1
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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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2
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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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3
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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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4
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Paulovičová E, Paulovičová L, Poláková M, Pánik M, Jantová S. In vitro evaluation of immunobiological activity of simple mannolipids. Toxicol In Vitro 2020; 70:105014. [PMID: 33049314 DOI: 10.1016/j.tiv.2020.105014] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/27/2020] [Revised: 09/28/2020] [Accepted: 10/05/2020] [Indexed: 11/30/2022]
Abstract
Immunomodulation, cytotoxicity and anti-cancer activity of selected amphiphilic non-ionic (thio)alkyl α-D-mannosides (with aglycone of C6-C12) were investigated in vitro in human cervix epitheloid carcinoma cell line HeLa, murine melanoma cancer cells B16, murine lymphocytic leukemia cell line L1210, murine fibroblast cell line NIH 3 T3 and murine macrophage cell line RAW 264.7. Toxicological studies revealed structure-dependent immunobiological effectivity based on a tight interaction with relevant cells. The results demonstrated diverse immunomodulation of macrophage cell-line RAW264.7 proliferation and production of Th1 and Th2 cytokines, and induction of pro-inflammatory interleukins IL-1α, TNFα, IL-6, IL-12 and IL-17 and anti-inflammatory IL-10 following (thio)alkyl α-D-mannosides 24 and 48 h exposure. Direct application of alkyl mannosides MOC10 and MOC12 and their thio analogues MSC10 and MSC12 in reconstructed human EpiDerm™ and MOC12 and MSC12 in EpiOcular™ model assays for dermal and ocular irritation together with quantification of human proinflammatory cytokines IL-1α, TNFα, IL-6 and IL-8 culture media release was used to ascertain toxicological safety.
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Affiliation(s)
- Ema Paulovičová
- Institute of Chemistry, Center for Glycomics, Dept. Immunochemistry of Glycoconjugates, Immunol and Cell Culture Laboratory, Slovak Academy of Sciences, Bratislava, Slovakia.
| | - Lucia Paulovičová
- Institute of Chemistry, Center for Glycomics, Dept. Immunochemistry of Glycoconjugates, Immunol and Cell Culture Laboratory, Slovak Academy of Sciences, Bratislava, Slovakia
| | - Monika Poláková
- Institute of Chemistry, Center for Glycomics, Dept.Glycochemistry, Slovak Academy of Sciences, Bratislava, Slovakia
| | - Miroslav Pánik
- Institute of Management, of the Slovak University of Technology, Slovak University of Technology, Bratislava, Slovakia
| | - Soňa Jantová
- Institute of Biochemistry and Microbiology, Faculty of Chemical and Food Technology, Slovak University of Technology, Bratislava, Slovakia
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5
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Estevez A, Zhu D, Blankenship C, Jiang J. Molecular Interrogation to Crack the Case of O-GlcNAc. Chemistry 2020; 26:12086-12100. [PMID: 32207184 PMCID: PMC7724648 DOI: 10.1002/chem.202000155] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/12/2020] [Revised: 02/28/2020] [Indexed: 12/25/2022]
Abstract
The O-linked β-N-acetylglucosamine (O-GlcNAc) modification, termed O-GlcNAcylation, is an essential and dynamic post-translational modification in cells. O-GlcNAc transferase (OGT) installs this modification on serine and threonine residues, whereas O-GlcNAcase (OGA) hydrolyzes it. O-GlcNAc modifications are found on thousands of intracellular proteins involved in diverse biological processes. Dysregulation of O-GlcNAcylation and O-GlcNAc cycling enzymes has been detected in many diseases, including cancer, diabetes, cardiovascular and neurodegenerative diseases. Here, recent advances in the development of molecular tools to investigate OGT and OGA functions and substrate recognition are discussed. New chemical approaches to study O-GlcNAc dynamics and its potential roles in the immune system are also highlighted. It is hoped that this minireview will encourage more research in these areas to advance the understanding of O-GlcNAc in biology and diseases.
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Affiliation(s)
- Arielis Estevez
- Pharmaceutical Sciences Division, University of Wisconsin-Madison, Madison, WI, 53705, USA
| | - Dongsheng Zhu
- Pharmaceutical Sciences Division, University of Wisconsin-Madison, Madison, WI, 53705, USA
| | - Connor Blankenship
- Pharmaceutical Sciences Division, University of Wisconsin-Madison, Madison, WI, 53705, USA
| | - Jiaoyang Jiang
- Pharmaceutical Sciences Division, University of Wisconsin-Madison, Madison, WI, 53705, USA
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6
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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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7
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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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8
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Gruber T. Synthetic Receptors for the Recognition and Discrimination of Post-Translationally Methylated Lysines. Chembiochem 2018; 19:2324-2340. [DOI: 10.1002/cbic.201800398] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/17/2018] [Indexed: 12/13/2022]
Affiliation(s)
- Tobias Gruber
- School of Pharmacy; University of Lincoln; Joseph Banks Laboratories; Green Lane Lincoln LN6 7DL UK
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9
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Palanichamy K, Bravo MF, Shlain MA, Schiro F, Naeem Y, Marianski M, Braunschweig AB. Binding Studies on a Library of Induced‐Fit Synthetic Carbohydrate Receptors with Mannoside Selectivity. Chemistry 2018; 24:13971-13982. [DOI: 10.1002/chem.201803317] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/29/2018] [Indexed: 11/09/2022]
Affiliation(s)
- Kalanidhi Palanichamy
- 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
| | - M. Fernando Bravo
- 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 Ph.D. Program in Chemistry The Graduate Center of the City University of New York 365 5th Ave New York NY 10016 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
| | - Frank Schiro
- 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
| | - Yasir Naeem
- 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
- Department of Chemistry and Biochemistry Hunter College 695 Park Ave New York NY 10065 USA
- The Ph.D. Program in Chemistry The Graduate Center of the City University of New York 365 5th 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 Ph.D. Program in Chemistry The Graduate Center of the City University of New York 365 5th Ave New York NY 10016 USA
- The Ph.D. 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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10
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Masuda J, Kondo S, Matsumoto Y, Yamanaka M. Gabriel Synthesis of Hexakis(aminomethyl)benzene and Its Derivatization. ChemistrySelect 2018. [DOI: 10.1002/slct.201800985] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Affiliation(s)
- Junya Masuda
- Department of Chemistry, Faculty of Science; Shizuoka University, 836 Ohya, Suruga-ku; Shizuoka 422-8529 Japan
| | - Seiya Kondo
- Department of Chemistry, Faculty of Science; Shizuoka University, 836 Ohya, Suruga-ku; Shizuoka 422-8529 Japan
| | - Yoshiteru Matsumoto
- Department of Chemistry, Faculty of Science; Shizuoka University, 836 Ohya, Suruga-ku; Shizuoka 422-8529 Japan
| | - Masamichi Yamanaka
- Department of Chemistry, Faculty of Science; Shizuoka University, 836 Ohya, Suruga-ku; Shizuoka 422-8529 Japan
- Research Institute of Green Science and Technology; Shizuoka University, 836 Ohya, Suruga-ku; Shizuoka 422-8529 Japan
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11
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Schmitt A, Perraud O, Payet E, Chatelet B, Bousquet B, Valls M, Padula D, Di Bari L, Dutasta JP, Martinez A. Improved hemicryptophane hosts for the stereoselective recognition of glucopyranosides. Org Biomol Chem 2016; 12:4211-7. [PMID: 24838529 DOI: 10.1039/c4ob00156g] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Abstract
Four new enantiomerically and diastereomerically pure hemicryptophane hosts (M-SSS-2/P-SSS-2 and M-RRR-2/P-RRR-2 pairs) were designed for the recognition of sugar derivatives. Their absolute configuration was determined from the circular dichroism spectra and DFT calculations. The host molecules were then used for the stereoselective recognition of glucopyranosides. Binding constants were obtained from (1)H NMR titration experiments showing an increase of affinity for this class of receptors, associated with an improved diastereo- and enantio-differentiation.
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Affiliation(s)
- Aline Schmitt
- Laboratoire de Chimie, CNRS, École Normale Supérieure de Lyon, 46, Allée d'Italie, F-69364 Lyon 07, France.
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12
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Abe H, Yumoto R, Inouye M. A D3h-Symmetric Macrocycle Alternatingly Composed of Pyridine and Benzyl Alcohol Units Linked with Acetylene Bonds. HETEROCYCLES 2016. [DOI: 10.3987/com-15-s(t)44] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
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13
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Miron CE, Petitjean A. Sugar recognition: designing artificial receptors for applications in biological diagnostics and imaging. Chembiochem 2015; 16:365-79. [PMID: 25619151 DOI: 10.1002/cbic.201402549] [Citation(s) in RCA: 37] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/19/2014] [Indexed: 01/23/2023]
Abstract
At the cellular level, numerous processes ranging from protein folding to disease development are mediated by a sugar-based molecular information system that is much less well known than its DNA- or protein-based counterparts. The subtle structural diversity of such sugar tags nevertheless offers an excellent, if challenging, opportunity to design receptors for the selective recognition of biorelevant sugars. Over the past 40 years, growing interest in the field of sugar recognition has led to the development of several promising artificial receptors, which could soon find widespread use in medical diagnostics and cell imaging.
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Affiliation(s)
- Caitlin E Miron
- Department of Chemistry, Queen's University, Chernoff Hall, 90 Bader Lane, Kingston ON K7L 3N6 (Canada)
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14
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Hoffknecht BC, Albada HB, Sturm M, Prochnow P, Bandow JE, Metzler-Nolte N. Synthesis and antibacterial activity of trivalent ultrashort Arg-Trp-based antimicrobial peptides (AMPs). MEDCHEMCOMM 2015. [DOI: 10.1039/c4md00327f] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
Abstract
Multivalent display of identical ultrashort (only 2–3 amino acids long) antimicrobial peptides (AMPs) was used in order to create potential new antimicrobial agents.
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Affiliation(s)
- Barbara C. Hoffknecht
- Inorganic Chemistry I-Bioinorganic Chemistry
- Faculty of Chemistry and Biochemistry
- Ruhr University Bochum
- Universitätsstraße 150
- 44801 Bochum
| | - H. Bauke Albada
- Inorganic Chemistry I-Bioinorganic Chemistry
- Faculty of Chemistry and Biochemistry
- Ruhr University Bochum
- Universitätsstraße 150
- 44801 Bochum
| | - Marina Sturm
- Inorganic Chemistry I-Bioinorganic Chemistry
- Faculty of Chemistry and Biochemistry
- Ruhr University Bochum
- Universitätsstraße 150
- 44801 Bochum
| | - Pascal Prochnow
- Faculty of Biology
- Ruhr University Bochum
- Universitätsstraße 150
- 44801 Bochum
- Germany
| | - Julia E. Bandow
- Faculty of Biology
- Ruhr University Bochum
- Universitätsstraße 150
- 44801 Bochum
- Germany
| | - Nils Metzler-Nolte
- Inorganic Chemistry I-Bioinorganic Chemistry
- Faculty of Chemistry and Biochemistry
- Ruhr University Bochum
- Universitätsstraße 150
- 44801 Bochum
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15
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Francesconi O, Gentili M, Nativi C, Ardá A, Cañada FJ, Jiménez-Barbero J, Roelens S. Systematic Dissection of an Aminopyrrolic Cage Receptor for β-Glucopyranosides Reveals the Essentials for Effective Recognition. Chemistry 2014; 20:6081-91. [DOI: 10.1002/chem.201400365] [Citation(s) in RCA: 36] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/28/2014] [Indexed: 12/17/2022]
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16
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Rieth S, Miner MR, Chang CM, Hurlocker B, Braunschweig AB. Saccharide receptor achieves concentration dependent mannoside selectivity through two distinct cooperative binding pathways. Chem Sci 2013. [DOI: 10.1039/c2sc20873c] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022] Open
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17
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Carrero P, Ardá A, Alvarez M, Doyagüez EG, Rivero-Buceta E, Quesada E, Prieto A, Solís D, Camarasa MJ, Peréz-Pérez MJ, Jiménez-Barbero J, San-Félix A. Differential Recognition of Mannose-Based Polysaccharides by Tripodal Receptors Based on a Triethylbenzene Scaffold Substituted with Trihydroxybenzoyl Moieties. European J Org Chem 2012. [DOI: 10.1002/ejoc.201201239] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
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18
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Francesconi O, Gentili M, Roelens S. Synthetic Tripodal Receptors for Carbohydrates. Pyrrole, a Hydrogen Bonding Partner for Saccharidic Hydroxyls. J Org Chem 2012; 77:7548-54. [DOI: 10.1021/jo301341c] [Citation(s) in RCA: 28] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Affiliation(s)
- Oscar Francesconi
- Dipartimento
di Chimica and ‡Istituto di Metodologie Chimiche (IMC), Consiglio Nazionale delle
Ricerche (CNR), Dipartimento di Chimica, Università di Firenze, I-50019 Sesto Fiorentino,
Firenze, Italy
| | - Matteo Gentili
- Dipartimento
di Chimica and ‡Istituto di Metodologie Chimiche (IMC), Consiglio Nazionale delle
Ricerche (CNR), Dipartimento di Chimica, Università di Firenze, I-50019 Sesto Fiorentino,
Firenze, Italy
| | - Stefano Roelens
- Dipartimento
di Chimica and ‡Istituto di Metodologie Chimiche (IMC), Consiglio Nazionale delle
Ricerche (CNR), Dipartimento di Chimica, Università di Firenze, I-50019 Sesto Fiorentino,
Firenze, Italy
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Ma M, Kong L, Li X, Jin H, Zhao X, Wen K. Synthesis and Supramolecular Assemblies of Tripodal 1,3,5-Tris(phenoxymethyl)-2,4,6-triethylbenzene Analogues. CHINESE J CHEM 2011. [DOI: 10.1002/cjoc.201180271] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
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20
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Nishio M. The CH/π hydrogen bond in chemistry. Conformation, supramolecules, optical resolution and interactions involving carbohydrates. Phys Chem Chem Phys 2011; 13:13873-900. [PMID: 21611676 DOI: 10.1039/c1cp20404a] [Citation(s) in RCA: 617] [Impact Index Per Article: 47.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The CH/π hydrogen bond is an attractive molecular force occurring between a soft acid and a soft base. Contribution from the dispersion energy is important in typical cases where aliphatic or aromatic CH groups are involved. Coulombic energy is of minor importance as compared to the other weak hydrogen bonds. The hydrogen bond nature of this force, however, has been confirmed by AIM analyses. The dual characteristic of the CH/π hydrogen bond is the basis for ubiquitous existence of this force in various fields of chemistry. A salient feature is that the CH/π hydrogen bond works cooperatively. Another significant point is that it works in nonpolar as well as polar, protic solvents such as water. The interaction energy depends on the nature of the molecular fragments, CH as well as π-groups: the stronger the proton donating ability of the CH group, the larger the stabilizing effect. This Perspective focuses on the consequence of this molecular force in the conformation of organic compounds and supramolecular chemistry. Implication of the CH/π hydrogen bond extends to the specificity of molecular recognition or selectivity in organic reactions, polymer science, surface phenomena and interactions involving proteins. Many problems, unsettled to date, will become clearer in the light of the CH/π paradigm.
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Affiliation(s)
- Motohiro Nishio
- The CHPI Institute, 705-6-338 Minamioya, Machida-shi, Tokyo, 194-0031, Japan.
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Takahashi O, Kohno Y, Nishio M. Relevance of weak hydrogen bonds in the conformation of organic compounds and bioconjugates: evidence from recent experimental data and high-level ab initio MO calculations. Chem Rev 2011; 110:6049-76. [PMID: 20550180 DOI: 10.1021/cr100072x] [Citation(s) in RCA: 495] [Impact Index Per Article: 38.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Affiliation(s)
- Osamu Takahashi
- Department of Chemistry, Graduate School of Science, Hiroshima University, Kagamiyama, Higashi-Hiroshima, 739-8526, Japan.
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Jin S, Cheng Y, Reid S, Li M, Wang B. Carbohydrate recognition by boronolectins, small molecules, and lectins. Med Res Rev 2010; 30:171-257. [PMID: 19291708 PMCID: PMC2829346 DOI: 10.1002/med.20155] [Citation(s) in RCA: 100] [Impact Index Per Article: 7.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
Abstract
Carbohydrates are known to mediate a large number of biological and pathological events. Small and macromolecules capable of carbohydrate recognition have great potentials as research tools, diagnostics, vectors for targeted delivery of therapeutic and imaging agents, and therapeutic agents. However, this potential is far from being realized. One key issue is the difficulty in the development of "binders" capable of specific recognition of carbohydrates of biological relevance. This review discusses systematically the general approaches that are available in developing carbohydrate sensors and "binders/receptors," and their applications. The focus is on discoveries during the last 5 years.
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Affiliation(s)
- Shan Jin
- Department of Chemistry and Center for Biotechnology and Drug Design, Georgia State University, Atlanta, GA 30302-4098, USA
| | - Yunfeng Cheng
- Department of Chemistry and Center for Biotechnology and Drug Design, Georgia State University, Atlanta, GA 30302-4098, USA
| | - Suazette Reid
- Department of Chemistry and Center for Biotechnology and Drug Design, Georgia State University, Atlanta, GA 30302-4098, USA
| | - Minyong Li
- Department of Chemistry and Center for Biotechnology and Drug Design, Georgia State University, Atlanta, GA 30302-4098, USA
| | - Binghe Wang
- Department of Chemistry and Center for Biotechnology and Drug Design, Georgia State University, Atlanta, GA 30302-4098, USA
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24
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Morales Betanzos C, Gonzalez-Moa MJ, Boltz KW, Vander Werf BD, Johnston SA, Svarovsky SA. Bacterial glycoprofiling by using random sequence peptide microarrays. Chembiochem 2009; 10:877-88. [PMID: 19243087 DOI: 10.1002/cbic.200800716] [Citation(s) in RCA: 31] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Abstract
Current analytical methods have been slow in addressing the growing need for glyco-analysis. A new generation of more empirical high-throughput (HTP) tools is needed to aid the advance of this important field. To this end, we have developed a new HTP screening platform for identification of surface-immobilized peptides that specifically bind O-antigenic glycans of bacterial lipopolysaccharides (LPS). This method involves screening of random sequence peptide libraries in addressable high-density microarray format with the newly developed luminescent LPS-quantum dot micelles. Screening of LPS fractions from O111:B4 and O55:B5 serotypes of E. coli on a microarray consisting of 10,000 20-mer peptide features revealed minor differences, while comparison of LPS from E. coli O111:B4 and P. aeruginosa produced sets of highly specific peptides. Peptides strongly binding to the E. coli LPS were highly enriched in aromatic and cationic amino acids, and most of these inhibited growth of E. coli. Flow cytometry and isothermal titration calorimetry (ITC) experiments showed that some of these peptides bind LPS in-solution with a K(d) of 1.75 microM. Peptide selections against P. aeruginosa were largely composed of hydrogen-bond forming amino acids in accordance with dramatic compositional differences in O-antigenic glycans in E. coli and P. aeruginosa. While the main value of this approach lies in the ability to rapidly differentiate bacterial and possibly other complex glycans, the peptides discovered here can potentially be used off-array as antiendotoxic and antimicrobial lead compounds, and on-array/on-bead as diagnostic and affinity reagents.
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Affiliation(s)
- Carlos Morales Betanzos
- Center for Innovations in Medicine, The Biodesign Institute, Arizona State University, 1001 S. McAllister Avenue, Tempe, AZ 85287, USA
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25
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Mazik M. Molecular recognition of carbohydrates by acyclic receptors employing noncovalent interactions. Chem Soc Rev 2009; 38:935-56. [PMID: 19421573 DOI: 10.1039/b710910p] [Citation(s) in RCA: 193] [Impact Index Per Article: 12.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Artificial carbohydrate receptors using noncovalent interactions for sugar binding provide valuable model systems to study the underlying principles of carbohydrate-based molecular recognition processes. In addition, well-designed artificial receptors may serve as a basis for the development of saccharide sensors or therapeutics that intervene in biologically important carbohydrate recognitions. Several different strategies have been employed for the design of such synthetic systems. The main focus of this tutorial review is on the carbohydrate binding capabilities of receptors possessing an acyclic structure and employing noncovalent interactions for sugar binding. The acyclic scaffold provides simplicity in the synthetic plan for many modifications of the receptor structure, supplying a base for systematic studies toward recognition motifs for carbohydrates. The review covers both some earlier examples and newer developments in this field.
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Affiliation(s)
- Monika Mazik
- Institut für Organische Chemie der Technischen Universität Braunschweig, Hagenring 30, 38106 Braunschweig, Germany.
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26
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Dell'Anna GM, Annunziata R, Benaglia M, Celentano G, Cozzi F, Francesconi O, Roelens S. Aromatic tripodal receptors for (C60-Ih)[5,6]fullerene. Org Biomol Chem 2009; 7:3871-7. [DOI: 10.1039/b910921h] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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Abe H, Horii A, Matsumoto S, Shiro M, Inouye M. D3h-Symmetrical Hydrogen-Bonding Unit as a Saccharide Recognition and Self-Assembling Module. Org Lett 2008; 10:2685-8. [DOI: 10.1021/ol800783a] [Citation(s) in RCA: 13] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Hajime Abe
- Graduate School of Pharmaceutical Sciences, University of Toyama, 2630 Sugitani, Toyama, Toyama 930-0194, Japan, PRESTO, JST, Japan, Faculty of Education and Human Sciences, Yokohama National University, 79-2 Tokiwadai, Hodogaya-ku,Yokohama 240-8501, Japan, and X-ray Research Laboratory, Rigaku Corporation, 3-9-12 Matsubara-cho, Akishima-shi, Tokyo 196-8666, Japan
| | - Asuka Horii
- Graduate School of Pharmaceutical Sciences, University of Toyama, 2630 Sugitani, Toyama, Toyama 930-0194, Japan, PRESTO, JST, Japan, Faculty of Education and Human Sciences, Yokohama National University, 79-2 Tokiwadai, Hodogaya-ku,Yokohama 240-8501, Japan, and X-ray Research Laboratory, Rigaku Corporation, 3-9-12 Matsubara-cho, Akishima-shi, Tokyo 196-8666, Japan
| | - Shinya Matsumoto
- Graduate School of Pharmaceutical Sciences, University of Toyama, 2630 Sugitani, Toyama, Toyama 930-0194, Japan, PRESTO, JST, Japan, Faculty of Education and Human Sciences, Yokohama National University, 79-2 Tokiwadai, Hodogaya-ku,Yokohama 240-8501, Japan, and X-ray Research Laboratory, Rigaku Corporation, 3-9-12 Matsubara-cho, Akishima-shi, Tokyo 196-8666, Japan
| | - Motoo Shiro
- Graduate School of Pharmaceutical Sciences, University of Toyama, 2630 Sugitani, Toyama, Toyama 930-0194, Japan, PRESTO, JST, Japan, Faculty of Education and Human Sciences, Yokohama National University, 79-2 Tokiwadai, Hodogaya-ku,Yokohama 240-8501, Japan, and X-ray Research Laboratory, Rigaku Corporation, 3-9-12 Matsubara-cho, Akishima-shi, Tokyo 196-8666, Japan
| | - Masahiko Inouye
- Graduate School of Pharmaceutical Sciences, University of Toyama, 2630 Sugitani, Toyama, Toyama 930-0194, Japan, PRESTO, JST, Japan, Faculty of Education and Human Sciences, Yokohama National University, 79-2 Tokiwadai, Hodogaya-ku,Yokohama 240-8501, Japan, and X-ray Research Laboratory, Rigaku Corporation, 3-9-12 Matsubara-cho, Akishima-shi, Tokyo 196-8666, Japan
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28
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Bautista-Ibañez L, Ramírez-Gualito K, Quiroz-García B, Rojas-Aguilar A, Cuevas G. Calorimetric measurement of the CH/pi interaction involved in the molecular recognition of saccharides by aromatic compounds. J Org Chem 2008; 73:849-57. [PMID: 18173283 DOI: 10.1021/jo701926r] [Citation(s) in RCA: 36] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Can a benzene molecule differentiate between two isomeric carbohydrates? It is generally accepted that two factors govern molecular recognition: complementarity and preorganization. Preorganization requires the presence of cavities for positioning the host's groups of complementary nature to those of the guest. This study shows that, in fact, groups should be complementary to recognize each other (for the case presented here, it is controlled by the CH/pi interaction) but preorganization is not essential. Since weak interactions have their origin in dispersion forces, they also have impact on the enthalpic term of the free energy, so it was considered that their participation can be demonstrated by measuring the energy involved. For recognition to happen, two conditions must be satisfied: specificity and associated stabilizing energy. In this study we evaluated the heat of dissolution of different carbohydrates such as methyl 2,3,4,6-tetra-O-methyl-alpha-d-mannopyranoside and methyl 2,3,4,6-tetra-O-methyl-beta-d-galactopyranoside using different aromatic solvents. The solvation enthalpies in benzene were -78.8 +/- 3.9 and -88.7 +/- 5.5 kJ mol(-1) for each carbohydrate, respectively; and these values yielded a CH/pi energy of interaction of 9.9 kJ mol(-1). In addition, NMR studies of the effect of the addition of benzene to chloroform solutions of the two carbohydrates showed that benzene specifically interacts with the hydrogen atoms of the pyranose ring at positions 3, 4, and 5 located on the alpha face of the methyl-beta-galactoside, so it is, in fact, able to recognize it. Thus, the interactions between carbohydrates and the aromatic residues of proteins occur in the absence of the confinement generated by the protein structure. By experimentally measuring the energy associated with this interaction and comparing it to theoretical calculations, it was also possible to unequivocally determine the existence of CH/pi interactions between carbohydrates and proteins.
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Affiliation(s)
- Lorena Bautista-Ibañez
- Instituto de Química, Universidad Nacional Autónoma de México, Apdo. Postal 70213, 04510, CoyoacAn, México, D.F., México
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