1
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Del Giudice D, Spatola E, Valentini M, Ercolani G, Di Stefano S. Dissipative Dynamic Libraries (DDLs) and Dissipative Dynamic Combinatorial Chemistry (DDCC). CHEMSYSTEMSCHEM 2022. [DOI: 10.1002/syst.202200023] [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)
- Daniele Del Giudice
- Dipartimento di Chimica Università di Roma La Sapienza and ISB-CNR Sede Secondaria di Roma – Meccanismi di Reazione P.le A. Moro 5 I-00185 Roma Italy
| | - Emanuele Spatola
- Dipartimento di Chimica Università di Roma La Sapienza and ISB-CNR Sede Secondaria di Roma – Meccanismi di Reazione P.le A. Moro 5 I-00185 Roma Italy
| | - Matteo Valentini
- Dipartimento di Chimica Università di Roma La Sapienza and ISB-CNR Sede Secondaria di Roma – Meccanismi di Reazione P.le A. Moro 5 I-00185 Roma Italy
| | - Gianfranco Ercolani
- Dipartimento di Scienze e Tecnologie Chimiche Università di Roma Tor Vergata Via della Ricerca Scientifica 00133 Roma Italy
| | - Stefano Di Stefano
- Dipartimento di Chimica Università di Roma La Sapienza and ISB-CNR Sede Secondaria di Roma – Meccanismi di Reazione P.le A. Moro 5 I-00185 Roma Italy
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2
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Del Giudice D, Valentini M, Melchiorre G, Spatola E, Di Stefano S. Dissipative Dynamic Covalent Chemistry (DDCvC) Based on the Transimination Reaction. Chemistry 2022; 28:e202200685. [DOI: 10.1002/chem.202200685] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/03/2022] [Indexed: 11/09/2022]
Affiliation(s)
- Daniele Del Giudice
- Dipartimento di Chimica Università degli Studi di Roma “La Sapienza” P.le A. Moro 5 00185 Rome Italy
| | - Matteo Valentini
- Dipartimento di Chimica Università degli Studi di Roma “La Sapienza” P.le A. Moro 5 00185 Rome Italy
| | - Gabriele Melchiorre
- Dipartimento di Chimica Università degli Studi di Roma “La Sapienza” P.le A. Moro 5 00185 Rome Italy
| | - Emanuele Spatola
- Dipartimento di Chimica Università degli Studi di Roma “La Sapienza” P.le A. Moro 5 00185 Rome Italy
| | - Stefano Di Stefano
- Dipartimento di Chimica Università degli Studi di Roma “La Sapienza” P.le A. Moro 5 00185 Rome Italy
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3
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Vial L, Perret F, Leclaire J. Dyn[
n
]arenes: Versatile Platforms To Study the Interplay between Covalent and Noncovalent Bonds. European J Org Chem 2022. [DOI: 10.1002/ejoc.202101274] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Affiliation(s)
- Laurent Vial
- Institut de Chimie et Biochimie Moléculaires et Supramoléculaires UMR 5246 CNRS Univ. Lyon Université Lyon 1 CPE INSA 43 Boulevard du 11 Novembre 1918 69622 Villeurbanne France
| | - Florent Perret
- Institut de Chimie et Biochimie Moléculaires et Supramoléculaires UMR 5246 CNRS Univ. Lyon Université Lyon 1 CPE INSA 43 Boulevard du 11 Novembre 1918 69622 Villeurbanne France
| | - Julien Leclaire
- Institut de Chimie et Biochimie Moléculaires et Supramoléculaires UMR 5246 CNRS Univ. Lyon Université Lyon 1 CPE INSA 43 Boulevard du 11 Novembre 1918 69622 Villeurbanne France
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4
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He M, Lehn JM. Metal Cation-Driven Dynamic Covalent Formation of Imine and Hydrazone Ligands Displaying Synergistic Co-catalysis and Auxiliary Amine Effects. Chemistry 2021; 27:7516-7524. [PMID: 33909937 DOI: 10.1002/chem.202100662] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/22/2021] [Indexed: 11/09/2022]
Abstract
Optimizing C=N bond formation and C/N component exchange has major significance in Dynamic Covalent Chemistry (DCC). Imine and hydrazone generation from their aldehyde, amine and hydrazine components showed large accelerations in presence of AgOTf or Zn(OTf)2 , up to 104 for the Zn(II)-(p-anisidine)imine complex. Zn(OTf)2 and auxiliary p-anisidine together accelerated 630 times the formation of the Zn(II)-hydrazone complex, revealing a strong synergistic effect, traced to very fast initial formation of the reactive Zn(II)-imine complex presenting a C=N bond metallo-activated towards reaction with the hydrazine component. Reactions involving more entities showed kinetically faster and thermodynamically simpler outputs due to dynamic competition within a mixture of higher complexity. Catalytic amounts of metal salts and auxiliary amine gave similar marked rate accelerations and turnover, indicating true catalysis. The synergistic effect achieved by combining metallo- and organo-catalysis points to a powerful co-catalysis strategy of bond-formation in DCC through interconnected chemical transformations.
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Affiliation(s)
- Meixia He
- Laboratoire de Chimie Supramoléculaire, Institut de Science et d'Ingénierie Supramoléculaires, Université de Strasbourg, 8 allée Gaspard Monge, 67000, Strasbourg, France
| | - Jean-Marie Lehn
- Laboratoire de Chimie Supramoléculaire, Institut de Science et d'Ingénierie Supramoléculaires, Université de Strasbourg, 8 allée Gaspard Monge, 67000, Strasbourg, France
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5
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Balakrishna B, Menon A, Cao K, Gsänger S, Beil SB, Villalva J, Shyshov O, Martin O, Hirsch A, Meyer B, Kaiser U, Guldi DM, von Delius M. Dynamic Covalent Formation of Concave Disulfide Macrocycles Mechanically Interlocked with Single-Walled Carbon Nanotubes. Angew Chem Int Ed Engl 2020; 59:18774-18785. [PMID: 32544289 PMCID: PMC7590186 DOI: 10.1002/anie.202005081] [Citation(s) in RCA: 26] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/08/2020] [Indexed: 02/02/2023]
Abstract
The formation of discrete macrocycles wrapped around single-walled carbon nanotubes (SWCNTs) has recently emerged as an appealing strategy to functionalize these carbon nanomaterials and modify their properties. Here, we demonstrate that the reversible disulfide exchange reaction, which proceeds under mild conditions, can install relatively large amounts of mechanically interlocked disulfide macrocycles on the one-dimensional nanotubes. Size-selective functionalization of a mixture of SWCNTs of different diameters were observed, presumably arising from error correction and the presence of relatively rigid, curved π-systems in the key building blocks. A combination of UV/Vis/NIR, Raman, photoluminescence excitation, and transient absorption spectroscopy indicated that the small (6,4)-SWCNTs were predominantly functionalized by the small macrocycles 12 , whereas the larger (6,5)-SWCNTs were an ideal match for the larger macrocycles 22 . This size selectivity, which was rationalized computationally, could prove useful for the purification of nanotube mixtures, since the disulfide macrocycles can be removed quantitatively under mild reductive conditions.
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Affiliation(s)
- Bugga Balakrishna
- Institute of Organic Chemistry, Ulm University, Albert-Einstein-Allee 11, 89081, Ulm, Germany
| | - Arjun Menon
- Department of Chemistry and Pharmacy & Interdisciplinary Center for Molecular Materials, Friedrich-Alexander University Erlangen-Nürnberg, Egerlandstrasse 3, 91058, Erlangen, Germany
| | - Kecheng Cao
- Electron Microscopy of Materials Science, Central Facility for Electron Microscopy, Ulm University, Albert-Einstein-Allee 11, 89081, Ulm, Germany
| | - Sebastian Gsänger
- Interdisciplinary Center for Molecular Materials (ICMM) & Computer-Chemistry-Center (CCC), Friedrich-Alexander University Erlangen-Nürnberg, Nägelsbachstrasse 25, 91052, Erlangen, Germany
| | - Sebastian B Beil
- Institute of Organic Chemistry, Ulm University, Albert-Einstein-Allee 11, 89081, Ulm, Germany
| | - Julia Villalva
- Institute of Organic Chemistry, Ulm University, Albert-Einstein-Allee 11, 89081, Ulm, Germany
| | - Oleksandr Shyshov
- Institute of Organic Chemistry, Ulm University, Albert-Einstein-Allee 11, 89081, Ulm, Germany
| | - Oliver Martin
- Department of Chemistry and Pharmacy & Joint Institute of Advanced Materials and Processes (ZMP), Friedrich-Alexander University Erlangen-Nürnberg, Nikolaus-Fiebiger-Strasse 10, 91058, Erlangen, Germany
| | - Andreas Hirsch
- Department of Chemistry and Pharmacy & Joint Institute of Advanced Materials and Processes (ZMP), Friedrich-Alexander University Erlangen-Nürnberg, Nikolaus-Fiebiger-Strasse 10, 91058, Erlangen, Germany
| | - Bernd Meyer
- Interdisciplinary Center for Molecular Materials (ICMM) & Computer-Chemistry-Center (CCC), Friedrich-Alexander University Erlangen-Nürnberg, Nägelsbachstrasse 25, 91052, Erlangen, Germany
| | - Ute Kaiser
- Electron Microscopy of Materials Science, Central Facility for Electron Microscopy, Ulm University, Albert-Einstein-Allee 11, 89081, Ulm, Germany
| | - Dirk M Guldi
- Department of Chemistry and Pharmacy & Interdisciplinary Center for Molecular Materials, Friedrich-Alexander University Erlangen-Nürnberg, Egerlandstrasse 3, 91058, Erlangen, Germany
| | - Max von Delius
- Institute of Organic Chemistry, Ulm University, Albert-Einstein-Allee 11, 89081, Ulm, Germany
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6
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Balakrishna B, Menon A, Cao K, Gsänger S, Beil SB, Villalva J, Shyshov O, Martin O, Hirsch A, Meyer B, Kaiser U, Guldi DM, Delius M. Mechanische Verzahnung von einwandigen Kohlenstoffnanoröhren durch dynamisch‐kovalente Bildung von konkaven Disulfidmakrozyklen. Angew Chem Int Ed Engl 2020. [DOI: 10.1002/ange.202005081] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Affiliation(s)
- Bugga Balakrishna
- Institut für Organische Chemie Universität Ulm Albert-Einstein-Allee 11 89081 Ulm Deutschland
| | - Arjun Menon
- Department Chemie und Pharmazie & Interdisziplinäres Zentrum für Molekulare Materialien Friedrich-Alexander-Universität Erlangen-Nürnberg Egerlandstrasse 3 91058 Erlangen Deutschland
| | - Kecheng Cao
- Elektronenmikroskopie der Materialwissenschaften Zentrale Einrichtung für Elektronenmikroskopie Universität Ulm Albert-Einstein-Allee 11 89081 Ulm Deutschland
| | - Sebastian Gsänger
- Interdisziplinäres Zentrum für Molekulare Materialien & Computer-Chemie-Zentrum (CCC) Friedrich-Alexander-Universität Erlangen-Nürnberg Nägelsbachstrasse 25 91052 Erlangen Deutschland
| | - Sebastian B. Beil
- Institut für Organische Chemie Universität Ulm Albert-Einstein-Allee 11 89081 Ulm Deutschland
| | - Julia Villalva
- Institut für Organische Chemie Universität Ulm Albert-Einstein-Allee 11 89081 Ulm Deutschland
| | - Oleksandr Shyshov
- Institut für Organische Chemie Universität Ulm Albert-Einstein-Allee 11 89081 Ulm Deutschland
| | - Oliver Martin
- Department Chemie und Pharmazie & Gemeinsames Institut für Angewandte Materialien und Prozesse (ZMP) Friedrich-Alexander-Universität Erlangen-Nürnberg Nikolaus-Fiebiger-Strasse 10 91058 Erlangen Deutschland
| | - Andreas Hirsch
- Department Chemie und Pharmazie & Gemeinsames Institut für Angewandte Materialien und Prozesse (ZMP) Friedrich-Alexander-Universität Erlangen-Nürnberg Nikolaus-Fiebiger-Strasse 10 91058 Erlangen Deutschland
| | - Bernd Meyer
- Interdisziplinäres Zentrum für Molekulare Materialien & Computer-Chemie-Zentrum (CCC) Friedrich-Alexander-Universität Erlangen-Nürnberg Nägelsbachstrasse 25 91052 Erlangen Deutschland
| | - Ute Kaiser
- Elektronenmikroskopie der Materialwissenschaften Zentrale Einrichtung für Elektronenmikroskopie Universität Ulm Albert-Einstein-Allee 11 89081 Ulm Deutschland
| | - Dirk M. Guldi
- Department Chemie und Pharmazie & Interdisziplinäres Zentrum für Molekulare Materialien Friedrich-Alexander-Universität Erlangen-Nürnberg Egerlandstrasse 3 91058 Erlangen Deutschland
| | - Max Delius
- Institut für Organische Chemie Universität Ulm Albert-Einstein-Allee 11 89081 Ulm Deutschland
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7
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Jia C, Qi D, Zhang Y, Rissanen K, Li J. Strategies for Exploring Functions from Dynamic Combinatorial Libraries. CHEMSYSTEMSCHEM 2020. [DOI: 10.1002/syst.202000019] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Affiliation(s)
- Chunman Jia
- Hainan Provincial Key Lab of Fine ChemKey laboratory of Advanced Materials of Tropical Island Resources of Ministry of EducationHainan University Haikou 570228 China
| | - Dawei Qi
- MediCity Research LaboratoryUniversity of Turku Tykistökatu 6 20520 Turku Finland
| | - Yucang Zhang
- Hainan Provincial Key Lab of Fine ChemKey laboratory of Advanced Materials of Tropical Island Resources of Ministry of EducationHainan University Haikou 570228 China
| | - Kari Rissanen
- Department of ChemistryUniversity of Jyväskylä P.O. Box 35 40014 Jyväskylä Finland
| | - Jianwei Li
- Hainan Provincial Key Lab of Fine ChemKey laboratory of Advanced Materials of Tropical Island Resources of Ministry of EducationHainan University Haikou 570228 China
- MediCity Research LaboratoryUniversity of Turku Tykistökatu 6 20520 Turku Finland
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8
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Guo H, Zhang L, Zhou H, Meng W, Ao Y, Wang D, Wang Q. Substrate‐Induced Dimerization Assembly of Chiral Macrocycle Catalysts toward Cooperative Asymmetric Catalysis. Angew Chem Int Ed Engl 2020; 59:2623-2627. [DOI: 10.1002/anie.201910399] [Citation(s) in RCA: 30] [Impact Index Per Article: 7.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/14/2019] [Revised: 12/02/2019] [Indexed: 11/08/2022]
Affiliation(s)
- Hao Guo
- Beijing National Laboratory for Molecular SciencesCAS Key Laboratory of Molecular Recognition and FunctionInstitute of ChemistryChinese Academy of Sciences Beijing 100190 China
- University of Chinese Academy of Sciences Beijing 100049 China
| | - Lie‐Wei Zhang
- Beijing National Laboratory for Molecular SciencesCAS Key Laboratory of Molecular Recognition and FunctionInstitute of ChemistryChinese Academy of Sciences Beijing 100190 China
- University of Chinese Academy of Sciences Beijing 100049 China
| | - Hao Zhou
- Beijing National Laboratory for Molecular SciencesCAS Key Laboratory of Molecular Recognition and FunctionInstitute of ChemistryChinese Academy of Sciences Beijing 100190 China
- University of Chinese Academy of Sciences Beijing 100049 China
| | - Wei Meng
- Beijing National Laboratory for Molecular SciencesCAS Key Laboratory of Molecular Recognition and FunctionInstitute of ChemistryChinese Academy of Sciences Beijing 100190 China
| | - Yu‐Fei Ao
- Beijing National Laboratory for Molecular SciencesCAS Key Laboratory of Molecular Recognition and FunctionInstitute of ChemistryChinese Academy of Sciences Beijing 100190 China
| | - De‐Xian Wang
- Beijing National Laboratory for Molecular SciencesCAS Key Laboratory of Molecular Recognition and FunctionInstitute of ChemistryChinese Academy of Sciences Beijing 100190 China
- University of Chinese Academy of Sciences Beijing 100049 China
| | - Qi‐Qiang Wang
- Beijing National Laboratory for Molecular SciencesCAS Key Laboratory of Molecular Recognition and FunctionInstitute of ChemistryChinese Academy of Sciences Beijing 100190 China
- University of Chinese Academy of Sciences Beijing 100049 China
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9
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Guo H, Zhang L, Zhou H, Meng W, Ao Y, Wang D, Wang Q. Substrate‐Induced Dimerization Assembly of Chiral Macrocycle Catalysts toward Cooperative Asymmetric Catalysis. Angew Chem Int Ed Engl 2020. [DOI: 10.1002/ange.201910399] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
Affiliation(s)
- Hao Guo
- Beijing National Laboratory for Molecular SciencesCAS Key Laboratory of Molecular Recognition and FunctionInstitute of ChemistryChinese Academy of Sciences Beijing 100190 China
- University of Chinese Academy of Sciences Beijing 100049 China
| | - Lie‐Wei Zhang
- Beijing National Laboratory for Molecular SciencesCAS Key Laboratory of Molecular Recognition and FunctionInstitute of ChemistryChinese Academy of Sciences Beijing 100190 China
- University of Chinese Academy of Sciences Beijing 100049 China
| | - Hao Zhou
- Beijing National Laboratory for Molecular SciencesCAS Key Laboratory of Molecular Recognition and FunctionInstitute of ChemistryChinese Academy of Sciences Beijing 100190 China
- University of Chinese Academy of Sciences Beijing 100049 China
| | - Wei Meng
- Beijing National Laboratory for Molecular SciencesCAS Key Laboratory of Molecular Recognition and FunctionInstitute of ChemistryChinese Academy of Sciences Beijing 100190 China
| | - Yu‐Fei Ao
- Beijing National Laboratory for Molecular SciencesCAS Key Laboratory of Molecular Recognition and FunctionInstitute of ChemistryChinese Academy of Sciences Beijing 100190 China
| | - De‐Xian Wang
- Beijing National Laboratory for Molecular SciencesCAS Key Laboratory of Molecular Recognition and FunctionInstitute of ChemistryChinese Academy of Sciences Beijing 100190 China
- University of Chinese Academy of Sciences Beijing 100049 China
| | - Qi‐Qiang Wang
- Beijing National Laboratory for Molecular SciencesCAS Key Laboratory of Molecular Recognition and FunctionInstitute of ChemistryChinese Academy of Sciences Beijing 100190 China
- University of Chinese Academy of Sciences Beijing 100049 China
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10
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Schaufelberger F, Timmer BJJ, Ramström O. Resolving a Reactive Organometallic Intermediate from Dynamic Directing Group Systems by Selective C-H Activation. Chemistry 2018; 24:101-104. [PMID: 29149517 PMCID: PMC5836886 DOI: 10.1002/chem.201705273] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/07/2017] [Indexed: 12/12/2022]
Abstract
Catalyst discovery from systems of potential precursors is a challenging endeavor. Herein, a new strategy applying dynamic chemistry to the identification of catalyst precursors from C-H activation of imines is proposed and evaluated. Using hydroacylation of imines as a model reaction, the selection of an organometallic reactive intermediate from a dynamic imine system, involving many potential directing group/metal entities, is demonstrated. The identity of the amplified reaction intermediate with the best directing group could be resolved in situ by ESI-MS, and coupling of the procedure to an iterative deconvolution protocol generated a system with high screening efficiency.
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Affiliation(s)
- Fredrik Schaufelberger
- Department of ChemistryKTH–Royal Institute of TechnologyTeknikringen 3610044StockholmSweden
| | - Brian J. J. Timmer
- Department of ChemistryKTH–Royal Institute of TechnologyTeknikringen 3610044StockholmSweden
| | - Olof Ramström
- Department of ChemistryKTH–Royal Institute of TechnologyTeknikringen 3610044StockholmSweden
- Department of ChemistryUniversity of Massachusetts Lowell1 University Ave.LowellMA01854USA
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11
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Jaegle M, Wong EL, Tauber C, Nawrotzky E, Arkona C, Rademann J. Proteintemplat-gesteuerte Fragmentligationen - von der molekularen Erkennung zur Wirkstofffindung. ANGEWANDTE CHEMIE (WEINHEIM AN DER BERGSTRASSE, GERMANY) 2017; 129:7464-7485. [PMID: 32313319 PMCID: PMC7159557 DOI: 10.1002/ange.201610372] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 10/23/2016] [Revised: 01/10/2017] [Indexed: 12/28/2022]
Abstract
AbstractProteintemplat‐gesteuerte Fragmentligationen sind ein neuartiges Konzept zur Unterstützung der Wirkstofffindung und können dazu beitragen, die Wirksamkeit von Proteinliganden zu verbessern. Es handelt sich dabei um chemische Reaktionen zwischen niedermolekularen Verbindungen (“Fragmenten”), die die Oberfläche eines Proteins als Reaktionsgefäß verwenden, um die Bildung eines Proteinliganden mit erhöhter Bindungsaffinität zu katalysieren. Die Methode nutzt die molekulare Erkennung kleiner reaktiver Fragmente durch die Proteine sowohl zur Assemblierung der Liganden als auch zur Identifizierung bioaktiver Fragmentkombinationen. Chemische Synthese und Bioassay werden dabei in einem Schritt vereint. Dieser Aufsatz diskutiert die biophysikalischen Grundlagen der reversiblen und irreversiblen Fragmentligationen und gibt einen Überblick über die Methoden, mit denen die durch das Proteintemplat gebildeten Ligationsprodukte detektiert werden können. Der chemische Reaktionsraum und aktuelle Anwendungen wie auch die Bedeutung dieses Konzeptes für die Wirkstofffindung werden erörtert.
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Affiliation(s)
- Mike Jaegle
- Freie Universität BerlinMedicinal ChemistryKönigin-Luise-Straße 2+4Berlin14195Deutschland
| | - Ee Lin Wong
- Freie Universität BerlinMedicinal ChemistryKönigin-Luise-Straße 2+4Berlin14195Deutschland
| | - Carolin Tauber
- Freie Universität BerlinMedicinal ChemistryKönigin-Luise-Straße 2+4Berlin14195Deutschland
| | - Eric Nawrotzky
- Freie Universität BerlinMedicinal ChemistryKönigin-Luise-Straße 2+4Berlin14195Deutschland
| | - Christoph Arkona
- Freie Universität BerlinMedicinal ChemistryKönigin-Luise-Straße 2+4Berlin14195Deutschland
| | - Jörg Rademann
- Freie Universität BerlinMedicinal ChemistryKönigin-Luise-Straße 2+4Berlin14195Deutschland
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12
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Jaegle M, Wong EL, Tauber C, Nawrotzky E, Arkona C, Rademann J. Protein-Templated Fragment Ligations-From Molecular Recognition to Drug Discovery. Angew Chem Int Ed Engl 2017; 56:7358-7378. [PMID: 28117936 PMCID: PMC7159684 DOI: 10.1002/anie.201610372] [Citation(s) in RCA: 54] [Impact Index Per Article: 7.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/23/2016] [Revised: 01/10/2017] [Indexed: 12/14/2022]
Abstract
Protein-templated fragment ligation is a novel concept to support drug discovery and can help to improve the efficacy of protein ligands. Protein-templated fragment ligations are chemical reactions between small molecules ("fragments") utilizing a protein's surface as a reaction vessel to catalyze the formation of a protein ligand with increased binding affinity. The approach exploits the molecular recognition of reactive small-molecule fragments by proteins both for ligand assembly and for the identification of bioactive fragment combinations. In this way, chemical synthesis and bioassay are integrated in one single step. This Review discusses the biophysical basis of reversible and irreversible fragment ligations and gives an overview of the available methods to detect protein-templated ligation products. The chemical scope and recent applications as well as future potential of the concept in drug discovery are reviewed.
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Affiliation(s)
- Mike Jaegle
- Freie Universität BerlinMedicinal ChemistryKönigin-Luise-Strasse 2+4Berlin14195Germany
| | - Ee Lin Wong
- Freie Universität BerlinMedicinal ChemistryKönigin-Luise-Strasse 2+4Berlin14195Germany
| | - Carolin Tauber
- Freie Universität BerlinMedicinal ChemistryKönigin-Luise-Strasse 2+4Berlin14195Germany
| | - Eric Nawrotzky
- Freie Universität BerlinMedicinal ChemistryKönigin-Luise-Strasse 2+4Berlin14195Germany
| | - Christoph Arkona
- Freie Universität BerlinMedicinal ChemistryKönigin-Luise-Strasse 2+4Berlin14195Germany
| | - Jörg Rademann
- Freie Universität BerlinMedicinal ChemistryKönigin-Luise-Strasse 2+4Berlin14195Germany
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13
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Valdivielso AM, Puig-Castellví F, Atcher J, Solà J, Tauler R, Alfonso I. Unraveling the Multistimuli Responses of a Complex Dynamic System of Pseudopeptidic Macrocycles. Chemistry 2017; 23:10789-10799. [DOI: 10.1002/chem.201701294] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/22/2017] [Indexed: 12/11/2022]
Affiliation(s)
- Angel M. Valdivielso
- Department of Biological Chemistry and Molecular Modeling; IQAC-CSIC; Jordi Girona 18-26 08034 Barcelona Spain
| | | | - Joan Atcher
- Department of Biological Chemistry and Molecular Modeling; IQAC-CSIC; Jordi Girona 18-26 08034 Barcelona Spain
| | - Jordi Solà
- Department of Biological Chemistry and Molecular Modeling; IQAC-CSIC; Jordi Girona 18-26 08034 Barcelona Spain
| | - Romà Tauler
- Department of Environmental Chemistry; IDAEA-CSIC; Jordi Girona 18-26 08034 Barcelona Spain
| | - Ignacio Alfonso
- Department of Biological Chemistry and Molecular Modeling; IQAC-CSIC; Jordi Girona 18-26 08034 Barcelona Spain
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14
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Kosikova T, Mackenzie H, Philp D. Probing the Limits of Selectivity in a Recognition-Mediated Reaction Network Embedded within a Dynamic Covalent Library. Chemistry 2015; 22:1831-9. [DOI: 10.1002/chem.201503740] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/17/2015] [Revised: 11/30/2015] [Indexed: 12/15/2022]
Affiliation(s)
- Tamara Kosikova
- School of Chemistry and EaStCHEM; University of St. Andrews, North Haugh; St. Andrews KY16 9ST UK
| | - Harry Mackenzie
- School of Chemistry and EaStCHEM; University of St. Andrews, North Haugh; St. Andrews KY16 9ST UK
- UCB; 216 Bath Road Slough Berks SL1 3WE UK
| | - Douglas Philp
- School of Chemistry and EaStCHEM; University of St. Andrews, North Haugh; St. Andrews KY16 9ST UK
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15
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Schaufelberger F, Ramström O. Dynamic covalent organocatalysts discovered from catalytic systems through rapid deconvolution screening. Chemistry 2015; 21:12735-40. [PMID: 26174068 PMCID: PMC4557047 DOI: 10.1002/chem.201502088] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/28/2015] [Indexed: 11/11/2022]
Abstract
The first example of a bifunctional organocatalyst assembled through dynamic covalent chemistry (DCC) is described. The catalyst is based on reversible imine chemistry and can catalyze the Morita–Baylis–Hillman (MBH) reaction of enones with aldehydes or N-tosyl imines. Furthermore, these dynamic catalysts were shown to be optimizable through a systemic screening approach, in which large mixtures of catalyst structures were generated, and the optimal catalyst could be directly identified by using dynamic deconvolution. This strategy allowed one-pot synthesis and in situ evaluation of several potential catalysts without the need to separate, characterize, and purify each individual structure. The systems were furthermore shown to catalyze and re-equilibrate their own formation through a previously unknown thiourea-catalyzed transimination process.
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Affiliation(s)
- Fredrik Schaufelberger
- Department of Chemistry, KTH - Royal Institute of Technology, Teknikringen 30, 10044 Stockholm (Sweden)
| | - Olof Ramström
- Department of Chemistry, KTH - Royal Institute of Technology, Teknikringen 30, 10044 Stockholm (Sweden).
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Atcher J, Moure A, Bujons J, Alfonso I. Salt-Induced Adaptation of a Dynamic Combinatorial Library of Pseudopeptidic Macrocycles: Unraveling the Electrostatic Effects in Mixed Aqueous Media. Chemistry 2015; 21:6869-78. [DOI: 10.1002/chem.201406155] [Citation(s) in RCA: 29] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/28/2014] [Indexed: 12/20/2022]
Affiliation(s)
- Joan Atcher
- Department of Biological Chemistry and Molecular Modeling, IQAC-CSIC, Jordi Girona 18-26, 08034, Barcelona (Spain)
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17
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Fanlo-Virgós H, Alba ANR, Hamieh S, Colomb-Delsuc M, Otto S. Transient substrate-induced catalyst formation in a dynamic molecular network. Angew Chem Int Ed Engl 2014; 53:11346-50. [PMID: 25169198 DOI: 10.1002/anie.201403480] [Citation(s) in RCA: 51] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/19/2014] [Revised: 07/02/2014] [Indexed: 11/06/2022]
Abstract
In biology enzyme concentrations are continuously regulated, yet for synthetic catalytic systems such regulatory mechanisms are underdeveloped. We now report how a substrate of a chemical reaction induces the formation of its own catalyst from a dynamic molecular network. After complete conversion of the substrate, the network disassembles the catalyst. These results open up new opportunities for controlling catalysis in synthetic chemical systems.
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Affiliation(s)
- Hugo Fanlo-Virgós
- Centre for Systems Chemistry, Stratingh Institute, University of Groningen, Nijenborgh 4, 9747 AG Groningen (The Netherlands) http://www.otto-lab.com
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Fanlo-Virgós H, Alba ANR, Hamieh S, Colomb-Delsuc M, Otto S. Transient Substrate-Induced Catalyst Formation in a Dynamic Molecular Network. Angew Chem Int Ed Engl 2014. [DOI: 10.1002/ange.201403480] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]
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19
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Matache M, Bogdan E, Hădade ND. Selective Host Molecules Obtained by Dynamic Adaptive Chemistry. Chemistry 2014; 20:2106-31. [DOI: 10.1002/chem.201303504] [Citation(s) in RCA: 29] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
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20
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Hamieh S, Saggiomo V, Nowak P, Mattia E, Ludlow RF, Otto S. A “Dial-A-Receptor” Dynamic Combinatorial Library. Angew Chem Int Ed Engl 2013. [DOI: 10.1002/ange.201305744] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/13/2023]
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21
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Hamieh S, Saggiomo V, Nowak P, Mattia E, Ludlow RF, Otto S. A “Dial-A-Receptor” Dynamic Combinatorial Library. Angew Chem Int Ed Engl 2013; 52:12368-72. [DOI: 10.1002/anie.201305744] [Citation(s) in RCA: 43] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/03/2013] [Indexed: 01/28/2023]
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22
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Besenius P, Cormack PAG, Liu J, Otto S, Sanders JKM, Sherrington DC. Tailored polymer-supported templates in dynamic combinatorial libraries: simultaneous selection, amplification and isolation of synthetic receptors. Chemistry 2008; 14:9006-9019. [PMID: 18752246 DOI: 10.1002/chem.200800326] [Citation(s) in RCA: 23] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Abstract
The thermodynamically controlled synthesis and isolation of macrocyclic receptors from dynamic combinatorial libraries has been achieved in a single step using a polymer-supported template. The templates were cinchona alkaloids which show interesting enantio- and diastereoselective molecular recognition events in libraries based on pseudo-dipeptide building blocks. The synthetic routes used to derivatise the alkaloids and attach them to polymer supports minimised any influence of the tethering linkage on the templating activity. Systematic studies have been carried out to probe how the polymer morphology and the template loading affect the selectivity and isolation yield of the macrocyclic receptors. Molecular recognition between solid-phase bound templates and selected receptors also enabled their affinity-type chromatographic separation.
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Affiliation(s)
- Pol Besenius
- WestCHEM, Department of Pure and Applied Chemistry, University of Strathclyde, 295 Cathedral Street, Glasgow G1 1XL, UK
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23
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Nielsen MC, Ulven T. Selective Extraction of G-Quadruplex Ligands from a Rationally Designed Scaffold-Based Dynamic Combinatorial Library. Chemistry 2008; 14:9487-90. [DOI: 10.1002/chem.200801109] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/11/2023]
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24
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Gasparini G, Prins L, Scrimin P. Exploiting Neighboring-Group Interactions for the Self-Selection of a Catalytic Unit. Angew Chem Int Ed Engl 2008; 47:2475-9. [DOI: 10.1002/anie.200703857] [Citation(s) in RCA: 47] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
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25
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Gasparini G, Prins L, Scrimin P. Exploiting Neighboring-Group Interactions for the Self-Selection of a Catalytic Unit. Angew Chem Int Ed Engl 2008. [DOI: 10.1002/ange.200703857] [Citation(s) in RCA: 14] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/05/2022]
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26
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Corbett P, Sanders J, Otto S. Exploring the Relation between Amplification and Binding in Dynamic Combinatorial Libraries of Macrocyclic Synthetic Receptors in Water. Chemistry 2008; 14:2153-66. [DOI: 10.1002/chem.200701413] [Citation(s) in RCA: 76] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
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Matsumoto M, Nicholas KM. Synthesis of Cyclic Oligomers from Histidine-Derived Building Blocks Using Dynamic Combinatorial Chemistry. J Org Chem 2007; 72:9308-13. [DOI: 10.1021/jo701832m] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Masaomi Matsumoto
- Department of Chemistry and Biochemistry, University of Oklahoma, 620 Parrington Oval, Norman, Oklahoma 73019
| | - Kenneth M. Nicholas
- Department of Chemistry and Biochemistry, University of Oklahoma, 620 Parrington Oval, Norman, Oklahoma 73019
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Kerckhoffs JMCA, Mateos-Timoneda MA, Reinhoudt DN, Crego-Calama M. Dynamic Combinatorial Libraries Based on Hydrogen-Bonded Molecular Boxes. Chemistry 2007; 13:2377-85. [PMID: 17139688 DOI: 10.1002/chem.200601198] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Abstract
This article describes two different types of dynamic combinatorial libraries of host and guest molecules. The first part of this article describes the encapsulation of alizarin trimer 2a3 by dynamic mixtures of up to twenty different self-assembled molecular receptors together with the amplification and selection of the best binder. Receptors (1a-d)3.(DEB)6 are formed by the self-assembly of six diethyl barbiturate (DEB) and calix[4]arene dimelamine derivatives 1a-d by using hydrogen bonds. The largest amplification factor (2.8) for a host assembly (1a3.(DEB)6) was observed after the addition of 2a to four-component library 1a(n).1b(3-n).(DEB)6 (n=0-3). Addition of 2a to twenty-component library 1a(n).1b(m).1c(o).1d(3-(n+m+o)).(DEB)6 (n, m, o=0-3; (n+m+o)<or=3) also showed amplification of receptor 1a3.(DEB)6. The second part of this article describes the complexation of libraries of different alizarin-like guest molecules (2a-d) and the self-assembled receptor 1a3.(DEB)6. This receptor is able to template the formation of the best-fitting guest trimer.
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Affiliation(s)
- Jessica M C A Kerckhoffs
- Laboratory of Supramolecular Chemistry and Technology, MESA+ Institute for Nanotechnology, University of Twente, P.O. Box 217, 7500 AE Enschede, The Netherlands
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de Bruin B, Hauwert P, Reek JNH. Dynamic Combinatorial Chemistry: The Unexpected Choice of Receptors by Guest Molecules. Angew Chem Int Ed Engl 2006; 45:2660-3. [PMID: 16586522 DOI: 10.1002/anie.200504480] [Citation(s) in RCA: 68] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/05/2022]
Affiliation(s)
- Bas de Bruin
- Van't Hoff Institute for Molecular Sciences, University of Amsterdam, Nieuwe Achtergracht 129, 1018 WS Amsterdam, The Netherlands
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de Bruin B, Hauwert P, Reek JNH. Dynamische kombinatorische Chemie: die überraschende Rezeptorwahl durch Gastmoleküle. Angew Chem Int Ed Engl 2006. [DOI: 10.1002/ange.200504480] [Citation(s) in RCA: 27] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
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Giuseppone N, Lehn JM. Protonic and Temperature Modulation of Constituent Expression by Component Selection in a Dynamic Combinatorial Library of Imines. Chemistry 2006; 12:1715-22. [PMID: 16402400 DOI: 10.1002/chem.200501038] [Citation(s) in RCA: 106] [Impact Index Per Article: 5.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Abstract
The constitutional recomposition of a dynamic library of imines displays a complex behavior under the effect of two parameters, acidity and temperature. A qualitative analysis of the quantitative data is presented. The results illustrate the response of such a dynamic system to a physical stimulus (temperature) and a chemical effector (H+), thus demonstrating its adaptive behavior under the pressure of external factors. They also point to the possibility of modulating a given functional property (optical, electronic, ionic) by constitutional recomposition induced by a specific trigger. Such features are of great interest for the development of stimuli-responsive, functional dynamic materials.
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Affiliation(s)
- Nicolas Giuseppone
- Institut de Science et d'Ingénierie Supramoléculaires (ISIS), 8, allée Gaspard-Monge, BP 70028, 67083 Strasbourg cedex and Collège de France, 75005 Paris, France
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Saur I, Scopelliti R, Severin K. Utilization of Self-Sorting Processes To Generate Dynamic Combinatorial Libraries with New Network Topologies. Chemistry 2006; 12:1058-66. [PMID: 16100736 DOI: 10.1002/chem.200500621] [Citation(s) in RCA: 91] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Abstract
The synthesis of water-soluble, organometallic macrocycles is described. They were obtained by self-assembly in reactions of the half-sandwich complexes [[Ru(C6H5Me)Cl2]2], [[Ru(p-cymene)Cl2]2], [[Rh(Cp)Cl2]2], and [[Ir(Cp*)Cl2]2] with the ligand 5-dimethylaminomethyl-3-hydroxy-2-methyl-4-(1H)-pyridone in buffered aqueous solution at pH 8. The structure of the Ru-(p-cymene) complex was determined by single-crystal X-ray crystallography. Upon mixing, these complexes undergo scrambling reactions to give dynamic combinatorial libraries. In combination with structurally related complexes based on amino-methylated 3-hydroxy-2-(1H)-pyridone ligands, an exchange of metal fragments but no mixing of ligands was observed. This self-sorting behavior was used to construct dynamic combinatorial libraries of macrocycles, in which two four-component sub-libraries are connected by two common building blocks. This type of network topology influences the adaptive behavior of the library as demonstrated in selection experiments with lithium ions as the target.
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Affiliation(s)
- Isabelle Saur
- Institut des Sciences et Ingénierie Chimiques, Ecole Polytechnique Fédérale de Lausanne (EPFL), 1015 Lausanne, Switzerland
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Aricó F, Chang T, Cantrill SJ, Khan SI, Stoddart JF. Template-Directed Synthesis of Multiply Mechanically Interlocked Molecules Under Thermodynamic Control. Chemistry 2005; 11:4655-66. [PMID: 15887196 DOI: 10.1002/chem.200500148] [Citation(s) in RCA: 100] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Abstract
The template-directed construction of crown-ether-like macrocycles around secondary dialkylammonium ions (R2NH2+) has been utilized for the expedient (one-pot) and high-yielding synthesis of a diverse range of mechanically interlocked molecules. The clipping together of appropriately designed dialdehyde and diamine compounds around R2NH2+-containing dumbbell-shaped components proceeds through the formation, under thermodynamic control, of imine bonds. The reversible nature of this particular reaction confers the benefits of "error-checking" and "proof-reading", which one usually associates with supramolecular chemistry and strict self-assembly processes, upon these wholly molecular systems. Furthermore, these dynamic covalent syntheses exploit the efficient templating effects that the R2NH2+ ions exert on the macrocyclization of the matched dialdehyde and diamine fragments, resulting not only in rapid rates of reaction, but also affording near-quantitative conversion of starting materials into the desired interlocked products. Once assembled, these "dynamic" interlocked compounds can be "fixed" upon reduction of the reversible imine bonds (by using BH3.THF) to give kinetically stable species, a procedure that can be performed in the same reaction vessel as the inital thermodynamically controlled assembly. Isolation and purification of the mechanically interlocked products formed by using this protocol is relatively facile, as no column chromatography is required. Herein, we present the synthesis and characterization of 1) a [2]rotaxane, 2) a [3]rotaxane, 3) a branched [4]rotaxane, 4) a bis [2]rotaxane, and 5) a novel cyclic [4]rotaxane, demonstrating, in incrementally more complex systems, the efficacy of this one-pot strategy for the construction of interlocked molecules.
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Affiliation(s)
- Fabio Aricó
- California NanoSystems Institute and Department of Chemistry and Biochemistry, University of California, Los Angeles, 90095-1569, USA
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Nitschke JR, Hutin M, Bernardinelli G. The Hydrophobic Effect as a Driving Force in the Self-Assembly of a [2×2] Copper(I) Grid. Angew Chem Int Ed Engl 2004. [DOI: 10.1002/ange.200461308] [Citation(s) in RCA: 13] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/05/2022]
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35
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Nitschke JR, Hutin M, Bernardinelli G. The Hydrophobic Effect as a Driving Force in the Self-Assembly of a [2×2] Copper(I) Grid. Angew Chem Int Ed Engl 2004; 43:6724-7. [PMID: 15593154 DOI: 10.1002/anie.200461308] [Citation(s) in RCA: 43] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
Affiliation(s)
- Jonathan R Nitschke
- Department of Organic Chemistry, University of Geneva, 30 Quai Ernest Ansermet, 1211 Genève 4, Switzerland.
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