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Diaz DB, Appavoo SD, Bogdanchikova AF, Lebedev Y, McTiernan TJ, Dos Passos Gomes G, Yudin AK. Illuminating the dark conformational space of macrocycles using dominant rotors. Nat Chem 2021; 13:218-225. [PMID: 33589789 DOI: 10.1038/s41557-020-00620-y] [Citation(s) in RCA: 23] [Impact Index Per Article: 7.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/13/2020] [Accepted: 12/07/2020] [Indexed: 02/06/2023]
Abstract
Three-dimensional conformation is the primary determinant of molecular properties. The thermal energy available at room temperature typically equilibrates the accessible conformational states. Here, we introduce a method for isolating unique and previously understudied conformations of macrocycles. The observation of unusual conformations of 16- to 22-membered rings has been made possible by controlling their interconversion using dominant rotors, which represent tunable atropisomeric constituents with relatively high rotational barriers. Density functional theory and in situ NMR measurements suggest that dominant rotor candidates for the amino-acid-based structures considered here should possess a rotational energy barrier of at least 25 kcal mol-1. Notable differences in the geometries of the macrocycle conformations were identified by NMR spectroscopy and X-ray crystallography. There is evidence that amino acid residues can be forced into rare turn motifs not observed in the corresponding linear counterparts and homodetic rings. These findings should unlock new avenues for studying the conformation-activity relationships of bioactive molecules.
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Affiliation(s)
- Diego B Diaz
- Department of Chemistry, University of Toronto, Toronto, Ontario, Canada
| | - Solomon D Appavoo
- Department of Chemistry, University of Toronto, Toronto, Ontario, Canada
| | | | - Yury Lebedev
- Department of Chemistry, University of Toronto, Toronto, Ontario, Canada
| | | | - Gabriel Dos Passos Gomes
- Department of Chemistry, University of Toronto, Toronto, Ontario, Canada.,Department of Computer Science, University of Toronto, Toronto, Ontario, Canada
| | - Andrei K Yudin
- Department of Chemistry, University of Toronto, Toronto, Ontario, Canada.
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2
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Declerck V, Aitken DJ. Strategic C to N Replacement in β-Peptides: Atomic Level Control of Helical Folding. J Org Chem 2018; 83:8793-8800. [DOI: 10.1021/acs.joc.8b01096] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Valérie Declerck
- CP3A Organic Synthesis Group, ICMMO, UMR 8182, CNRS, Université Paris Sud, Université Paris−Saclay, Bât 420, 15 rue Georges Clemenceau, 91405 Orsay Cedex, France
| | - David J. Aitken
- CP3A Organic Synthesis Group, ICMMO, UMR 8182, CNRS, Université Paris Sud, Université Paris−Saclay, Bât 420, 15 rue Georges Clemenceau, 91405 Orsay Cedex, France
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3
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Mehawed Abdellatif M, Acherar S. Low-cost and multi-gram scale synthesis of chiral Nβ-Boc protected α-Nα-hydrazino diesters. Tetrahedron Lett 2017. [DOI: 10.1016/j.tetlet.2017.02.026] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
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4
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Alauddin M, Gloaguen E, Brenner V, Tardivel B, Mons M, Zehnacker‐Rentien A, Declerck V, Aitken DJ. Intrinsic Folding Proclivities in Cyclic β‐Peptide Building Blocks: Configuration and Heteroatom Effects Analyzed by Conformer‐Selective Spectroscopy and Quantum Chemistry. Chemistry 2015; 21:16479-93. [DOI: 10.1002/chem.201501794] [Citation(s) in RCA: 28] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/07/2015] [Indexed: 12/13/2022]
Affiliation(s)
- Mohammad Alauddin
- CEA, Laboratoire Interactions Dynamique et Lasers (LIDyL), Bât. 522, 91191 Gif‐sur‐Yvette (France)
- CNRS, Laboratoire Francis Perrin URA 2453, 91191 Gif‐sur‐Yvette (France)
- Current address: Department of Chemistry, University of Dhaka, Dhaka‐1000 (Bangladesh)
| | - Eric Gloaguen
- CEA, Laboratoire Interactions Dynamique et Lasers (LIDyL), Bât. 522, 91191 Gif‐sur‐Yvette (France)
- CNRS, Laboratoire Francis Perrin URA 2453, 91191 Gif‐sur‐Yvette (France)
| | - Valérie Brenner
- CEA, Laboratoire Interactions Dynamique et Lasers (LIDyL), Bât. 522, 91191 Gif‐sur‐Yvette (France)
- CNRS, Laboratoire Francis Perrin URA 2453, 91191 Gif‐sur‐Yvette (France)
| | - Benjamin Tardivel
- CEA, Laboratoire Interactions Dynamique et Lasers (LIDyL), Bât. 522, 91191 Gif‐sur‐Yvette (France)
- CNRS, Laboratoire Francis Perrin URA 2453, 91191 Gif‐sur‐Yvette (France)
| | - Michel Mons
- CEA, Laboratoire Interactions Dynamique et Lasers (LIDyL), Bât. 522, 91191 Gif‐sur‐Yvette (France)
- CNRS, Laboratoire Francis Perrin URA 2453, 91191 Gif‐sur‐Yvette (France)
| | | | - Valérie Declerck
- CP3A Organic Synthesis Group, ICMMO, UMR 8182, Université Paris Sud, Bât. 420, 15 rue Georges Clemenceau, 91405 Orsay cedex (France)
| | - David J. Aitken
- CP3A Organic Synthesis Group, ICMMO, UMR 8182, Université Paris Sud, Bât. 420, 15 rue Georges Clemenceau, 91405 Orsay cedex (France)
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Žukauskaitė A, Moretto A, Peggion C, De Zotti M, Šačkus A, Formaggio F, De Kimpe N, Mangelinckx S. Synthesis and Conformational Study of Model Peptides ContainingN-Substituted 3-Aminoazetidine-3-carboxylic Acids. European J Org Chem 2014. [DOI: 10.1002/ejoc.201301741] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
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Avan I, Hall CD, Katritzky AR. Peptidomimetics via modifications of amino acids and peptide bonds. Chem Soc Rev 2014; 43:3575-94. [DOI: 10.1039/c3cs60384a] [Citation(s) in RCA: 183] [Impact Index Per Article: 18.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
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7
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Shang Y, Liao K, He X, Hu J. One-pot synthesis of disulfide-linked N-sulfonylazetidin-2-imines via a copper-catalyzed multicomponent cascade reaction. Tetrahedron 2013. [DOI: 10.1016/j.tet.2013.09.033] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/03/2023]
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8
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Acherar S, Salaün A, Le Grel P, Le Grel B, Jamart-Grégoire B. Conformational Behavior of 1:1 [α/α-Hydrazino]mer, 1:1 [α/Aza-β3-amino]mer and 1:1 [Aza-β3-amino/α]mer Series: Three Series of Foldamers. European J Org Chem 2013. [DOI: 10.1002/ejoc.201300567] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
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Altmayer-Henzien A, Declerck V, Merlet D, Baltaze JP, Farjon J, Guillot R, Aitken DJ. Solution State Conformational Preferences of Dipeptides Derived from N-Aminoazetidinecarboxylic Acid: An Assessment of the Hydrazino Turn. J Org Chem 2013; 78:6031-9. [DOI: 10.1021/jo400736t] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Amandine Altmayer-Henzien
- Laboratoire
de Synthèse Organique et Méthodologie, ‡Laboratoire de RMN en Milieu Orienté, and §Services Communs, ICMMO (UMR CNRS 8182), Université Paris Sud, 15 Rue Georges Clemenceau, 91405 Orsay cedex, France
| | - Valérie Declerck
- Laboratoire
de Synthèse Organique et Méthodologie, ‡Laboratoire de RMN en Milieu Orienté, and §Services Communs, ICMMO (UMR CNRS 8182), Université Paris Sud, 15 Rue Georges Clemenceau, 91405 Orsay cedex, France
| | - Denis Merlet
- Laboratoire
de Synthèse Organique et Méthodologie, ‡Laboratoire de RMN en Milieu Orienté, and §Services Communs, ICMMO (UMR CNRS 8182), Université Paris Sud, 15 Rue Georges Clemenceau, 91405 Orsay cedex, France
| | - Jean-Pierre Baltaze
- Laboratoire
de Synthèse Organique et Méthodologie, ‡Laboratoire de RMN en Milieu Orienté, and §Services Communs, ICMMO (UMR CNRS 8182), Université Paris Sud, 15 Rue Georges Clemenceau, 91405 Orsay cedex, France
| | - Jonathan Farjon
- Laboratoire
de Synthèse Organique et Méthodologie, ‡Laboratoire de RMN en Milieu Orienté, and §Services Communs, ICMMO (UMR CNRS 8182), Université Paris Sud, 15 Rue Georges Clemenceau, 91405 Orsay cedex, France
| | - Régis Guillot
- Laboratoire
de Synthèse Organique et Méthodologie, ‡Laboratoire de RMN en Milieu Orienté, and §Services Communs, ICMMO (UMR CNRS 8182), Université Paris Sud, 15 Rue Georges Clemenceau, 91405 Orsay cedex, France
| | - David J. Aitken
- Laboratoire
de Synthèse Organique et Méthodologie, ‡Laboratoire de RMN en Milieu Orienté, and §Services Communs, ICMMO (UMR CNRS 8182), Université Paris Sud, 15 Rue Georges Clemenceau, 91405 Orsay cedex, France
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