1
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Geers DWT, Gavriel K, Neumann K. Rapid, traceless and facile peptide cyclization enabled by tetrazine-thiol exchange. J Pept Sci 2024; 30:e3548. [PMID: 37779097 DOI: 10.1002/psc.3548] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/02/2023] [Revised: 08/25/2023] [Accepted: 09/14/2023] [Indexed: 10/03/2023]
Abstract
Cyclic peptides offer many advantages compared to their linear counterparts, including prolonged stability within the biological environment and enhanced binding affinity. Typically, peptides are cyclized by forming an amide bond, either on-resin or in solution, through extensive use of orthogonal protecting groups or chemoselective ligation strategies, respectively. Here, we show that the chemoselective tetrazine-thiol exchange is a powerful tool for rapid in situ cyclization of peptides without the need for additional activation reagents or extensive protecting group reshuffling. The reaction between N-terminal sulfide-bearing unsymmetric tetrazines and internal cysteines occurs spontaneously within a mildly acidic environment (pH 6.5) and is of traceless nature. The rapidly available unsymmetric sulfide tetrazine building blocks can be incorporated on resin using standard solid-phase peptide synthesis protocols and are orthogonal to trifluoroacetic acid cleavage conditions. The cyclized peptides display high stability, even when incubated with a large excess of free thiols. Due to its traceless and mild nature, we expect that the tetrazine-thiol exchange will be of high value for the in situ formation of cyclic peptide libraries, thus being applicable in drug discovery and development.
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Affiliation(s)
- Daniëlle W T Geers
- Institute for Molecules and Materials, Radboud University, Nijmegen, The Netherlands
| | - Katerina Gavriel
- Institute for Molecules and Materials, Radboud University, Nijmegen, The Netherlands
| | - Kevin Neumann
- Institute for Molecules and Materials, Radboud University, Nijmegen, The Netherlands
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2
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Glavaš M, Gitlin-Domagalska A, Ptaszyńska N, Starego D, Freza S, Dębowski D, Helbik-Maciejewska A, Łęgowska A, Gilon C, Rolka K. Synthesis of Novel Arginine Building Blocks with Increased Lipophilicity Compatible with Solid-Phase Peptide Synthesis. Molecules 2023; 28:7780. [PMID: 38067510 PMCID: PMC10708530 DOI: 10.3390/molecules28237780] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/25/2023] [Revised: 11/15/2023] [Accepted: 11/23/2023] [Indexed: 12/18/2023] Open
Abstract
Arginine, due to the guanidine moiety, increases peptides' hydrophilicity and enables interactions with charged molecules, but at the same time, its presence in a peptide chain might reduce its permeability through biological membranes. This might be resolved by temporary coverage of the peptide charge by lipophilic, enzyme-sensitive alkoxycarbonyl groups. Unfortunately, such a modification of a guanidine moiety has not been reported to date and turned out to be challenging. Here, we present a new, optimized strategy to obtain arginine building blocks with increased lipophilicity that were successfully utilized in the solid-phase peptide synthesis of novel arginine vasopressin prodrugs.
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Affiliation(s)
- Mladena Glavaš
- Department of Molecular Biochemistry, Faculty of Chemistry, University of Gdansk, Wita Stwosza 63, 80-308 Gdansk, Poland; (M.G.); (N.P.); (D.S.); (D.D.); (A.H.-M.); (A.Ł.); (K.R.)
- Department of Organic Chemistry and Biochemistry, Ruđer Bošković Institute, Bijenička cesta 54, 10 000 Zagreb, Croatia
| | - Agata Gitlin-Domagalska
- Department of Molecular Biochemistry, Faculty of Chemistry, University of Gdansk, Wita Stwosza 63, 80-308 Gdansk, Poland; (M.G.); (N.P.); (D.S.); (D.D.); (A.H.-M.); (A.Ł.); (K.R.)
| | - Natalia Ptaszyńska
- Department of Molecular Biochemistry, Faculty of Chemistry, University of Gdansk, Wita Stwosza 63, 80-308 Gdansk, Poland; (M.G.); (N.P.); (D.S.); (D.D.); (A.H.-M.); (A.Ł.); (K.R.)
| | - Dominika Starego
- Department of Molecular Biochemistry, Faculty of Chemistry, University of Gdansk, Wita Stwosza 63, 80-308 Gdansk, Poland; (M.G.); (N.P.); (D.S.); (D.D.); (A.H.-M.); (A.Ł.); (K.R.)
| | - Sylwia Freza
- Department of Theoretical Chemistry, Faculty of Chemistry, University of Gdansk, Wita Stwosza 63, 80-308 Gdansk, Poland;
| | - Dawid Dębowski
- Department of Molecular Biochemistry, Faculty of Chemistry, University of Gdansk, Wita Stwosza 63, 80-308 Gdansk, Poland; (M.G.); (N.P.); (D.S.); (D.D.); (A.H.-M.); (A.Ł.); (K.R.)
| | - Aleksandra Helbik-Maciejewska
- Department of Molecular Biochemistry, Faculty of Chemistry, University of Gdansk, Wita Stwosza 63, 80-308 Gdansk, Poland; (M.G.); (N.P.); (D.S.); (D.D.); (A.H.-M.); (A.Ł.); (K.R.)
| | - Anna Łęgowska
- Department of Molecular Biochemistry, Faculty of Chemistry, University of Gdansk, Wita Stwosza 63, 80-308 Gdansk, Poland; (M.G.); (N.P.); (D.S.); (D.D.); (A.H.-M.); (A.Ł.); (K.R.)
| | - Chaim Gilon
- Department of Organic Chemistry, Institute of Chemistry, The Hebrew University, Jerusalem 91904, Israel;
| | - Krzysztof Rolka
- Department of Molecular Biochemistry, Faculty of Chemistry, University of Gdansk, Wita Stwosza 63, 80-308 Gdansk, Poland; (M.G.); (N.P.); (D.S.); (D.D.); (A.H.-M.); (A.Ł.); (K.R.)
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3
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Pandi A, Adam D, Zare A, Trinh VT, Schaefer SL, Burt M, Klabunde B, Bobkova E, Kushwaha M, Foroughijabbari Y, Braun P, Spahn C, Preußer C, Pogge von Strandmann E, Bode HB, von Buttlar H, Bertrams W, Jung AL, Abendroth F, Schmeck B, Hummer G, Vázquez O, Erb TJ. Cell-free biosynthesis combined with deep learning accelerates de novo-development of antimicrobial peptides. Nat Commun 2023; 14:7197. [PMID: 37938588 PMCID: PMC10632401 DOI: 10.1038/s41467-023-42434-9] [Citation(s) in RCA: 16] [Impact Index Per Article: 16.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/21/2023] [Accepted: 10/10/2023] [Indexed: 11/09/2023] Open
Abstract
Bioactive peptides are key molecules in health and medicine. Deep learning holds a big promise for the discovery and design of bioactive peptides. Yet, suitable experimental approaches are required to validate candidates in high throughput and at low cost. Here, we established a cell-free protein synthesis (CFPS) pipeline for the rapid and inexpensive production of antimicrobial peptides (AMPs) directly from DNA templates. To validate our platform, we used deep learning to design thousands of AMPs de novo. Using computational methods, we prioritized 500 candidates that we produced and screened with our CFPS pipeline. We identified 30 functional AMPs, which we characterized further through molecular dynamics simulations, antimicrobial activity and toxicity. Notably, six de novo-AMPs feature broad-spectrum activity against multidrug-resistant pathogens and do not develop bacterial resistance. Our work demonstrates the potential of CFPS for high throughput and low-cost production and testing of bioactive peptides within less than 24 h.
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Affiliation(s)
- Amir Pandi
- Department of Biochemistry and Synthetic Metabolism, Max Planck Institute for Terrestrial Microbiology, Marburg, Germany.
| | - David Adam
- Department of Biochemistry and Synthetic Metabolism, Max Planck Institute for Terrestrial Microbiology, Marburg, Germany
- Bundeswehr Institute of Microbiology, Munich, Germany
| | - Amir Zare
- Department of Biochemistry and Synthetic Metabolism, Max Planck Institute for Terrestrial Microbiology, Marburg, Germany
| | - Van Tuan Trinh
- Department of Chemistry, Philipps-University Marburg, Marburg, Germany
| | - Stefan L Schaefer
- Department of Theoretical Biophysics, Max Planck Institute of Biophysics, Frankfurt am Main, Germany
| | - Marie Burt
- Institute for Lung Research, Universities of Giessen and Marburg Lung Center, Philipps-University Marburg, German Center for Lung Research (DZL), Marburg, Germany
| | - Björn Klabunde
- Institute for Lung Research, Universities of Giessen and Marburg Lung Center, Philipps-University Marburg, German Center for Lung Research (DZL), Marburg, Germany
| | - Elizaveta Bobkova
- Department of Biochemistry and Synthetic Metabolism, Max Planck Institute for Terrestrial Microbiology, Marburg, Germany
| | - Manish Kushwaha
- Université Paris-Saclay, INRAe, AgroParisTech, Micalis Institute, Jouy-en-Josas, France
| | - Yeganeh Foroughijabbari
- Department of Biochemistry and Synthetic Metabolism, Max Planck Institute for Terrestrial Microbiology, Marburg, Germany
| | - Peter Braun
- Bundeswehr Institute of Microbiology, Munich, Germany
- German Center for Infection Research (DZIF), Munich, Germany
- Fraunhofer Institute for Translational Medicine and Pharmacology (ITMP), Immunology, Infection and Pandemic Research, Munich, Germany
| | - Christoph Spahn
- Department of Natural Products in Organismic Interactions, Max Planck Institute for Terrestrial Microbiology, Marburg, Germany
| | - Christian Preußer
- Institute for Tumor Immunology, Center for Tumor Biology and Immunology, Philipps-University Marburg, Marburg, Germany
- Core Facility Extracellular Vesicles, Center for Tumor Biology and Immunology, Philipps-University of Marburg, Marburg, Germany
| | - Elke Pogge von Strandmann
- Institute for Tumor Immunology, Center for Tumor Biology and Immunology, Philipps-University Marburg, Marburg, Germany
- Core Facility Extracellular Vesicles, Center for Tumor Biology and Immunology, Philipps-University of Marburg, Marburg, Germany
| | - Helge B Bode
- Department of Natural Products in Organismic Interactions, Max Planck Institute for Terrestrial Microbiology, Marburg, Germany
- Molecular Biotechnology, Department of Biosciences, Goethe University Frankfurt, Frankfurt am Main, Germany
- Department of Chemistry, Chemical Biology, Philipps-University Marburg, Marburg, Germany
- Senckenberg Gesellschaft für Naturforschung, Frankfurt, Germany
- SYNMIKRO Center of Synthetic Microbiology, Marburg, Germany
| | - Heiner von Buttlar
- Bundeswehr Institute of Microbiology, Munich, Germany
- German Center for Infection Research (DZIF), Munich, Germany
| | - Wilhelm Bertrams
- Institute for Lung Research, Universities of Giessen and Marburg Lung Center, Philipps-University Marburg, German Center for Lung Research (DZL), Marburg, Germany
| | - Anna Lena Jung
- Institute for Lung Research, Universities of Giessen and Marburg Lung Center, Philipps-University Marburg, German Center for Lung Research (DZL), Marburg, Germany
- Core Facility Flow Cytometry - Bacterial Vesicles, Philipps-University Marburg, Marburg, Germany
| | - Frank Abendroth
- Department of Chemistry, Philipps-University Marburg, Marburg, Germany
| | - Bernd Schmeck
- Institute for Lung Research, Universities of Giessen and Marburg Lung Center, Philipps-University Marburg, German Center for Lung Research (DZL), Marburg, Germany
- SYNMIKRO Center of Synthetic Microbiology, Marburg, Germany
- Core Facility Flow Cytometry - Bacterial Vesicles, Philipps-University Marburg, Marburg, Germany
- Department of Medicine, Pulmonary and Critical Care Medicine, University Medical Center Marburg, Philipps-University Marburg, Marburg, Germany
- Institute for Lung Health (ILH), Giessen, Germany
- Member of the German Center for Infectious Disease Research (DZIF), Marburg, Germany
| | - Gerhard Hummer
- Department of Theoretical Biophysics, Max Planck Institute of Biophysics, Frankfurt am Main, Germany
- Institute for Biophysics, Goethe University Frankfurt, Frankfurt am Main, Germany
| | - Olalla Vázquez
- Department of Chemistry, Philipps-University Marburg, Marburg, Germany
- SYNMIKRO Center of Synthetic Microbiology, Marburg, Germany
| | - Tobias J Erb
- Department of Biochemistry and Synthetic Metabolism, Max Planck Institute for Terrestrial Microbiology, Marburg, Germany.
- SYNMIKRO Center of Synthetic Microbiology, Marburg, Germany.
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4
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Vaas S, Zimmermann MO, Klett T, Boeckler FM. Synthesis of Amino Acids Bearing Halodifluoromethyl Moieties and Their Application to p53-Derived Peptides Binding to Mdm2/Mdm4. Drug Des Devel Ther 2023; 17:1247-1274. [PMID: 37128274 PMCID: PMC10148652 DOI: 10.2147/dddt.s406703] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/18/2023] [Accepted: 04/01/2023] [Indexed: 05/03/2023] Open
Abstract
Introduction Therapeutic peptides are a significant class of drugs in the treatment of a wide range of diseases. To enhance their properties, such as stability or binding affinity, they are usually chemically modified. This includes, among other techniques, cyclization of the peptide chain by bridging, modifications to the backbone, and incorporation of unnatural amino acids. One approach previously established, is the use of halogenated aromatic amino acids. In principle, they are thereby enabled to form halogen bonds (XB). In this study, we focus on the -R-CF2X moiety (R = O, NHCO; X = Cl, Br) as an uncommon halogen bond donor. These groups enable more spatial variability in protein-protein interactions. The chosen approach via Fmoc-protected building blocks allows for the incorporation of these modified amino acids in peptides using solid-phase peptide synthesis. Results and Discussion Using a competitive fluorescence polarization assay to monitor binding to Mdm4, we demonstrate that a p53-derived peptide with Lys24Nle(εNHCOCF2X) exhibits an improved inhibition constant Ki compared to the unmodified peptide. Decreasing Ki values observed with the increasing XB capacity of the halogen atoms (F ≪ Cl < Br) indicates the formation of a halogen bond. By reducing the side chain length of Nle(εNHCOCF2X) to Abu(γNHCOCF2X) as control experiments and through quantum mechanical calculations, we suggest that the observed affinity enhancement is related to halogen bond-induced intramolecular stabilization of the α-helical binding mode of the peptide or a direct interaction with His54 in human Mdm4.
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Affiliation(s)
- Sebastian Vaas
- Department of Pharmacy and Biochemistry, Eberhard Karls Universität Tübingen, Laboratory for Molecular Design and Pharmaceutical Biophysics, Institute of Pharmaceutical Sciences, Tübingen, 72076, Germany
| | - Markus O Zimmermann
- Department of Pharmacy and Biochemistry, Eberhard Karls Universität Tübingen, Laboratory for Molecular Design and Pharmaceutical Biophysics, Institute of Pharmaceutical Sciences, Tübingen, 72076, Germany
| | - Theresa Klett
- Department of Pharmacy and Biochemistry, Eberhard Karls Universität Tübingen, Laboratory for Molecular Design and Pharmaceutical Biophysics, Institute of Pharmaceutical Sciences, Tübingen, 72076, Germany
| | - Frank M Boeckler
- Department of Pharmacy and Biochemistry, Eberhard Karls Universität Tübingen, Laboratory for Molecular Design and Pharmaceutical Biophysics, Institute of Pharmaceutical Sciences, Tübingen, 72076, Germany
- Institute for Bioinformatics and Medical Informatics (IBMI), Eberhard Karls Universität Tübingen, Tübingen, 72076, Germany
- Correspondence: Frank M Boeckler, Molecular Design and Pharmaceutical Biophysics, Institute of Pharmaceutical Sciences, Eberhard Karls Universität Tübingen, Auf der Morgenstelle 8 (Haus B), Tübingen, D-72076, Germany, Tel +49 7071 29 74567, Fax +49 7071 29 5637, Email
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5
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Tanaka S, Narumi T, Mase N, Sato K. Hydrazide-Mediated Solubilizing Strategy for Poorly Soluble Peptides Using a Dialkoxybenzaldehyde Linker. Chem Pharm Bull (Tokyo) 2022; 70:707-715. [PMID: 36184453 DOI: 10.1248/cpb.c22-00501] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Abstract
Proteins modified in a controlled manner with artificial moieties such as fluorophores or affinity tags have been shown to be a powerful tool for functional or structural analysis of proteins. A reliable way to prepare proteins with a well-defined modification is protein synthesis. Although many successful syntheses have been reported, the poor aqueous solubility of synthetic intermediates causes difficulty in the chemical synthesis of proteins. Here we describe a solubilizing strategy for poorly soluble peptides which uses chemoselective incorporation of a hydrophilic tag onto a hydrazide in a peptide. We found that a hydrophilic tag possessing a dialkoxybenzaldehyde moiety can react with peptide hydrazides through reductive N-alkylation. No protecting groups are required for this reaction, and peptides modified in this way show enhanced solubility and consequently good peak separation during HPLC purification. The tag can be removed subsequently by treatment with trifluoroacetic acid to generate a free hydrazide, which can be converted in a one-pot reaction to a thioester for further modification. This method was validated by synthesis of a Lys63-linked ubiquitin dimer derivative. This late-stage solubilization can be applied in principal to any peptide and opens the possibility of the synthesis of proteins that have previously been considered inaccessible due to their poor solubility.
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Affiliation(s)
- Shoko Tanaka
- Graduate School of Science and Technology, Shizuoka University
| | - Tetsuo Narumi
- Graduate School of Science and Technology, Shizuoka University.,Department of Applied Chemistry and Biochemical Engineering, Faculty of Engineering, Shizuoka University.,Research Institute of Green Science and Technology, Shizuoka University
| | - Nobuyuki Mase
- Graduate School of Science and Technology, Shizuoka University.,Department of Applied Chemistry and Biochemical Engineering, Faculty of Engineering, Shizuoka University.,Research Institute of Green Science and Technology, Shizuoka University
| | - Kohei Sato
- Graduate School of Science and Technology, Shizuoka University.,Department of Applied Chemistry and Biochemical Engineering, Faculty of Engineering, Shizuoka University.,Research Institute of Green Science and Technology, Shizuoka University
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6
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Xue YW, Itoh H, Dan S, Inoue M. Gramicidin A accumulates in mitochondria, reduces ATP levels, induces mitophagy, and inhibits cancer cell growth. Chem Sci 2022; 13:7482-7491. [PMID: 35872830 PMCID: PMC9241976 DOI: 10.1039/d2sc02024f] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/08/2022] [Accepted: 06/02/2022] [Indexed: 11/21/2022] Open
Abstract
Here we revealed the spatiotemporal behavior of gramicidin A in cancer cells. Gramicidin A depolarizes both the plasma and mitochondrial membranes, inhibits ATP synthesis, and induces mitophagy, thereby causing potent inhibition of cell growth.
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Affiliation(s)
- Yun-Wei Xue
- Graduate School of Pharmaceutical Sciences, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-0033, Japan
| | - Hiroaki Itoh
- Graduate School of Pharmaceutical Sciences, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-0033, Japan
| | - Shingo Dan
- Division of Molecular Pharmacology, Cancer Chemotherapy Center, Japanese Foundation for Cancer Research, 3-8-31 Ariake, Koto-ku, Tokyo 135-8550, Japan
| | - Masayuki Inoue
- Graduate School of Pharmaceutical Sciences, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-0033, Japan
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7
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Itoh H, Inoue M. Development of a High-Throughput Strategy for Functional Enhancement and Alteration of Antibacterial Natural Products. J SYN ORG CHEM JPN 2021. [DOI: 10.5059/yukigoseikyokaishi.79.996] [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)
| | - Masayuki Inoue
- Graduate School of Pharmaceutical Sciences, The University of Tokyo
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8
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Spears RJ, McMahon C, Chudasama V. Cysteine protecting groups: applications in peptide and protein science. Chem Soc Rev 2021; 50:11098-11155. [PMID: 34605832 DOI: 10.1039/d1cs00271f] [Citation(s) in RCA: 40] [Impact Index Per Article: 13.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Abstract
Protecting group chemistry for the cysteine thiol group has enabled a vast array of peptide and protein chemistry over the last several decades. Increasingly sophisticated strategies for the protection, and subsequent deprotection, of cysteine have been developed, facilitating synthesis of complex disulfide-rich peptides, semisynthesis of proteins, and peptide/protein labelling in vitro and in vivo. In this review, we analyse and discuss the 60+ individual protecting groups reported for cysteine, highlighting their applications in peptide synthesis and protein science.
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Affiliation(s)
| | - Clíona McMahon
- Department of Chemistry, University College London, London, UK.
| | - Vijay Chudasama
- Department of Chemistry, University College London, London, UK.
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9
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Wackett LP. Nothing lasts forever: understanding microbial biodegradation of polyfluorinated compounds and perfluorinated alkyl substances. Microb Biotechnol 2021; 15:773-792. [PMID: 34570953 PMCID: PMC8913905 DOI: 10.1111/1751-7915.13928] [Citation(s) in RCA: 40] [Impact Index Per Article: 13.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/09/2021] [Revised: 09/12/2021] [Accepted: 09/13/2021] [Indexed: 12/20/2022] Open
Abstract
Poly‐ and perfluorinated chemicals, including perfluorinated alkyl substances (PFAS), are pervasive in today’s society, with a negative impact on human and ecosystem health continually emerging. These chemicals are now subject to strict government regulations, leading to costly environmental remediation efforts. Commercial polyfluorinated compounds have been called ‘forever chemicals’ due to their strong resistance to biological and chemical degradation. Environmental cleanup by bioremediation is not considered practical currently. Implementation of bioremediation will require uncovering and understanding the rare microbial successes in degrading these compounds. This review discusses the underlying reasons why microbial degradation of heavily fluorinated compounds is rare. Fluorinated and chlorinated compounds are very different with respect to chemistry and microbial physiology. Moreover, the end product of biodegradation, fluoride, is much more toxic than chloride. It is imperative to understand these limitations, and elucidate physiological mechanisms of defluorination, in order to better discover, study, and engineer bacteria that can efficiently degrade polyfluorinated compounds.
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Affiliation(s)
- Lawrence P Wackett
- Department of Biochemistry, Molecular Biology and Biophysics, University of Minnesota, St. Paul, MN, 55108, USA
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10
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Verschueren RH, Gilles P, Van Mileghem S, De Borggraeve WM. Solvent-free N-Boc deprotection by ex situ generation of hydrogen chloride gas. Org Biomol Chem 2021; 19:5782-5787. [PMID: 33973618 DOI: 10.1039/d1ob00728a] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
An efficient, scalable and sustainable method for the quantitative deprotection of the tert-butyl carbamate (N-Boc) protecting group is described, using down to near-stoichiometric amounts of hydrogen chloride gas in solvent-free conditions. We demonstrate the ex situ generation of hydrogen chloride gas from sodium chloride and sulfuric acid in a two-chamber reactor, introducing a straightforward method for controlled and stoichiometric release of HCl gas. The solvent-free conditions allow deprotection of a wide variety of N-Boc derivatives to obtain the hydrochloride salts in quantitative yields. The procedure obviates the need for any work-up or purification steps providing an uncomplicated green alternative to standard methods. Due to the solvent-free, anhydrous conditions, this method shows high tolerance towards acid sensitive functional groups and furnishes expanded functional group orthogonality.
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Affiliation(s)
- Rik H Verschueren
- KU Leuven, Department of Chemistry, Molecular Design and Synthesis, Celestijnenlaan 200F - box 2404, B-3001 Leuven, Belgium.
| | - Philippe Gilles
- KU Leuven, Department of Chemistry, Molecular Design and Synthesis, Celestijnenlaan 200F - box 2404, B-3001 Leuven, Belgium.
| | - Seger Van Mileghem
- KU Leuven, Department of Chemistry, Molecular Design and Synthesis, Celestijnenlaan 200F - box 2404, B-3001 Leuven, Belgium.
| | - Wim M De Borggraeve
- KU Leuven, Department of Chemistry, Molecular Design and Synthesis, Celestijnenlaan 200F - box 2404, B-3001 Leuven, Belgium.
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11
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Pennington MW, Zell B, Bai CJ. Commercial manufacturing of current good manufacturing practice peptides spanning the gamut from neoantigen to commercial large-scale products. MEDICINE IN DRUG DISCOVERY 2021. [DOI: 10.1016/j.medidd.2020.100071] [Citation(s) in RCA: 13] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022] Open
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12
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Uspenskaya AA, Machulkin AE, Nimenko EA, Shafikov RR, Petrov SA, Skvortsov DA, Beloglazkina EK, Majouga AG. Influence of the dipeptide linker configuration on the activity of PSMA ligands. MENDELEEV COMMUNICATIONS 2020. [DOI: 10.1016/j.mencom.2020.11.022] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/01/2022]
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13
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Synthesis of poly(Asparagine-co-phenylalanine) copolymers, analogy with thermosensitive poly(acrylamide-co-styrene) copolymers and formation of PEGylated nanoparticles. Eur Polym J 2020. [DOI: 10.1016/j.eurpolymj.2020.110033] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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14
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Takada Y, Itoh H, Paudel A, Panthee S, Hamamoto H, Sekimizu K, Inoue M. Discovery of gramicidin A analogues with altered activities by multidimensional screening of a one-bead-one-compound library. Nat Commun 2020; 11:4935. [PMID: 33004797 PMCID: PMC7531004 DOI: 10.1038/s41467-020-18711-2] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/22/2020] [Accepted: 09/08/2020] [Indexed: 01/08/2023] Open
Abstract
Gramicidin A (1) is a peptide antibiotic that disrupts the transmembrane ion concentration gradient by forming an ion channel in a lipid bilayer. Although long used clinically, it is limited to topical application because of its strong hemolytic activity and mammalian cytotoxicity, likely arising from the common ion transport mechanism. Here we report an integrated high-throughput strategy for discovering analogues of 1 with altered biological activity profiles. The 4096 analogue structures are designed to maintain the charge-neutral, hydrophobic, and channel forming properties of 1. Synthesis of the analogues, tandem mass spectrometry sequencing, and 3 microscale screenings enable us to identify 10 representative analogues. Re-synthesis and detailed functional evaluations find that all 10 analogues share a similar ion channel function, but have different cytotoxic, hemolytic, and antibacterial activities. Our large-scale structure-activity relationship studies reveal the feasibility of developing analogues of 1 that selectively induce toxicity toward target organisms. The strong hemolytic activity and mammalian cytotoxicity of gramicidin A, a peptide antibiotic, has hindered its non-topical clinical application. Here, the authors report a high-throughput strategy for the discovery of gramicidin A analogues with altered biological activity profiles.
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Affiliation(s)
- Yuri Takada
- Graduate School of Pharmaceutical Sciences, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo, 113-0033, Japan
| | - Hiroaki Itoh
- Graduate School of Pharmaceutical Sciences, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo, 113-0033, Japan
| | - Atmika Paudel
- Teikyo University Institute of Medical Mycology, 359 Otsuka, Hachioji, Tokyo, 192-0395, Japan
| | - Suresh Panthee
- Teikyo University Institute of Medical Mycology, 359 Otsuka, Hachioji, Tokyo, 192-0395, Japan
| | - Hiroshi Hamamoto
- Teikyo University Institute of Medical Mycology, 359 Otsuka, Hachioji, Tokyo, 192-0395, Japan
| | - Kazuhisa Sekimizu
- Teikyo University Institute of Medical Mycology, 359 Otsuka, Hachioji, Tokyo, 192-0395, Japan
| | - Masayuki Inoue
- Graduate School of Pharmaceutical Sciences, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo, 113-0033, Japan.
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15
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Ng YM, Mat Yusuf SNA, Chiu HI, Lim V. Redox-Sensitive Linear and Cross-Linked Cystamine-Based Polymers for Colon-Targeted Drug Delivery: Design, Synthesis, and Characterisation. Pharmaceutics 2020; 12:pharmaceutics12050461. [PMID: 32443633 PMCID: PMC7284438 DOI: 10.3390/pharmaceutics12050461] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/14/2020] [Revised: 04/22/2020] [Accepted: 04/23/2020] [Indexed: 12/14/2022] Open
Abstract
Cystamine-based polymers may help to achieve controlled and targeted drug delivery to the colon due to their susceptibility to breakage of the disulfide linkage in the low redox potential environment of the colon. In this study, two linear cystamine-based polymers with similar repeating units (LP1 and LP2) and a cross-linked cystamine-based polymer (BP) were synthesised and their kinetics and the various physical conditions underlying cystamine-based polymerisation were evaluated. In brief, N1,N6-bis(2-(tritylthio)ethyl)adipamide (2) was synthesised from the reaction of triphenylmethanol and cysteamine. Next, the trityl group of 2 was removed with trifluoroacetic acid and triethylsilane before proceeding to oxidative polymerisation of the end product, N1,N6-bis(2-mercaptoethyl)adipamide (3) to LP1. The Schotten-Bauman reaction was applied to synthesise LP2 and BP from the reaction of cystamine with adipoyl chloride or trimesoyl chloride. Scanning electron microscopy, energy-dispersive X-ray spectroscopy, and mapping showed that oxygen, nitrogen, sulfur, and carbon were homogenously distributed in the polymers, with LP2 and BP having less porous morphologies compared to LP1. Results of zinc-acetic acid reduction showed that all polymers began to reduce after 15 min. Moreover, all synthesised polymers resisted stomach and small intestine conditions and only degraded in the presence of bacteria in the colon environment. Thus, these polymers have great potential for drug delivery applications. LP2 and BP, which were synthesised using the Schotten-Bauman reaction, were more promising than LP1 for colon-targeted drug delivery.
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Affiliation(s)
- Yoke Mooi Ng
- Integrative Medicine Cluster, Advanced Medical and Dental Institute, Universiti Sains Malaysia, Bertam, Kepala Batas 13200, Penang, Malaysia; (Y.M.N.); (S.N.A.M.Y.); (H.I.C.)
| | - Siti Nur Aishah Mat Yusuf
- Integrative Medicine Cluster, Advanced Medical and Dental Institute, Universiti Sains Malaysia, Bertam, Kepala Batas 13200, Penang, Malaysia; (Y.M.N.); (S.N.A.M.Y.); (H.I.C.)
- Department of Chemical Engineering Technology, Faculty of Engineering Technology, UniCITI Alam Campus, Universiti Malaysia Perlis, Padang Besar 02100, Perlis, Malaysia
| | - Hock Ing Chiu
- Integrative Medicine Cluster, Advanced Medical and Dental Institute, Universiti Sains Malaysia, Bertam, Kepala Batas 13200, Penang, Malaysia; (Y.M.N.); (S.N.A.M.Y.); (H.I.C.)
| | - Vuanghao Lim
- Integrative Medicine Cluster, Advanced Medical and Dental Institute, Universiti Sains Malaysia, Bertam, Kepala Batas 13200, Penang, Malaysia; (Y.M.N.); (S.N.A.M.Y.); (H.I.C.)
- Correspondence: ; Tel.: +604-5622427
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16
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Lone A, Arnous A, Hansen PR, Mojsoska B, Jenssen H. Synthesis of Peptoids Containing Multiple Nhtrp and Ntrp Residues: A Comparative Study of Resin, Cleavage Conditions and Submonomer Protection. Front Chem 2020; 8:370. [PMID: 32411678 PMCID: PMC7201050 DOI: 10.3389/fchem.2020.00370] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/15/2020] [Accepted: 04/08/2020] [Indexed: 12/03/2022] Open
Abstract
Peptoids hold status as peptide-mimetics with versatile biological applications due to their proteolytic stability and structural diversity. Among those that have been studied in different biological systems, are peptoids with dominant balanced hydrophobic and charge distribution along the backbone. Tryptophan is an important amino acid found in many biologically active peptides. Tryptophan-like side chains in peptoids allow H-bonding, which is absent from the parent backbone, due to the unique indole ring. Furthermore, the rigid hydrophobic core and flat aromatic system influence the positioning in the hydrocarbon core and allows accommodating tryptophan-like side chains into the interfacial regions of bacterial membranes and causing bacterial membrane damage. Incorporating multiple tryptophan-like side chains in peptoids can be tricky and there is a lack of suitable, synthetic routes established. In this paper, we investigate the synthesis of peptoids rich in Nhtrp and Ntrp residues using different resins, cleavage conditions, and unprotected as well as tert-butyloxycarbonyl-protected amines suitable for automated solid-phase submonomer peptoid synthesis protocols.
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Affiliation(s)
- Abdullah Lone
- Department of Science and Environment, Roskilde University, Roskilde, Denmark.,Department of Drug Design and Pharmacology, Faculty of Health and Medical Sciences, University of Copenhagen, Copenhagen, Denmark
| | - Anis Arnous
- Department of Science and Environment, Roskilde University, Roskilde, Denmark
| | - Paul Robert Hansen
- Department of Drug Design and Pharmacology, Faculty of Health and Medical Sciences, University of Copenhagen, Copenhagen, Denmark
| | - Biljana Mojsoska
- Department of Science and Environment, Roskilde University, Roskilde, Denmark
| | - Håvard Jenssen
- Department of Science and Environment, Roskilde University, Roskilde, Denmark
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17
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Hansford KA, Ziora ZM, Cooper MA, Blaskovich MAT. Solid-Phase Synthesis of Octapeptin Lipopeptides. Methods Mol Biol 2020; 2103:199-213. [PMID: 31879927 DOI: 10.1007/978-1-0716-0227-0_13] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/10/2023]
Abstract
Octapeptins are naturally derived cyclic lipopeptide antibiotics with activity against a range of Gram-negative pathogens, including highly resistant strains. Octapeptin C4, an exemplar of the class, was synthesized using a combination of Fmoc solid-phase peptide synthesis (SPPS) and solution-phase cyclization. Utilizing H-L-Leu-2-chlorotrityl resin, peptide couplings were performed using HCTU and collidine in DMF. The linear sequence was terminated by N-acylation with 3-(R)-hydroxydecanoic acid. The residue Dab-2 was orthogonally protected with 1-(4,4-dimethyl-2,6-dioxocyclohex-1-ylidene)isovaleryl group (ivDde) to enable selective side-chain deprotection prior to resin cleavage. Resin cleavage was accomplished with hexafluoroisopropanol in DCM, followed by cyclization with diphenylphosphoryl azide (DPPA) and solid sodium bicarbonate in DMF.
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Affiliation(s)
- Karl A Hansford
- Institute for Molecular Bioscience, The University of Queensland, St Lucia, QLD, Australia.
| | - Zyta M Ziora
- Institute for Molecular Bioscience, The University of Queensland, St Lucia, QLD, Australia
| | - Matthew A Cooper
- Institute for Molecular Bioscience, The University of Queensland, St Lucia, QLD, Australia
| | - Mark A T Blaskovich
- Institute for Molecular Bioscience, The University of Queensland, St Lucia, QLD, Australia
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18
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Sakai T, Kawano K, Iino M, Takeuchi T, Imanishi M, Futaki S. Loosening of Lipid Packing by Cell‐Surface Recruitment of Amphiphilic Peptides by Coiled‐Coil Tethering. Chembiochem 2019; 20:2151-2159. [DOI: 10.1002/cbic.201900347] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/27/2019] [Indexed: 01/02/2023]
Affiliation(s)
- Takayuki Sakai
- Institute for Chemical ResearchKyoto University Uji Kyoto 611-0011 Japan
| | - Kenichi Kawano
- Institute for Chemical ResearchKyoto University Uji Kyoto 611-0011 Japan
| | - Masatomo Iino
- Institute for Chemical ResearchKyoto University Uji Kyoto 611-0011 Japan
| | - Toshihide Takeuchi
- Institute for Chemical ResearchKyoto University Uji Kyoto 611-0011 Japan
| | - Miki Imanishi
- Institute for Chemical ResearchKyoto University Uji Kyoto 611-0011 Japan
| | - Shiroh Futaki
- Institute for Chemical ResearchKyoto University Uji Kyoto 611-0011 Japan
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19
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Meirelles MA, Braga CB, Ornelas C, Pilli RA. Synthesis of Nitrogen-Containing Goniothalamin Analogues with Higher Cytotoxic Activity and Selectivity against Cancer Cells. ChemMedChem 2019; 14:1403-1417. [PMID: 31260170 DOI: 10.1002/cmdc.201900281] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/08/2019] [Revised: 06/25/2019] [Indexed: 12/23/2022]
Abstract
Two series of racemic goniothalamin analogues displaying nitrogen-containing groups were designed and synthesized. A total of 19 novel analogues were evaluated against a panel of four different cancer cell lines, along with the normal prostate cell line PNT2 to determine their selectivity. Among them, goniothalamin chloroacrylamide 13 e displayed the lowest IC50 values for both MCF-7 (0.5 μm) and PC3 (0.3 μm) cells, about 26-fold more potent than goniothalamin (1). Besides its higher potency, compound 13 e also displayed much higher selectivity than goniothalamin. In contrast, goniothalamin isobutyramide 13 c was the most potent analogue against Caco-2 cells (IC50 =0.8 μm), about 10-fold more potent and 17-fold more selective than 1. These results reveal the potential of compounds 13 c and 13 e for further in vivo studies, representing the first goniothalamin analogues with IC50 values in the low micromolar range and high selectivity against MCF-7, Caco-2, and PC3 cancer cell lines.
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Affiliation(s)
- Matheus A Meirelles
- Department of Organic Chemistry, Institute of Chemistry, University of Campinas, UNICAMP CEP 13083-970, Campinas, São Paulo, Brazil
| | - Carolyne B Braga
- Department of Organic Chemistry, Institute of Chemistry, University of Campinas, UNICAMP CEP 13083-970, Campinas, São Paulo, Brazil
| | - Catia Ornelas
- Department of Organic Chemistry, Institute of Chemistry, University of Campinas, UNICAMP CEP 13083-970, Campinas, São Paulo, Brazil
| | - Ronaldo A Pilli
- Department of Organic Chemistry, Institute of Chemistry, University of Campinas, UNICAMP CEP 13083-970, Campinas, São Paulo, Brazil
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20
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Itoh H, Inoue M. Full solid-phase total synthesis of macrocyclic natural peptides using four-dimensionally orthogonal protective groups. Org Biomol Chem 2019; 17:6519-6527. [PMID: 31232404 DOI: 10.1039/c9ob01130g] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Abstract
Fmoc-based solid-phase synthesis provides efficient access to both linear and macrocyclic peptides. To synthesize complex macrocyclic polyamides using Fmoc chemistry, multiple protective groups with orthogonal reactivities are generally employed because the free amines and carboxylic acids of specific residues must be selectively exposed prior to amide formation. This review focuses on four-dimensionally orthogonal protective group strategies for the full solid-phase synthesis of macrocyclic peptides with branched chains (polymyxin E2 and daptomycin) and a tricyclic natural peptide (lacticin 481).
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Affiliation(s)
- Hiroaki Itoh
- Graduate School of Pharmaceutical Sciences, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-0033, Japan.
| | - Masayuki Inoue
- Graduate School of Pharmaceutical Sciences, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-0033, Japan.
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21
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González‐Domínguez JM, Colusso A, Litti L, Ostric A, Meneghetti M, Da Ros T. Thiolated Graphene Oxide Nanoribbons as Templates for Anchoring Gold Nanoparticles: Two‐Dimensional Nanostructures for SERS. Chempluschem 2019; 84:862-871. [DOI: 10.1002/cplu.201900150] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/05/2019] [Revised: 05/16/2019] [Indexed: 11/09/2022]
Affiliation(s)
- Jose M. González‐Domínguez
- INSTM Department of Chemical and Pharmaceutical SciencesUniversity of Trieste Via L. Giorgieri 1 34127 Trieste Italy
- Instituto de Carboquímica (CSIC) C/Miguel Luesma Castán 4 50018 Zaragoza Spain
| | - Andrea Colusso
- Department of Chemical SciencesUniversity of Padova Via Marzolo 1 35131 Padova Italy
| | - Lucio Litti
- Department of Chemical SciencesUniversity of Padova Via Marzolo 1 35131 Padova Italy
| | - Adrian Ostric
- INSTM Department of Chemical and Pharmaceutical SciencesUniversity of Trieste Via L. Giorgieri 1 34127 Trieste Italy
| | - Moreno Meneghetti
- Department of Chemical SciencesUniversity of Padova Via Marzolo 1 35131 Padova Italy
| | - Tatiana Da Ros
- INSTM Department of Chemical and Pharmaceutical SciencesUniversity of Trieste Via L. Giorgieri 1 34127 Trieste Italy
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22
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Meden A, Knez D, Jukič M, Brazzolotto X, Gršič M, Pišlar A, Zahirović A, Kos J, Nachon F, Svete J, Gobec S, Grošelj U. Tryptophan-derived butyrylcholinesterase inhibitors as promising leads against Alzheimer's disease. Chem Commun (Camb) 2019; 55:3765-3768. [PMID: 30864579 DOI: 10.1039/c9cc01330j] [Citation(s) in RCA: 53] [Impact Index Per Article: 10.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
We have identified tryptophan-based selective nanomolar butyrylcholinesterase (BChE) inhibitors. They are defined according to their chemical modularity, novel binding mode revealed by five solved crystal structures with human BChE, low cytotoxicity, and predicted permeability of the blood-brain barrier. Altogether, these factors indicate their potential as unique lead compounds for symptomatic therapy against Alzheimer's disease.
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Affiliation(s)
- AnŽe Meden
- Faculty of Chemistry and Chemical Technology, University of Ljubljana, Večna pot 113, SI-1000 Ljubljana, Slovenia.
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23
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Bugaenko DI, Karchava AV, Yurovskaya MA. Synthesis of indoles: recent advances. RUSSIAN CHEMICAL REVIEWS 2019. [DOI: 10.1070/rcr4844] [Citation(s) in RCA: 36] [Impact Index Per Article: 7.2] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
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24
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Ste Marie EJ, Hondal RJ. Reduction of cysteine-S-protecting groups by triisopropylsilane. J Pept Sci 2018; 24:e3130. [PMID: 30353614 DOI: 10.1002/psc.3130] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/08/2018] [Revised: 08/28/2018] [Accepted: 09/07/2018] [Indexed: 12/18/2022]
Abstract
Triisopropylsilane (TIS), a hindered hydrosilane, has long been utilized as a cation scavenger for the removal of amino acid protecting groups during peptide synthesis. However, its ability to actively remove S-protecting groups by serving as a reductant has largely been mischaracterized by the peptide community. Here, we provide strong evidence that TIS can act as a reducing agent to facilitate the removal of acetamidomethyl (Acm), 4-methoxybenzyl (Mob), and tert-butyl (But ) protecting groups from cysteine (Cys) residues in the presence of trifluoroacetic acid (TFA) at 37 °C. The lability of the Cys protecting groups in TFA/TIS (98/2) in this study are in the order: Cys(Mob) > Cys(Acm) > Cys(But ), with Cys(Mob) being especially labile. Unexpectedly, we found that TIS promoted disulfide formation in addition to aiding in the removal of the protecting group. Our results raise the possibility of using TIS in orthogonal deprotection strategies of Cys-protecting groups following peptide synthesis as TIS can be viewed as a potential deprotection agent instead of merely a scavenger in deprotection cocktails based on our results. We also tested other common scavengers under these reaction conditions and found that thioanisole and triethylsilane were similarly effective as TIS in enhancing deprotection and catalyzing disulfide formation. Our findings reported herein show that careful consideration should be given to the type of scavenger used when it is desirable to preserve the Cys-protecting group. Additional consideration should be given to the concentration of scavenger, temperature of the reaction, and reaction time.
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Affiliation(s)
- Emma J Ste Marie
- Department of Chemistry, Discovery Hall, University of Vermont, 82 University Place, Burlington, VT, 05405, USA
| | - Robert J Hondal
- Department of Biochemistry, University of Vermont, 89 Beaumont Ave, Given Laboratory, Room B413, Burlington, VT, 05405, USA
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25
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Beck S, Schultze J, Räder HJ, Holm R, Schinnerer M, Barz M, Koynov K, Zentel R. Site-Specific DBCO Modification of DEC205 Antibody for Polymer Conjugation. Polymers (Basel) 2018; 10:E141. [PMID: 30966177 PMCID: PMC6414842 DOI: 10.3390/polym10020141] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/14/2018] [Revised: 01/29/2018] [Accepted: 01/30/2018] [Indexed: 12/12/2022] Open
Abstract
The design of multifunctional polymer-based vectors, forming pDNA vaccines, offers great potential in cancer immune therapy. The transfection of dendritic immune cells (DCs) with tumour antigen-encoding pDNA leads to an activation of the immune system to combat tumour cells. In this work, we investigated the chemical attachment of DEC205 antibodies (aDEC205) as DC-targeting structures to polyplexes of P(Lys)-b-P(HPMA). The conjugation of a synthetic block copolymer and a biomacromolecule with various functionalities (aDEC205) requires bioorthogonal techniques to avoid side reactions. Click chemistry and in particular the strain-promoted alkyne-azide cycloaddition (SPAAC) can provide the required bioorthogonality. With regard to a SPAAC of both components, we firstly synthesized two different azide-containing block copolymers, P(Lys)-b-P(HPMA)-N₃(stat) and P(Lys)-b-P(HPMA)-N₃(end), for pDNA complexation. In addition, the site-specific incorporation of ring-strained dibenzocyclooctyne (DBCO) moieties to the DEC205 antibody was achieved by an enzymatic strategy using bacterial transglutaminase (BTG). The chemical accessibility of DBCO molecules within aDEC205 as well as the accessibility of azide-functionalities on the polyplex' surface were investigated by various SPAAC experiments and characterized by fluorescence correlation spectroscopy (FCS).
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Affiliation(s)
- Simone Beck
- Institute of Organic Chemistry, Johannes-Gutenberg University Mainz, Duesbergweg 10-14, D-55128 Mainz, Germany; (S.B.); (R.H.); (M.B.)
- Graduate School Materials Science in Mainz, Staudingerweg 9, D-55128 Mainz, Germany
| | - Jennifer Schultze
- Max-Planck-Institute for Polymer Research, Ackermannweg 10, D-55128 Mainz, Germany; (J.S.); (H.-J.R.); (K.K.)
| | - Hans-Joachim Räder
- Max-Planck-Institute for Polymer Research, Ackermannweg 10, D-55128 Mainz, Germany; (J.S.); (H.-J.R.); (K.K.)
| | - Regina Holm
- Institute of Organic Chemistry, Johannes-Gutenberg University Mainz, Duesbergweg 10-14, D-55128 Mainz, Germany; (S.B.); (R.H.); (M.B.)
| | - Meike Schinnerer
- Institute of Physical Chemistry, Jakob Welder Weg 11, D-55128 Mainz, Germany;
| | - Matthias Barz
- Institute of Organic Chemistry, Johannes-Gutenberg University Mainz, Duesbergweg 10-14, D-55128 Mainz, Germany; (S.B.); (R.H.); (M.B.)
| | - Kaloian Koynov
- Max-Planck-Institute for Polymer Research, Ackermannweg 10, D-55128 Mainz, Germany; (J.S.); (H.-J.R.); (K.K.)
| | - Rudolf Zentel
- Institute of Organic Chemistry, Johannes-Gutenberg University Mainz, Duesbergweg 10-14, D-55128 Mainz, Germany; (S.B.); (R.H.); (M.B.)
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26
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Inagaki F, Momose M, Maruyama N, Matsuura K, Matsunaga T, Mukai C. Activation of disulfide bond cleavage triggered by hydrophobization and lipophilization of functionalized dihydroasparagusic acid. Org Biomol Chem 2018; 16:4320-4324. [DOI: 10.1039/c8ob01055b] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Introduction of a hydrophilic group into dihydroasparagusic acid (DHAA) indicated higher reduction ability of disulfide in protein and lower air oxidation.
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Affiliation(s)
- Fuyuhiko Inagaki
- Division of Pharmaceutical Sciences
- Graduate School of Medical Sciences
- Kanazawa University
- Kanazawa 920-1192
- Japan
| | - Miyuki Momose
- Division of Pharmaceutical Sciences
- Graduate School of Medical Sciences
- Kanazawa University
- Kanazawa 920-1192
- Japan
| | - Naoya Maruyama
- Division of Pharmaceutical Sciences
- Graduate School of Medical Sciences
- Kanazawa University
- Kanazawa 920-1192
- Japan
| | - Kenkyo Matsuura
- Department of Pharmacology and Cancer Biology
- Duke University School of Medicine
- Durham
- USA
| | - Tsukasa Matsunaga
- Division of Pharmaceutical Sciences
- Graduate School of Medical Sciences
- Kanazawa University
- Kanazawa 920-1192
- Japan
| | - Chisato Mukai
- Division of Pharmaceutical Sciences
- Graduate School of Medical Sciences
- Kanazawa University
- Kanazawa 920-1192
- Japan
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27
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Gitlin-Domagalska A, Dębowski D, Łęgowska A, Stirnberg M, Okońska J, Gütschow M, Rolka K. Design and chemical syntheses of potent matriptase-2 inhibitors based on trypsin inhibitor SFTI-1 isolated from sunflower seeds. Biopolymers 2017; 108. [DOI: 10.1002/bip.23031] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/20/2017] [Revised: 05/22/2017] [Accepted: 05/23/2017] [Indexed: 01/16/2023]
Affiliation(s)
- Agata Gitlin-Domagalska
- Department of Molecular Biochemistry; Faculty of Chemistry, University of Gdansk, ul. Wita Stwosza 63; Gdansk 80-308 Poland
| | - Dawid Dębowski
- Department of Molecular Biochemistry; Faculty of Chemistry, University of Gdansk, ul. Wita Stwosza 63; Gdansk 80-308 Poland
| | - Anna Łęgowska
- Department of Molecular Biochemistry; Faculty of Chemistry, University of Gdansk, ul. Wita Stwosza 63; Gdansk 80-308 Poland
| | - Marit Stirnberg
- Pharmaceutical Institute, University of Bonn, An der Immenburg 4; Bonn 53121 Germany
| | - Joanna Okońska
- Department of Molecular Biochemistry; Faculty of Chemistry, University of Gdansk, ul. Wita Stwosza 63; Gdansk 80-308 Poland
| | - Michael Gütschow
- Pharmaceutical Institute, University of Bonn, An der Immenburg 4; Bonn 53121 Germany
| | - Krzysztof Rolka
- Department of Molecular Biochemistry; Faculty of Chemistry, University of Gdansk, ul. Wita Stwosza 63; Gdansk 80-308 Poland
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28
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Yamada T, Miki S, Ul'Husna A, Michikawa A, Nakatani K. Synthesis of Naphthyridine Carbamate Dimer (NCD) Derivatives Modified with Alkanethiol and Binding Properties of G-G Mismatch DNA. Org Lett 2017; 19:4163-4166. [PMID: 28753029 DOI: 10.1021/acs.orglett.7b01632] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
Abstract
A series of new DNA binding molecules NCD-Cn-SH (n = 3, 4, 5, and 6) is reported, which possesses the NCD (naphthyridine carbamate dimer) domain selectively binding to the G-G mismatch in the 5'-CGG-3'/5'-CGG-3' sequence and a thiol moiety, which undergoes spontaneous dimerization to (NCD-Cn-S)2 upon oxidation under aerobic conditions. The S-S dimer (NCD-Cn-S)2 produced the 1:1 binding complex with improved thermal stability. The dimer binding to the CGG/CGG DNA showed higher positive cooperativity than the binding of monomer and previously synthesized NCTn derivative. The dimerization of NCD-Cn-SH was selectively accelerated on the CGG repeat DNA but not on the CAG repeat DNA.
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Affiliation(s)
- Takeshi Yamada
- Department of Regulatory Bioorganic Chemistry, The Institute of Scientific and Industrial Research (ISIR), Osaka University , Mihogaoka 8-1, Ibaraki 567-0047, Japan
| | - Shouta Miki
- Department of Regulatory Bioorganic Chemistry, The Institute of Scientific and Industrial Research (ISIR), Osaka University , Mihogaoka 8-1, Ibaraki 567-0047, Japan
| | - Anisa Ul'Husna
- Department of Regulatory Bioorganic Chemistry, The Institute of Scientific and Industrial Research (ISIR), Osaka University , Mihogaoka 8-1, Ibaraki 567-0047, Japan
| | - Akiko Michikawa
- Department of Regulatory Bioorganic Chemistry, The Institute of Scientific and Industrial Research (ISIR), Osaka University , Mihogaoka 8-1, Ibaraki 567-0047, Japan
| | - Kazuhiko Nakatani
- Department of Regulatory Bioorganic Chemistry, The Institute of Scientific and Industrial Research (ISIR), Osaka University , Mihogaoka 8-1, Ibaraki 567-0047, Japan
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29
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Tsutsumi LS, Tan GT, Sun D. Solid-phase synthesis of cyclic hexapeptides wollamides A, B and desotamide B. Tetrahedron Lett 2017; 58:2675-2680. [PMID: 29129945 PMCID: PMC5678967 DOI: 10.1016/j.tetlet.2017.05.084] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
Abstract
Solid-phase synthesis of antibacterial cyclohexapeptides including wollamides A, B and desotamide B has been developed. Briefly, the protected linear hexapeptides were assembled on 2-chlorotrityl chloride resin using standard Fmoc chemistry and diisopropylcarbodiimide/hydroxybenzotriazole coupling reagents, cleaved off-resin with hexafluoroisopropanol/dichloromethane to keep side-chain protecting groups intact, and cyclized in solution. Final global removal of all protecting groups using a cocktail of trifluoroacetic acid/triisopropylsilane/dichloromethane afforded the desired cyclic hexapeptides, which were characterized by 1H, 13C NMR, and HRMS. Subsequent investigation of macrocyclization parameters such as terminal residues, coupling reagents, and cyclization concentration revealed the optimized conditions for the synthesis of this class of cyclic hexapeptides.
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Affiliation(s)
- Lissa S Tsutsumi
- Department of Pharmaceutical Sciences, The Daniel K. Inouye College of Pharmacy, University of Hawai'i at Hilo, 34 Rainbow Drive, Hilo, HI 96720, USA
| | - Ghee T Tan
- Department of Pharmaceutical Sciences, The Daniel K. Inouye College of Pharmacy, University of Hawai'i at Hilo, 34 Rainbow Drive, Hilo, HI 96720, USA
| | - Dianqing Sun
- Department of Pharmaceutical Sciences, The Daniel K. Inouye College of Pharmacy, University of Hawai'i at Hilo, 34 Rainbow Drive, Hilo, HI 96720, USA
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30
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Seankongsuk P, Vchirawongkwin V, Bates RW, Padungros P, Vilaivan T. Enantioselective Synthesis of (2S
,3S
)-epi
-Oxetin and Its Incorporation into Conformationally Constrained Pyrrolidinyl PNA with an Oxetane Backbone. ASIAN J ORG CHEM 2017. [DOI: 10.1002/ajoc.201600575] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/22/2023]
Affiliation(s)
- Pattarakiat Seankongsuk
- Department of Chemistry; Faculty of Science; Chulalongkorn University; Organic Synthesis Research Unit; Phayathai Road, Patumwan Bangkok 10330 Thailand
| | - Viwat Vchirawongkwin
- Department of Chemistry; Faculty of Science; Chulalongkorn University; Phayathai Road, Patumwan Bangkok 10330 Thailand
| | - Roderick W. Bates
- Division of Chemistry and Biological Chemistry; School of Physical and Mathematical Sciences; Nanyang Technological University; 21 Nanyang Link Singapore 637371 Singapore
| | - Panuwat Padungros
- Department of Chemistry; Faculty of Science; Chulalongkorn University; Organic Synthesis Research Unit; Phayathai Road, Patumwan Bangkok 10330 Thailand
| | - Tirayut Vilaivan
- Department of Chemistry; Faculty of Science; Chulalongkorn University; Organic Synthesis Research Unit; Phayathai Road, Patumwan Bangkok 10330 Thailand
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31
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Simeth NA, Bause M, Dobmeier M, Kling RC, Lachmann D, Hübner H, Einsiedel J, Gmeiner P, König B. NTS2-selective neurotensin mimetics with tetrahydrofuran amino acids. Bioorg Med Chem 2017; 25:350-359. [DOI: 10.1016/j.bmc.2016.10.039] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/04/2016] [Revised: 10/20/2016] [Accepted: 10/31/2016] [Indexed: 01/10/2023]
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32
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A building block approach to the synthesis of a family of S-linked α-1,6-oligomannosides. Carbohydr Res 2016; 429:38-47. [DOI: 10.1016/j.carres.2016.04.015] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/23/2016] [Revised: 04/11/2016] [Accepted: 04/11/2016] [Indexed: 11/19/2022]
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33
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Stetsenko DA, Apukhtina VS, Chelobanov BP, Palladino P. Removal of acid-labile protecting or anchoring groups in the presence of polyfluorinated alcohol: Application to solid-phase peptide synthesis. RUSSIAN JOURNAL OF BIOORGANIC CHEMISTRY 2016. [DOI: 10.1134/s106816201602014x] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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34
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Fuoco T, Finne-Wistrand A, Pappalardo D. A Route to Aliphatic Poly(ester)s with Thiol Pendant Groups: From Monomer Design to Editable Porous Scaffolds. Biomacromolecules 2016; 17:1383-94. [DOI: 10.1021/acs.biomac.6b00005] [Citation(s) in RCA: 35] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Affiliation(s)
- Tiziana Fuoco
- Department
of Fibre and Polymer Technology, KTH Royal Institute of Technology, 114 28 Stockholm, Sweden
- Department
of Chemistry and Biology “A. Zambelli”, University of Salerno, via Giovanni Paolo II 132, 84084 Fisciano, Salerno, Italy
| | - Anna Finne-Wistrand
- Department
of Fibre and Polymer Technology, KTH Royal Institute of Technology, 114 28 Stockholm, Sweden
| | - Daniela Pappalardo
- Department
of Fibre and Polymer Technology, KTH Royal Institute of Technology, 114 28 Stockholm, Sweden
- Department
of Science and Technology, University of Sannio, via dei Mulini
59/A, 82100 Benevento, Italy
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35
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Hayata A, Itoh H, Matsutaka S, Inoue M. Dual Chemical Modification of a Polytheonamide Mimic: Rational Design and Synthesis of Ion-Channel-Forming 48-mer Peptides with Potent Cytotoxicity. Chemistry 2016; 22:3370-3377. [DOI: 10.1002/chem.201504632] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/18/2015] [Indexed: 11/07/2022]
Affiliation(s)
- Atsushi Hayata
- Graduate School of Pharmaceutical Sciences; The University of Tokyo; Hongo Bunkyo-ku Tokyo 113-0033 Japan
| | - Hiroaki Itoh
- Graduate School of Pharmaceutical Sciences; The University of Tokyo; Hongo Bunkyo-ku Tokyo 113-0033 Japan
| | - Shoko Matsutaka
- Graduate School of Pharmaceutical Sciences; The University of Tokyo; Hongo Bunkyo-ku Tokyo 113-0033 Japan
| | - Masayuki Inoue
- Graduate School of Pharmaceutical Sciences; The University of Tokyo; Hongo Bunkyo-ku Tokyo 113-0033 Japan
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36
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Allgaier J, Hövelmann CH, Wei Z, Staropoli M, Pyckhout-Hintzen W, Lühmann N, Willbold S. Synthesis and rheological behavior of poly(1,2-butylene oxide) based supramolecular architectures. RSC Adv 2016. [DOI: 10.1039/c5ra24547h] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/26/2023] Open
Abstract
We describe the synthesis, analysis and rheological behavior of differently functionalized poly(1,2-butylene oxide) based supramolecular polymers.
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Affiliation(s)
- Jürgen Allgaier
- Jülich Centre for Neutron Science JCNS
- Institute for Complex Systems ICS
- Forschungszentrum Jülich GmbH
- 52425 Jülich
- Germany
| | - Claas H. Hövelmann
- Jülich Centre for Neutron Science JCNS
- Institute for Complex Systems ICS
- Forschungszentrum Jülich GmbH
- 52425 Jülich
- Germany
| | - Zhang Wei
- Jülich Centre for Neutron Science JCNS
- Institute for Complex Systems ICS
- Forschungszentrum Jülich GmbH
- 52425 Jülich
- Germany
| | - Mariapaola Staropoli
- Jülich Centre for Neutron Science JCNS
- Institute for Complex Systems ICS
- Forschungszentrum Jülich GmbH
- 52425 Jülich
- Germany
| | - Wim Pyckhout-Hintzen
- Jülich Centre for Neutron Science JCNS
- Institute for Complex Systems ICS
- Forschungszentrum Jülich GmbH
- 52425 Jülich
- Germany
| | - Nicole Lühmann
- Central Institute for Engineering
- Electronics and Analytics
- ZEA-3: Analytics
- Forschungszentrum Jülich GmbH
- 52425 Jülich
| | - Sabine Willbold
- Central Institute for Engineering
- Electronics and Analytics
- ZEA-3: Analytics
- Forschungszentrum Jülich GmbH
- 52425 Jülich
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37
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Mandal PK, Morlacchi P, Knight JM, Link TM, Lee GR, Nurieva R, Singh D, Dhanik A, Kavraki L, Corry DB, Ladbury JE, McMurray JS. Targeting the Src Homology 2 (SH2) Domain of Signal Transducer and Activator of Transcription 6 (STAT6) with Cell-Permeable, Phosphatase-Stable Phosphopeptide Mimics Potently Inhibits Tyr641 Phosphorylation and Transcriptional Activity. J Med Chem 2015; 58:8970-84. [PMID: 26506089 DOI: 10.1021/acs.jmedchem.5b01321] [Citation(s) in RCA: 28] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/29/2022]
Abstract
Signal transducer and activator of transcription 6 (STAT6) transmits signals from cytokines IL-4 and IL-13 and is activated in allergic airway disease. We are developing phosphopeptide mimetics targeting the SH2 domain of STAT6 to block recruitment to phosphotyrosine residues on IL-4 or IL-13 receptors and subsequent Tyr641 phosphorylation to inhibit the expression of genes contributing to asthma. Structure-affinity relationship studies showed that phosphopeptides based on Tyr631 from IL-4Rα bind with weak affinity to STAT6, whereas replacing the pY+3 residue with simple aryl and alkyl amides resulted in affinities in the mid to low nM range. A set of phosphatase-stable, cell-permeable prodrug analogues inhibited cytokine-stimulated STAT6 phosphorylation in both Beas-2B human airway cells and primary mouse T-lymphocytes at concentrations as low as 100 nM. IL-13-stimulated expression of CCL26 (eotaxin-3) was inhibited in a dose-dependent manner, demonstrating that targeting the SH2 domain blocks both phosphorylation and transcriptional activity of STAT6.
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Affiliation(s)
| | | | | | | | | | | | | | - Ankur Dhanik
- The Department of Computer Science, Rice University , Houston, Texas 77251, United States
| | - Lydia Kavraki
- The Department of Computer Science, Rice University , Houston, Texas 77251, United States
| | - David B Corry
- Departments of Medicine and Pathology & Immunology, The Baylor College of Medicine , Houston, Texas 77030, United States
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38
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Rentier C, Pacini G, Nuti F, Peroni E, Rovero P, Papini AM. Synthesis of diastereomerically pure Lys(N
ε
-lipoyl) building blocks and their use in Fmoc/tBu solid phase synthesis of lipoyl-containing peptides for diagnosis of primary biliary cirrhosis. J Pept Sci 2015; 21:408-14. [DOI: 10.1002/psc.2761] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/30/2014] [Revised: 01/07/2015] [Accepted: 01/21/2015] [Indexed: 11/06/2022]
Affiliation(s)
- Cédric Rentier
- French-Italian Interdepartmental Laboratory of Peptide and Protein Chemistry & Biology - PeptLab
- Laboratoire de Chimie Biologique EA4505; University of Cergy-Pontoise; 5 mail Gay-Lussac, Neuville-sur-Oise 95000 Cergy-Pontoise France
- Department of Chemistry “Ugo Schiff”; University of Florence; Via della Lastruccia 3/13 I-50019 Sesto Fiorentino Italy
| | - Giulia Pacini
- French-Italian Interdepartmental Laboratory of Peptide and Protein Chemistry & Biology - PeptLab
- Department NeuroFarBa, Section of Pharmaceutical and Nutraceutical Sciences; University of Florence, Via Ugo Schiff 6; I-50019 Sesto Fiorentino Italy
| | - Francesca Nuti
- French-Italian Interdepartmental Laboratory of Peptide and Protein Chemistry & Biology - PeptLab
- Department of Chemistry “Ugo Schiff”; University of Florence; Via della Lastruccia 3/13 I-50019 Sesto Fiorentino Italy
| | - Elisa Peroni
- French-Italian Interdepartmental Laboratory of Peptide and Protein Chemistry & Biology - PeptLab
- Laboratoire de Chimie Biologique EA4505; University of Cergy-Pontoise; 5 mail Gay-Lussac, Neuville-sur-Oise 95000 Cergy-Pontoise France
| | - Paolo Rovero
- French-Italian Interdepartmental Laboratory of Peptide and Protein Chemistry & Biology - PeptLab
- Department NeuroFarBa, Section of Pharmaceutical and Nutraceutical Sciences; University of Florence, Via Ugo Schiff 6; I-50019 Sesto Fiorentino Italy
| | - Anna Maria Papini
- French-Italian Interdepartmental Laboratory of Peptide and Protein Chemistry & Biology - PeptLab
- Laboratoire de Chimie Biologique EA4505; University of Cergy-Pontoise; 5 mail Gay-Lussac, Neuville-sur-Oise 95000 Cergy-Pontoise France
- Department of Chemistry “Ugo Schiff”; University of Florence; Via della Lastruccia 3/13 I-50019 Sesto Fiorentino Italy
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39
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Schütznerová E, Krchňák V. Solid-phase synthesis of 2-aryl-3-alkylamino-1H-indoles from 2-nitro-N-(2-oxo-2-arylethyl)benzenesulfonamides via base-mediated C-arylation. ACS COMBINATORIAL SCIENCE 2015; 17:137-46. [PMID: 25547263 DOI: 10.1021/co500167g] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
Abstract
Polymer-supported 2-nitro-N-(2-oxo-2-arylethyl)benzenesulfonamides, prepared from resin-bound amines by sulfonylation with 2-nitrobenzenesulfonyl chlorides followed by alkylation with α-bromoacetophenones, represent advanced intermediates for the synthesis of different nitrogenous heterocycles. We report their application for the synthesis of 2-aryl-3-alkylamino-1H-indoles via base-mediated C-arylation reactions followed by the reduction of the C-arylated intermediates. Linear precursors for C-arylation were prepared on solid-phase support from simple, commercially available building blocks. The effects of different substituents on the amino and aryl groups were addressed.
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Affiliation(s)
- Eva Schütznerová
- Department of Organic
Chemistry, Faculty of Science, Palacký University, 17. Listopadu
12, 771 46 Olomouc, Czech Republic
| | - Viktor Krchňák
- Department of Organic
Chemistry, Faculty of Science, Palacký University, 17. Listopadu
12, 771 46 Olomouc, Czech Republic
- Department of Chemistry and Biochemistry, University of Notre Dame, 251 Nieuwland Science Center, Notre Dame, Indiana 46556, United States
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40
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Tuci G, Luconi L, Rossin A, Baldini F, Cicchi S, Tombelli S, Trono C, Giannetti A, Manet I, Fedeli S, Brandi A, Giambastiani G. A Hetero-Bifunctional Spacer for the Smart Engineering of Carbon-Based Nanostructures. Chempluschem 2015; 80:704-714. [DOI: 10.1002/cplu.201402391] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/11/2014] [Indexed: 12/19/2022]
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41
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Fenton JM, Busse M, Rendina LM. Synthesis and DNA-Binding Studies of a Dinuclear Gadolinium(III)–Platinum(II) Complex. Aust J Chem 2015. [DOI: 10.1071/ch14572] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
Abstract
The synthesis and characterisation of a new dinuclear GdIII–PtII complex (1·PF6) containing a functionalised macrocyclic 1,4,7,10-tetraazacyclododecane-1,4,7-triacetic acid derivative linked to a PtII-terpy (terpy = 2,2′ : 6′,2″-terpyridine) unit by means of a short thiolato linker are reported. The complex was synthesised in six steps from cyclen by means of a modular synthetic strategy. A preliminary DNA-binding study with calf-thymus DNA (ct-DNA) was performed on 1·PF6 by means of linear dichroism (LD). The observed changes in the DNA LD signal in the presence of the metal complex are fully consistent with an intercalative binding mode. Furthermore, an induced negative LD signal in the ultraviolet absorption region of the complex provides strong evidence of a strong DNA-binding interaction. The in vitro cytotoxicity of 1·PF6 towards a human glioblastoma cell line (T98G) was also determined.
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42
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Washington AZ, Benicewicz DB, Canzoneri JC, Fagan CE, Mwakwari SC, Maehigashi T, Dunham CM, Oyelere AK. Macrolide-peptide conjugates as probes of the path of travel of the nascent peptides through the ribosome. ACS Chem Biol 2014; 9:2621-31. [PMID: 25198768 PMCID: PMC4245169 DOI: 10.1021/cb5003224] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
![]()
Despite
decades of research on the bacterial ribosome, the ribosomal
exit tunnel is still poorly understood. Although it has been suggested
that the exit tunnel is simply a convenient route of egress for the
nascent chain, specific protein sequences serve to slow the rate of
translation, suggesting some degree of interaction between the nascent
peptide chain and the exit tunnel. To understand how the ribosome
interacts with nascent peptide sequences, we synthesized and characterized
a novel class of probe molecules. These peptide–macrolide (or
“peptolide”) conjugates were designed to present unique
peptide sequences to the exit tunnel. Biochemical and X-ray structural
analyses of the interactions between these probes and the ribosome
reveal interesting insights about the exit tunnel. Using translation
inhibition and RNA structure probing assays, we find the exit tunnel
has a relaxed preference for the directionality (N → C or C
→ N orientation) of the nascent peptides. Moreover, the X-ray
crystal structure of one peptolide derived from a positively charged,
reverse Nuclear Localization Sequence peptide, bound to the 70S bacterial
ribosome, reveals that the macrolide ring of the peptolide binds in
the same position as other macrolides. However, the peptide tail folds
over the macrolide ring, oriented toward the peptidyl transferase
center and interacting in a novel manner with 23S rRNA residue C2442
and His69 of ribosomal protein L4. These data suggest that these peptolides
are viable probes for interrogating nascent peptide–exit tunnel
interaction.
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Affiliation(s)
- Arren Z. Washington
- School
of Chemistry and Biochemistry, Parker H. Petit Institute for Bioengineering
and Bioscience, Georgia Institute of Technology, Atlanta, Georgia 30332-0400, United States
| | - Derek B. Benicewicz
- School
of Chemistry and Biochemistry, Parker H. Petit Institute for Bioengineering
and Bioscience, Georgia Institute of Technology, Atlanta, Georgia 30332-0400, United States
| | - Joshua C. Canzoneri
- School
of Chemistry and Biochemistry, Parker H. Petit Institute for Bioengineering
and Bioscience, Georgia Institute of Technology, Atlanta, Georgia 30332-0400, United States
| | - Crystal E. Fagan
- Department
of Biochemistry, Emory University School of Medicine, Atlanta, Georgia 30322, United States
| | - Sandra C. Mwakwari
- School
of Chemistry and Biochemistry, Parker H. Petit Institute for Bioengineering
and Bioscience, Georgia Institute of Technology, Atlanta, Georgia 30332-0400, United States
| | - Tatsuya Maehigashi
- Department
of Biochemistry, Emory University School of Medicine, Atlanta, Georgia 30322, United States
| | - Christine M. Dunham
- Department
of Biochemistry, Emory University School of Medicine, Atlanta, Georgia 30322, United States
| | - Adegboyega K. Oyelere
- School
of Chemistry and Biochemistry, Parker H. Petit Institute for Bioengineering
and Bioscience, Georgia Institute of Technology, Atlanta, Georgia 30332-0400, United States
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43
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Samaritoni JG, Copes AT, Crews DK, Glos C, Thompson AL, Wilson C, O'Donnell MJ, Scott WL. Unexpected hydrolytic instability of N-acylated amino acid amides and peptides. J Org Chem 2014; 79:3140-51. [PMID: 24617596 PMCID: PMC3985854 DOI: 10.1021/jo500273f] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]
Abstract
![]()
Remote amide bonds in simple N-acyl
amino acid amide or peptide
derivatives 1 can be surprisingly unstable hydrolytically,
affording, in solution, variable amounts of 3 under mild
acidic conditions, such as trifluoroacetic acid/water mixtures at
room temperature. This observation has important implications for
the synthesis of this class of compounds, which includes N-terminal-acylated
peptides. We describe the factors contributing to this instability
and how to predict and control it. The instability is a function of
the remote acyl group, R2CO, four bonds away from the site
of hydrolysis. Electron-rich acyl R2 groups accelerate
this reaction. In the case of acyl groups derived from substituted
aromatic carboxylic acids, the acceleration is predictable from the
substituent’s Hammett σ value. N-Acyl dipeptides are
also hydrolyzed under typical cleavage conditions. This suggests that
unwanted peptide truncation may occur during synthesis or prolonged
standing in solution when dipeptides or longer peptides are acylated
on the N-terminus with electron-rich aromatic groups. When amide hydrolysis
is an undesired secondary reaction, as can be the case in the trifluoroacetic
acid-catalyzed cleavage of amino acid amide or peptide derivatives 1 from solid-phase resins, conditions are provided to minimize
that hydrolysis.
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Affiliation(s)
- J Geno Samaritoni
- Department of Chemistry and Chemical Biology, Indiana University Purdue University Indianapolis , Indianapolis, Indiana 46202, United States
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44
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Stathopoulos P, Papas S, Sakka M, Tzakos AG, Tsikaris V. A rapid and efficient method for the synthesis of selectively S-Trt or S-Mmt protected Cys-containing peptides. Amino Acids 2014; 46:1367-76. [DOI: 10.1007/s00726-014-1696-0] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/21/2013] [Accepted: 02/12/2014] [Indexed: 11/28/2022]
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45
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Itoh H, Matsutaka S, Kuranaga T, Inoue M. Control of the cytotoxicity of dansylated polytheonamide mimic, an artificial peptide ion channel, by modification of the N-terminal structure. Tetrahedron Lett 2014. [DOI: 10.1016/j.tetlet.2013.12.007] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
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46
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Optimal cleavage and oxidative folding of α-conotoxin TxIB as a therapeutic candidate peptide. Mar Drugs 2013; 11:3537-53. [PMID: 24048271 PMCID: PMC3806463 DOI: 10.3390/md11093537] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/05/2013] [Revised: 08/16/2013] [Accepted: 08/19/2013] [Indexed: 12/19/2022] Open
Abstract
Alpha6beta2 nicotinic acetylcholine receptors (nAChRs) are potential therapeutic targets for the treatment of several neuropsychiatric diseases, including addiction and Parkinson’s disease. Alpha-conotoxin (α-CTx) TxIB is a uniquely selective ligand, which blocks α6/α3β2β3 nAChRs only, but does not block the other subtypes. Therefore, α-CTx TxIB is a valuable therapeutic candidate peptide. Synthesizing enough α-CTx TxIB with high yield production is required for conducting wide-range testing of its potential medicinal applications. The current study optimized the cleavage of synthesized α-CTx TxIB resin-bounded peptide and folding of the cleaved linear peptide. Key parameters influencing cleavage and oxidative folding of α-CTx TxIB were examined, such as buffer, redox agents, pH, salt, co-solvent and temperature. Twelve conditions were used for cleavage optimization. Fifty-four kinds of one-step oxidative solution were used to assess their effects on each α-CTx TxIB isomers’ yield. The result indicated that co-solvent choices were particularly important. Completely oxidative folding of globular isomer was achieved when the NH4HCO3 or Tris-HCl folding buffer at 4 °C contained 40% of co-solvent DMSO, and GSH:GSSG (2:1) or GSH only with pH 8~8.7.
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47
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Scheinpflug K, Nikolenko H, Komarov IV, Rautenbach M, Dathe M. What Goes around Comes around-A Comparative Study of the Influence of Chemical Modifications on the Antimicrobial Properties of Small Cyclic Peptides. Pharmaceuticals (Basel) 2013; 6:1130-44. [PMID: 24276422 PMCID: PMC3818835 DOI: 10.3390/ph6091130] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/30/2013] [Revised: 08/26/2013] [Accepted: 09/02/2013] [Indexed: 01/26/2023] Open
Abstract
Tryptophan and arginine-rich cyclic hexapeptides of the type cyclo-RRRWFW combine high antibacterial activity with rapid cell killing kinetics, but show low toxicity in human cell lines. The peptides fulfil the structural requirements for membrane interaction such as high amphipathicity and cationic charge, but membrane permeabilisation, which is the most common mode of action of antimicrobial peptides (AMPs), could not be observed. Our current studies focus on elucidating a putative membrane translocation mechanism whereupon the peptides might interfere with intracellular processes. These investigations require particular analytical tools: fluorescent analogues and peptides bearing appropriate reactive groups were synthesized and characterized in order to be used in confocal laser scanning microscopy and HPLC analysis. We found that minimal changes in both the cationic and hydrophobic domain of the peptides in most cases led to significant reduction of antimicrobial activity and/or changes in the mode of action. However, we were able to identify two modified peptides which exhibited properties similar to those of the cyclic parent hexapeptide and are suitable for subsequent studies on membrane translocation and uptake into bacterial cells.
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Affiliation(s)
- Kathi Scheinpflug
- Leibniz-Institut für Molekulare Pharmakologie, Robert-Roessle-Str. 10, Berlin 13125, Germany; E-Mails: (K.S.); (H.N.)
| | - Heike Nikolenko
- Leibniz-Institut für Molekulare Pharmakologie, Robert-Roessle-Str. 10, Berlin 13125, Germany; E-Mails: (K.S.); (H.N.)
| | - Igor V. Komarov
- Institute of High Technologies, Kiev National Taras Shevchenko University, 64 Vladimirskaya st., Kiev 01033, Ukraine; E-Mail:
| | - Marina Rautenbach
- Department of Biochemistry, University of Stellenbosch, Private Bag X1, Matieland 7602, South Africa; E-Mail:
| | - Margitta Dathe
- Leibniz-Institut für Molekulare Pharmakologie, Robert-Roessle-Str. 10, Berlin 13125, Germany; E-Mails: (K.S.); (H.N.)
- Author to whom correspondence should be addressed; E-Mail: ; Tel.: +49-30-9479-3274; Fax: +49-30-9479-3269
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48
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Wiśniewski K, Finnman J, Flipo M, Galyean R, Schteingart CD. On the mechanism of degradation of oxytocin and its analogues in aqueous solution. Biopolymers 2013; 100:408-21. [DOI: 10.1002/bip.22260] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/17/2013] [Revised: 03/01/2013] [Accepted: 04/08/2013] [Indexed: 11/10/2022]
Affiliation(s)
| | - Jens Finnman
- Ferring Research Institute, 4245 Sorrento Valley Blvd; San Diego; CA 92121
| | - Marion Flipo
- Ferring Research Institute, 4245 Sorrento Valley Blvd; San Diego; CA 92121
| | - Robert Galyean
- Ferring Research Institute, 4245 Sorrento Valley Blvd; San Diego; CA 92121
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49
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Lorente A, Lamariano-Merketegi J, Albericio F, Álvarez M. Tetrahydrofuran-containing macrolides: a fascinating gift from the deep sea. Chem Rev 2013; 113:4567-610. [PMID: 23506053 DOI: 10.1021/cr3004778] [Citation(s) in RCA: 250] [Impact Index Per Article: 22.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Adriana Lorente
- Institute for Research in Biomedicine, Barcelona Science Park, University of Barcelona, Baldiri Reixac 10, 08028 Barcelona, Spain
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50
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Pfeiffer B, Speck-Gisler S, Barandun L, Senft U, de Groot C, Lehmann I, Ganci W, Gertsch J, Altmann KH. Total Synthesis and Configurational Assignment of the Marine Natural Product Haliclamide. J Org Chem 2013; 78:2553-63. [DOI: 10.1021/jo3027643] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/08/2023]
Affiliation(s)
- Bernhard Pfeiffer
- Department of Chemistry and
Applied Biosciences, Institute of Pharmaceutical Sciences, ETH Zürich, HCI H405, Wolfgang-Pauli Str. 10,
CH-8093 Zürich, Switzerland
| | - Sandra Speck-Gisler
- Department of Chemistry and
Applied Biosciences, Institute of Pharmaceutical Sciences, ETH Zürich, HCI H405, Wolfgang-Pauli Str. 10,
CH-8093 Zürich, Switzerland
| | - Luzi Barandun
- Department of Chemistry and
Applied Biosciences, Institute of Pharmaceutical Sciences, ETH Zürich, HCI H405, Wolfgang-Pauli Str. 10,
CH-8093 Zürich, Switzerland
| | - Ursula Senft
- Department of Chemistry and
Applied Biosciences, Institute of Pharmaceutical Sciences, ETH Zürich, HCI H405, Wolfgang-Pauli Str. 10,
CH-8093 Zürich, Switzerland
| | - Claire de Groot
- Department of Chemistry and
Applied Biosciences, Institute of Pharmaceutical Sciences, ETH Zürich, HCI H405, Wolfgang-Pauli Str. 10,
CH-8093 Zürich, Switzerland
| | - Irène Lehmann
- Institute of Organic Chemistry,
Laboratory for Process Research, University of Zürich, Wintherthurerstr. 190, CH-8057 Zürich, Switzerland
| | - Walter Ganci
- Institute of Organic Chemistry,
Laboratory for Process Research, University of Zürich, Wintherthurerstr. 190, CH-8057 Zürich, Switzerland
| | - Jürg Gertsch
- Department of Chemistry and
Applied Biosciences, Institute of Pharmaceutical Sciences, ETH Zürich, HCI H405, Wolfgang-Pauli Str. 10,
CH-8093 Zürich, Switzerland
| | - Karl-Heinz Altmann
- Department of Chemistry and
Applied Biosciences, Institute of Pharmaceutical Sciences, ETH Zürich, HCI H405, Wolfgang-Pauli Str. 10,
CH-8093 Zürich, Switzerland
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