1
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Hu C, Jochmann T, Chakraborty P, Neumaier M, Levkin PA, Kappes MM, Biedermann F. Further Dimensions for Sensing in Biofluids: Distinguishing Bioorganic Analytes by the Salt-Induced Adaptation of a Cucurbit[7]uril-Based Chemosensor. J Am Chem Soc 2022; 144:13084-13095. [PMID: 35850489 PMCID: PMC9335531 DOI: 10.1021/jacs.2c01520] [Citation(s) in RCA: 19] [Impact Index Per Article: 9.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Abstract
Insufficient binding selectivity of chemosensors often renders biorelevant metabolites indistinguishable by the widely used indicator displacement assay. Array-based chemosensing methods are a common workaround but require additional effort for synthesizing a chemosensor library and setting up a sensing array. Moreover, it can be very challenging to tune the inherent binding preference of macrocyclic systems such as cucurbit[n]urils (CBn) by synthetic means. Using a novel cucurbit[7]uril-dye conjugate that undergoes salt-induced adaptation, we now succeeded in distinguishing 14 bioorganic analytes from each other through the facile stepwise addition of salts. The salt-specific concentration-resolved emission provides additional information about the system at a low synthetic effort. We present a data-driven approach to translate the human-visible curve differences into intuitive pairwise difference measures. Ion mobility experiments combined with density functional theory calculations gave further insights into the binding mechanism and uncovered an unprecedented ternary complex geometry for CB7. TThis work introduces the non-selectively binding, salt-adaptive cucurbit[n]uril system for sensing applications in biofluids such as urine, saliva, and blood serum.
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Affiliation(s)
- Changming Hu
- Institute of Nanotechnology (INT), Karlsruhe Institute of Technology (KIT), Hermann-von-Helmholtz-Platz-1, Eggenstein-Leopoldshafen 76344, Germany
| | - Thomas Jochmann
- Department of Computer Science and Automation, Technische Universität Ilmenau, Gustav-Kirchhoff-Str. 2, Ilmenau 98693, Germany
| | - Papri Chakraborty
- Institute of Nanotechnology (INT), Karlsruhe Institute of Technology (KIT), Hermann-von-Helmholtz-Platz-1, Eggenstein-Leopoldshafen 76344, Germany.,Institute of Physical Chemistry (IPC), Karlsruhe Institute of Technology (KIT), Fritz-Haber-Weg 6, Karlsruhe 76131, Germany
| | - Marco Neumaier
- Institute of Nanotechnology (INT), Karlsruhe Institute of Technology (KIT), Hermann-von-Helmholtz-Platz-1, Eggenstein-Leopoldshafen 76344, Germany
| | - Pavel A Levkin
- Institute of Biological and Chemical Systems - Functional Molecular Systems (IBCS-FMS), Karlsruhe Institute of Technology (KIT), Hermann-von-Helmholtz Platz-1, Eggenstein-Leopoldshafen 76344, Germany
| | - Manfred M Kappes
- Institute of Nanotechnology (INT), Karlsruhe Institute of Technology (KIT), Hermann-von-Helmholtz-Platz-1, Eggenstein-Leopoldshafen 76344, Germany.,Institute of Physical Chemistry (IPC), Karlsruhe Institute of Technology (KIT), Fritz-Haber-Weg 6, Karlsruhe 76131, Germany
| | - Frank Biedermann
- Institute of Nanotechnology (INT), Karlsruhe Institute of Technology (KIT), Hermann-von-Helmholtz-Platz-1, Eggenstein-Leopoldshafen 76344, Germany
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2
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Orrillo AG, Furlan RLE. Sulfur in Dynamic Covalent Chemistry. Angew Chem Int Ed Engl 2022; 61:e202201168. [PMID: 35447003 DOI: 10.1002/anie.202201168] [Citation(s) in RCA: 26] [Impact Index Per Article: 13.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/22/2022] [Indexed: 12/21/2022]
Abstract
Sulfur has been important in dynamic covalent chemistry (DCC) since the beginning of the field. Mainly as part of disulfides and thioesters, dynamic sulfur-based bonds (DSBs) have a leading role in several remarkable reactions. Part of this success is due to the almost ideal properties of DSBs for the preparation of dynamic covalent systems, including high reactivity and good reversibility under mild aqueous conditions, the possibility of exploiting supramolecular interactions, access to isolable structures, and easy experimental control to turn the reaction on/off. DCC is currently witnessing an increase in the importance of DSBs. The chemical flexibility offered by DSBs opens the door to multiple applications. This Review presents an overview of all the DSBs used in DCC, their applications, and remarks on the interesting properties that they confer on dynamic chemical systems, especially those containing several DSBs.
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Affiliation(s)
- A Gastón Orrillo
- Facultad de Ciencias Bioquímicas y Farmacéuticas, Universidad Nacional de Rosario, CONICET, Suipacha 531, Rosario, S2002LRK, Argentina
| | - Ricardo L E Furlan
- Facultad de Ciencias Bioquímicas y Farmacéuticas, Universidad Nacional de Rosario, CONICET, Suipacha 531, Rosario, S2002LRK, Argentina
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3
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Orrillo AG, Furlan RLE. Sulfur in Dynamic Covalent Chemistry. Angew Chem Int Ed Engl 2022. [DOI: 10.1002/ange.202201168] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Affiliation(s)
- Alfredo Gastón Orrillo
- Universidad Nacional de Rosario Facultad de Ciencias Bioquimicas y Farmaceuticas Organic Chemistry Suipacha 530 2000 Rosario ARGENTINA
| | - Ricardo L. E. Furlan
- Universidad Nacional de Rosario Facultad de Ciencias Bioquimicas y Farmaceuticas Organic Chemistry Suipacha 530 2000 Rosario ARGENTINA
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4
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Larsen D, Beeren SR. Tuning the Outcome of Enzyme-Mediated Dynamic Cyclodextrin Libraries to Enhance Template Effects. Chemistry 2020; 26:11032-11038. [PMID: 32445426 DOI: 10.1002/chem.202001076] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/29/2020] [Revised: 05/15/2020] [Indexed: 12/11/2022]
Abstract
Enzyme-mediated dynamic combinatorial chemistry combines the concept of thermodynamically controlled covalent self-assembly with the inherent biological relevance of enzymatic transformations. A system of interconverting cyclodextrins has been explored, in which the glycosidic linkage is rendered dynamic by the action of cyclodextrin glucanotransferase (CGTase). External factors, such as pH, temperature, solvent, and salinity are reported to modulate the composition of the dynamic cyclodextrin library. Dynamic libraries of cyclodextrins (CDs) could be obtained in wide ranges of pH (5.0-9.0), temperature (5-37 °C), and salinity (up to 7.5 m NaNO3 ), and with high organic solvent content (50 % by volume of ethanol), showing that enzyme-mediated dynamic systems can be robust and not limited to physiological conditions. Furthermore, it is demonstrated how strategic choice of reaction conditions can enhance template effects, in this case, to achieve highly selective production of α-CD, an otherwise challenging target due to competition from the structurally similar β-CD.
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Affiliation(s)
- Dennis Larsen
- Department of Chemistry, Technical University of Denmark, Kemitorvet 207, 2800, Kongens Lyngby, Denmark
| | - Sophie R Beeren
- Department of Chemistry, Technical University of Denmark, Kemitorvet 207, 2800, Kongens Lyngby, Denmark
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5
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Bravin C, Hunter CA. Template effects of vesicles in dynamic covalent chemistry. Chem Sci 2020; 11:9122-9125. [PMID: 34123161 PMCID: PMC8163447 DOI: 10.1039/d0sc03185b] [Citation(s) in RCA: 17] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/08/2020] [Accepted: 07/22/2020] [Indexed: 01/01/2023] Open
Abstract
Vesicle lipid bilayers have been employed as templates to modulate the product distribution in a dynamic covalent library of Michael adducts formed by mixing a Michael acceptor with thiols. In methanol solution, all possible Michael adducts were obtained in similar amounts. Addition of vesicles to the dynamic covalent library led to the formation of a single major product. The equilibrium constants for formation of the Michael adducts are similar for all of the thiols used in this experiment, and the effect of the vesicles on the composition of the library is attributed to the differential partitioning of the library members between the lipid bilayer and the aqueous solution. The results provide a quantitative approach for exploiting dynamic covalent chemistry within lipid bilayers.
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Affiliation(s)
- Carlo Bravin
- Department of Chemistry, University of Cambridge Lensfield Road Cambridge CB2 1EW UK
| | - Christopher A Hunter
- Department of Chemistry, University of Cambridge Lensfield Road Cambridge CB2 1EW UK
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6
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Kieffer M, Bilbeisi RA, Thoburn JD, Clegg JK, Nitschke JR. Guest Binding Drives Host Redistribution in Libraries of Co II 4 L 4 Cages. Angew Chem Int Ed Engl 2020; 59:11369-11373. [PMID: 32243707 PMCID: PMC7383889 DOI: 10.1002/anie.202004627] [Citation(s) in RCA: 27] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/30/2020] [Indexed: 12/29/2022]
Abstract
Two CoII 4 L4 tetrahedral cages prepared from similar building blocks showed contrasting host-guest properties. One cage did not bind guests, whereas the second encapsulated a series of anions, due to electronic and geometric effects. When the building blocks of both cages were present during self-assembly, a library of five CoII LA x LB 4-x cages was formed in a statistical ratio in the absence of guests. Upon incorporation of anions able to interact preferentially with some library members, the products obtained were redistributed in favor of the best anion binders. To quantify the magnitudes of these templation effects, ESI-MS was used to gauge the effect of each template upon library redistribution.
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Affiliation(s)
- Marion Kieffer
- Department of ChemistryUniversity of CambridgeLensfield RoadCambridgeCB2 1EWUK
| | - Rana A. Bilbeisi
- Department of ChemistryUniversity of CambridgeLensfield RoadCambridgeCB2 1EWUK
- Department of Civil and Environmental EngineeringAmerican University of BeirutBeirutLebanon
| | - John D. Thoburn
- Department of ChemistryRandolph-Macon CollegeAshlandVA23005USA
| | - Jack K. Clegg
- Department of ChemistryUniversity of CambridgeLensfield RoadCambridgeCB2 1EWUK
- School of Chemistry and Molecular BiosciencesThe University of QueenslandSt LuciaQLD4072Australia
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7
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8
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Solà J, Jimeno C, Alfonso I. Exploiting complexity to implement function in chemical systems. Chem Commun (Camb) 2020; 56:13273-13286. [DOI: 10.1039/d0cc04170j] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Abstract
This feature article reflects a personal overview of the importance of complexity as an additional parameter to be considered in chemical research, being illustrated with selected examples in molecular recognition and catalysis.
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Affiliation(s)
- Jordi Solà
- Department of Biological Chemistry
- Institute of Advanced Chemistry of Catalonia
- IQAC-CSIC
- 08034 Barcelona
- Spain
| | - Ciril Jimeno
- Department of Biological Chemistry
- Institute of Advanced Chemistry of Catalonia
- IQAC-CSIC
- 08034 Barcelona
- Spain
| | - Ignacio Alfonso
- Department of Biological Chemistry
- Institute of Advanced Chemistry of Catalonia
- IQAC-CSIC
- 08034 Barcelona
- Spain
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9
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Serra-Pont A, Alfonso I, Solà J, Jimeno C. An efficient dynamic asymmetric catalytic system within a zinc-templated network. Chem Commun (Camb) 2019; 55:7970-7973. [PMID: 31219483 DOI: 10.1039/c9cc03958a] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
Abstract
Enhanced cooperativity leading to high catalytic activity and stereoselectivity has been achieved through a complex network of simple species interacting reversibly. This novel dynamic catalytic system relies on bipyridine-based organocatalytic ligands and zinc(ii) as the template. It demonstrates the effectiveness of dealing with mixtures rather than single species in asymmetric catalysis.
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Affiliation(s)
- Anna Serra-Pont
- Department of Biological Chemistry, Institute of Advanced Chemistry of Catalonia (IQAC-CSIC), Jordi Girona 18-26, E08034 Barcelona, Spain.
| | - Ignacio Alfonso
- Department of Biological Chemistry, Institute of Advanced Chemistry of Catalonia (IQAC-CSIC), Jordi Girona 18-26, E08034 Barcelona, Spain.
| | - Jordi Solà
- Department of Biological Chemistry, Institute of Advanced Chemistry of Catalonia (IQAC-CSIC), Jordi Girona 18-26, E08034 Barcelona, Spain.
| | - Ciril Jimeno
- Department of Biological Chemistry, Institute of Advanced Chemistry of Catalonia (IQAC-CSIC), Jordi Girona 18-26, E08034 Barcelona, Spain.
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10
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Yoneyama K, Suzuki R, Kuramochi Y, Satake A. A Candidate for Multitopic Probes for Ligand Discovery in Dynamic Combinatorial Chemistry. Molecules 2019; 24:E2166. [PMID: 31181809 PMCID: PMC6600254 DOI: 10.3390/molecules24112166] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/07/2019] [Revised: 05/30/2019] [Accepted: 06/07/2019] [Indexed: 11/26/2022] Open
Abstract
Multifunctionalized materials are expected to be versatile probes to find specific interactions between a ligand and a target biomaterial. Thus, efficient methods to prepare possible combinations of the functionalities is desired. The concept of dynamic combinatorial chemistry (DCC) is ideal for the generation of any possible combination, as well as screening for target biomaterials. Here, we propose a new molecular design of multitopic probes for ligand discovery in DCC. We synthesized a new Gable Porphyrin, GP1, having prop-2-yne groups as a scaffold to introduce various functional groups. GP1 is a bis(imidazolylporphyrinatozinc) compound connected through a 1,3-phenylene moiety, and it gives macrocycles spontaneously and quantitatively by strong imidazole-to-zinc complementary coordination. Some different types of functional groups were introduced into GP1 in high yields. Formation of heterogeneous macrocycles composed of GP1 derivatives having different types of substituents was accomplished under equilibrium conditions. These results promise that enormous numbers of macrocycles having various functional groups can be provided when the kinds of GP components increase. These features are desirable for DCC, and the present system using GP1 is a potential candidate to provide a dynamic combinatorial library of multitopic probes to discover specific interactions between a ligand and a biomaterial.
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Affiliation(s)
- Keiko Yoneyama
- Graduate School of Science, Tokyo University of Science, 1-3 Kagurazaka, Shinjuku-ku, Tokyo 162-8601, Japan.
| | - Rina Suzuki
- Graduate School of Chemical Sciences and Technology, Tokyo University of Science, 1-3 Kagurazaka, Shinjuku-ku, Tokyo 162-8601, Japan.
| | - Yusuke Kuramochi
- Department of Chemistry, Faculty of Science Division II, Tokyo University of Science, 1-3 Kagurazaka, Shinjuku-ku, Tokyo 162-8601, Japan.
| | - Akiharu Satake
- Department of Chemistry, Faculty of Science Division II, Tokyo University of Science, 1-3 Kagurazaka, Shinjuku-ku, Tokyo 162-8601, Japan.
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11
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Bravin C, Guidetti A, Licini G, Zonta C. Supramolecular cages as differential sensors for dicarboxylate anions: guest length sensing using principal component analysis of ESI-MS and 1H-NMR raw data. Chem Sci 2019; 10:3523-3528. [PMID: 30996943 PMCID: PMC6432344 DOI: 10.1039/c8sc05527k] [Citation(s) in RCA: 31] [Impact Index Per Article: 6.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/11/2018] [Accepted: 02/05/2019] [Indexed: 01/05/2023] Open
Abstract
Dynamic covalent libraries (DCLs) have been widely used in the development of differential sensors. Inspired by recent studies which use supramolecular recognition systems for sensing, we report the use of a tris(-pyridylmethyl)amine (TPMA)-based supramolecular cage as a differential sensor for dicarboxylate anions. In particular, a library of molecular cages constituted by linkers differing in size and flexibility was allowed to equilibrate toward a series of guests differing in molecular size. The differential system was able to discriminate a series of dicarboxylates depending on their chain length. This differentiation was evaluated through the application of the Principal Component Analysis (PCA) method using interpolated and raw data obtained from ESI-MS. Interestingly, while the 1H NMR spectra of the differential system did not allow for the discrimination of the analytes by the naked eye, PCA of the raw data from the spectra revealed information on the chain length of the guest and also on the odd-even character of the carbon chain.
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Affiliation(s)
- Carlo Bravin
- Department of Chemical Sciences , University of Padova , Via Marzolo 1 , 35131 Padova , Italy .
| | - Andrea Guidetti
- Department of Chemical Sciences , University of Padova , Via Marzolo 1 , 35131 Padova , Italy .
| | - Giulia Licini
- Department of Chemical Sciences , University of Padova , Via Marzolo 1 , 35131 Padova , Italy .
| | - Cristiano Zonta
- Department of Chemical Sciences , University of Padova , Via Marzolo 1 , 35131 Padova , Italy .
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12
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Lafuente M, Alfonso I, Solà J. Structurally Selective Assembly of a Specific Macrobicycle from a Dynamic Library of Pseudopeptidic Disulfides. CHEMSYSTEMSCHEM 2019. [DOI: 10.1002/syst.201900002] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Affiliation(s)
- María Lafuente
- Department of Biological ChemistryInstitute for Advanced Chemistry of Catalonia c/ Jordi Girona 18–26 Barcelona 08034 Spain
| | - Ignacio Alfonso
- Department of Biological ChemistryInstitute for Advanced Chemistry of Catalonia c/ Jordi Girona 18–26 Barcelona 08034 Spain
| | - Jordi Solà
- Department of Biological ChemistryInstitute for Advanced Chemistry of Catalonia c/ Jordi Girona 18–26 Barcelona 08034 Spain
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13
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Badetti E, Carmo Dos Santos NA, Scaramuzzo FA, Bravin C, Wurst K, Licini G, Zonta C. Diasteroselective multi-component assemblies from dynamic covalent imine condensation and metal-coordination chemistry: mechanism and narcissistic stereochemistry self-sorting. RSC Adv 2018; 8:19494-19498. [PMID: 35540993 PMCID: PMC9080712 DOI: 10.1039/c8ra03989e] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/10/2018] [Accepted: 05/21/2018] [Indexed: 12/03/2022] Open
Abstract
Self-assembly of a modified tris(2-pyridylmethyl)amine TPMA ligand, zinc(ii) or cobalt(ii) ions, and amino acids have been used effectively as stereo dynamic optical probes for the determination of the enantiomeric excess of free amino acids either using Electronic or Vibrational Circular Dichroism (CD and VCD). Herein, we report the mechanistic and stereochemical study of the self-assembly process which reveals a complex equilibrium in solution where even small variations in the experimental conditions can profoundly affect the final products of the reaction. In particular, variation on the metal stoichiometry switch give rises to an entirely enantio narcissistic self-assembly of the structure.
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Affiliation(s)
- Elena Badetti
- Department of Chemical Sciences, University of Padova, Via Marzolo 1 35131 Padova (PD) Italy
| | | | - Francesca A Scaramuzzo
- Department of Chemical Sciences, University of Padova, Via Marzolo 1 35131 Padova (PD) Italy
| | - Carlo Bravin
- Department of Chemical Sciences, University of Padova, Via Marzolo 1 35131 Padova (PD) Italy
| | - Klaus Wurst
- Institute of General, Inorganic and Theoretical Chemistry, University of Innsbruck Innrain 80/82 6020 Innsbruck Austria
| | - Giulia Licini
- Department of Chemical Sciences, University of Padova, Via Marzolo 1 35131 Padova (PD) Italy
| | - Cristiano Zonta
- Department of Chemical Sciences, University of Padova, Via Marzolo 1 35131 Padova (PD) Italy
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14
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Bravin C, Badetti E, Puttreddy R, Pan F, Rissanen K, Licini G, Zonta C. Binding Profiles of Self-Assembled Supramolecular Cages from ESI-MS Based Methodology. Chemistry 2018; 24:2936-2943. [DOI: 10.1002/chem.201704725] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/05/2017] [Indexed: 12/21/2022]
Affiliation(s)
- Carlo Bravin
- Department of Chemical Sciences; University of Padova; via Marzolo 1 35131 Padova (PD) Italy
| | - Elena Badetti
- Department of Chemical Sciences; University of Padova; via Marzolo 1 35131 Padova (PD) Italy
| | - Rakesh Puttreddy
- Nanoscience Center; Department of Chemistry; University of Jyvaskyla; P.O. Box 35 40014 Jyvaskyla Finland
| | - Fangfang Pan
- Nanoscience Center; Department of Chemistry; University of Jyvaskyla; P.O. Box 35 40014 Jyvaskyla Finland
| | - Kari Rissanen
- Nanoscience Center; Department of Chemistry; University of Jyvaskyla; P.O. Box 35 40014 Jyvaskyla Finland
| | - Giulia Licini
- Department of Chemical Sciences; University of Padova; via Marzolo 1 35131 Padova (PD) Italy
| | - Cristiano Zonta
- Department of Chemical Sciences; University of Padova; via Marzolo 1 35131 Padova (PD) Italy
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15
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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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16
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Atcher J, Solà J, Alfonso I. Pseudopeptidic compounds for the generation of dynamic combinatorial libraries of chemically diverse macrocycles in aqueous media. Org Biomol Chem 2017; 15:213-219. [DOI: 10.1039/c6ob02441f] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The combination of pseudopeptidic dithiol building blocks leads to the generation of highly diverse dynamic libraries of macrocycles in aqueous media.
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Affiliation(s)
- Joan Atcher
- Department of Biological Chemistry and Molecular Modelling
- IQAC-CSIC
- Barcelona
- Spain
| | - Jordi Solà
- Department of Biological Chemistry and Molecular Modelling
- IQAC-CSIC
- Barcelona
- Spain
| | - Ignacio Alfonso
- Department of Biological Chemistry and Molecular Modelling
- IQAC-CSIC
- Barcelona
- Spain
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17
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Atcher J, Bujons J, Alfonso I. Entropy-driven homochiral self-sorting of a dynamic library. Chem Commun (Camb) 2017; 53:4274-4277. [DOI: 10.1039/c7cc01153a] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The efficient homochiral self-sorting of pseudopeptidic macrocycles, observed from a simple dynamic library, is driven by entropy.
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Affiliation(s)
- Joan Atcher
- Department of Biological Chemistry and Molecular Modelling
- Institute of Advance Chemistry of Catalonia (IQAC-CSIC)
- Barcelona
- Spain
| | - Jordi Bujons
- Department of Biological Chemistry and Molecular Modelling
- Institute of Advance Chemistry of Catalonia (IQAC-CSIC)
- Barcelona
- Spain
| | - Ignacio Alfonso
- Department of Biological Chemistry and Molecular Modelling
- Institute of Advance Chemistry of Catalonia (IQAC-CSIC)
- Barcelona
- Spain
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18
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Abstract
On the basis of many literature measurements, a critical overview is given on essential noncovalent interactions in synthetic supramolecular complexes, accompanied by analyses with selected proteins. The methods, which can be applied to derive binding increments for single noncovalent interactions, start with the evaluation of consistency and additivity with a sufficiently large number of different host-guest complexes by applying linear free energy relations. Other strategies involve the use of double mutant cycles, of molecular balances, of dynamic combinatorial libraries, and of crystal structures. Promises and limitations of these strategies are discussed. Most of the analyses stem from solution studies, but a few also from gas phase. The empirically derived interactions are then presented on the basis of selected complexes with respect to ion pairing, hydrogen bonding, electrostatic contributions, halogen bonding, π-π-stacking, dispersive forces, cation-π and anion-π interactions, and contributions from the hydrophobic effect. Cooperativity in host-guest complexes as well as in self-assembly, and entropy factors are briefly highlighted. Tables with typical values for single noncovalent free energies and polarity parameters are in the Supporting Information.
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Affiliation(s)
- Frank Biedermann
- Institute of Nanotechnology, Karlsruhe Institute of Technology (KIT) , Hermann-von-Helmholtz Platz 1, 76344 Eggenstein-Leopoldshafen, Germany
| | - Hans-Jörg Schneider
- FR Organische Chemie der Universität des Saarlandes , D-66041 Saarbrücken, Germany
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19
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Tsiamantas C, de Hatten X, Douat C, Kauffmann B, Maurizot V, Ihara H, Takafuji M, Metzler-Nolte N, Huc I. Selective Dynamic Assembly of Disulfide Macrocyclic Helical Foldamers with Remote Communication of Handedness. Angew Chem Int Ed Engl 2016; 55:6848-52. [DOI: 10.1002/anie.201601156] [Citation(s) in RCA: 46] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/01/2016] [Indexed: 11/10/2022]
Affiliation(s)
- Christos Tsiamantas
- University of Bordeaux, CBMN (UMR 5248); Institut Européen de Chimie et Biologie; 2 rue Escarpit 33600 Pessac France
- CNRS, CBMN (UMR 5248); France
| | - Xavier de Hatten
- University of Bordeaux, CBMN (UMR 5248); Institut Européen de Chimie et Biologie; 2 rue Escarpit 33600 Pessac France
- CNRS, CBMN (UMR 5248); France
| | - Céline Douat
- University of Bordeaux, CBMN (UMR 5248); Institut Européen de Chimie et Biologie; 2 rue Escarpit 33600 Pessac France
- CNRS, CBMN (UMR 5248); France
| | - Brice Kauffmann
- University of Bordeaux; Institut Européen de Chimie et Biologie (UMS3033); 2 rue Escarpit 33600 Pessac France
- CNRS, IECB (UMS 3033); Pessac France
- INSERM, IECB (US 001); Pessac France
| | - Victor Maurizot
- University of Bordeaux, CBMN (UMR 5248); Institut Européen de Chimie et Biologie; 2 rue Escarpit 33600 Pessac France
- CNRS, CBMN (UMR 5248); France
| | - Hirotaka Ihara
- Kumamoto University; Department of Applied Chemistry and Biochemistry; 2-39-1 Kurokami Kumamoto 860-8555 Japan
| | - Makoto Takafuji
- Kumamoto University; Department of Applied Chemistry and Biochemistry; 2-39-1 Kurokami Kumamoto 860-8555 Japan
| | - Nils Metzler-Nolte
- Ruhr University Bochum; Faculty for Chemistry and Biochemistry; Universitätstrasse 150 44801 Bochum Germany
| | - Ivan Huc
- University of Bordeaux, CBMN (UMR 5248); Institut Européen de Chimie et Biologie; 2 rue Escarpit 33600 Pessac France
- CNRS, CBMN (UMR 5248); France
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20
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Tsiamantas C, de Hatten X, Douat C, Kauffmann B, Maurizot V, Ihara H, Takafuji M, Metzler-Nolte N, Huc I. Selective Dynamic Assembly of Disulfide Macrocyclic Helical Foldamers with Remote Communication of Handedness. Angew Chem Int Ed Engl 2016. [DOI: 10.1002/ange.201601156] [Citation(s) in RCA: 24] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Affiliation(s)
- Christos Tsiamantas
- University of Bordeaux, CBMN (UMR 5248); Institut Européen de Chimie et Biologie; 2 rue Escarpit 33600 Pessac France
- CNRS, CBMN (UMR 5248); France
| | - Xavier de Hatten
- University of Bordeaux, CBMN (UMR 5248); Institut Européen de Chimie et Biologie; 2 rue Escarpit 33600 Pessac France
- CNRS, CBMN (UMR 5248); France
| | - Céline Douat
- University of Bordeaux, CBMN (UMR 5248); Institut Européen de Chimie et Biologie; 2 rue Escarpit 33600 Pessac France
- CNRS, CBMN (UMR 5248); France
| | - Brice Kauffmann
- University of Bordeaux; Institut Européen de Chimie et Biologie (UMS3033); 2 rue Escarpit 33600 Pessac France
- CNRS, IECB (UMS 3033); Pessac France
- INSERM, IECB (US 001); Pessac France
| | - Victor Maurizot
- University of Bordeaux, CBMN (UMR 5248); Institut Européen de Chimie et Biologie; 2 rue Escarpit 33600 Pessac France
- CNRS, CBMN (UMR 5248); France
| | - Hirotaka Ihara
- Kumamoto University; Department of Applied Chemistry and Biochemistry; 2-39-1 Kurokami Kumamoto 860-8555 Japan
| | - Makoto Takafuji
- Kumamoto University; Department of Applied Chemistry and Biochemistry; 2-39-1 Kurokami Kumamoto 860-8555 Japan
| | - Nils Metzler-Nolte
- Ruhr University Bochum; Faculty for Chemistry and Biochemistry; Universitätstrasse 150 44801 Bochum Germany
| | - Ivan Huc
- University of Bordeaux, CBMN (UMR 5248); Institut Européen de Chimie et Biologie; 2 rue Escarpit 33600 Pessac France
- CNRS, CBMN (UMR 5248); France
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21
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Alfonso I. From simplicity to complex systems with bioinspired pseudopeptides. Chem Commun (Camb) 2016; 52:239-50. [DOI: 10.1039/c5cc07596c] [Citation(s) in RCA: 35] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/30/2023]
Abstract
This feature article highlights some of the recent advances in creating complexity from simple pseudopeptidic molecules. The bioinspired approaches discussed here allowed an increase in the structural, chemical and interactional complexity (see figure).
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Affiliation(s)
- Ignacio Alfonso
- Department of Biological Chemistry and Molecular Modelling
- Institute of Advanced Chemistry of Catalonia
- IQAC-CSIC
- Jordi Girona
- 18-26
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22
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Serra-Pont A, Alfonso I, Jimeno C, Solà J. Dynamic assembly of a zinc-templated bifunctional organocatalyst in the presence of water for the asymmetric aldol reaction. Chem Commun (Camb) 2015; 51:17386-9. [PMID: 26478115 DOI: 10.1039/c5cc07847d] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
A bifunctional organocatalytic system consisting of simple pyridine ligands containing separate catalytic functionalities was assembled using ZnCl2. This novel metal-templated catalyst furnished high yields and stereoselectivities towards the aldol reaction. The addition of controlled amounts of water turned out to be crucial to dissolve the system and achieve optimal results.
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Affiliation(s)
- Anna Serra-Pont
- Institute of Advanced Chemistry of Catalonia (IQAC-CSIC), Department of Biological Chemistry and Molecular Modelling, c/Jordi Girona 18-26, E08034 Barcelona, Spain.
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23
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Lafuente M, Atcher J, Solà J, Alfonso I. Adaptive Correction from Virtually Complex Dynamic Libraries: The Role of Noncovalent Interactions in Structural Selection and Folding. Chemistry 2015; 21:17002-9. [DOI: 10.1002/chem.201501415] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/11/2015] [Indexed: 11/08/2022]
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24
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Mukherjee R, Cohen-Luria R, Wagner N, Ashkenasy G. A Bistable Switch in Dynamic Thiodepsipeptide Folding and Template-Directed Ligation. Angew Chem Int Ed Engl 2015; 54:12452-6. [DOI: 10.1002/anie.201503898] [Citation(s) in RCA: 29] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/23/2015] [Revised: 07/21/2015] [Indexed: 11/08/2022]
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25
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Mukherjee R, Cohen-Luria R, Wagner N, Ashkenasy G. A Bistable Switch in Dynamic Thiodepsipeptide Folding and Template-Directed Ligation. Angew Chem Int Ed Engl 2015. [DOI: 10.1002/ange.201503898] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
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26
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Valdivielso ÁM, Catot A, Alfonso I, Jimeno C. Intramolecular hydrogen bonding guides a cationic amphiphilic organocatalyst to highly stereoselective aldol reactions in water. RSC Adv 2015. [DOI: 10.1039/c5ra12135c] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
A novel amphiphilic acylguanidine organocatalyst using intramolecular hydrogen bonding as a key structural motif is efficient for asymmetric aldol reactions of ketones in water at neutral pH.
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Affiliation(s)
- Ángel M. Valdivielso
- Department of Biological Chemistry and Molecular Modelling
- Institute of Advanced Chemistry of Catalonia (IQAC-CSIC)
- E08034 Barcelona
- Spain
| | - Alba Catot
- Department of Biological Chemistry and Molecular Modelling
- Institute of Advanced Chemistry of Catalonia (IQAC-CSIC)
- E08034 Barcelona
- Spain
| | - Ignacio Alfonso
- Department of Biological Chemistry and Molecular Modelling
- Institute of Advanced Chemistry of Catalonia (IQAC-CSIC)
- E08034 Barcelona
- Spain
| | - Ciril Jimeno
- Department of Biological Chemistry and Molecular Modelling
- Institute of Advanced Chemistry of Catalonia (IQAC-CSIC)
- E08034 Barcelona
- Spain
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