039/c4sc03089c] [Citation(s) in RCA: 337] [Impact Index Per Article: 37.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/08/2014] [Accepted: 11/01/2014] [Indexed: 12/20/2022] Open
Abstract
A noticeable increase in molecular complexity of drug targets has created an unmet need in the therapeutic agents that are larger than traditional small molecules. Macrocycles, which are cyclic compounds comprising 12 atoms or more, are now recognized as molecules that "are up to the task" to interrogate extended protein interfaces. However, because macrocycles (particularly the ones based on peptides) are equipped with large polar surface areas, achieving cellular permeability and bioavailability is anything but straightforward. While one might consider this to be the Achilles' heel of this class of compounds, the synthetic community continues to develop creative approaches toward the synthesis of macrocycles and their site-selective modification. This perspective provides an overview of both mechanistic and structural issues that bear on macrocycles as a unique class of molecules. The reader is offered a historical foray into some of the classic studies that have resulted in the current renaissance of macrocycles. In addition, an attempt is made to overview the more recent developments that give hope that macrocycles might indeed turn into a useful therapeutic modality.
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Affiliation(s)
- Andrei K Yudin
- Department of Chemistry , University of Toronto , 80 St. George Street , Toronto , Ontario M5S 3H6 , Canada . ; Blog: http://www.amphoteros.com
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49
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Zaretsky S, Adachi S, Rotstein BH, Hickey JL, Scully CCG, St Denis JD, Courtemanche R, Yu JCY, Chung BKW, Yudin AK. Stereocontrolled disruption of the Ugi reaction toward the production of chiral piperazinones: substrate scope and process development. J Org Chem 2014; 79:9948-57. [PMID: 25254948 DOI: 10.1021/jo5018316] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
The factors determining diastereoselectivity observed in the multicomponent conversion of amino acids, aziridine aldehyde dimers, and isocyanides into chiral piperazinones have been investigated. Amino acid-dependent selectivity for either trans- or cis-substituted piperazinone products has been achieved. An experimentally determined diastereoselectivity model for the three-component reaction driven by aziridine aldehyde dimers has predictive value for different substrate classes. Moreover, this model is useful in reconciling the previously reported observations in multicomponent reactions between isocyanides, α-amino acids, and monofunctional aldehydes.
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Affiliation(s)
- Serge Zaretsky
- Davenport Research Laboratories, Department of Chemistry, University of Toronto , 80 St. George Street, Toronto, Ontario M5S 3H6, Canada
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50
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Zaretsky S, Hickey JL, St. Denis MA, Scully CC, Roughton AL, Tantillo DJ, Lodewyk MW, Yudin AK. Predicting cyclic peptide chemical shifts using quantum mechanical calculations. Tetrahedron 2014. [DOI: 10.1016/j.tet.2014.07.070] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/25/2022]
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