1
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Tsiamantas C, Kwon S, Douat C, Huc I, Suga H. Optimizing aromatic oligoamide foldamer side-chains for ribosomal translation initiation. Chem Commun (Camb) 2019; 55:7366-7369. [PMID: 31172994 DOI: 10.1039/c9cc03547h] [Citation(s) in RCA: 20] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/10/2023]
Abstract
The tolerance of ribosomal peptide translation for helical aromatic oligoamide foldamers appended as initiators has been investigated. Small cationic foldamer side-chains were shown to expand the range of foldamer-peptide hybrids that can be produced by the ribosome to more rigid sequences.
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Affiliation(s)
- Christos Tsiamantas
- Department of Chemistry, Graduate School of Science, The University of Tokyo, Tokyo, Japan.
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2
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Reddy PS, Langlois d'Estaintot B, Granier T, Mackereth CD, Fischer L, Huc I. Structure Elucidation of Helical Aromatic Foldamer-Protein Complexes with Large Contact Surface Areas. Chemistry 2019; 25:11042-11047. [PMID: 31257622 DOI: 10.1002/chem.201902942] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/26/2019] [Indexed: 01/12/2023]
Abstract
The development of large synthetic ligands could be useful to target the sizeable surface areas involved in protein-protein interactions. Herein, we present long helical aromatic oligoamide foldamers bearing proteinogenic side chains that cover up to 450 Å2 of the human carbonic anhydrase II (HCA) surface. The foldamers are composed of aminoquinolinecarboxylic acids bearing proteinogenic side chains and of more flexible aminomethyl-pyridinecarboxylic acids that enhance helix handedness dynamics. Crystal structures of HCA-foldamer complexes were obtained with a 9- and a 14-mer both showing extensive protein-foldamer hydrophobic contacts. In addition, foldamer-foldamer interactions seem to be prevalent in the crystal packing, leading to the peculiar formation of an HCA superhelix wound around a rod of stacked foldamers. Solution studies confirm the positioning of the foldamer at the protein surface as well as a dimerization of the complexes.
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Affiliation(s)
- Post Sai Reddy
- CBMN (UMR5248), Univ. Bordeaux-CNRS-INP, Institut Européen de Chimie et Biologie, 2 rue Escarpit, 33600, Pessac, France
| | - Béatrice Langlois d'Estaintot
- CBMN (UMR5248), Univ. Bordeaux-CNRS-INP, Institut Européen de Chimie et Biologie, 2 rue Escarpit, 33600, Pessac, France
| | - Thierry Granier
- CBMN (UMR5248), Univ. Bordeaux-CNRS-INP, Institut Européen de Chimie et Biologie, 2 rue Escarpit, 33600, Pessac, France
| | - Cameron D Mackereth
- ARNA (U1212), Univ. Bordeaux-INSERM-CNRS, Institut Européen de Chimie et Biologie, 2 rue Escarpit, 33600, Pessac, France
| | - Lucile Fischer
- CBMN (UMR5248), Univ. Bordeaux-CNRS-INP, Institut Européen de Chimie et Biologie, 2 rue Escarpit, 33600, Pessac, France
| | - Ivan Huc
- CBMN (UMR5248), Univ. Bordeaux-CNRS-INP, Institut Européen de Chimie et Biologie, 2 rue Escarpit, 33600, Pessac, France.,Department Pharmazie and Center for Integrated Protein Science, Ludwig-Maximilians-Universität, Butenandtstr. 5-13, 81377, München, Germany
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3
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Sproviero EM. Intramolecular Natural Energy Decomposition Analysis: Applications to the Rational Design of Foldamers. J Comput Chem 2018; 39:1367-1386. [PMID: 29962063 DOI: 10.1002/jcc.25127] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/21/2017] [Revised: 10/23/2017] [Accepted: 10/24/2017] [Indexed: 12/24/2022]
Abstract
We describe an intramolecular version of the natural energy decomposition analysis (NEDA), with the aim of evaluating interactions between molecular fragments across covalent bonds. The electronic energy in intramolecular natural energy decomposition analysis (INEDA) is divided into electrical, core, and charge transfer components. The INEDA method describes the fragments using the nonfragmented electronic density, and, therefore, there are no limitations in how to choose the boundary orbital. We used INEDA to evaluate the interaction energies that give origin to barriers of rotation around Camide Caromatic (Cam Car ) and Namide Caromtaic (Nam Car ) bonds in arylamide-foldamer building blocks. We found that differences of barrier height between models with different ortho-aryl substituents stem from charge transfer and core interactions. In three-center hydrogen-bond (H-bond) models with an NH proton donor H-bound to two electronegative ortho-aryl substituents, the interaction energy of the three-center system is larger than in either of the two-center H-bond subsystem alone, indicating an increase of overall rigidity. The combination of INEDA and NEDA allows the evaluation of intermolecular and intramolecular interactions using a consistent theoretical framework. © 2018 Wiley Periodicals, Inc.
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Affiliation(s)
- Eduardo M Sproviero
- Department of Chemistry and Biochemistry, University of the Sciences in Philadelphia, 600 S. 43rd St, Philadelphia, Pennsylvania, 19104
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4
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Rogers JM, Kwon S, Dawson SJ, Mandal PK, Suga H, Huc I. Ribosomal synthesis and folding of peptide-helical aromatic foldamer hybrids. Nat Chem 2018; 10:405-412. [PMID: 29556052 DOI: 10.1038/s41557-018-0007-x] [Citation(s) in RCA: 65] [Impact Index Per Article: 10.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/01/2017] [Accepted: 11/24/2017] [Indexed: 11/09/2022]
Abstract
Translation, the mRNA-templated synthesis of peptides by the ribosome, can be manipulated to incorporate variants of the 20 cognate amino acids. Such approaches for expanding the range of chemical entities that can be produced by the ribosome may accelerate the discovery of molecules that can perform functions for which poorly folded, short peptidic sequences are ill suited. Here, we show that the ribosome tolerates some artificial helical aromatic oligomers, so-called foldamers. Using a flexible tRNA-acylation ribozyme-flexizyme-foldamers were attached to tRNA, and the resulting acylated tRNAs were delivered to the ribosome to initiate the synthesis of non-cyclic and cyclic foldamer-peptide hybrid molecules. Passing through the ribosome exit tunnel requires the foldamers to unfold. Yet foldamers encode sufficient folding information to influence the peptide structure once translation is completed. We also show that in cyclic hybrids, the foldamer portion can fold into a helix and force the peptide segment to adopt a constrained and stretched conformation.
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Affiliation(s)
- Joseph M Rogers
- Department of Chemistry, Graduate School of Science, The University of Tokyo, Tokyo, Japan
| | - Sunbum Kwon
- CBMN Laboratory, Univ. Bordeaux, CNRS, IPB, Institut Européen de Chimie et Biologie, Pessac, France
| | - Simon J Dawson
- CBMN Laboratory, Univ. Bordeaux, CNRS, IPB, Institut Européen de Chimie et Biologie, Pessac, France
| | - Pradeep K Mandal
- CBMN Laboratory, Univ. Bordeaux, CNRS, IPB, Institut Européen de Chimie et Biologie, Pessac, France
| | - Hiroaki Suga
- Department of Chemistry, Graduate School of Science, The University of Tokyo, Tokyo, Japan.
| | - Ivan Huc
- CBMN Laboratory, Univ. Bordeaux, CNRS, IPB, Institut Européen de Chimie et Biologie, Pessac, France. .,Department of Pharmacy, Ludwig-Maximilians-Universität, München, Germany.
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5
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Arrata I, Barnard A, Tomlinson DC, Wilson AJ. Interfacing native and non-native peptides: using Affimers to recognise α-helix mimicking foldamers. Chem Commun (Camb) 2018; 53:2834-2837. [PMID: 28217789 DOI: 10.1039/c6cc09395g] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/10/2023]
Abstract
Selection methods are used to identify Affimers that recognise α-helix mimicking N-alkylated aromatic oligoamides thus demonstrating foldamer and natural α-amino acid codes are compatible.
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Affiliation(s)
- Irene Arrata
- School of Chemistry, University of Leeds, Woodhouse Lane, Leeds, LS2 9JT, UK. and Astbury Centre for Structural Molecular Biology, University of Leeds, Woodhouse Lane, Leeds, LS2 9JT, UK
| | - Anna Barnard
- School of Chemistry, University of Leeds, Woodhouse Lane, Leeds, LS2 9JT, UK. and Astbury Centre for Structural Molecular Biology, University of Leeds, Woodhouse Lane, Leeds, LS2 9JT, UK
| | - Darren C Tomlinson
- Astbury Centre for Structural Molecular Biology, University of Leeds, Woodhouse Lane, Leeds, LS2 9JT, UK and School of Molecular and Cellular Biology, Faculty of Biological Sciences, University of Leeds, Woodhouse Lane, Leeds, LS2 9JT, UK
| | - Andrew J Wilson
- School of Chemistry, University of Leeds, Woodhouse Lane, Leeds, LS2 9JT, UK. and Astbury Centre for Structural Molecular Biology, University of Leeds, Woodhouse Lane, Leeds, LS2 9JT, UK
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6
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Kumar S, Henning-Knechtel A, Chehade I, Magzoub M, Hamilton AD. Foldamer-Mediated Structural Rearrangement Attenuates Aβ Oligomerization and Cytotoxicity. J Am Chem Soc 2017; 139:17098-17108. [PMID: 29058422 DOI: 10.1021/jacs.7b08259] [Citation(s) in RCA: 50] [Impact Index Per Article: 7.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
The conversion of the native random coil amyloid beta (Aβ) into amyloid fibers is thought to be a key event in the progression of Alzheimer's disease (AD). A significant body of evidence suggests that the highly dynamic Aβ oligomers are the main causal agent associated with the onset of AD. Among many potential therapeutic approaches, one is the modulation of Aβ conformation into off-pathway structures to avoid the formation of the putative neurotoxic Aβ oligomers. A library of oligoquinolines was screened to identify antagonists of Aβ oligomerization, amyloid formation, and cytotoxicity. A dianionic tetraquinoline, denoted as 5, was one of the most potent antagonists of Aβ fibrillation. Biophysical assays including amyloid kinetics, dot blot, ELISA, and TEM show that 5 effectively inhibits both Aβ oligomerization and fibrillation. The antagonist activity of 5 toward Aβ aggregation diminishes with sequence and positional changes in the surface functionalities. 5 binds to the central discordant α-helical region and induces a unique α-helical conformation in Aβ. Interestingly, 5 adjusts its conformation to optimize the antagonist activity against Aβ. 5 effectively rescues neuroblastoma cells from Aβ-mediated cytotoxicity and antagonizes fibrillation and cytotoxicity pathways of secondary nucleation induced by seeding. 5 is also equally effective in inhibiting preformed oligomer-mediated processes. Collectively, 5 induces strong secondary structure in Aβ and inhibits its functions including oligomerization, fibrillation, and cytotoxicity.
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Affiliation(s)
- Sunil Kumar
- Department of Chemistry, New York University , New York, New York 10003, United States
| | - Anja Henning-Knechtel
- Biology Program, Division of Science, New York University Abu Dhabi , Abu Dhabi, United Arab Emirates
| | - Ibrahim Chehade
- Biology Program, Division of Science, New York University Abu Dhabi , Abu Dhabi, United Arab Emirates
| | - Mazin Magzoub
- Biology Program, Division of Science, New York University Abu Dhabi , Abu Dhabi, United Arab Emirates
| | - Andrew D Hamilton
- Department of Chemistry, New York University , New York, New York 10003, United States
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7
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Valeur E, Guéret SM, Adihou H, Gopalakrishnan R, Lemurell M, Waldmann H, Grossmann TN, Plowright AT. New Modalities for Challenging Targets in Drug Discovery. Angew Chem Int Ed Engl 2017; 56:10294-10323. [PMID: 28186380 DOI: 10.1002/anie.201611914] [Citation(s) in RCA: 233] [Impact Index Per Article: 33.3] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/07/2016] [Revised: 01/31/2017] [Indexed: 12/11/2022]
Abstract
Our ever-increasing understanding of biological systems is providing a range of exciting novel biological targets, whose modulation may enable novel therapeutic options for many diseases. These targets include protein-protein and protein-nucleic acid interactions, which are, however, often refractory to classical small-molecule approaches. Other types of molecules, or modalities, are therefore required to address these targets, which has led several academic research groups and pharmaceutical companies to increasingly use the concept of so-called "new modalities". This Review defines for the first time the scope of this term, which includes novel peptidic scaffolds, oligonucleotides, hybrids, molecular conjugates, as well as new uses of classical small molecules. We provide the most representative examples of these modalities to target large binding surface areas such as those found in protein-protein interactions and for biological processes at the center of cell regulation.
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Affiliation(s)
- Eric Valeur
- Cardiovascular and Metabolic Diseases, Innovative Medicines and Early Development Biotech Unit, AstraZeneca, Pepparedsleden 1, Mölndal, 431 83, Sweden
| | - Stéphanie M Guéret
- Cardiovascular and Metabolic Diseases, Innovative Medicines and Early Development Biotech Unit, AstraZeneca, Pepparedsleden 1, Mölndal, 431 83, Sweden.,AstraZeneca MPI Satellite Unit, Abteilung Chemische Biologie, Max Planck Institut für Molekulare Physiologie, Dortmund, Germany
| | - Hélène Adihou
- Cardiovascular and Metabolic Diseases, Innovative Medicines and Early Development Biotech Unit, AstraZeneca, Pepparedsleden 1, Mölndal, 431 83, Sweden.,AstraZeneca MPI Satellite Unit, Abteilung Chemische Biologie, Max Planck Institut für Molekulare Physiologie, Dortmund, Germany
| | - Ranganath Gopalakrishnan
- Cardiovascular and Metabolic Diseases, Innovative Medicines and Early Development Biotech Unit, AstraZeneca, Pepparedsleden 1, Mölndal, 431 83, Sweden.,AstraZeneca MPI Satellite Unit, Abteilung Chemische Biologie, Max Planck Institut für Molekulare Physiologie, Dortmund, Germany
| | - Malin Lemurell
- Cardiovascular and Metabolic Diseases, Innovative Medicines and Early Development Biotech Unit, AstraZeneca, Pepparedsleden 1, Mölndal, 431 83, Sweden
| | - Herbert Waldmann
- Abteilung Chemische Biologie, Max Planck Institut für Molekulare Physiologie, Dortmund, Germany.,Fakultät für Chemie und Chemische Biologie, Technische Universität Dortmund, Germany
| | - Tom N Grossmann
- Chemical Genomics Centre of the Max Planck Society, Dortmund, Germany.,Department of Chemistry & Pharmaceutical Sciences, VU University Amsterdam, The Netherlands
| | - Alleyn T Plowright
- Cardiovascular and Metabolic Diseases, Innovative Medicines and Early Development Biotech Unit, AstraZeneca, Pepparedsleden 1, Mölndal, 431 83, Sweden
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8
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Valeur E, Guéret SM, Adihou H, Gopalakrishnan R, Lemurell M, Waldmann H, Grossmann TN, Plowright AT. Neue Modalitäten für schwierige Zielstrukturen in der Wirkstoffentwicklung. Angew Chem Int Ed Engl 2017. [DOI: 10.1002/ange.201611914] [Citation(s) in RCA: 33] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Affiliation(s)
- Eric Valeur
- Cardiovascular and Metabolic Diseases; Innovative Medicines and Early Development Biotech Unit; AstraZeneca; Pepparedsleden 1 Mölndal 431 83 Schweden
| | - Stéphanie M. Guéret
- Cardiovascular and Metabolic Diseases; Innovative Medicines and Early Development Biotech Unit; AstraZeneca; Pepparedsleden 1 Mölndal 431 83 Schweden
- AstraZeneca MPI Satellite Unit; Abteilung Chemische Biologie; Max-Planck-Institut für Molekulare Physiologie; Dortmund Deutschland
| | - Hélène Adihou
- Cardiovascular and Metabolic Diseases; Innovative Medicines and Early Development Biotech Unit; AstraZeneca; Pepparedsleden 1 Mölndal 431 83 Schweden
- AstraZeneca MPI Satellite Unit; Abteilung Chemische Biologie; Max-Planck-Institut für Molekulare Physiologie; Dortmund Deutschland
| | - Ranganath Gopalakrishnan
- Cardiovascular and Metabolic Diseases; Innovative Medicines and Early Development Biotech Unit; AstraZeneca; Pepparedsleden 1 Mölndal 431 83 Schweden
- AstraZeneca MPI Satellite Unit; Abteilung Chemische Biologie; Max-Planck-Institut für Molekulare Physiologie; Dortmund Deutschland
| | - Malin Lemurell
- Cardiovascular and Metabolic Diseases; Innovative Medicines and Early Development Biotech Unit; AstraZeneca; Pepparedsleden 1 Mölndal 431 83 Schweden
| | - Herbert Waldmann
- Abteilung Chemische Biologie; Max-Planck-Institut für Molekulare Physiologie; Dortmund Deutschland
- Fakultät für Chemie and Chemische Biologie; Technische Universität Dortmund; Deutschland
| | - Tom N. Grossmann
- Chemical Genomics Centre der Max-Planck-Gesellschaft; Dortmund Deutschland
- Department of Chemistry & Pharmaceutical Sciences; VU University Amsterdam; Niederlande
| | - Alleyn T. Plowright
- Cardiovascular and Metabolic Diseases; Innovative Medicines and Early Development Biotech Unit; AstraZeneca; Pepparedsleden 1 Mölndal 431 83 Schweden
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9
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Jewginski M, Granier T, Langlois d'Estaintot B, Fischer L, Mackereth CD, Huc I. Self-Assembled Protein-Aromatic Foldamer Complexes with 2:3 and 2:2:1 Stoichiometries. J Am Chem Soc 2017; 139:2928-2931. [PMID: 28170240 DOI: 10.1021/jacs.7b00184] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
Abstract
The promotion of protein dimerization using the aggregation properties of a protein ligand was explored and shown to produce complexes with unusual stoichiometries. Helical foldamer 2 was synthesized and bound to human carbonic anhydrase (HCA) using a nanomolar active site ligand. Crystal structures show that the hydrophobicity of 2 and interactions of its side chains lead to the formation of an HCA2-23 complex in which three helices of 2 are stacked, two of them being linked to an HCA molecule. The middle foldamer in the stack can be replaced by alternate sequences 3 or 5. Solution studies by CD and NMR confirm left-handedness of the helical foldamers as well as HCA dimerization.
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Affiliation(s)
- Michal Jewginski
- CBMN (UMR5248), Univ. Bordeaux, CNRS, IPB , Institut Européen de Chimie et Biologie, 2 rue Robert Escarpit, 33600 Pessac, France.,Department of Organic and Pharmaceutical Technology, Faculty of Chemistry, Wrocław University of Science and Technology , 50-370 Wrocław, Poland
| | - Thierry Granier
- CBMN (UMR5248), Univ. Bordeaux, CNRS, IPB , Institut Européen de Chimie et Biologie, 2 rue Robert Escarpit, 33600 Pessac, France
| | - Béatrice Langlois d'Estaintot
- CBMN (UMR5248), Univ. Bordeaux, CNRS, IPB , Institut Européen de Chimie et Biologie, 2 rue Robert Escarpit, 33600 Pessac, France
| | - Lucile Fischer
- CBMN (UMR5248), Univ. Bordeaux, CNRS, IPB , Institut Européen de Chimie et Biologie, 2 rue Robert Escarpit, 33600 Pessac, France
| | - Cameron D Mackereth
- ARNA (U 1212), Univ. Bordeaux, INSERM , Institut Européen de Chimie et Biologie, 2 rue Robert Escarpit, 33600 Pessac, France
| | - Ivan Huc
- CBMN (UMR5248), Univ. Bordeaux, CNRS, IPB , Institut Européen de Chimie et Biologie, 2 rue Robert Escarpit, 33600 Pessac, France
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10
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Liu Z, Hu X, Abramyan AM, Mészáros Á, Csékei M, Kotschy A, Huc I, Pophristic V. Computational Prediction and Rationalization, and Experimental Validation of Handedness Induction in Helical Aromatic Oligoamide Foldamers. Chemistry 2017; 23:3605-3615. [DOI: 10.1002/chem.201605082] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/31/2016] [Indexed: 11/09/2022]
Affiliation(s)
- Zhiwei Liu
- Department of Chemistry & Biochemistry University of the Sciences 600 South 43rd Street Philadelphia PA 19104 USA
| | - Xiaobo Hu
- University of Bordeaux, CBMN (UMR 5248) Institut Européen de Chimie et Biologie 2 rue Escarpit 33600 Pessac France
- CNRS, CBMN (UMR 5248) France
- Bordeaux Institut National Polytechnique CBMN (UMR 5248) France
| | - Ara M. Abramyan
- Department of Chemistry & Biochemistry University of the Sciences 600 South 43rd Street Philadelphia PA 19104 USA
| | - Ádám Mészáros
- Servier Research Institute of Medicinal Chemistry Záhony utca 7. 1031 Budapest Hungary
| | - Márton Csékei
- Servier Research Institute of Medicinal Chemistry Záhony utca 7. 1031 Budapest Hungary
| | - András Kotschy
- Servier Research Institute of Medicinal Chemistry Záhony utca 7. 1031 Budapest Hungary
| | - Ivan Huc
- University of Bordeaux, CBMN (UMR 5248) Institut Européen de Chimie et Biologie 2 rue Escarpit 33600 Pessac France
- CNRS, CBMN (UMR 5248) France
- Bordeaux Institut National Polytechnique CBMN (UMR 5248) France
| | - Vojislava Pophristic
- Department of Chemistry & Biochemistry University of the Sciences 600 South 43rd Street Philadelphia PA 19104 USA
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11
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Abstract
Bio-inspired synthetic backbones leading to foldamers can provide effective biopolymer mimics with new and improved properties in a physiological environment, and in turn could serve as useful tools to study biology and lead to practical applications in the areas of diagnostics or therapeutics. Remarkable progress has been accomplished over the past 20 years with the discovery of many potent bioactive foldamers originating from diverse backbones and targeting a whole spectrum of bio(macro)molecules such as membranes, protein surfaces, and nucleic acids. These current achievements, future opportunities, and key challenges that remain are discussed in this article.
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12
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Steinwand S, Yu Z, Hecht S, Wachtveitl J. Ultrafast Dynamics of Photoisomerization and Subsequent Unfolding of an Oligoazobenzene Foldamer. J Am Chem Soc 2016; 138:12997-13005. [DOI: 10.1021/jacs.6b07720] [Citation(s) in RCA: 26] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Affiliation(s)
- Sabrina Steinwand
- Institute
of Physical and Theoretical Chemistry, Johann Wolfgang Goethe-University, Max-von-Laue-Str. 7, D-60438 Frankfurt, Germany
| | - Zhilin Yu
- Department of Chemistry & IRIS Adlershof, Humboldt-Universität zu Berlin, Brook-Taylor-Str. 2, 12489 Berlin, Germany
| | - Stefan Hecht
- Department of Chemistry & IRIS Adlershof, Humboldt-Universität zu Berlin, Brook-Taylor-Str. 2, 12489 Berlin, Germany
| | - Josef Wachtveitl
- Institute
of Physical and Theoretical Chemistry, Johann Wolfgang Goethe-University, Max-von-Laue-Str. 7, D-60438 Frankfurt, Germany
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13
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Grison CM, Miles JA, Robin S, Wilson AJ, Aitken DJ. An α-Helix-Mimicking 12,13-Helix: Designed α/β/γ-Foldamers as Selective Inhibitors of Protein-Protein Interactions. Angew Chem Int Ed Engl 2016; 55:11096-100. [PMID: 27467859 PMCID: PMC5014220 DOI: 10.1002/anie.201604517] [Citation(s) in RCA: 47] [Impact Index Per Article: 5.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/09/2016] [Revised: 06/28/2016] [Indexed: 12/31/2022]
Abstract
A major current challenge in bioorganic chemistry is the identification of effective mimics of protein secondary structures that act as inhibitors of protein-protein interactions (PPIs). In this work, trans-2-aminocyclobutanecarboxylic acid (tACBC) was used as the key β-amino acid component in the design of α/β/γ-peptides to structurally mimic a native α-helix. Suitably functionalized α/β/γ-peptides assume an α-helix-mimicking 12,13-helix conformation in solution, exhibit enhanced proteolytic stability in comparison to the wild-type α-peptide parent sequence from which they are derived, and act as selective inhibitors of the p53/hDM2 interaction.
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Affiliation(s)
- Claire M Grison
- CP3A Organic Synthesis Group, ICMMO, CNRS, Université Paris Sud, Université Paris Saclay, 15 Rue George Clemenceau, 91405, Orsay Cedex, France
| | - Jennifer A Miles
- School of Chemistry, University of Leeds, Woodhouse Lane, Leeds, LS2 9JT, UK
- Astbury Centre for Structural Molecular Biology, University of Leeds, Woodhouse Lane, Leeds, LS2 9JT, UK
| | - Sylvie Robin
- CP3A Organic Synthesis Group, ICMMO, CNRS, Université Paris Sud, Université Paris Saclay, 15 Rue George Clemenceau, 91405, Orsay Cedex, France
- UFR Sciences Pharmaceutiques et Biologiques, Université Paris Descartes, 4 Avenue de l'Observatoire, 75270, Paris cedex 06, France
| | - Andrew J Wilson
- School of Chemistry, University of Leeds, Woodhouse Lane, Leeds, LS2 9JT, UK.
- Astbury Centre for Structural Molecular Biology, University of Leeds, Woodhouse Lane, Leeds, LS2 9JT, UK.
| | - David J Aitken
- CP3A Organic Synthesis Group, ICMMO, CNRS, Université Paris Sud, Université Paris Saclay, 15 Rue George Clemenceau, 91405, Orsay Cedex, France.
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14
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Mandal PK, Baptiste B, Langlois d'Estaintot B, Kauffmann B, Huc I. Multivalent Interactions between an Aromatic Helical Foldamer and a DNA G-Quadruplex in the Solid State. Chembiochem 2016; 17:1911-1914. [DOI: 10.1002/cbic.201600281] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/12/2016] [Indexed: 01/20/2023]
Affiliation(s)
- Pradeep K. Mandal
- University of Bordeaux; CBMN; UMR 5248); Institut Européen de Chimie et Biologie; 2 rue Escarpit 33600 Pessac France
- CNRS; CBMN; UMR 5248); 2 rue Escarpit 33600 Pessac France
- Bordeaux Institut National Polytechnique; CBMN; UMR 5248); 2 rue Escarpit 33600 Pessac France
| | - Benoît Baptiste
- University of Bordeaux; CBMN; UMR 5248); Institut Européen de Chimie et Biologie; 2 rue Escarpit 33600 Pessac France
- CNRS; CBMN; UMR 5248); 2 rue Escarpit 33600 Pessac France
- Bordeaux Institut National Polytechnique; CBMN; UMR 5248); 2 rue Escarpit 33600 Pessac France
| | - Béatrice Langlois d'Estaintot
- University of Bordeaux; CBMN; UMR 5248); Institut Européen de Chimie et Biologie; 2 rue Escarpit 33600 Pessac France
- CNRS; CBMN; UMR 5248); 2 rue Escarpit 33600 Pessac France
- Bordeaux Institut National Polytechnique; CBMN; UMR 5248); 2 rue Escarpit 33600 Pessac France
| | - Brice Kauffmann
- University of Bordeaux; IECB; UMS 3033); Institut Européen de Chimie et Biologie; 2 rue Escarpit 33600 Pessac France
- CNRS; IECB; UMS 3033); 2 rue Escarpit 33600 Pessac France
- INSERM; IECB; US001); 2 rue Escarpit 33600 Pessac France
| | - Ivan Huc
- University of Bordeaux; CBMN; UMR 5248); Institut Européen de Chimie et Biologie; 2 rue Escarpit 33600 Pessac France
- CNRS; CBMN; UMR 5248); 2 rue Escarpit 33600 Pessac France
- Bordeaux Institut National Polytechnique; CBMN; UMR 5248); 2 rue Escarpit 33600 Pessac France
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15
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Gopalakrishnan R, Frolov AI, Knerr L, Drury WJ, Valeur E. Therapeutic Potential of Foldamers: From Chemical Biology Tools To Drug Candidates? J Med Chem 2016; 59:9599-9621. [PMID: 27362955 DOI: 10.1021/acs.jmedchem.6b00376] [Citation(s) in RCA: 113] [Impact Index Per Article: 14.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Abstract
Over the past decade, foldamers have progressively emerged as useful architectures to mimic secondary structures of proteins. Peptidic foldamers, consisting of various amino acid based backbones, have been the most studied from a therapeutic perspective, while polyaromatic foldamers have barely evolved from their nascency and remain perplexing for medicinal chemists due to their poor drug-like nature. Despite these limitations, this compound class may still offer opportunities to study challenging targets or provide chemical biology tools. The potential of foldamer drug candidates reaching the clinic is still a stretch. Nevertheless, advances in the field have demonstrated their potential for the discovery of next generation therapeutics. In this perspective, the current knowledge of foldamers is reviewed in a drug discovery context. Recent advances in the early phases of drug discovery including hit finding, target validation, and optimization and molecular modeling are discussed. In addition, challenges and focus areas are debated and gaps highlighted.
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Affiliation(s)
- Ranganath Gopalakrishnan
- Cardiovascular and Metabolic Diseases, Innovative Medicines and Early Development Biotech Unit, AstraZeneca , Pepparedsleden 1, Mölndal, 431 83, Sweden.,AstraZeneca MPI Satellite Unit, Department of Chemical Biology, Max Planck Institute of Molecular Physiology , Dortmund 44202, Germany
| | - Andrey I Frolov
- Cardiovascular and Metabolic Diseases, Innovative Medicines and Early Development Biotech Unit, AstraZeneca , Pepparedsleden 1, Mölndal, 431 83, Sweden
| | - Laurent Knerr
- Cardiovascular and Metabolic Diseases, Innovative Medicines and Early Development Biotech Unit, AstraZeneca , Pepparedsleden 1, Mölndal, 431 83, Sweden
| | - William J Drury
- Cardiovascular and Metabolic Diseases, Innovative Medicines and Early Development Biotech Unit, AstraZeneca , Pepparedsleden 1, Mölndal, 431 83, Sweden
| | - Eric Valeur
- Cardiovascular and Metabolic Diseases, Innovative Medicines and Early Development Biotech Unit, AstraZeneca , Pepparedsleden 1, Mölndal, 431 83, Sweden
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16
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Grison CM, Miles JA, Robin S, Wilson AJ, Aitken DJ. An α-Helix-Mimicking 12,13-Helix: Designed α/β/γ-Foldamers as Selective Inhibitors of Protein-Protein Interactions. Angew Chem Int Ed Engl 2016. [DOI: 10.1002/ange.201604517] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/14/2023]
Affiliation(s)
- Claire M. Grison
- CP3A Organic Synthesis Group, ICMMO, CNRS; Université Paris Sud, Université Paris Saclay; 15 Rue George Clemenceau 91405 Orsay Cedex France
| | - Jennifer A. Miles
- School of Chemistry; University of Leeds; Woodhouse Lane Leeds LS2 9JT UK
- Astbury Centre for Structural Molecular Biology; University of Leeds; Woodhouse Lane Leeds LS2 9JT UK
| | - Sylvie Robin
- CP3A Organic Synthesis Group, ICMMO, CNRS; Université Paris Sud, Université Paris Saclay; 15 Rue George Clemenceau 91405 Orsay Cedex France
- UFR Sciences Pharmaceutiques et Biologiques; Université Paris Descartes; 4 Avenue de l'Observatoire 75270 Paris cedex 06 France
| | - Andrew J. Wilson
- School of Chemistry; University of Leeds; Woodhouse Lane Leeds LS2 9JT UK
- Astbury Centre for Structural Molecular Biology; University of Leeds; Woodhouse Lane Leeds LS2 9JT UK
| | - David J. Aitken
- CP3A Organic Synthesis Group, ICMMO, CNRS; Université Paris Sud, Université Paris Saclay; 15 Rue George Clemenceau 91405 Orsay Cedex France
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17
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Abstract
Aromatic amide foldamers constitute a growing class of oligomers that adopt remarkably stable folded conformations. The folded structures possess largely predictable shapes and open the way toward the design of synthetic mimics of proteins. Important examples of aromatic amide foldamers include oligomers of 7- or 8-amino-2-quinoline carboxylic acid that have been shown to exist predominantly as well-defined helices, including when they are combined with α-amino acids to which they may impose their folding behavior. To rapidly iterate their synthesis, solid phase synthesis (SPS) protocols have been developed and optimized for overcoming synthetic difficulties inherent to these backbones such as low nucleophilicity of amine groups on electron poor aromatic rings and a strong propensity of even short sequences to fold on the solid phase during synthesis. For example, acid chloride activation and the use of microwaves are required to bring coupling at aromatic amines to completion. Here, we report detailed SPS protocols for the rapid production of: (1) oligomers of 8-amino-2-quinolinecarboxylic acid; (2) oligomers containing 7-amino-8-fluoro-2-quinolinecarboxylic acid; and (3) heteromeric oligomers of 8-amino-2-quinolinecarboxylic acid and α-amino acids. SPS brings the advantage to quickly produce sequences having varied main chain or side chain components without having to purify multiple intermediates as in solution phase synthesis. With these protocols, an octamer could easily be synthesized and purified within one to two weeks from Fmoc protected amino acid monomer precursors.
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18
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Jewginski M, Fischer L, Colombo C, Huc I, Mackereth CD. Solution Observation of Dimerization and Helix Handedness Induction in a Human Carbonic Anhydrase-Helical Aromatic Amide Foldamer Complex. Chembiochem 2016; 17:727-36. [PMID: 26807531 DOI: 10.1002/cbic.201500619] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/17/2015] [Indexed: 12/18/2022]
Abstract
The design of synthetic foldamers to selectively bind proteins is currently hindered by the limited availability of molecular data to establish key features of recognition. Previous work has described dimerization of human carbonic anhydrase II (HCA) through self-association of a quinoline oligoamide helical foldamer attached to a tightly binding HCA ligand. A crystal structure of the complex provided atomic details to explain the observed induction of single foldamer helix handedness and revealed an unexpected foldamer-mediated dimerization. Here, we investigated the detailed behavior of the HCA-foldamer complex in solution by using NMR spectroscopy. We found that the ability to dimerize is buffer-dependent and uses partially distinct intermolecular contacts. The use of a foldamer variant incapable of self-association confirmed the ability to induce helix handedness separately from dimer formation and provided insight into the dynamics of enantiomeric selection.
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Affiliation(s)
- Michal Jewginski
- University of Bordeaux, CBMN (UMR 5248), Institut Européen de Chimie et Biologie, 2 rue Escarpit, 33600, Pessac, France.,CNRS, CBMN (UMR 5248).,Bordeaux Institut National Polytechnique, CBMN (UMR 5248).,Wrocław University of Technology, Faculty of Chemistry, Wrocław, Poland
| | - Lucile Fischer
- University of Bordeaux, CBMN (UMR 5248), Institut Européen de Chimie et Biologie, 2 rue Escarpit, 33600, Pessac, France.,CNRS, CBMN (UMR 5248).,Bordeaux Institut National Polytechnique, CBMN (UMR 5248)
| | - Cinzia Colombo
- University of Bordeaux, CBMN (UMR 5248), Institut Européen de Chimie et Biologie, 2 rue Escarpit, 33600, Pessac, France.,CNRS, CBMN (UMR 5248).,Bordeaux Institut National Polytechnique, CBMN (UMR 5248)
| | - Ivan Huc
- University of Bordeaux, CBMN (UMR 5248), Institut Européen de Chimie et Biologie, 2 rue Escarpit, 33600, Pessac, France. .,CNRS, CBMN (UMR 5248). .,Bordeaux Institut National Polytechnique, CBMN (UMR 5248).
| | - Cameron D Mackereth
- University of Bordeaux, ARNA (U1212), Institut Européen de Chimie et Biologie. .,INSERM, ARNA (U1212). .,CNRS, ARNA (UMR 5320), 2 rue Escarpit, 33600, Pessac, France.
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19
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Noguchi H, Takafuji M, Maurizot V, Huc I, Ihara H. Chiral separation by a terminal chirality triggered P- helical quinoline oligoamide foldamer. J Chromatogr A 2016; 1437:88-94. [DOI: 10.1016/j.chroma.2016.01.059] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/18/2015] [Revised: 01/26/2016] [Accepted: 01/26/2016] [Indexed: 11/25/2022]
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20
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Collie GW, Pulka-Ziach K, Guichard G. Surfactant-facilitated crystallisation of water-soluble foldamers. Chem Sci 2016; 7:3377-3383. [PMID: 29997832 PMCID: PMC6006954 DOI: 10.1039/c6sc00090h] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/07/2016] [Accepted: 02/10/2016] [Indexed: 12/16/2022] Open
Abstract
Common surfactants promote the crystallisation of a series of water-soluble oligourea foldamers which had previously proven resistant to crystallisation efforts.
X-ray crystallography has played a major role in the advancement of foldamer research, however, obtaining well-formed single crystals of suitable quality for structure determination by X-ray diffraction methods is often rather challenging. Towards this end, we report here the ability of common surfactants to promote the crystallisation of a series of water-soluble oligourea foldamers which had previously proven highly resistant to crystallisation. Four high-resolution crystal structures are reported, suggesting certain surfactants could be potentially useful tools for the crystallisation of intractable water-soluble foldamers (or peptides).
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Affiliation(s)
- G W Collie
- Univ. Bordeaux , CBMN , UMR 5248 , Institut Européen de Chimie et Biologie , 2 rue Robert Escarpit , 33607 Pessac , France . .,CNRS , CBMN , UMR 5248 , F-33600 , Pessac , France
| | - K Pulka-Ziach
- Univ. Bordeaux , CBMN , UMR 5248 , Institut Européen de Chimie et Biologie , 2 rue Robert Escarpit , 33607 Pessac , France . .,CNRS , CBMN , UMR 5248 , F-33600 , Pessac , France
| | - G Guichard
- Univ. Bordeaux , CBMN , UMR 5248 , Institut Européen de Chimie et Biologie , 2 rue Robert Escarpit , 33607 Pessac , France . .,CNRS , CBMN , UMR 5248 , F-33600 , Pessac , France
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21
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Tsiamantas C, Dawson SJ, Huc I. Solid phase synthesis of oligoethylene glycol-functionalized quinolinecarboxamide foldamers with enhanced solubility properties. CR CHIM 2016. [DOI: 10.1016/j.crci.2015.06.007] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
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22
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Rizeq N, Georgiades SN. Linear and Branched Pyridyl-Oxazole Oligomers: Synthesis and Circular Dichroism Detectable Effect on c-Myc G-Quadruplex Helicity. European J Org Chem 2015. [DOI: 10.1002/ejoc.201501269] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/05/2023]
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23
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Azzarito V, Miles JA, Fisher J, Edwards TA, Warriner SL, Wilson AJ. Stereocontrolled protein surface recognition using chiral oligoamide proteomimetic foldamers. Chem Sci 2015; 6:2434-2443. [PMID: 29308155 PMCID: PMC5646261 DOI: 10.1039/c4sc03559c] [Citation(s) in RCA: 53] [Impact Index Per Article: 5.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/17/2014] [Accepted: 01/29/2015] [Indexed: 12/26/2022] Open
Abstract
An oligoamide helix mimicking foldamer with well-defined conformation is shown to recognize its target protein hDM2 in a manner that depends upon the composition, spatial projection and stereochemistry of functional groups appended to the scaffold.
The development of foldamers capable of selective molecular recognition of solvent exposed protein surfaces represents an outstanding challenge in supramolecular chemical biology. Here we introduce an oligoamide foldamer with well-defined conformation that bears all the hallmarks of an information rich oligomer. Specifically, the foldamer recognizes its target protein hDM2 leading to inhibition of its protein–protein interaction with p53 in a manner that depends upon the composition, spatial projection and stereochemistry of functional groups appended to the scaffold. Most significantly, selective inhibition of p53/hDM2 can be achieved against four other targets and the selectivity for p53/hDM2 inhibition versus Mcl-1/NOXA-B inhibition is critically dependent upon the stereochemistry of the helix mimetic.
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Affiliation(s)
- Valeria Azzarito
- School of Chemistry , University of Leeds , Woodhouse Lane , Leeds , LS2 9JT , UK . .,Astbury Centre for Structural and Molecular Biology , University of Leeds , Woodhouse Lane , Leeds , LS2 9JT , UK
| | - Jennifer A Miles
- School of Chemistry , University of Leeds , Woodhouse Lane , Leeds , LS2 9JT , UK . .,Astbury Centre for Structural and Molecular Biology , University of Leeds , Woodhouse Lane , Leeds , LS2 9JT , UK
| | - Julie Fisher
- School of Chemistry , University of Leeds , Woodhouse Lane , Leeds , LS2 9JT , UK .
| | - Thomas A Edwards
- Astbury Centre for Structural and Molecular Biology , University of Leeds , Woodhouse Lane , Leeds , LS2 9JT , UK.,School of Molecular and Cellular Biology , University of Leeds , Woodhouse Lane , Leeds , LS2 9JT , UK
| | - Stuart L Warriner
- School of Chemistry , University of Leeds , Woodhouse Lane , Leeds , LS2 9JT , UK . .,Astbury Centre for Structural and Molecular Biology , University of Leeds , Woodhouse Lane , Leeds , LS2 9JT , UK
| | - Andrew J Wilson
- School of Chemistry , University of Leeds , Woodhouse Lane , Leeds , LS2 9JT , UK . .,Astbury Centre for Structural and Molecular Biology , University of Leeds , Woodhouse Lane , Leeds , LS2 9JT , UK
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24
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Müller S, Laxmi-Reddy K, Jena PV, Baptiste B, Dong Z, Godde F, Ha T, Rodriguez R, Balasubramanian S, Huc I. Targeting DNA G-quadruplexes with helical small molecules. Chembiochem 2014; 15:2563-70. [PMID: 25256604 PMCID: PMC4284101 DOI: 10.1002/cbic.201402439] [Citation(s) in RCA: 30] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/05/2014] [Indexed: 11/08/2022]
Abstract
We previously identified quinoline-based oligoamide helical foldamers and a trimeric macrocycle as selective ligands of DNA quadruplexes. Their helical structures might permit targeting of the backbone loops and grooves of G-quadruplexes instead of the G-tetrads. Given the vast array of morphologies G-quadruplex structures can adopt, this might be a way to achieve sequence selective binding. Here, we describe the design and synthesis of molecules based on macrocyclic and helically folded oligoamides. We tested their ability to interact with the human telomeric G-quadruplex and an array of promoter G-quadruplexes by using FRET melting assay and single-molecule FRET. Our results show that they constitute very potent ligands--comparable to the best so far reported. Their modes of interaction differ from those of traditional tetrad binders, thus opening avenues for the development of molecules specific for certain G-quadruplex conformations.
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Affiliation(s)
- Sebastian Müller
- Department of Chemistry, University of CambridgeLensfield Road, Cambridge CB2 1EW (UK)
- Cambridge Institute, Cancer Research UK, Li Ka Shing CenterCambridge CB2 0RE (UK)
| | - Katta Laxmi-Reddy
- Université de Bordeaux, CBMN, UMR 5248, Institut Européen de Chimie Biologie2 rue Escarpit, 33607 Pessac (France) and CNRS, CBMN, UMR 5248 (France)
| | - Prakrit V Jena
- Department of Physics, Howard Hughes Medical Institute, University of Illinois at Urbana–ChampaignUrbana, IL 61801 (USA)
| | - Benoit Baptiste
- Université de Bordeaux, CBMN, UMR 5248, Institut Européen de Chimie Biologie2 rue Escarpit, 33607 Pessac (France) and CNRS, CBMN, UMR 5248 (France)
| | - Zeyuan Dong
- Université de Bordeaux, CBMN, UMR 5248, Institut Européen de Chimie Biologie2 rue Escarpit, 33607 Pessac (France) and CNRS, CBMN, UMR 5248 (France)
| | - Frédéric Godde
- Université de Bordeaux, CBMN, UMR 5248, Institut Européen de Chimie Biologie2 rue Escarpit, 33607 Pessac (France) and CNRS, CBMN, UMR 5248 (France)
| | - Taekjip Ha
- Department of Physics, Howard Hughes Medical Institute, University of Illinois at Urbana–ChampaignUrbana, IL 61801 (USA)
| | - Raphaël Rodriguez
- Department of Chemistry, University of CambridgeLensfield Road, Cambridge CB2 1EW (UK)
- Cambridge Institute, Cancer Research UK, Li Ka Shing CenterCambridge CB2 0RE (UK)
| | - Shankar Balasubramanian
- Department of Chemistry, University of CambridgeLensfield Road, Cambridge CB2 1EW (UK)
- Cambridge Institute, Cancer Research UK, Li Ka Shing CenterCambridge CB2 0RE (UK)
| | - Ivan Huc
- Université de Bordeaux, CBMN, UMR 5248, Institut Européen de Chimie Biologie2 rue Escarpit, 33607 Pessac (France) and CNRS, CBMN, UMR 5248 (France)
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25
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Hydrogen-Bonding-Driven Aromatic Foldamers: Their Structural and Functional Evolution. CHEM REC 2014; 15:233-51. [DOI: 10.1002/tcr.201402046] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/10/2014] [Indexed: 12/16/2022]
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26
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Dawson SJ, Mészáros Á, Pethő L, Colombo C, Csékei M, Kotschy A, Huc I. Controlling Helix Handedness in Water-Soluble Quinoline Oligoamide Foldamers. European J Org Chem 2014. [DOI: 10.1002/ejoc.201402247] [Citation(s) in RCA: 30] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
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27
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Wu CF, Li ZM, Xu XN, Zhao ZX, Zhao X, Wang RX, Li ZT. Folding-Induced Folding: The Assembly of Aromatic Amide and 1,2,3-Triazole Hybrid Helices. Chemistry 2014; 20:1418-26. [DOI: 10.1002/chem.201304161] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/24/2013] [Indexed: 12/15/2022]
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28
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Li W, Dong Z, Zhu J, Luo Q, Liu J. Spontaneous formation of organic helical architectures through dynamic covalent chemistry. Chem Commun (Camb) 2014; 50:14744-7. [DOI: 10.1039/c4cc07263d] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Using dynamic covalent chemistry, achiral and chiral building blocks are capable of self-organizing into organic helical structures, accompanied with chiral amplification.
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Affiliation(s)
- Wenfang Li
- State Key Laboratory of Supramolecular Structure and Materials
- College of Chemistry
- Jilin University
- Changchun 130012, China
| | - Zeyuan Dong
- State Key Laboratory of Supramolecular Structure and Materials
- College of Chemistry
- Jilin University
- Changchun 130012, China
| | - Junyan Zhu
- State Key Laboratory of Supramolecular Structure and Materials
- College of Chemistry
- Jilin University
- Changchun 130012, China
| | - Quan Luo
- State Key Laboratory of Supramolecular Structure and Materials
- College of Chemistry
- Jilin University
- Changchun 130012, China
| | - Junqiu Liu
- State Key Laboratory of Supramolecular Structure and Materials
- College of Chemistry
- Jilin University
- Changchun 130012, China
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29
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Buratto J, Colombo C, Stupfel M, Dawson SJ, Dolain C, Langlois d'Estaintot B, Fischer L, Granier T, Laguerre M, Gallois B, Huc I. Structure of a Complex Formed by a Protein and a Helical Aromatic Oligoamide Foldamer at 2.1 Å Resolution. Angew Chem Int Ed Engl 2013; 53:883-7. [DOI: 10.1002/anie.201309160] [Citation(s) in RCA: 53] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/20/2013] [Indexed: 11/06/2022]
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30
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Buratto J, Colombo C, Stupfel M, Dawson SJ, Dolain C, Langlois d'Estaintot B, Fischer L, Granier T, Laguerre M, Gallois B, Huc I. Structure of a Complex Formed by a Protein and a Helical Aromatic Oligoamide Foldamer at 2.1 Å Resolution. Angew Chem Int Ed Engl 2013. [DOI: 10.1002/ange.201309160] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
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31
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Nair RV, Kheria S, Rayavarapu S, Kotmale AS, Jagadeesh B, Gonnade RG, Puranik VG, Rajamohanan PR, Sanjayan GJ. A Synthetic Zipper Peptide Motif Orchestrated via Co-operative Interplay of Hydrogen Bonding, Aromatic Stacking, and Backbone Chirality. J Am Chem Soc 2013; 135:11477-80. [DOI: 10.1021/ja405455g] [Citation(s) in RCA: 38] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/17/2023]
Affiliation(s)
| | | | | | | | - Bharatam Jagadeesh
- Center for NMR and Structural Chemistry, Indian Institute of Chemical Technology, Hyderabad 500 007, India
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32
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Qi T, Deschrijver T, Huc I. Large-scale and chromatography-free synthesis of an octameric quinoline-based aromatic amide helical foldamer. Nat Protoc 2013; 8:693-708. [DOI: 10.1038/nprot.2013.029] [Citation(s) in RCA: 37] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
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33
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Ramesh VV, Puranik VG, Sanjayan GJ. Carbohydrate-derived conformationally restricted bicyclic dipeptides as potential hetero foldamer building blocks. ACTA ACUST UNITED AC 2012. [DOI: 10.1016/j.tetasy.2012.08.007] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/03/2023]
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34
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Petenzi M, Verga D, Largy E, Hamon F, Doria F, Teulade-Fichou MP, Guédin A, Mergny JL, Mella M, Freccero M. Cationic pentaheteroaryls as selective G-quadruplex ligands by solvent-free microwave-assisted synthesis. Chemistry 2012; 18:14487-96. [PMID: 22996572 DOI: 10.1002/chem.201202097] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/13/2012] [Indexed: 12/15/2022]
Abstract
We report herein a solvent-free and microwaved-assisted synthesis of several water soluble acyclic pentaheteroaryls containing 1,2,4-oxadiazole moieties (1-7). Their binding interactions with DNA quadruplex structures were thoroughly investigated by FRET melting, fluorescent intercalator displacement assay (G4-FID) and CD spectroscopy. Among the G-quadruplexes considered, attention was focused on telomeric repeats together with the proto-oncogenic c-kit sequences and the c-myc oncogene promoter. Compound 1, and to a lesser extent 2 and 5, preferentially stabilise an antiparallel structure of the telomeric DNA motif, and exhibit an opposite binding behaviour to structurally related polyoxazole (TOxaPy), and do not bind duplex DNA. The efficiency and selectivity of the binding process was remarkably controlled by the structure of the solubilising moieties.
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Affiliation(s)
- Michele Petenzi
- Dipartimento di Chimica, Università di Pavia, V.le Taramelli 10, 27100 Pavia, Italy
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35
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Zhang DW, Zhao X, Hou JL, Li ZT. Aromatic Amide Foldamers: Structures, Properties, and Functions. Chem Rev 2012; 112:5271-316. [PMID: 22871167 DOI: 10.1021/cr300116k] [Citation(s) in RCA: 509] [Impact Index Per Article: 42.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Affiliation(s)
- Dan-Wei Zhang
- Department of Chemistry, Fudan
University, 220 Handan Road, Shanghai 200433, China
| | - Xin Zhao
- Shanghai Institute of Organic
Chemistry, Chinese Academy of Sciences, 345 Lingling Road, Shanghai
200032, China
| | - Jun-Li Hou
- Department of Chemistry, Fudan
University, 220 Handan Road, Shanghai 200433, China
| | - Zhan-Ting Li
- Department of Chemistry, Fudan
University, 220 Handan Road, Shanghai 200433, China
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36
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Silbermedaillen des CNRS: B. Charleux, I. Huc und P. Samorì / F. Mathey wurde in die chinesische Akademie der Wissenschaften gewählt. Angew Chem Int Ed Engl 2012. [DOI: 10.1002/ange.201203946] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/05/2022]
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37
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CNRS Silver Medals: B. Charleux, I. Huc, and P. Samorì / F. Mathey Elected to The Chinese Academy of Sciences. Angew Chem Int Ed Engl 2012. [DOI: 10.1002/anie.201203946] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
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