1
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Milanesi F, Burrini N, Corti G, Roelens S, Francesconi O. A Macrocyclic Tweezers-Shaped Receptor for the Biomimetic Recognition of the Gal(α1-3)Gal Disaccharide of the α-Gal Antigen. Chemistry 2024; 30:e202401771. [PMID: 38818641 DOI: 10.1002/chem.202401771] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/06/2024] [Revised: 05/28/2024] [Accepted: 05/29/2024] [Indexed: 06/01/2024]
Abstract
The Gal(α1-3)Gal is the terminal disaccharide unit of the α-Gal epitope [Gal(α1-3)Gal(β1-4)GlcNAc], an exogenous antigenic determinant with several clinical implications, found in all non-primate mammals and in several dangerous pathogens, including certain protozoa and mycobacteria. Its absence in humans makes the α-Gal epitope an interesting target for several infectious diseases. Here we present the development of a macrocyclic tweezers-shaped receptor, resulting from the combination of the structural features of two predecessors belonging to the family of diaminocarbazole receptors, which exhibits binding properties in the low millimolar range toward the Gal(α1-3)Gal disaccharide of the α-Gal antigen.
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Affiliation(s)
- Francesco Milanesi
- Department of Chemistry "Ugo Schiff", DICUS, Università degli Studi di Firenze, Campus Sesto, 50019 Sesto Fiorentino, Firenze, Italy
| | - Nastassja Burrini
- Department of Chemistry "Ugo Schiff", DICUS, Università degli Studi di Firenze, Campus Sesto, 50019 Sesto Fiorentino, Firenze, Italy
| | - Giona Corti
- Department of Chemistry "Ugo Schiff", DICUS, Università degli Studi di Firenze, Campus Sesto, 50019 Sesto Fiorentino, Firenze, Italy
| | - Stefano Roelens
- Consorzio Interuniversitario Nazionale per la Scienza e Tecnologia dei Materiali (INSTM), Department of Chemistry "Ugo Schiff", DICUS, Campus Sesto, 50019 Sesto Fiorentino, Firenze, Italy
| | - Oscar Francesconi
- Department of Chemistry "Ugo Schiff", DICUS, Università degli Studi di Firenze, Campus Sesto, 50019 Sesto Fiorentino, Firenze, Italy
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2
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Milanesi F, Roelens S, Francesconi O. Towards Biomimetic Recognition of Glycans by Synthetic Receptors. Chempluschem 2024; 89:e202300598. [PMID: 37942862 DOI: 10.1002/cplu.202300598] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/19/2023] [Revised: 11/03/2023] [Accepted: 11/08/2023] [Indexed: 11/10/2023]
Abstract
Carbohydrates are abundant in Nature, where they are mostly assembled within glycans as free polysaccharides or conjugated to a variety of biological molecules such as proteins and lipids. Glycans exert several functions, including protein folding, stability, solubility, resistance to proteolysis, intracellular traffic, antigenicity, and recognition by carbohydrate-binding proteins. Interestingly, misregulation of their biosynthesis that leads to changes in glycan structures is frequently recognized as a mark of a disease state. Because of glycan ubiquity, carbohydrate binding agents (CBAs) targeting glycans can lead to a deeper understanding of their function and to the development of new diagnostic and prognostic strategies. Synthetic receptors selectively recognizing specific carbohydrates of biological interest have been developed over the past three decades. In addition to the success obtained in the effective recognition of monosaccharides, synthetic receptors recognizing more complex guests have also been developed, including di- and oligosaccharide fragments of glycans, shedding light on the structural and functional requirements necessary for an effective receptor. In this review, the most relevant achievements in molecular recognition of glycans and their fragments will be summarized, highlighting potentials and future perspectives of glycan-targeting synthetic receptors.
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Affiliation(s)
- Francesco Milanesi
- Department of Chemistry "Ugo Schiff", DICUS and INSTM, Università degli Studi di Firenze, Campus Sesto, 50019, Sesto Fiorentino, Firenze, Italy
| | - Stefano Roelens
- Department of Chemistry "Ugo Schiff", DICUS and INSTM, Università degli Studi di Firenze, Campus Sesto, 50019, Sesto Fiorentino, Firenze, Italy
| | - Oscar Francesconi
- Department of Chemistry "Ugo Schiff", DICUS and INSTM, Università degli Studi di Firenze, Campus Sesto, 50019, Sesto Fiorentino, Firenze, Italy
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3
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Vandevelde M, Simoens A, Vandekerckhove B, Stevens C. Synthesis and bioactivity of psilocybin analogues containing a stable carbon-phosphorus bond. RSC Med Chem 2024; 15:998-1002. [PMID: 38516602 PMCID: PMC10953488 DOI: 10.1039/d4md00043a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/18/2024] [Accepted: 02/21/2024] [Indexed: 03/23/2024] Open
Abstract
Psilocybin analogues have been synthesized comprising a non-hydrolysable P-C bond to evaluate the biological activity and the selectivity towards 5-HT2AR, 5-HT2BR and the TNAP receptor. No activity was observed towards the phosphatase, however all compounds showed good binding affinity for 5-HT2AR and 5-HT2BR and one compound showed a higher selectivity towards 5-HT2AR than psilocin.
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Affiliation(s)
- Marthe Vandevelde
- Department of Green Chemistry and Technology, Synthesis, Bioresources and Bioorganic Chemistry Research Group, Ghent University Coupure Links 653 9000 Ghent Belgium
| | - Andreas Simoens
- Department of Green Chemistry and Technology, Synthesis, Bioresources and Bioorganic Chemistry Research Group, Ghent University Coupure Links 653 9000 Ghent Belgium
| | - Bavo Vandekerckhove
- Department of Green Chemistry and Technology, Synthesis, Bioresources and Bioorganic Chemistry Research Group, Ghent University Coupure Links 653 9000 Ghent Belgium
| | - Christian Stevens
- Department of Green Chemistry and Technology, Synthesis, Bioresources and Bioorganic Chemistry Research Group, Ghent University Coupure Links 653 9000 Ghent Belgium
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4
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Polkaehn J, Thom R, Ehlers P, Villinger A, Langer P. π-Expanded azaullazines: synthesis of quinolino-azaullazines by Povarov reaction and cycloisomerisation. Org Biomol Chem 2024; 22:2027-2042. [PMID: 38353980 DOI: 10.1039/d4ob00091a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/07/2024]
Abstract
Doping and extension of polycyclic aromatic hydrocarbons (PAHs) by simple and efficient synthetic methods is of increased demand for the development of novel and improved organic electronics. Diarylindolizino[6,5,4,3-ija]quinolino[2,3-c][1,6]naphthyridines (quinolino-azaullazines) were prepared by combination of Pd catalyzed cross-coupling with Povarov and cycloisomerisation reactions. The products contain an electron-rich ullazine and an electron-poor quinoline moiety and show intramolecular charge transfer properties that can be tuned by the substitution pattern. The optical properties were studied experimentally and further elaborated by (TD)DFT calculations.
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Affiliation(s)
- Jonas Polkaehn
- Institute of Chemistry, University Rostock, Albert-Einstein-Str. 3a, 18059 Rostock, Germany.
| | - Richard Thom
- Institute of Chemistry, University Rostock, Albert-Einstein-Str. 3a, 18059 Rostock, Germany.
| | - Peter Ehlers
- Institute of Chemistry, University Rostock, Albert-Einstein-Str. 3a, 18059 Rostock, Germany.
| | - Alexander Villinger
- Institute of Chemistry, University Rostock, Albert-Einstein-Str. 3a, 18059 Rostock, Germany.
| | - Peter Langer
- Institute of Chemistry, University Rostock, Albert-Einstein-Str. 3a, 18059 Rostock, Germany.
- Leibniz Institute for Catalysis (LIKAT) at the University Rostock, Albert-Einstein-Str. 29a, 18059 Rostock, Germany
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5
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Huang X, Han Y, Li J, Tang M, Qing G. Sensitive and specific detection of saccharide species based on fluorescence: update from 2016. Anal Bioanal Chem 2023:10.1007/s00216-023-04703-w. [PMID: 37119357 PMCID: PMC10148015 DOI: 10.1007/s00216-023-04703-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/27/2023] [Revised: 04/12/2023] [Accepted: 04/14/2023] [Indexed: 05/01/2023]
Abstract
Increasing evidence supports the critical role of saccharides in various pathophysiological steps of tumor progression, where they regulate tumor proliferation, invasion, hematogenic metastasis, and angiogenesis. The identification and recognition of these saccharides provide a solid foundation for the development of targeted drug preparations, which are however not fully understood due to their complex and similar structures. In order to achieve fluorescence sensing of saccharides, extensive research has been conducted to design molecular probes and nanoparticles made of different materials. This paper aims to provide in-depth discussion of three main topics that cover the current status of the carbohydrate sensing based on the fluorescence sensing mechanism, including a phenylboronic acid-based sensing platform, non-boronic acid entities, as well as an enzyme-based sensing platform. It also highlights efforts made to understand the recognition mechanisms and improve the sensing properties of these systems. Finally, we present the challenge of achieving high selectivity and sensitivity recognition of saccharides, and suggest possible future avenues for exploration.
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Affiliation(s)
- Xiaohuan Huang
- Hubei Key Laboratory of Pollutant Analysis and Reuse Technology, College of Chemistry and Chemical Engineering, Hubei Normal University, Huangshi, 435002, People's Republic of China
| | - Ying Han
- Hubei Key Laboratory of Pollutant Analysis and Reuse Technology, College of Chemistry and Chemical Engineering, Hubei Normal University, Huangshi, 435002, People's Republic of China
| | - Junrong Li
- Hubei Key Laboratory of Pollutant Analysis and Reuse Technology, College of Chemistry and Chemical Engineering, Hubei Normal University, Huangshi, 435002, People's Republic of China
| | - Mingliang Tang
- College of Life Sciences, Wuhan University, 299 Bayi Road, Wuhan, 430072, People's Republic of China
| | - Guangyan Qing
- Key Laboratory of Separation Science for Analytical Chemistry, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, 457 Zhongshan Road, Dalian, 116023, People's Republic of China.
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6
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Kassem S, McPhee SA, Berisha N, Ulijn RV. Emergence of Cooperative Glucose-Binding Networks in Adaptive Peptide Systems. J Am Chem Soc 2023; 145:9800-9807. [PMID: 37075194 DOI: 10.1021/jacs.3c01620] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/21/2023]
Abstract
Minimalistic peptide-based systems that bind sugars in water are challenging to design due to the weakness of interactions and required cooperative contributions from specific amino-acid side chains. Here, we used a bottom-up approach to create peptide-based adaptive glucose-binding networks by mixing glucose with selected sets of input dipeptides (up to 4) in the presence of an amidase to enable in situ reversible peptide elongation, forming mixtures of up to 16 dynamically interacting tetrapeptides. The choice of input dipeptides was based on amino-acid abundance in glucose-binding sites found in the protein data bank, with side chains that can support hydrogen bonding and CH-π interactions. Tetrapeptide sequence amplification patterns, determined through LC-MS analysis, served as a readout for collective interactions and led to the identification of optimized binding networks. Systematic variation of dipeptide input revealed the emergence of two networks of non-covalent hydrogen bonding and CH-π interactions that can co-exist, are cooperative and context-dependent. A cooperative binding mode was determined by studying the binding of the most amplified tetrapeptide (AWAD) with glucose in isolation. Overall, these results demonstrate that the bottom-up design of complex systems can recreate emergent behaviors driven by covalent and non-covalent self-organization that are not observed in reductionist designs and lead to the identification of system-level cooperative binding motifs.
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Affiliation(s)
- Salma Kassem
- Nanoscience Initiative at Advanced Science Research Center of the Graduate Center of the City University of New York, New York, New York 10031, United States
| | - Scott A McPhee
- Nanoscience Initiative at Advanced Science Research Center of the Graduate Center of the City University of New York, New York, New York 10031, United States
| | - Naxhije Berisha
- Nanoscience Initiative at Advanced Science Research Center of the Graduate Center of the City University of New York, New York, New York 10031, United States
- Ph.D. Programs in Biochemistry and Chemistry, The Graduate Center of the City University of New York, New York, New York 10016, United States
- Department of Pharmacology, Memorial Sloan Kettering Cancer Center, New York, New York 10065, United States
- Department of Chemistry Hunter College, City University of New York, New York, New York 10065, United States
| | - Rein V Ulijn
- Nanoscience Initiative at Advanced Science Research Center of the Graduate Center of the City University of New York, New York, New York 10031, United States
- Ph.D. Programs in Biochemistry and Chemistry, The Graduate Center of the City University of New York, New York, New York 10016, United States
- Department of Chemistry Hunter College, City University of New York, New York, New York 10065, United States
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7
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Manick AD, Li C, Antonetti E, Albalat M, Cotelle Y, Nava P, Dutasta JP, Chatelet B, Martinez A. Probing the Importance of Host Symmetry on Carbohydrate Recognition. Chemistry 2023; 29:e202203212. [PMID: 36563113 DOI: 10.1002/chem.202203212] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/13/2022] [Indexed: 12/24/2022]
Abstract
The design of molecular cages with low symmetry could allow for more specific tuning of their properties and better mimic the unsymmetrical and complex environment of protein pockets. However, the added value of lowering symmetry of molecular receptors has been rarely demonstrated. Herein, C3 - and C1 -symmetrical cages, presenting the same recognition sites, have been synthesized and investigated as hosts for carbohydrate recognition. Structurally related derivatives of glucose, galactose and mannose were found to have greater affinity to the receptor with the lowest symmetry than to their C3 -symmetrical analogue. According to the host cavity modelling, the C1 symmetry receptor exhibits a wider opening than its C3 -symmetrical counterpart, providing easier access and thus promoting guest proximity to binding sites. Moreover, our results show the high stereo- and substrate selectivity of the C1 symmetry cage with respect to its C3 counterpart in the recognition of sugars.
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Affiliation(s)
- Anne-Doriane Manick
- Aix Marseille Université, Centrale Marseille, CNRS, iSm2 UMR 7313, 13397, Marseille, France
| | - Chunyang Li
- School of Materials Science and Engineering, Sichuan University of Science & Engineering, Zigong, 643000, China.,Material Corrosion and Protection Key Laboratory of Sichuan Province, Sichuan University of Science & Engineering, Zigong, 643000, China
| | - Elise Antonetti
- Aix Marseille Université, Centrale Marseille, CNRS, iSm2 UMR 7313, 13397, Marseille, France
| | - Muriel Albalat
- Aix Marseille Université, Centrale Marseille, CNRS, iSm2 UMR 7313, 13397, Marseille, France
| | - Yoann Cotelle
- Aix Marseille Université, Centrale Marseille, CNRS, iSm2 UMR 7313, 13397, Marseille, France
| | - Paola Nava
- Aix Marseille Université, Centrale Marseille, CNRS, iSm2 UMR 7313, 13397, Marseille, France
| | - Jean-Pierre Dutasta
- ENSL, CNRS, Laboratoire de Chimie UMR 5182, 46 allée d'Italie, 69364, Lyon, France
| | - Bastien Chatelet
- Aix Marseille Université, Centrale Marseille, CNRS, iSm2 UMR 7313, 13397, Marseille, France
| | - Alexandre Martinez
- Aix Marseille Université, Centrale Marseille, CNRS, iSm2 UMR 7313, 13397, Marseille, France
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8
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Webster CS, Balduzzi F, Davis AP. Tricyclic octaurea "Temples" for the recognition of polar molecules in water. Org Biomol Chem 2023; 21:525-532. [PMID: 36533594 DOI: 10.1039/d2ob02061k] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Abstract
Two water-soluble tricyclic "Temple" macrocycles featuring pyrene roof/floor units and bis-urea spacers have been synthesised and studied as receptors for aromatic compounds in aqueous media. The tricycles show good selectivity for methylated purine alkaloids such as caffeine versus unsubstituted heterocycles such as adenine and indole. Binding is signalled by major changes in fluorescence, apparently due to the break-up of intramolecular excimers. The formation of excimers implies cavity collapse in the absence of guests explaining why, unlike an earlier relative, these receptors do not bind carbohydrates. Naphthalenediimides (NDIs) have also been studied as geometrically complementary guests, and indeed bind especially strongly (Ka > 107 M-1); this powerful and selective association suggests potential applications in supramolecular self-assembly.
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Affiliation(s)
- Claire S Webster
- University of Bristol, School of Chemistry, Cantock's Close, Bristol, BS8 1TS, UK.
| | - Federica Balduzzi
- University of Bristol, School of Chemistry, Cantock's Close, Bristol, BS8 1TS, UK.
| | - Anthony P Davis
- University of Bristol, School of Chemistry, Cantock's Close, Bristol, BS8 1TS, UK.
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9
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Milanesi F, Unione L, Ardá A, Nativi C, Jiménez-Barbero J, Roelens S, Francesconi O. Biomimetic Tweezers for N-Glycans: Selective Recognition of the Core GlcNAc 2 Disaccharide of the Sialylglycopeptide SGP. Chemistry 2023; 29:e202203591. [PMID: 36597924 DOI: 10.1002/chem.202203591] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/18/2022] [Revised: 01/02/2023] [Accepted: 01/03/2023] [Indexed: 01/05/2023]
Abstract
In recent years, glycomics have shown how pervasive the role of carbohydrates in biological systems is and how chemical tools are essential to investigate glycan function and modulate carbohydrate-mediated processes. Biomimetic receptors for carbohydrates can carry out this task but, although significant affinities and selectivities toward simple saccharides have been achieved, targeting complex glycoconjugates remains a goal yet unattained. In this work we report the unprecedented recognition of a complex biantennary sialylglycopeptide (SGP) by a tweezers-shaped biomimetic receptor, which selectively binds to the core GlcNAc2 disaccharide of the N-glycan with an affinity of 170 μM. Because of the simple structure and the remarkable binding ability, this biomimetic receptor can represent a versatile tool for glycoscience, opening the way to useful applications.
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Affiliation(s)
- Francesco Milanesi
- Department of Chemistry "Ugo Schiff" DICUS and INSTM, University of Florence, Polo Scientifico e Tecnologico, I-50019 Sesto Fiorentino, Firenze, Italy.,Magnetic Resonance Center CERM, University of Florence, Via L. Sacconi 6, I-50019, Sesto Fiorentino, Firenze, Italy
| | - Luca Unione
- CICbioGUNE, Basque Research & Technology Alliance (BRTA), Bizkaia Technology Park, Building 800, 48160, Derio, Bizkaia, Spain.,Ikerbasque, Basque Foundation for Science, Maria Diaz de Haro 3, 48013, Bilbao, Bizkaia, Spain
| | - Ana Ardá
- CICbioGUNE, Basque Research & Technology Alliance (BRTA), Bizkaia Technology Park, Building 800, 48160, Derio, Bizkaia, Spain.,Ikerbasque, Basque Foundation for Science, Maria Diaz de Haro 3, 48013, Bilbao, Bizkaia, Spain
| | - Cristina Nativi
- Department of Chemistry "Ugo Schiff" DICUS and INSTM, University of Florence, Polo Scientifico e Tecnologico, I-50019 Sesto Fiorentino, Firenze, Italy
| | - Jesús Jiménez-Barbero
- CICbioGUNE, Basque Research & Technology Alliance (BRTA), Bizkaia Technology Park, Building 800, 48160, Derio, Bizkaia, Spain.,Ikerbasque, Basque Foundation for Science, Maria Diaz de Haro 3, 48013, Bilbao, Bizkaia, Spain.,Department of Organic Chemistry, II Faculty of Science and Technology, University of the Basque Country, EHU-UPV, 48940, Leioa, Spain.,Centro de Investigación Biomédica En Red de Enfermedades Respiratorias, Madrid, Spain
| | - Stefano Roelens
- Department of Chemistry "Ugo Schiff" DICUS and INSTM, University of Florence, Polo Scientifico e Tecnologico, I-50019 Sesto Fiorentino, Firenze, Italy
| | - Oscar Francesconi
- Department of Chemistry "Ugo Schiff" DICUS and INSTM, University of Florence, Polo Scientifico e Tecnologico, I-50019 Sesto Fiorentino, Firenze, Italy
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10
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Leibiger B, Stapf M, Mazik M. Cycloalkyl Groups as Building Blocks of Artificial Carbohydrate Receptors: Studies with Macrocycles Bearing Flexible Side-Arms. Molecules 2022; 27:7630. [PMID: 36364458 PMCID: PMC9654292 DOI: 10.3390/molecules27217630] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/22/2022] [Revised: 10/26/2022] [Accepted: 10/28/2022] [Indexed: 09/29/2023] Open
Abstract
The cyclopentyl group was expected to act as a building block for artificial carbohydrate receptors and to participate in van der Waals contacts with the carbohydrate substrate in a similar way as observed for the pyrrolidine ring of proline in the crystal structures of protein-carbohydrate complexes. Systematic binding studies with a series of 1,3,5-trisubstituted 2,4,6-triethylbenzenes bearing various cycloalkyl groups as recognition units provided indications of the involvement of these groups in the complexation process and showed the influence of the ring size on the receptor efficiency. Representatives of compounds that exhibit a macrocyclic backbone and flexible side arms were now chosen as further model systems to investigate whether the previously observed effects represent a general trend. Binding studies with these macrocycles towards β-D-glucopyranoside, an all-equatorial substituted carbohydrate substrate, included 1H NMR spectroscopic titrations and microcalorimetric investigations. The performed studies confirmed the previously observed tendency and showed that the compound bearing cyclohexyl groups displays the best binding properties.
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Affiliation(s)
| | | | - Monika Mazik
- Institut für Organische Chemie, Technische Universität Bergakademie Freiberg, Leipziger Straße 29, 09596 Freiberg, Germany
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11
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Kubik S. When Molecules Meet in Water-Recent Contributions of Supramolecular Chemistry to the Understanding of Molecular Recognition Processes in Water. Chemistry 2022; 11:e202200028. [PMID: 35373466 PMCID: PMC8977507 DOI: 10.1002/open.202200028] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/07/2022] [Revised: 03/17/2022] [Indexed: 12/19/2022]
Abstract
Molecular recognition processes in water differ from those in organic solvents in that they are mediated to a much greater extent by solvent effects. The hydrophobic effect, for example, causes molecules that only weakly interact in organic solvents to stay together in water. Such water‐mediated interactions can be very efficient as demonstrated by many of the synthetic receptors discussed in this review, some of which have substrate affinities matching or even surpassing those of natural binders. However, in spite of considerable success in designing such receptors, not all factors determining their binding properties in water are fully understood. Existing concepts still provide plausible explanations why the reorganization of water molecules often causes receptor‐substrate interactions in water to be strongly exothermic rather than entropically favored as predicted by the classical view of the hydrophobic effect.
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Affiliation(s)
- Stefan Kubik
- Technische Universität Kaiserslautern, Fachbereich Chemie - Organische Chemie, Erwin-Schrödinger-Straße 54, 67663, Kaiserslautern, Germany
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12
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Shen N, Li R, Liu C, Shen X, Guan W, Shang R. Photocatalytic Cross-Couplings of Aryl Halides Enabled by o-Phosphinophenolate and o-Phosphinothiophenolate. ACS Catal 2022. [DOI: 10.1021/acscatal.1c05941] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Affiliation(s)
- Ni Shen
- Department of Chemistry, University of Science and Technology of China, Hefei 230026, China
| | - Runhan Li
- Institute of Functional Material Chemistry, Faculty of Chemistry, Northeast Normal University, Changchun 130024, China
| | - Can Liu
- Department of Chemistry, University of Science and Technology of China, Hefei 230026, China
| | - Xuzhong Shen
- Department of Chemistry, University of Science and Technology of China, Hefei 230026, China
| | - Wei Guan
- Institute of Functional Material Chemistry, Faculty of Chemistry, Northeast Normal University, Changchun 130024, China
| | - Rui Shang
- Department of Chemistry, University of Science and Technology of China, Hefei 230026, China
- Department of Chemistry, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-0033, Japan
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13
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Amrhein F, Mazik M. Compounds Combining a Macrocyclic Building Block and Flexible Side‐Arms as Carbohydrate Receptors: Syntheses and Structure‐Binding Activity Relationship Studies. European J Org Chem 2021. [DOI: 10.1002/ejoc.202100758] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Affiliation(s)
- Felix Amrhein
- Institut für Organische Chemie Technische Universität Bergakademie Freiberg Leipziger Strasse 29 09599 Freiberg Germany
| | - Monika Mazik
- Institut für Organische Chemie Technische Universität Bergakademie Freiberg Leipziger Strasse 29 09599 Freiberg Germany
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14
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Thakur K, Shlain MA, Marianski M, Braunschweig AB. Regiochemical Effects on the Carbohydrate Binding and Selectivity of Flexible Synthetic Carbohydrate Receptors with Indole and Quinoline Heterocyclic Groups. European J Org Chem 2021; 2021:5262-5274. [PMID: 35694139 PMCID: PMC9186342 DOI: 10.1002/ejoc.202100763] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/28/2021] [Indexed: 08/07/2023]
Abstract
Synthetic carbohydrate receptors (SCRs) that bind cell-surface carbohydrates could be used for disease detection, drug-delivery, and therapeutics, or for the site-selective modification of complex carbohydrates but their potential has not been realized because of remaining challenges associated with binding affinity and substrate selectivity. We have reported recently a series of flexible SCRs based upon a biaryl core with four pendant heterocyclic groups that bind glycans selectively through noncovalent interactions. Here we continue to explore the role of heterocycles on substrate selectivity by expanding our library to include a series of indole and quinoline heterocycles that vary in their regiochemistry of attachment to the biaryl core. The binding of these SCRs to a series of biologically-relevant carbohydrates was studied by 1H NMR titrations in CD2Cl2 and density-functional theory calculations. We find SCR030, SCR034 and SCR037 are selective, SCR031, SCR032, and SCR039 are strong binders, and SCR033, SCR035, SCR036, and SCR038 are promiscuous and bind weakly. Computational analysis reveals the importance of C-H⋯π and H-bonding interactions in defining the binding properties of these new receptors. By combining these data with those obtained from our previous studies on this class of flexible SCRs, we develop a series of design rules that account for the binding of all SCRs of this class and anticipate the binding of future, not-yet imagined tetrapodal SCRs.
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Affiliation(s)
- Khushabu Thakur
- Nanoscience Initiative, Advanced Science Research Center at The Graduate Center of the City University of New York 85 St Nicholas Terrace, New York, NY 10031 (USA)
- Department of Chemistry and Biochemistry, Hunter College 695 Park Ave, New York, NY 10065 (USA)
| | - Milan A Shlain
- Nanoscience Initiative, Advanced Science Research Center at The Graduate Center of the City University of New York 85 St Nicholas Terrace, New York, NY 10031 (USA)
- Department of Chemistry and Biochemistry, Hunter College 695 Park Ave, New York, NY 10065 (USA)
| | - Mateusz Marianski
- Nanoscience Initiative, Advanced Science Research Center at The Graduate Center of the City University of New York 85 St Nicholas Terrace, New York, NY 10031 (USA)
- Department of Chemistry and Biochemistry, Hunter College 695 Park Ave, New York, NY 10065 (USA)
- The PhD Program in Chemistry, The Graduate Center of the City University of New York, 365 5 Ave, New York, NY 10016 (USA)
- The PhD Program in Biochemistry, The Graduate Center of the City University of New York, 365 5 Ave, New York, NY 10016 (USA)
| | - Adam B Braunschweig
- Nanoscience Initiative, Advanced Science Research Center at The Graduate Center of the City University of New York 85 St Nicholas Terrace, New York, NY 10031 (USA)
- Department of Chemistry and Biochemistry, Hunter College 695 Park Ave, New York, NY 10065 (USA)
- The PhD Program in Chemistry, The Graduate Center of the City University of New York, 365 5 Ave, New York, NY 10016 (USA)
- The PhD Program in Biochemistry, The Graduate Center of the City University of New York, 365 5 Ave, New York, NY 10016 (USA)
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15
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Duda AM, Guarr TF, Giurini MT, Gillmore JG. Intramolecular Oxidative Diaryl Coupling of Tetrasubstituted Diphenylamines for the Preparation of Bis(trifluoromethyl) Dimethyl Carbazoles. SYNOPEN 2021. [DOI: 10.1055/a-1662-7462] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022] Open
Abstract
AbstractSynthetic preparation of carbazoles can be challenging, requiring ring-building strategies and/or precious metal catalysts. Presented herein is a method for the preparation of carbazoles with the use of inexpensive and reliable hypervalent iodine chemistry. An oxidative single-electron-transfer (SET) event initiates cyclization for the preparation of our trifluoromethyl carbazoles. This method has been shown to be useful for a variety of bis(trifluoromethyl)carbazole isomers that are of primary interest for use as battery materials.
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Affiliation(s)
- Addison M. Duda
- Organic Energy Storage Laboratory, Michigan State University Bioeconomy Institute
- Department of Chemistry, Duke University
| | - Thomas F. Guarr
- Organic Energy Storage Laboratory, Michigan State University Bioeconomy Institute
- Jolt Energy Storage Laboratory
| | - Michael T. Giurini
- Organic Energy Storage Laboratory, Michigan State University Bioeconomy Institute
| | - Jason G. Gillmore
- Organic Energy Storage Laboratory, Michigan State University Bioeconomy Institute
- Department of Chemistry, Hope College
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16
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Schaapkens X, van Sluis RN, Bobylev EO, Reek JNH, Mooibroek TJ. A Water Soluble Pd 2 L 4 Cage for Selective Binding of Neu5Ac. Chemistry 2021; 27:13719-13724. [PMID: 34486179 PMCID: PMC8518546 DOI: 10.1002/chem.202102176] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/18/2021] [Indexed: 11/30/2022]
Abstract
The sialic acid N‐acetylneuraminic acid (Neu5Ac) and its derivatives are involved in many biological processes including cell‐cell recognition and infection by influenza. Molecules that can recognize Neu5Ac might thus be exploited to intervene in or monitor such events. A key obstacle in this development is the sparse availability of easily prepared molecules that bind to this carbohydrate in its natural solvent; water. Here, we report that the carbohydrate binding pocket of an organic soluble [Pd2L4]4+ cage could be equipped with guanidinium‐terminating dendrons to give the water soluble [Pd2L4][NO3]16 cage 7. It was shown by means of NMR spectroscopy that 7 binds selectively to anionic monosaccharides and strongest to Neu5Ac with Ka=24 M−1. The cage had low to no affinity for the thirteen neutral saccharides studied. Aided by molecular modeling, the selectivity for anionic carbohydrates such as Neu5Ac could be rationalized by the presence of charge assisted hydrogen bonds and/or the presence of a salt bridge with a guanidinium solubilizing arm of 7. Establishing that a simple coordination cage such as 7 can already selectively bind to Neu5Ac in water paves the way to improve the stability, affinity and/or selectivity properties of M2L4 cages for carbohydrates and other small molecules.
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Affiliation(s)
- Xander Schaapkens
- Van 't Hoff Institute for Molecular Sciences, University of Amsterdam, Science Park 904, 1098 XH, Amsterdam (The, Netherlands
| | - Roy N van Sluis
- Van 't Hoff Institute for Molecular Sciences, University of Amsterdam, Science Park 904, 1098 XH, Amsterdam (The, Netherlands
| | - Eduard O Bobylev
- Van 't Hoff Institute for Molecular Sciences, University of Amsterdam, Science Park 904, 1098 XH, Amsterdam (The, Netherlands
| | - Joost N H Reek
- Van 't Hoff Institute for Molecular Sciences, University of Amsterdam, Science Park 904, 1098 XH, Amsterdam (The, Netherlands
| | - Tiddo J Mooibroek
- Van 't Hoff Institute for Molecular Sciences, University of Amsterdam, Science Park 904, 1098 XH, Amsterdam (The, Netherlands
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17
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Liu W, Tan Y, Jones LO, Song B, Guo QH, Zhang L, Qiu Y, Feng Y, Chen XY, Schatz GC, Stoddart JF. PCage: Fluorescent Molecular Temples for Binding Sugars in Water. J Am Chem Soc 2021; 143:15688-15700. [PMID: 34505510 DOI: 10.1021/jacs.1c06333] [Citation(s) in RCA: 14] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
The development of synthetic receptors that recognize carbohydrates in water with high selectivity and specificity is challenging on account of their structural complexity and strong hydrophilicity. Here, we report on the design and synthesis of two pyrene-based, temple-shaped receptors for the recognition of a range of common sugars in water. These receptors rely on the use of two parallel pyrene panels, which serve as roofs and floors, capable of forming multiple [C-H···π] interactions with the axially oriented C-H bonds on glycopyranosyl rings in the carbohydrate-based substrates. In addition, eight polarized pyridinium C-H bonds, projecting from the roofs and floors of the temple receptors toward the binding cavities, form [C-H···O] hydrogen bonds, with the equatorially oriented OH groups on the sugars located inside the hydrophobic cavities. Four para-xylylene pillars play a crucial role in controlling the distance between the roof and floor. These temple receptors are highly selective for the binding of glucose and its derivatives. Furthermore, they show enhanced fluorescence upon binding with glucose in water, a property which is useful for glucose-sensing in aqueous solution.
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Affiliation(s)
- Wenqi Liu
- Department of Chemistry, 2145 Sheridan Road, Northwestern University, Evanston, Illinois 60208, United States
| | - Yu Tan
- School of Chemical Engineering and Technology, Sun Yat-sen University, Zhuhai 519082, China
| | - Leighton O Jones
- Department of Chemistry, 2145 Sheridan Road, Northwestern University, Evanston, Illinois 60208, United States
| | - Bo Song
- Department of Chemistry, 2145 Sheridan Road, Northwestern University, Evanston, Illinois 60208, United States
| | - Qing-Hui Guo
- Stoddart Institute of Molecular Science, Department of Chemistry, Zhejiang University, Hangzhou 310027, China.,ZJU-Hangzhou Global Scientific and Technological Innovation Center, Hangzhou 311215, China
| | - Long Zhang
- Department of Chemistry, 2145 Sheridan Road, Northwestern University, Evanston, Illinois 60208, United States
| | - Yunyan Qiu
- Department of Chemistry, 2145 Sheridan Road, Northwestern University, Evanston, Illinois 60208, United States
| | - Yuanning Feng
- Department of Chemistry, 2145 Sheridan Road, Northwestern University, Evanston, Illinois 60208, United States
| | - Xiao-Yang Chen
- Department of Chemistry, 2145 Sheridan Road, Northwestern University, Evanston, Illinois 60208, United States
| | - George C Schatz
- Department of Chemistry, 2145 Sheridan Road, Northwestern University, Evanston, Illinois 60208, United States
| | - J Fraser Stoddart
- Department of Chemistry, 2145 Sheridan Road, Northwestern University, Evanston, Illinois 60208, United States.,School of Chemistry, University of New South Wales, Sydney, NSW 2052, Australia.,Stoddart Institute of Molecular Science, Department of Chemistry, Zhejiang University, Hangzhou 310027, China.,ZJU-Hangzhou Global Scientific and Technological Innovation Center, Hangzhou 311215, China
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18
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Timmer BJJ, Mooibroek TJ. A Simple Strategy to Obtain Synthetic Ca
2+
‐Dependent Lectin Mimics. European J Org Chem 2021. [DOI: 10.1002/ejoc.202100767] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Affiliation(s)
- Brian J. J. Timmer
- Van ‘t Hoff Institute for Molecular Sciences University of Amsterdam Science Park 904 1098 XH Amsterdam The Netherlands
| | - Tiddo J. Mooibroek
- Van ‘t Hoff Institute for Molecular Sciences University of Amsterdam Science Park 904 1098 XH Amsterdam The Netherlands
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19
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Schaapkens X, Bobylev EO, Reek JNH, Mooibroek TJ. A [Pd 2L 4] 4+ cage complex for n-octyl-β-d-glycoside recognition. Org Biomol Chem 2021; 18:4734-4738. [PMID: 32608444 DOI: 10.1039/d0ob01081b] [Citation(s) in RCA: 14] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Abstract
The cage complex [Pd294]4+ (3') binds n-octyl glycosides in DCM/DMSO (9 : 1) solution with Ka ≈ 51 M-1 for n-Oct-β-d-Glc and Ka ≈ 29 M-1 for n-Oct-β-d-Gal.
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Affiliation(s)
- Xander Schaapkens
- Van 't Hoff Institute for Molecular Sciences, University of Amsterdam, Science Park 904, 1098 XH, Amsterdam, The Netherlands.
| | - Eduard O Bobylev
- Van 't Hoff Institute for Molecular Sciences, University of Amsterdam, Science Park 904, 1098 XH, Amsterdam, The Netherlands.
| | - Joost N H Reek
- Van 't Hoff Institute for Molecular Sciences, University of Amsterdam, Science Park 904, 1098 XH, Amsterdam, The Netherlands.
| | - Tiddo J Mooibroek
- Van 't Hoff Institute for Molecular Sciences, University of Amsterdam, Science Park 904, 1098 XH, Amsterdam, The Netherlands.
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20
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Timmer BJJ, Mooibroek TJ. Anion binding properties of a hollow PdL-cage. Chem Commun (Camb) 2021; 57:7184-7187. [PMID: 34190254 PMCID: PMC8291284 DOI: 10.1039/d1cc02663a] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/21/2021] [Accepted: 06/23/2021] [Indexed: 12/04/2022]
Abstract
The hollow [PdL][BArF]2 complex 1 of a tetra-pyridyl (py) ligand (L) has a [Pd(py)4]2+ coordination environment. Addition of coordinating anions resulted in the formation of a neutral species with Pd(py)2(anion)2 coordination environment (12A). These species bind further to the coordinating anions in the order Cl- > N3- > Br- > I- > AcO- with Ka1 : 1 ≤ 414 M-1. With relatively non-coordinating anions 1 remains intact and displays 1 : 2 binding behaviour dominated by the 1 : 1 stoichiometry in the order NO3- (∼105 M-1) » ClO4- and BF4- (∼103 M-1). As evidenced by crystal structure data, DFT calculations and {1H-19F}-HOESY NMR with BF4-, the anions are bound by charge assisted [C-H]+···anion interactions.
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Affiliation(s)
- Brian J J Timmer
- van 't Hoff Institute for Molecular Sciences, University of Amsterdam, Science Park 904, Amsterdam, 1098 XH, The Netherlands.
| | - Tiddo J Mooibroek
- van 't Hoff Institute for Molecular Sciences, University of Amsterdam, Science Park 904, Amsterdam, 1098 XH, The Netherlands.
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21
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Francesconi O, Milanesi F, Nativi C, Roelens S. Molecular Recognition of Disaccharides in Water: Preorganized Macrocyclic or Adaptive Acyclic? Chemistry 2021; 27:10456-10460. [PMID: 33945180 PMCID: PMC8361761 DOI: 10.1002/chem.202101238] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/07/2021] [Indexed: 12/02/2022]
Abstract
When facing the dilemma of following a preorganized or adaptive design approach in conceiving the architecture of new biomimetic receptors for carbohydrates, shape-persistent macrocyclic structures were most often chosen to achieve effective recognition of neutral saccharides in water. In contrast, acyclic architectures have seldom been explored, even though potentially simpler and more easily accessible. In this work, comparison of the binding properties of two structurally related diaminocarbazolic receptors, featuring a macrocyclic and an acyclic tweezer-shaped architecture, highlighted the advantages provided by the acyclic receptor in terms of selectivity in the recognition of 1,4-disaccharides of biological interest. Selective recognition of GlcNAc2 , the core fragment of N-glycans exposed on the surface of enveloped viruses, stands as an emblematic example. NMR spectroscopic data and molecular modeling calculations were used to ascertain the differences in binding mode and to shed light on the origin of recognition efficacy and selectivity.
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Affiliation(s)
- Oscar Francesconi
- Department of Chemistry “Ugo Schiff” and INSTMUniversity of FlorencePolo Scientifico e Tecnologico50019Sesto Fiorentino, FirenzeItaly
| | - Francesco Milanesi
- Department of Chemistry “Ugo Schiff” and INSTMUniversity of FlorencePolo Scientifico e Tecnologico50019Sesto Fiorentino, FirenzeItaly
- Magnetic Resonance Center CERMVia L. Sacconi 650019Sesto Fiorentino, FirenzeItaly
| | - Cristina Nativi
- Department of Chemistry “Ugo Schiff” and INSTMUniversity of FlorencePolo Scientifico e Tecnologico50019Sesto Fiorentino, FirenzeItaly
| | - Stefano Roelens
- Department of Chemistry “Ugo Schiff” and INSTMUniversity of FlorencePolo Scientifico e Tecnologico50019Sesto Fiorentino, FirenzeItaly
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22
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Timmer BJJ, Kooijman A, Schaapkens X, Mooibroek TJ. A Synthetic Galectin Mimic. Angew Chem Int Ed Engl 2021. [DOI: 10.1002/ange.202104924] [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)
- Brian J. J. Timmer
- Van't Hoff Institute for Molecular Sciences University of Amsterdam Science Park 904 1098 XH Amsterdam The Netherlands
| | - Arjaan Kooijman
- Van't Hoff Institute for Molecular Sciences University of Amsterdam Science Park 904 1098 XH Amsterdam The Netherlands
| | - Xander Schaapkens
- Van't Hoff Institute for Molecular Sciences University of Amsterdam Science Park 904 1098 XH Amsterdam The Netherlands
| | - Tiddo J. Mooibroek
- Van't Hoff Institute for Molecular Sciences University of Amsterdam Science Park 904 1098 XH Amsterdam The Netherlands
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23
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Timmer BJJ, Kooijman A, Schaapkens X, Mooibroek TJ. A Synthetic Galectin Mimic. Angew Chem Int Ed Engl 2021; 60:16178-16183. [PMID: 33964110 PMCID: PMC8361779 DOI: 10.1002/anie.202104924] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/13/2021] [Revised: 04/30/2021] [Indexed: 12/30/2022]
Abstract
Galectins are a galactoside specific subclass of carbohydrate binding proteins (lectins) involved in various cellular activities, certain cancers, infections, inflammations, and many other biological processes. The molecular basis for the selectivity of galectins is well-documented and revolves around appropriate interaction complementarity: an aromatic residue for C-H⋅⋅⋅π interactions and polar residues for (charge assisted) hydrogen bonds with the axial hydroxyl group of a galactoside. However, no synthetic mimics are currently available. We now report on the design and synthesis of the first galectin mimic (6), and show that it has a higher than 65-fold preference for n-octyl-β-galactoside (8) over n-octyl-β-glucoside (7) in CD2 Cl2 containing 5 % [D6 ]DMSO (with Ka ≥4500 M-1 for 6:8). Molecular modeling informed by nOe studies reveal a high degree of interaction complementarity between 6 and galactoside 8, which is very similar to the interaction complementarity found in natural galectins.
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Affiliation(s)
- Brian J. J. Timmer
- Van't Hoff Institute for Molecular SciencesUniversity of AmsterdamScience Park 9041098 XHAmsterdamThe Netherlands
| | - Arjaan Kooijman
- Van't Hoff Institute for Molecular SciencesUniversity of AmsterdamScience Park 9041098 XHAmsterdamThe Netherlands
| | - Xander Schaapkens
- Van't Hoff Institute for Molecular SciencesUniversity of AmsterdamScience Park 9041098 XHAmsterdamThe Netherlands
| | - Tiddo J. Mooibroek
- Van't Hoff Institute for Molecular SciencesUniversity of AmsterdamScience Park 9041098 XHAmsterdamThe Netherlands
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24
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Schaapkens X, Holdener JH, Tolboom J, Bobylev EO, Reek JNH, Mooibroek TJ. An Octa-Urea [Pd 2 L 4 ] 4+ Cage that Selectively Binds to n-octyl-α-D-Mannoside. Chemphyschem 2021; 22:1187-1192. [PMID: 33878234 PMCID: PMC8252426 DOI: 10.1002/cphc.202100229] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/25/2021] [Revised: 04/13/2021] [Indexed: 12/11/2022]
Abstract
Designing compounds for the selective molecular recognition of carbohydrates is a challenging task for supramolecular chemists. Macrocyclic compounds that incorporate isophtalamide or bisurea spacers linking two aromatic moieties have proven effective for the selective recognition of all-equatorial carbohydrates. Here, we explore the molecular recognition properties of an octa-urea [Pd2 L4 ]4+ cage complex (4). It was found that small anions like NO3- and BF4- bind inside 4 and inhibit binding of n-octyl glycosides. When the large non-coordinating anion 'BArF ' was used, 4 showed excellent selectivity towards n-octyl-α-D-Mannoside with binding in the order of Ka ≈16 M-1 versus non-measurable affinities for other glycosides including n-octyl-β-D-Glucoside (in CH3 CN/H2 O 91 : 9).
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Affiliation(s)
- Xander Schaapkens
- Van ‘t Hoff Institute for Molecular SciencesUniversity of AmsterdamScience Park 9041098 XHAmsterdamThe Netherlands
| | - Joël H. Holdener
- Van ‘t Hoff Institute for Molecular SciencesUniversity of AmsterdamScience Park 9041098 XHAmsterdamThe Netherlands
| | - Jens Tolboom
- Van ‘t Hoff Institute for Molecular SciencesUniversity of AmsterdamScience Park 9041098 XHAmsterdamThe Netherlands
| | - Eduard O. Bobylev
- Van ‘t Hoff Institute for Molecular SciencesUniversity of AmsterdamScience Park 9041098 XHAmsterdamThe Netherlands
| | - Joost N. H. Reek
- Van ‘t Hoff Institute for Molecular SciencesUniversity of AmsterdamScience Park 9041098 XHAmsterdamThe Netherlands
| | - Tiddo J. Mooibroek
- Van ‘t Hoff Institute for Molecular SciencesUniversity of AmsterdamScience Park 9041098 XHAmsterdamThe Netherlands
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25
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Francesconi O, Milanesi F, Nativi C, Roelens S. A Simple Biomimetic Receptor Selectively Recognizing the GlcNAc
2
Disaccharide in Water. Angew Chem Int Ed Engl 2021. [DOI: 10.1002/ange.202100560] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
Affiliation(s)
- Oscar Francesconi
- Department of Chemistry “Ugo Schiff” and INSTM University of Florence, Polo Scientifico e Tecnologico 50019 Sesto Fiorentino Firenze Italy
| | - Francesco Milanesi
- Department of Chemistry “Ugo Schiff” and INSTM University of Florence, Polo Scientifico e Tecnologico 50019 Sesto Fiorentino Firenze Italy
- Magnetic Resonance Center CERM Via L. Sacconi 6 50019 Sesto Fiorentino Firenze Italy
| | - Cristina Nativi
- Department of Chemistry “Ugo Schiff” and INSTM University of Florence, Polo Scientifico e Tecnologico 50019 Sesto Fiorentino Firenze Italy
| | - Stefano Roelens
- Department of Chemistry “Ugo Schiff” and INSTM University of Florence, Polo Scientifico e Tecnologico 50019 Sesto Fiorentino Firenze Italy
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26
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Francesconi O, Milanesi F, Nativi C, Roelens S. A Simple Biomimetic Receptor Selectively Recognizing the GlcNAc 2 Disaccharide in Water. Angew Chem Int Ed Engl 2021; 60:11168-11172. [PMID: 33666317 PMCID: PMC8252438 DOI: 10.1002/anie.202100560] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/13/2021] [Revised: 02/26/2021] [Indexed: 12/22/2022]
Abstract
GlcNAc2 is the core disaccharide fragment present in N-glycans exposed on the surface of enveloped viruses of high health concern, such as coronaviruses. Because N-glycans are directly involved in the docking of viruses to host cells, recognition of GlcNAc2 by a biomimetic receptor may be a convenient alternative to the use of lectins to interfere with viral entry and infection. Herein, we describe a simple biomimetic receptor recognizing the methyl-β-glycoside of GlcNAc2 in water with an unprecedented affinity of 160 μM, exceeding that of more structurally complex receptors reported in the literature. The tweezers-shaped acyclic structure exhibits marked selectivity among structurally related disaccharides, and complete discrimination between mono- and disaccharides. Molecular modelling calculations supported by NOE data provided a three-dimensional description of the binding mode, shedding light on the origin of the affinities and selectivities exhibited by the receptor.
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Affiliation(s)
- Oscar Francesconi
- Department of Chemistry "Ugo Schiff" and INSTM, University of Florence, Polo Scientifico e Tecnologico, 50019 Sesto Fiorentino, Firenze, Italy
| | - Francesco Milanesi
- Department of Chemistry "Ugo Schiff" and INSTM, University of Florence, Polo Scientifico e Tecnologico, 50019 Sesto Fiorentino, Firenze, Italy.,Magnetic Resonance Center CERM, Via L. Sacconi 6, 50019 Sesto Fiorentino, Firenze, Italy
| | - Cristina Nativi
- Department of Chemistry "Ugo Schiff" and INSTM, University of Florence, Polo Scientifico e Tecnologico, 50019 Sesto Fiorentino, Firenze, Italy
| | - Stefano Roelens
- Department of Chemistry "Ugo Schiff" and INSTM, University of Florence, Polo Scientifico e Tecnologico, 50019 Sesto Fiorentino, Firenze, Italy
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27
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Fraschetti C, Letzel MC, Paletta M, Mattay J, Crestoni ME, Chiavarino B, Filippi A. Unprotected Galactosamine as a Dynamic Key for a Cyclochiral Lock. JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY 2021; 32:736-743. [PMID: 33499589 PMCID: PMC7944569 DOI: 10.1021/jasms.0c00437] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 12/01/2020] [Revised: 01/13/2021] [Accepted: 01/13/2021] [Indexed: 06/12/2023]
Abstract
The discrimination of d-galactosamine (G), representative of the amino-sugar class of compounds, has been probed through nano-ESI-FT-ICR mass spectrometry by isolating the relevant [C·H·G]+ proton-bound complexes with the enantiomers of the cyclochiral resorcin[4]arene C and allowing them to react toward three primary amines (B = EtNH2, iPrNH2, and (R)- and (S)-sBuNH2). The system under investigation presents several features that help to unveil the behavior of unprotected G in such a supramolecular architecture: (i) the hydrophobic derivatization of the C convex side forces the polar guest G to be coordinated by the cyclochiral concave region; (ii) protonated d-galactosamine exists as an anomeric mixture, dynamically interconverting throughout the experimental time-window; and (iii) different basicities of B allow the experiment to subtly tune the reactivity of the [C·H·G]+ complexes. Three [C·H·G]+ aggregate-types were found to exist, differing in both their origin and reactivity. The most reactive adducts ([C·H·G]ESI+), generated in the electrospray environment, undergo a G-to-B ligand exchange in competition with a partial isomerization to the unreactive [C·H·G]GAS+-type complexes. Finally, the poorly reactive [C·H·G]SOL+ aggregates are formed in solution over an hours-long time scale. A cyclochirality effect on the reactivity was found to depend on the considered [C·H·G]+ aggregate-type.
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Affiliation(s)
- Caterina Fraschetti
- Dipartimento
di Chimica e Tecnologie del Farmaco, Sapienza-Università
di Roma, Piazzale Aldo Moro 5, I-00185 Rome, Italy
| | - Matthias C. Letzel
- Organisch-Chemisches
Institut der Westf. Wilhelms Abt. Massenspektrometrie, Westfälische Wilhelms-Universität Münster, Room 252a, Corrensstraße 40, 48149 Münster, Germany
| | - Marlene Paletta
- Department
of Chemistry, Bielefeld University, P. O. Box 100131, D-33501 Bielefeld, Germany
| | - Jochen Mattay
- Department
of Chemistry, Bielefeld University, P. O. Box 100131, D-33501 Bielefeld, Germany
| | - Maria Elisa Crestoni
- Dipartimento
di Chimica e Tecnologie del Farmaco, Sapienza-Università
di Roma, Piazzale Aldo Moro 5, I-00185 Rome, Italy
| | - Barbara Chiavarino
- Dipartimento
di Chimica e Tecnologie del Farmaco, Sapienza-Università
di Roma, Piazzale Aldo Moro 5, I-00185 Rome, Italy
| | - Antonello Filippi
- Dipartimento
di Chimica e Tecnologie del Farmaco, Sapienza-Università
di Roma, Piazzale Aldo Moro 5, I-00185 Rome, Italy
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28
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Li Y, Li X, Li L, Xiao B, Wu J, Li H, Li D, He C. Phenoxazine-based supramolecular tetrahedron as biomimetic lectin for glucosamine recognition. CHINESE CHEM LETT 2021. [DOI: 10.1016/j.cclet.2020.07.028] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/22/2023]
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29
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Köhler L, Hübler C, Seichter W, Mazik M. Binding modes of methyl α- d-glucopyranoside to an artificial receptor in crystalline complexes. RSC Adv 2021; 11:22221-22229. [PMID: 35480817 PMCID: PMC9034237 DOI: 10.1039/d1ra03390e] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/30/2021] [Revised: 02/28/2022] [Accepted: 06/01/2021] [Indexed: 01/04/2023] Open
Abstract
Complexes formed between methyl α-d-glucopyranoside and an artificial receptor represent a valuable source of information about the basic molecular features of carbohydrate recognition.
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Affiliation(s)
- Linda Köhler
- Institut für Organische Chemie, Technische Universität Bergakademie Freiberg, Leipziger Strasse 29, 09599 Freiberg, Germany
| | - Conrad Hübler
- Institut für Organische Chemie, Technische Universität Bergakademie Freiberg, Leipziger Strasse 29, 09599 Freiberg, Germany
| | - Wilhelm Seichter
- Institut für Organische Chemie, Technische Universität Bergakademie Freiberg, Leipziger Strasse 29, 09599 Freiberg, Germany
| | - Monika Mazik
- Institut für Organische Chemie, Technische Universität Bergakademie Freiberg, Leipziger Strasse 29, 09599 Freiberg, Germany
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30
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Ohishi Y, Masuda K, Kudo K, Abe H, Inouye M. Saccharide Recognition by a Three‐Arm‐Shaped Host Having Preorganized Three‐Dimensional Hydrogen‐Bonding Sites. Chemistry 2020; 27:785-793. [DOI: 10.1002/chem.202004147] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/11/2020] [Indexed: 01/28/2023]
Affiliation(s)
- Yuki Ohishi
- Graduate School of Pharmaceutical Sciences University of Toyama Sugitani 2630 Toyama 930-0194 Japan
| | - Kentaro Masuda
- Graduate School of Pharmaceutical Sciences University of Toyama Sugitani 2630 Toyama 930-0194 Japan
| | - Kazuki Kudo
- Graduate School of Pharmaceutical Sciences University of Toyama Sugitani 2630 Toyama 930-0194 Japan
| | - Hajime Abe
- Faculty of Pharmaceutical Sciences Himeji Dokkyo University Kami-ohno 7-2-1 Himeji Hyogo 670-8524 Japan
| | - Masahiko Inouye
- Graduate School of Pharmaceutical Sciences University of Toyama Sugitani 2630 Toyama 930-0194 Japan
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31
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Bravo MF, Lema MA, Marianski M, Braunschweig AB. Flexible Synthetic Carbohydrate Receptors as Inhibitors of Viral Attachment. Biochemistry 2020; 60:999-1018. [PMID: 33094998 DOI: 10.1021/acs.biochem.0c00732] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/07/2023]
Abstract
Carbohydrate-receptor interactions are often involved in the docking of viruses to host cells, and this docking is a necessary step in the virus life cycle that precedes infection and, ultimately, replication. Despite the conserved structures of the glycans involved in docking, they are still considered "undruggable", meaning these glycans are beyond the scope of conventional pharmacological strategies. Recent advances in the development of synthetic carbohydrate receptors (SCRs), small molecules that bind carbohydrates, could bring carbohydrate-receptor interactions within the purview of druggable targets. Here we discuss the role of carbohydrate-receptor interactions in viral infection, the evolution of SCRs, and recent results demonstrating their ability to prevent viral infections in vitro. Common SCR design strategies based on boronic ester formation, metal chelation, and noncovalent interactions are discussed. The benefits of incorporating the idiosyncrasies of natural glycan-binding proteins-including flexibility, cooperativity, and multivalency-into SCR design to achieve nonglucosidic specificity are shown. These studies into SCR design and binding could lead to new strategies for mitigating the grave threat to human health posed by enveloped viruses, which are heavily glycosylated viroids that are the cause of some of the most pressing and untreatable diseases, including HIV, Dengue, Zika, influenza, and SARS-CoV-2.
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Affiliation(s)
- M Fernando Bravo
- Advanced Science Research Center at the Graduate Center of the City University of New York, New York, New York 10031, United States.,Department of Chemistry and Biochemistry, Hunter College, New York, New York 10065, United States.,The PhD Program in Chemistry, The Graduate Center of the City University of New York, New York, New York 10016, United States
| | - Manuel A Lema
- Advanced Science Research Center at the Graduate Center of the City University of New York, New York, New York 10031, United States.,Department of Chemistry and Biochemistry, City College of New York, New York, New York 10031, United States
| | - Mateusz Marianski
- Department of Chemistry and Biochemistry, Hunter College, New York, New York 10065, United States.,The PhD Program in Chemistry, The Graduate Center of the City University of New York, New York, New York 10016, United States.,The PhD Program in Biochemistry, The Graduate Center of the City University of New York, New York, New York 10016, United States
| | - Adam B Braunschweig
- Advanced Science Research Center at the Graduate Center of the City University of New York, New York, New York 10031, United States.,Department of Chemistry and Biochemistry, Hunter College, New York, New York 10065, United States.,The PhD Program in Chemistry, The Graduate Center of the City University of New York, New York, New York 10016, United States.,The PhD Program in Biochemistry, The Graduate Center of the City University of New York, New York, New York 10016, United States
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32
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Stapf M, Seichter W, Mazik M. Cycloalkyl Groups as Subunits of Artificial Carbohydrate Receptors: Effect of Ring Size of the Cycloalkyl Unit on the Receptor Efficiency. European J Org Chem 2020. [DOI: 10.1002/ejoc.202000803] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
Affiliation(s)
- Manuel Stapf
- Institut für Organische Chemie Technische Universität Bergakademie Freiberg Leipziger Strasse 29 09599 Freiberg Germany
| | - Wilhelm Seichter
- Institut für Organische Chemie Technische Universität Bergakademie Freiberg Leipziger Strasse 29 09599 Freiberg Germany
| | - Monika Mazik
- Institut für Organische Chemie Technische Universität Bergakademie Freiberg Leipziger Strasse 29 09599 Freiberg Germany
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33
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Bravo MF, Palanichamy K, Shlain MA, Schiro F, Naeem Y, Marianski M, Braunschweig AB. Synthesis and Binding of Mannose‐Specific Synthetic Carbohydrate Receptors. Chemistry 2020; 26:11782-11795. [DOI: 10.1002/chem.202000481] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/28/2020] [Revised: 03/15/2020] [Indexed: 12/16/2022]
Affiliation(s)
- M. Fernando Bravo
- Advanced Science Research Center at the Graduate Center City University of New York 85 St Nicholas Terrace New York NY 10031 USA
- Department of Chemistry and Biochemistry Hunter College 695 Park Ave New York NY 10065 USA
- The PhD Program in Chemistry The Graduate Center of the, City University of New York 365 5th Ave New York NY 10016 USA
| | - Kalanidhi Palanichamy
- Advanced Science Research Center at the Graduate Center City University of New York 85 St Nicholas Terrace New York NY 10031 USA
- Department of Chemistry and Biochemistry Hunter College 695 Park Ave New York NY 10065 USA
| | - Milan A. Shlain
- Advanced Science Research Center at the Graduate Center City University of New York 85 St Nicholas Terrace New York NY 10031 USA
- Department of Chemistry and Biochemistry Hunter College 695 Park Ave New York NY 10065 USA
| | - Frank Schiro
- Advanced Science Research Center at the Graduate Center City University of New York 85 St Nicholas Terrace New York NY 10031 USA
- Department of Chemistry and Biochemistry Hunter College 695 Park Ave New York NY 10065 USA
| | - Yasir Naeem
- Advanced Science Research Center at the Graduate Center City University of New York 85 St Nicholas Terrace New York NY 10031 USA
- Department of Chemistry and Biochemistry Hunter College 695 Park Ave New York NY 10065 USA
| | - Mateusz Marianski
- Advanced Science Research Center at the Graduate Center City University of New York 85 St Nicholas Terrace New York NY 10031 USA
- Department of Chemistry and Biochemistry Hunter College 695 Park Ave New York NY 10065 USA
- The PhD Program in Chemistry The Graduate Center of the, City University of New York 365 5th Ave New York NY 10016 USA
- The PhD Program in Biochemistry The Graduate Center of the, City University of New York 365 5th Ave New York NY 10016 USA
| | - Adam B. Braunschweig
- Advanced Science Research Center at the Graduate Center City University of New York 85 St Nicholas Terrace New York NY 10031 USA
- Department of Chemistry and Biochemistry Hunter College 695 Park Ave New York NY 10065 USA
- The PhD Program in Chemistry The Graduate Center of the, City University of New York 365 5th Ave New York NY 10016 USA
- The PhD Program in Biochemistry The Graduate Center of the, City University of New York 365 5th Ave New York NY 10016 USA
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34
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Van Eker D, Samanta SK, Davis AP. Aqueous recognition of purine and pyrimidine bases by an anthracene-based macrocyclic receptor. Chem Commun (Camb) 2020; 56:9268-9271. [PMID: 32656555 DOI: 10.1039/d0cc03609a] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/11/2023]
Abstract
A water-soluble bis-anthracenyl tetralactam binds biogenic heterocycles with high affinities in aqueous solution, rising to 107 M-1 for the purine hypoxanthine. Recognition occurs through a combination of hydrogen bonding and hydrophobic interactions, and results in fluorescence changes which suggest applications in sensing.
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Affiliation(s)
- Danny Van Eker
- School of Chemistry, University of Bristol, Cantock's Close, BS8 1TS, Bristol, UK.
| | - Soumen K Samanta
- School of Chemistry, University of Bristol, Cantock's Close, BS8 1TS, Bristol, UK.
| | - Anthony P Davis
- School of Chemistry, University of Bristol, Cantock's Close, BS8 1TS, Bristol, UK.
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35
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Francesconi O, Ienco A, Nativi C, Roelens S. Effective Recognition of Caffeine by Diaminocarbazolic Receptors. Chempluschem 2020; 85:1369-1373. [PMID: 32237230 DOI: 10.1002/cplu.202000114] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/18/2019] [Revised: 03/18/2020] [Indexed: 12/26/2022]
Abstract
Caffeine is a competitive inhibitor of adenosine receptors and possesses wide pharmacological activity. Artificial receptors recognizing caffeine potentially have a wide range of biomedical and industrial applications. Herein, we describe two structurally related and readily available artificial receptors: 1) a macrocyclic receptor, which binds caffeine with the unprecedented affinity of 9.3 μM, though with poor selectivity; and 2) a tweezers-like structure, showing an affinity of 26 μM and a 4.5-fold and 6-fold selectivity compared to theophylline and theobromine, respectively. Binding affinities were measured by 1 H NMR titrations and were confirmed by isothermal titration calorimetry. The X-ray structure of the complex between caffeine and the acyclic receptor revealed the origin of the recognition, explained the selectivity, and shed light on the role of hydrogen bonding and CH-π/π-π interactions.
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Affiliation(s)
- Oscar Francesconi
- Department of Chemistry "Ugo Schiff" and INSTM, University of Florence, Polo Scientifico e Tecnologico, I-50019 Sesto Fiorentino, Firenze, Italy
| | - Andrea Ienco
- Istituto di Chimica dei Composti Organometallici CNR, Via Madonna del Piano, I-50019, Sesto Fiorentino, Firenze, Italy
| | - Cristina Nativi
- Department of Chemistry "Ugo Schiff" and INSTM, University of Florence, Polo Scientifico e Tecnologico, I-50019 Sesto Fiorentino, Firenze, Italy
| | - Stefano Roelens
- Department of Chemistry "Ugo Schiff" and INSTM, University of Florence, Polo Scientifico e Tecnologico, I-50019 Sesto Fiorentino, Firenze, Italy
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36
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Mateus P, Chandramouli N, Mackereth CD, Kauffmann B, Ferrand Y, Huc I. Allosteric Recognition of Homomeric and Heteromeric Pairs of Monosaccharides by a Foldamer Capsule. Angew Chem Int Ed Engl 2020; 59:5797-5805. [PMID: 31863707 PMCID: PMC7155081 DOI: 10.1002/anie.201914929] [Citation(s) in RCA: 36] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/26/2019] [Indexed: 12/11/2022]
Abstract
The recognition of either homomeric or heteromeric pairs of pentoses in an aromatic oligoamide double helical foldamer capsule was evidenced by circular dichroism (CD), NMR spectroscopy, and X-ray crystallography. The cavity of the host was predicted to be large enough to accommodate simultaneously two xylose molecules and to form a 1:2 complex (one container, two saccharides). Solution and solid-state data revealed the selective recognition of the α-4 C1 -d-xylopyranose tautomer, which is bound at two identical sites in the foldamer cavity. A step further was achieved by sequestering a heteromeric pair of pentoses, that is, one molecule of α-4 C1 -d-xylopyranose and one molecule of β-1 C4 -d-arabinopyranose despite the symmetrical nature of the host and despite the similarity of the guests. Subtle induced-fit and allosteric effects are responsible for the outstanding selectivities observed.
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Affiliation(s)
- Pedro Mateus
- CBMN (UMR5248)Univ. Bordeaux—CNRS—IPBInstitut Européen de Chimie et Biologie2 rue Robert Escarpit33600PessacFrance
| | - Nagula Chandramouli
- CBMN (UMR5248)Univ. Bordeaux—CNRS—IPBInstitut Européen de Chimie et Biologie2 rue Robert Escarpit33600PessacFrance
| | - Cameron D. Mackereth
- Université de BordeauxCNRSINSERM U1212 (ARNA)Institut Européen de Chimie et Biologie2 Rue Robert Escarpit33600PessacFrance
| | - Brice Kauffmann
- Université de BordeauxCNRSINSERMUMS3033Institut Européen de Chimie et Biologie (IECB)2 rue Robert Escarpit33600PessacFrance
| | - Yann Ferrand
- CBMN (UMR5248)Univ. Bordeaux—CNRS—IPBInstitut Européen de Chimie et Biologie2 rue Robert Escarpit33600PessacFrance
| | - Ivan Huc
- CBMN (UMR5248)Univ. Bordeaux—CNRS—IPBInstitut Européen de Chimie et Biologie2 rue Robert Escarpit33600PessacFrance
- Department Pharmazie and Center for Integrated Protein ScienceLudwig-Maximilians-UniversitätButenandtstr. 5–1381377MünchenGermany
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37
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Mateus P, Chandramouli N, Mackereth CD, Kauffmann B, Ferrand Y, Huc I. Allosteric Recognition of Homomeric and Heteromeric Pairs of Monosaccharides by a Foldamer Capsule. Angew Chem Int Ed Engl 2020. [DOI: 10.1002/ange.201914929] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Affiliation(s)
- Pedro Mateus
- CBMN (UMR5248) Univ. Bordeaux— CNRS— IPB Institut Européen de Chimie et Biologie 2 rue Robert Escarpit 33600 Pessac France
| | - Nagula Chandramouli
- CBMN (UMR5248) Univ. Bordeaux— CNRS— IPB Institut Européen de Chimie et Biologie 2 rue Robert Escarpit 33600 Pessac France
| | - Cameron D. Mackereth
- Université de Bordeaux CNRS INSERM U1212 (ARNA) Institut Européen de Chimie et Biologie 2 Rue Robert Escarpit 33600 Pessac France
| | - Brice Kauffmann
- Université de Bordeaux CNRS INSERM UMS3033 Institut Européen de Chimie et Biologie (IECB) 2 rue Robert Escarpit 33600 Pessac France
| | - Yann Ferrand
- CBMN (UMR5248) Univ. Bordeaux— CNRS— IPB Institut Européen de Chimie et Biologie 2 rue Robert Escarpit 33600 Pessac France
| | - Ivan Huc
- CBMN (UMR5248) Univ. Bordeaux— CNRS— IPB Institut Européen de Chimie et Biologie 2 rue Robert Escarpit 33600 Pessac France
- Department Pharmazie and Center for Integrated Protein Science Ludwig-Maximilians-Universität Butenandtstr. 5–13 81377 München Germany
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38
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Hayashi T, Ohishi Y, Abe H, Inouye M. Preferential Recognition and Extraction to Pentoses over Hexoses by a D6h-Symmetrical Ethynylphenol Macrocycle with Six Inner Phenolic Hydroxy Groups. J Org Chem 2020; 85:1927-1934. [PMID: 31896252 DOI: 10.1021/acs.joc.9b02639] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Abstract
A macrocycle consisting of six ethynylphenol units was developed as a host architecture for saccharides. The rigid framework of the macrocycle suppressed the intramolecular hydrogen-bonding between adjacent phenolic hydroxy groups and recognized saccharides by intermolecular hydrogen-bonding within the hole. The well-defined hydrogen-bonding sites enabled the size-selective guest recognition and showed preference to pentoses over hexoses.
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Affiliation(s)
- Tomoya Hayashi
- Graduate School of Pharmaceutical Sciences , University of Toyama , Toyama 930-0194 , Japan
| | - Yuki Ohishi
- Graduate School of Pharmaceutical Sciences , University of Toyama , Toyama 930-0194 , Japan
| | - Hajime Abe
- Faculty of Pharmaceutical Sciences , Himeji Dokkyo University , Himeji , Hyogo 670-8524 , Japan
| | - Masahiko Inouye
- Graduate School of Pharmaceutical Sciences , University of Toyama , Toyama 930-0194 , Japan
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39
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Francesconi O, Cicero F, Nativi C, Roelens S. A Preorganized Hydrogen-Bonding Motif for the Molecular Recognition of Carbohydrates. Chemphyschem 2020; 21:257-262. [PMID: 31793133 DOI: 10.1002/cphc.201900907] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/17/2019] [Revised: 11/28/2019] [Indexed: 12/18/2022]
Abstract
The choice between adaptive and preorganized architectures, or of the most effective hydrogen bonding groups to be selected, are dilemmas that supramolecular chemists must address in designing synthetic receptors for such a challenging guest as carbohydrates. In this paper, structurally related architectures featuring two alternative hydrogen bonding motifs were compared to ascertain the structural and functional origin of their binding differences and the advantages that can be expected in monosaccharide recognition. A set of structurally related macrocyclic receptors were prepared, and their binding properties were measured by NMR and ITC techniques in chloroform vs a common saccharidic target, namely, the β-octyl glycoside of D-glucose. Results showed that the diaminocarbazolic motif, recently reported as the constituting unit of highly effective receptors for saccharides in water, is a superior hydrogen bonding motif compared to the previously described diaminopyrrolic motif, which was successfully employed in molecular recognition of carbohydrates in polar organic solvents, due to intrinsic structural and functional factors, rather than to hydrophobic contributions. In addition, the occurrence of a rare example of a thermodynamic template effect exerted by the beta-glucoside has been ascertained, enhancing the synthesis outcome of the otherwise low yielding preparation of the described macrocyclic receptors.
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Affiliation(s)
- Oscar Francesconi
- Department of Chemistry "Ugo Schiff" and INSTM, University of Florence Polo Scientifico e Tecnologico, 50019, Sesto Fiorentino, Firenze, Italy
| | - Federico Cicero
- Department of Chemistry "Ugo Schiff" and INSTM, University of Florence Polo Scientifico e Tecnologico, 50019, Sesto Fiorentino, Firenze, Italy
| | - Cristina Nativi
- Department of Chemistry "Ugo Schiff" and INSTM, University of Florence Polo Scientifico e Tecnologico, 50019, Sesto Fiorentino, Firenze, Italy
| | - Stefano Roelens
- Department of Chemistry "Ugo Schiff" and INSTM, University of Florence Polo Scientifico e Tecnologico, 50019, Sesto Fiorentino, Firenze, Italy
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40
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Abstract
Binding saccharides with non-covalent interactions is challenging, especially in the natural medium of water, but synthetic carbohydrate receptors can be surprisingly effective.
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Affiliation(s)
- Anthony P. Davis
- School of Chemistry
- University of Bristol
- Cantock's Close
- Bristol BS8 1TS
- UK
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41
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Ohishi Y, Murase M, Abe H, Inouye M. Enantioselective Solid–Liquid Extraction of Native Saccharides with Chiral BINOL-Based Pyridine–Phenol Type Macrocycles. Org Lett 2019; 21:6202-6207. [DOI: 10.1021/acs.orglett.9b01980] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Yuki Ohishi
- Graduate School of Pharmaceutical Sciences, University of Toyama, Toyama 930-0194, Japan
| | - Mikino Murase
- Graduate School of Pharmaceutical Sciences, University of Toyama, Toyama 930-0194, Japan
| | - Hajime Abe
- Faculty of Pharmaceutical Sciences, Himeji Dokkyo University, Hyogo 670-8524, Japan
| | - Masahiko Inouye
- Graduate School of Pharmaceutical Sciences, University of Toyama, Toyama 930-0194, Japan
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42
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Rahaman SA, Hossain MS, Baburaj S, Biswas A, Bag A, Bandyopadhyay S. A phototunable anion receptor for C-HX interactions with benzoate anions. Org Biomol Chem 2019; 17:5153-5160. [PMID: 31074751 DOI: 10.1039/c9ob00781d] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
Abstract
A supramolecular receptor consisting of two anthracene moieties with binding motifs for binding of benzoate anions is reported here. NMR studies indicate that the binding involves π-π interactions and CHX interactions. Upon exposure to >350 nm light, the receptor undergoes a [4 + 4] photoelectrocyclization restricting the access to the binding site for benzoate. The reverse reaction works in the presence of the dual stimuli of 254 nm light and the benzoate anions. The work thus demonstrates a light mediated dynamic control of the binding pocket of a supramolecular anion receptor.
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Affiliation(s)
- Sk Atiur Rahaman
- Department of Chemical Sciences, Indian Institute of Science Education and Research (IISER) Kolkata, Mohanpur, Nadia, WB 741246, India.
| | - Munshi Sahid Hossain
- Department of Chemical Sciences, Indian Institute of Science Education and Research (IISER) Kolkata, Mohanpur, Nadia, WB 741246, India.
| | - Sruthy Baburaj
- Department of Chemical Sciences, Indian Institute of Science Education and Research (IISER) Kolkata, Mohanpur, Nadia, WB 741246, India.
| | - Ankita Biswas
- Department of Chemical Sciences, Indian Institute of Science Education and Research (IISER) Kolkata, Mohanpur, Nadia, WB 741246, India.
| | - Arijit Bag
- Department of Chemical Sciences, Indian Institute of Science Education and Research (IISER) Kolkata, Mohanpur, Nadia, WB 741246, India.
| | - Subhajit Bandyopadhyay
- Department of Chemical Sciences, Indian Institute of Science Education and Research (IISER) Kolkata, Mohanpur, Nadia, WB 741246, India.
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43
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Nakagawa Y, Doi T, Takegoshi K, Sugahara T, Akase D, Aida M, Tsuzuki K, Watanabe Y, Tomura T, Ojika M, Igarashi Y, Hashizume D, Ito Y. Molecular Basis of Mannose Recognition by Pradimicins and their Application to Microbial Cell Surface Imaging. Cell Chem Biol 2019; 26:950-959.e8. [PMID: 31031141 DOI: 10.1016/j.chembiol.2019.03.013] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/11/2018] [Revised: 02/23/2019] [Accepted: 03/25/2019] [Indexed: 12/28/2022]
Abstract
Naturally occurring pradimicins (PRMs) show specific recognition of d-mannose (d-Man) in aqueous media, which has never been achieved by artificial small molecules. Although the Ca2+-mediated dimerization of PRMs is essential for their d-Man binding, the dimeric structure has yet to be elucidated, leaving the question open as to how PRMs recognize d-Man. Thus, we herein report the structural elucidation of the dimer by a combination of X-ray crystallography and solid-state NMR spectroscopy. Coupled with our previous knowledge regarding the d-Man binding geometry of PRMs, elucidation of the dimer allowed reliable estimation of the mode of d-Man binding. Based on the binding model, we further developed an azide-functionalized PRM derivative (PRM-Azide) with d-Man binding specificity. Notably, PRM-Azide stained Candida rugosa cells having mannans on their cell surface through conjugation with the tetramethylrhodamine fluorophore. The present study provides the practical demonstration that PRMs can serve as lectin mimics for use in glycobiological studies.
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Affiliation(s)
- Yu Nakagawa
- Department of Applied Biosciences, Graduate School of Bioagricultural Sciences, Nagoya University, Furo-cho, Chikusa-ku, Nagoya 464-8601, Japan; Synthetic Cellular Chemistry Laboratory, RIKEN, 2-1 Hirosawa, Wako, Saitama 351-0198, Japan.
| | - Takashi Doi
- Department of Chemistry, Graduate School of Science, Kyoto University, Kitashirakawa Oiwake-cho, Sakyo-ku, Kyoto 606-8502, Japan
| | - K Takegoshi
- Department of Chemistry, Graduate School of Science, Kyoto University, Kitashirakawa Oiwake-cho, Sakyo-ku, Kyoto 606-8502, Japan
| | - Takahiro Sugahara
- Center for Quantum Life Sciences, and Department of Chemistry, Graduate School of Science, Hiroshima University, 1-3-1 Kagamiyama, Higashi-Hiroshima, Hiroshima 739-8526, Japan
| | - Dai Akase
- Center for Quantum Life Sciences, and Department of Chemistry, Graduate School of Science, Hiroshima University, 1-3-1 Kagamiyama, Higashi-Hiroshima, Hiroshima 739-8526, Japan
| | - Misako Aida
- Center for Quantum Life Sciences, and Department of Chemistry, Graduate School of Science, Hiroshima University, 1-3-1 Kagamiyama, Higashi-Hiroshima, Hiroshima 739-8526, Japan
| | - Kazue Tsuzuki
- Department of Applied Biosciences, Graduate School of Bioagricultural Sciences, Nagoya University, Furo-cho, Chikusa-ku, Nagoya 464-8601, Japan
| | - Yasunori Watanabe
- Department of Applied Biosciences, Graduate School of Bioagricultural Sciences, Nagoya University, Furo-cho, Chikusa-ku, Nagoya 464-8601, Japan
| | - Tomohiko Tomura
- Department of Applied Biosciences, Graduate School of Bioagricultural Sciences, Nagoya University, Furo-cho, Chikusa-ku, Nagoya 464-8601, Japan
| | - Makoto Ojika
- Department of Applied Biosciences, Graduate School of Bioagricultural Sciences, Nagoya University, Furo-cho, Chikusa-ku, Nagoya 464-8601, Japan
| | - Yasuhiro Igarashi
- Biotechnology Research Center, Toyama Prefectural University, 5180 Kurokawa, Imizu, Toyama 939-0398, Japan
| | - Daisuke Hashizume
- RIKEN Center for Emergent Matter Science (CEMS), 2-1 Hirosawa, Wako, Saitama 351-0198, Japan
| | - Yukishige Ito
- Synthetic Cellular Chemistry Laboratory, RIKEN, 2-1 Hirosawa, Wako, Saitama 351-0198, Japan
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44
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Francesconi O, Roelens S. Biomimetic Carbohydrate‐Binding Agents (CBAs): Binding Affinities and Biological Activities. Chembiochem 2019; 20:1329-1346. [DOI: 10.1002/cbic.201800742] [Citation(s) in RCA: 25] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/30/2018] [Indexed: 12/15/2022]
Affiliation(s)
- Oscar Francesconi
- Department of Chemistry and INSTMUniversity of Florence Polo Scientifico e Tecnologico 50019 Sesto Fiorentino, Firenze Italy
| | - Stefano Roelens
- Department of Chemistry and INSTMUniversity of Florence Polo Scientifico e Tecnologico 50019 Sesto Fiorentino, Firenze Italy
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45
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Saha S, Kauffmann B, Ferrand Y, Huc I. Selective Encapsulation of Disaccharide Xylobiose by an Aromatic Foldamer Helical Capsule. Angew Chem Int Ed Engl 2018; 57:13542-13546. [DOI: 10.1002/anie.201808370] [Citation(s) in RCA: 41] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/21/2018] [Indexed: 12/15/2022]
Affiliation(s)
- Subrata Saha
- UMR 5248-CBMN, Univ. Bordeaux-CNRS-; Institut Polytechnique de Bordeaux; Institut Européen de Chimie et Biologie; 2 rue Robert Escarpit 33600 Pessac France
| | - Brice Kauffmann
- Université de Bordeaux; CNRS; INSERM, UMS3033; Institut Européen de Chimie et Biologie (IECB); 2 rue Escarpit 33600 Pessac France
| | - Yann Ferrand
- UMR 5248-CBMN, Univ. Bordeaux-CNRS-; Institut Polytechnique de Bordeaux; Institut Européen de Chimie et Biologie; 2 rue Robert Escarpit 33600 Pessac France
| | - Ivan Huc
- UMR 5248-CBMN, Univ. Bordeaux-CNRS-; Institut Polytechnique de Bordeaux; Institut Européen de Chimie et Biologie; 2 rue Robert Escarpit 33600 Pessac France
- Department Pharmazie; Ludwig-Maximilians-Universität; Butenandtstr. 5-13 81377 München Germany
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Saha S, Kauffmann B, Ferrand Y, Huc I. Selective Encapsulation of Disaccharide Xylobiose by an Aromatic Foldamer Helical Capsule. Angew Chem Int Ed Engl 2018. [DOI: 10.1002/ange.201808370] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
Affiliation(s)
- Subrata Saha
- UMR 5248-CBMN, Univ. Bordeaux-CNRS-; Institut Polytechnique de Bordeaux; Institut Européen de Chimie et Biologie; 2 rue Robert Escarpit 33600 Pessac France
| | - Brice Kauffmann
- Université de Bordeaux; CNRS; INSERM, UMS3033; Institut Européen de Chimie et Biologie (IECB); 2 rue Escarpit 33600 Pessac France
| | - Yann Ferrand
- UMR 5248-CBMN, Univ. Bordeaux-CNRS-; Institut Polytechnique de Bordeaux; Institut Européen de Chimie et Biologie; 2 rue Robert Escarpit 33600 Pessac France
| | - Ivan Huc
- UMR 5248-CBMN, Univ. Bordeaux-CNRS-; Institut Polytechnique de Bordeaux; Institut Européen de Chimie et Biologie; 2 rue Robert Escarpit 33600 Pessac France
- Department Pharmazie; Ludwig-Maximilians-Universität; Butenandtstr. 5-13 81377 München Germany
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Stewart P, Renney CM, Mooibroek TJ, Ferheen S, Davis AP. Maltodextrin recognition by a macrocyclic synthetic lectin. Chem Commun (Camb) 2018; 54:8649-8652. [DOI: 10.1039/c8cc05074k] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Abstract
This carbohydrate receptor achieves high affinities in water and shows an unusual preference for α-linked maltodextrins.
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Affiliation(s)
- Patrick Stewart
- School of Chemistry of the University of Bristol Cantock's Close
- Bristol
- UK
| | - Charles M. Renney
- School of Chemistry of the University of Bristol Cantock's Close
- Bristol
- UK
| | - Tiddo J. Mooibroek
- van’t Hoff Institute for Molecular Sciences
- University of Amsterdam
- Amsterdam
- The Netherlands
| | - Sadia Ferheen
- School of Chemistry of the University of Bristol Cantock's Close
- Bristol
- UK
| | - Anthony P. Davis
- School of Chemistry of the University of Bristol Cantock's Close
- Bristol
- UK
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