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Nazari N, Bernard S, Fortin D, Marmin T, Gendron L, Dory YL. Triple Thorpe-Ingold Effect in the Synthesis of 18-Membered C 3 Symmetric Lactams Stacking as Endless Supramolecular Tubes. Chemistry 2023; 29:e202203717. [PMID: 36469732 DOI: 10.1002/chem.202203717] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/29/2022] [Revised: 12/01/2022] [Accepted: 12/02/2022] [Indexed: 12/12/2022]
Abstract
Three C3 symmetric macrolactams were very efficiently cyclized from their linear precursors. Adequately located substituents are responsible for the enhancement of reactivity that is not observed in the unsubstituted parent. DFT calculations show that the properly folded cyclization precursor, the reactive conformer, is more populated than other conformers, leading to a decrease of free energy of activation. The crystal structure of the ring substituted with three very bulky esters indicates that tubular stacking is preserved.
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Affiliation(s)
- Niousha Nazari
- Laboratoire de Synthèse Supramoléculaire Département de Chimie, Université de Sherbrooke 2500, boulevard Université, Sherbrooke, Québec, J1K 2R1, Canada.,Institut de Pharmacologie et Centre de Recherche du CHUS, Université de Sherbrooke 3001, 12e avenue nord, Sherbrooke, Québec, J1H 5N4, Canada
| | - Sylvain Bernard
- Laboratoire de Synthèse Supramoléculaire Département de Chimie, Université de Sherbrooke 2500, boulevard Université, Sherbrooke, Québec, J1K 2R1, Canada.,Institut de Pharmacologie et Centre de Recherche du CHUS, Université de Sherbrooke 3001, 12e avenue nord, Sherbrooke, Québec, J1H 5N4, Canada
| | - Daniel Fortin
- Laboratoire de cristallographie, Université de Sherbrooke 2500, boulevard Université, Sherbrooke, Québec, J1K 2R1, Canada
| | - Thomas Marmin
- Laboratoire de Synthèse Supramoléculaire Département de Chimie, Université de Sherbrooke 2500, boulevard Université, Sherbrooke, Québec, J1K 2R1, Canada.,Institut de Pharmacologie et Centre de Recherche du CHUS, Université de Sherbrooke 3001, 12e avenue nord, Sherbrooke, Québec, J1H 5N4, Canada
| | - Louis Gendron
- Département de Pharmacologie-Biophysique 3001, 12e avenue nord, Sherbrooke, Québec, J1H 5N4, Canada.,Institut de Pharmacologie et Centre de Recherche du CHUS, Université de Sherbrooke 3001, 12e avenue nord, Sherbrooke, Québec, J1H 5N4, Canada
| | - Yves L Dory
- Laboratoire de Synthèse Supramoléculaire Département de Chimie, Université de Sherbrooke 2500, boulevard Université, Sherbrooke, Québec, J1K 2R1, Canada.,Institut de Pharmacologie et Centre de Recherche du CHUS, Université de Sherbrooke 3001, 12e avenue nord, Sherbrooke, Québec, J1H 5N4, Canada
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2
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Procacci P. Does Hamiltonian Replica Exchange via Lambda-Hopping Enhance the Sampling in Alchemical Free Energy Calculations? Molecules 2022; 27:4426. [PMID: 35889299 PMCID: PMC9316500 DOI: 10.3390/molecules27144426] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/21/2022] [Revised: 07/06/2022] [Accepted: 07/07/2022] [Indexed: 02/06/2023] Open
Abstract
In the context of computational drug design, we examine the effectiveness of the enhanced sampling techniques in state-of-the-art free energy calculations based on alchemical molecular dynamics simulations. In a paradigmatic molecule with competition between conformationally restrained E and Z isomers whose probability ratio is strongly affected by the coupling with the environment, we compare the so-called λ-hopping technique to the Hamiltonian replica exchange methods assessing their convergence behavior as a function of the enhanced sampling protocols (number of replicas, scaling factors, simulation times). We found that the pure λ-hopping, commonly used in solvation and binding free energy calculations via alchemical free energy perturbation techniques, is ineffective in enhancing the sampling of the isomeric states, exhibiting a pathological dependence on the initial conditions. Correct sampling can be restored in λ-hopping simulation by the addition of a "hot-zone" scaling factor to the λ-stratification (FEP+ approach), provided that the additive hot-zone scaling factors are tuned and optimized using preliminary ordinary replica-exchange simulation of the end-states.
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Affiliation(s)
- Piero Procacci
- Chemistry Department, University of Florence, Via Lastruccia n.3, I-50019 Sesto Firentino, Italy
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3
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Le Bras L, Dory YL, Champagne B. Computational prediction of the supramolecular self-assembling properties of organic molecules: the role of conformational flexibility of amide moieties. Phys Chem Chem Phys 2021; 23:20453-20465. [PMID: 34498627 DOI: 10.1039/d1cp02675e] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Two families of organic molecules with different backbones have been considered. The first family is based on a macrolactam-like unit that is constrained in a particular conformation. The second family is composed by a substituted central phenyl that allows a larger mobility for its substituents. They have however a common feature, three amide moieties (within the cycle for the macrolactam-like molecule and as substituents for the phenyl) that permit hydrogen bonding when molecules are stacked. In this study we propose a computational protocol to unravel the ability of the different families to self-assemble into organic nanotubes. Starting from the monomer and going towards larger assemblies like dimers, trimers, and pentamers we applied the different protocols to rationalize the behavior of the different assemblies. Both structures and thermodynamics were investigated to give a complete picture of the process. Thanks to the combination of a quantum mechanics approach and molecular dynamics simulations along with the use of tailored tools (non covalent interaction visualization) and techniques (umbrella sampling), we have been able to differentiate the two families and highlight the best candidate for self-assembling purposes.
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Affiliation(s)
- Laura Le Bras
- Unité de Chimie Physique Théorique et Structurale, Chemistry Department, Namur Institute of Structured Matter, University of Namur, Belgium.
| | - Yves L Dory
- Laboratoire de Synthèse Supramoléculaire, Département de Chimie, Institut de Pharmacologie, Université de Sherbrooke, Sherbrooke, Québec, Canada
| | - Benoît Champagne
- Unité de Chimie Physique Théorique et Structurale, Chemistry Department, Namur Institute of Structured Matter, University of Namur, Belgium.
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Calvelo M, Lamas A, Guerra A, Amorín M, Garcia-Fandino R, Granja JR. Parallel Versus Antiparallel β-Sheet Structure in Cyclic Peptide Hybrids Containing γ- or δ-Cyclic Amino Acids. Chemistry 2020; 26:5846-5858. [PMID: 31999874 DOI: 10.1002/chem.201905554] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/09/2019] [Indexed: 11/07/2022]
Abstract
Cyclic peptides with disc-shaped structures have emerged as potent building blocks for the preparation of new biomaterials in fields ranging from biological to material science. In this work, we analyze in depth the self-assembling properties of a new type of cyclic peptides based on the alternation of α-residues and cyclic δ-amino acids (α,δ-CPs). To examine the preferred stacking properties adopted by cyclic peptides bearing this type of amino acids, we carried out a synergistic in vitro/in silico approximation by using simple dimeric models and then extended to nanotubes. Although these new cyclic peptides (α,δ-CPs) can interact either in a parallel or antiparallel fashion, our results confirm that although the parallel β-sheet is more stable, it can be switched to the antiparallel stacking by choosing residues that can establish favorable cross-strand interactions. Moreover, the subsequent comparison by using the same methodology but applied to α,γ-CPs models, up to the moment assumed as antiparallel-like d,l-α-CPs, led to unforeseen conclusions that put into question preliminary conjectures about these systems. Surprisingly, they tend to adopt a parallel β-sheet directed by the skeleton interactions. These results imply a change of paradigm with respect to cyclic peptide designs that should be considered for dimers and nanotubes.
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Affiliation(s)
- Martín Calvelo
- Centro Singular de Investigación en Química Biolóxica e, Materiais Moleculares (CIQUS), Departamento de Química Orgánica, Universidade de Santiago de Compostela, 15782, Santiago de Compostela, Spain
| | - Alejandro Lamas
- Centro Singular de Investigación en Química Biolóxica e, Materiais Moleculares (CIQUS), Departamento de Química Orgánica, Universidade de Santiago de Compostela, 15782, Santiago de Compostela, Spain
| | - Arcadio Guerra
- Centro Singular de Investigación en Química Biolóxica e, Materiais Moleculares (CIQUS), Departamento de Química Orgánica, Universidade de Santiago de Compostela, 15782, Santiago de Compostela, Spain
| | - Manuel Amorín
- Centro Singular de Investigación en Química Biolóxica e, Materiais Moleculares (CIQUS), Departamento de Química Orgánica, Universidade de Santiago de Compostela, 15782, Santiago de Compostela, Spain
| | - Rebeca Garcia-Fandino
- Centro Singular de Investigación en Química Biolóxica e, Materiais Moleculares (CIQUS), Departamento de Química Orgánica, Universidade de Santiago de Compostela, 15782, Santiago de Compostela, Spain
| | - Juan R Granja
- Centro Singular de Investigación en Química Biolóxica e, Materiais Moleculares (CIQUS), Departamento de Química Orgánica, Universidade de Santiago de Compostela, 15782, Santiago de Compostela, Spain
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Marmin T, Dory YL. Self-Assembly of C 3 Symmetric Rigid Macrolactams into Very Polar and Porous Trigonal Crystals. Chemistry 2019; 25:6707-6711. [PMID: 30913318 DOI: 10.1002/chem.201900802] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/20/2019] [Indexed: 11/06/2022]
Abstract
Cyclohexane and cyclotri-β-alanyl have been used as scaffolds for the design of new C3 -symmetric rings incorporating conjugated alkenes and dienes. All three C3 -symmetric lactams share the same triangular shape and their crystal system is trigonal. They all belong to the R3 space group, R3m, R3 and R3c, for the increasingly large 12-, 18- and 24-membered rigid rings, respectively. All lactams stack on top of each other, through H-bonds and van der Waals noncovalent interactions, leading to endless supramolecular cylinders and tubes. The largest member of the family leads to tubes, the central pores of which is wide enough to let water in. A common feature of all the lactams is their very large dipole, of around 9 D, according to DFT calculations. Surprisingly, all the resulting cylinders and tubes pack side by side in the crystals, with all the dipoles pointing to the same direction. As a result, all three crystals are anisotropic and appear to be the first members of a new kind of highly polar crystals.
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Affiliation(s)
- Thomas Marmin
- Département de Biochimie, Institut de Pharmacologie de Sherbrooke and Centre Québécois sur les Matériaux Fonctionnels/Quebec Centre for, Advanced Materials (CQMF-QCAM), Université de Sherbrooke, 3001, 12e avenue nord, Sherbrooke, Québec, J1H 5N4, Canada
| | - Yves L Dory
- Département de Biochimie, Institut de Pharmacologie de Sherbrooke and Centre Québécois sur les Matériaux Fonctionnels/Quebec Centre for, Advanced Materials (CQMF-QCAM), Université de Sherbrooke, 3001, 12e avenue nord, Sherbrooke, Québec, J1H 5N4, Canada
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6
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Kaur N. Synthesis of six- and seven-membered and larger heterocylces using Au and Ag catalysts. INORG NANO-MET CHEM 2019. [DOI: 10.1080/24701556.2019.1567544] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Affiliation(s)
- Navjeet Kaur
- Department of Chemistry, Banasthali Vidyapith, Banasthali, Rajasthan, India
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Affiliation(s)
- Navjeet Kaur
- Department of Chemistry, Banasthali Vidyapith, Banasthali, Rajasthan India
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Meng J, Wang Y, Qin Y, Liu XY. Asymmetric synthetic approach to a functionalized azabicyclo[3.3.1]nonane moiety of (+)-sarain A. Tetrahedron Lett 2017. [DOI: 10.1016/j.tetlet.2017.09.045] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
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9
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Nitti A, Pacini A, Pasini D. Chiral Nanotubes. NANOMATERIALS (BASEL, SWITZERLAND) 2017; 7:E167. [PMID: 28677640 PMCID: PMC5535233 DOI: 10.3390/nano7070167] [Citation(s) in RCA: 23] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 06/07/2017] [Revised: 06/22/2017] [Accepted: 06/28/2017] [Indexed: 01/01/2023]
Abstract
Organic nanotubes, as assembled nanospaces, in which to carry out host-guest chemistry, reversible binding of smaller species for transport, sensing, storage or chemical transformation purposes, are currently attracting substantial interest, both as biological ion channel mimics, or for addressing tailored material properties. Nature's materials and machinery are universally asymmetric, and, for chemical entities, controlled asymmetry comes from chirality. Together with carbon nanotubes, conformationally stable molecular building blocks and macrocycles have been used for the realization of organic nanotubes, by means of their assembly in the third dimension. In both cases, chiral properties have started to be fully exploited to date. In this paper, we review recent exciting developments in the synthesis and assembly of chiral nanotubes, and of their functional properties. This review will include examples of either molecule-based or macrocycle-based systems, and will try and rationalize the supramolecular interactions at play for the three-dimensional (3D) assembly of the nanoscale architectures.
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Affiliation(s)
- Andrea Nitti
- Department of Chemistry, University of Pavia, Viale Taramelli, 12-27100 Pavia, Italy.
| | - Aurora Pacini
- Department of Chemistry, University of Pavia, Viale Taramelli, 12-27100 Pavia, Italy.
- INSTM Research Unit, University of Pavia, Viale Taramelli, 12-27100 Pavia, Italy.
| | - Dario Pasini
- Department of Chemistry, University of Pavia, Viale Taramelli, 12-27100 Pavia, Italy.
- INSTM Research Unit, University of Pavia, Viale Taramelli, 12-27100 Pavia, Italy.
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10
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Isomorphous Crystals from Diynes and Bromodiynes Involved in Hydrogen and Halogen Bonds. CRYSTALS 2016. [DOI: 10.3390/cryst6040037] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
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11
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Kaur N. Metal catalysts: applications in higher-membered N-heterocycles synthesis. JOURNAL OF THE IRANIAN CHEMICAL SOCIETY 2014. [DOI: 10.1007/s13738-014-0451-5] [Citation(s) in RCA: 59] [Impact Index Per Article: 5.9] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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12
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Nebot VJ, Díaz-Oltra S, Smets J, Fernández Prieto S, Miravet JF, Escuder B. Freezing Capture of Polymorphic Aggregates of BolaamphiphilicL-Valine-Based Molecular Hydrogelators. Chemistry 2014; 20:5762-7. [DOI: 10.1002/chem.201400346] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/27/2014] [Indexed: 01/20/2023]
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13
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Hydrogen Bonds between Acidic Protons from Alkynes (C–H···O) and Amides (N–H···O) and Carbonyl Oxygen Atoms as Acceptor Partners. ACTA ACUST UNITED AC 2014. [DOI: 10.1155/2014/371629] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]
Abstract
Crystals of tert-butyl (2S)-2-(prop-2-yn-1-ylcarbamoyl)pyrrolidine-1-carboxylate (Boc-L-Pro-NHCH2CCH) have been obtained. The title compound crystallizes easily as sharp needles in orthorhombic system, space group P 21 21 21 with a = 9.2890(2), b = 9.7292(2), c = 15.7918(4) Å, V = 1427.18(6) Å3, and Z = 4. The main feature of the structure is the orientation of the carbamate and amide. Their dipoles add up and the molecule displays an electric dipole moment of 5.61 D from B3LYP/6-31G(d) calculations. The antiparallel H bonding of amides and the alignment of dipoles induce columnar stacking (the dipole moment along the columnar a axis is 4.46 D for each molecule). The other components across the other axes are, therefore weaker, (3.17 D and 1.23 D along the b and c axes, resp.). The resulting anisotropic columns pack side by side, in an antiparallel fashion mostly by (alkyne) CH···O=C (carbamate) interactions.
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Blencowe A, Qiao GG. Ring-Opening Metathesis Polymerization with the Second Generation Hoveyda–Grubbs Catalyst: An Efficient Approach toward High-Purity Functionalized Macrocyclic Oligo(cyclooctene)s. J Am Chem Soc 2013; 135:5717-25. [DOI: 10.1021/ja312418z] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/26/2023]
Affiliation(s)
- Anton Blencowe
- Polymer Science Group,
Department of Chemical and Biomolecular
Engineering, The University of Melbourne, Parkville, Melbourne, Victoria 3010, Australia
| | - Greg G. Qiao
- Polymer Science Group,
Department of Chemical and Biomolecular
Engineering, The University of Melbourne, Parkville, Melbourne, Victoria 3010, Australia
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Leroyer L, Lepetit C, Rives A, Maraval V, Saffon-Merceron N, Kandaskalov D, Kieffer D, Chauvin R. From Hexaoxy-[6]Pericyclynes toCarbo-Cyclohexadienes,Carbo-Benzenes, and Dihydro-Carbo-Benzenes: Synthesis, Structure, and Chromophoric and Redox Properties. Chemistry 2012; 18:3226-40. [PMID: 22322587 DOI: 10.1002/chem.201102993] [Citation(s) in RCA: 41] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/23/2011] [Indexed: 11/06/2022]
Affiliation(s)
- Léo Leroyer
- CNRS, LCC (Laboratoire de Chimie de Coordination), 205 Route de Narbonne, 31077 Toulouse, France
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Ghorai A, Padmanaban E, Mukhopadhyay C, Achari B, Chattopadhyay P. Design and synthesis of regioisomeric triazole based peptidomimetic macrocycles and their dipole moment controlled self-assembly. Chem Commun (Camb) 2012; 48:11975-7. [DOI: 10.1039/c2cc36566a] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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Ghorai A, Gayen A, Kulsi G, Padmanaban E, Laskar A, Achari B, Mukhopadhyay C, Chattopadhyay P. Simultaneous Parallel and Antiparallel Self-Assembly in a Triazole/Amide Macrocycle Conformationally Homologous to d-,l-α-Amino Acid Based Cyclic Peptides: NMR and Molecular Modeling Study. Org Lett 2011; 13:5512-5. [DOI: 10.1021/ol2022356] [Citation(s) in RCA: 24] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Abhijit Ghorai
- Chemistry Division, Indian Institute of Chemical Biology (CSIR), Kolkata, 700032, India, and Department of Chemistry, University College of Science, University of Calcutta, Kolkata, 700009, India
| | - Anindita Gayen
- Chemistry Division, Indian Institute of Chemical Biology (CSIR), Kolkata, 700032, India, and Department of Chemistry, University College of Science, University of Calcutta, Kolkata, 700009, India
| | - Goutam Kulsi
- Chemistry Division, Indian Institute of Chemical Biology (CSIR), Kolkata, 700032, India, and Department of Chemistry, University College of Science, University of Calcutta, Kolkata, 700009, India
| | - E. Padmanaban
- Chemistry Division, Indian Institute of Chemical Biology (CSIR), Kolkata, 700032, India, and Department of Chemistry, University College of Science, University of Calcutta, Kolkata, 700009, India
| | - Aparna Laskar
- Chemistry Division, Indian Institute of Chemical Biology (CSIR), Kolkata, 700032, India, and Department of Chemistry, University College of Science, University of Calcutta, Kolkata, 700009, India
| | - Basudeb Achari
- Chemistry Division, Indian Institute of Chemical Biology (CSIR), Kolkata, 700032, India, and Department of Chemistry, University College of Science, University of Calcutta, Kolkata, 700009, India
| | - Chaitali Mukhopadhyay
- Chemistry Division, Indian Institute of Chemical Biology (CSIR), Kolkata, 700032, India, and Department of Chemistry, University College of Science, University of Calcutta, Kolkata, 700009, India
| | - Partha Chattopadhyay
- Chemistry Division, Indian Institute of Chemical Biology (CSIR), Kolkata, 700032, India, and Department of Chemistry, University College of Science, University of Calcutta, Kolkata, 700009, India
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Tong X, Bernard S, Dory YL, Zhao Y. Simultaneous chirality transfer and structured aggregation of a cyclopeptide in a liquid crystal. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2011; 27:3867-3871. [PMID: 20882984 DOI: 10.1021/la103649e] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/29/2023]
Abstract
We report the finding that a chiral cyclopeptide dissolved in a nematic liquid crystal (LC) host could aggregate in a manner that is controlled by the texture (LC director configuration) of a cholesteric phase that is induced by the cyclopeptide itself. On one hand, with the fingerprint texture, where the helical axis formed by rotating LC molecules, that lies in the substrate plane, the cyclopeptide can use the LC texture as a template to aggregate and form long-range-ordered ribbons that mimic the helical configuration of the LC director. On the other hand, with the planar texture, where the helical axis is normal to the substrate plane, the cyclopeptide can migrate into the "oily-streak" defect regions of the cholesteric phase and stabilize a network of defects that dictates the electrooptical response of the LC. This is the first example of a molecular species exhibiting such a structured aggregation and defect stabilization effect in a cholesteric LC, but similar phenomena were previously reported for platinum nanoparticles and silica colloidal particles, respectively, dispersed in a cholesteric LC host. This study provides more evidence for the potential interest of exploring LCs as an anisotropic medium for mediating the aggregation and assembly of cyclopeptides.
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Affiliation(s)
- Xia Tong
- Département de Chimie, Université de Sherbrooke, Sherbrooke, Québec, Canada J1K 2R1
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20
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Proteau-Gagné A, Bournival V, Rochon K, Dory YL, Gendron L. Exploring the Backbone of Enkephalins To Adjust Their Pharmacological Profile for the δ-Opioid Receptor. ACS Chem Neurosci 2010; 1:757-69. [PMID: 22778812 DOI: 10.1021/cn1000759] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/11/2010] [Accepted: 09/08/2010] [Indexed: 12/23/2022] Open
Abstract
The role of each of the four amide bonds in Leu(5)-enkephalin was investigated by systematically and sequentially replacing each with its corresponding trans-alkene. Six Leu(5)-enkephalin analogs based on six dipeptide surrogates and two Met(5)-enkephalin analogs were synthesized and thoroughly tested using a δ-opioid receptor internalization assay, an ERK1/2 activation assay, and a competition binding assay to evaluate their biological properties. We observed that an E-alkene can efficiently replace the first amide bond of Leu(5)- and Met(5)-enkephalin without significantly affecting biological activity. By contrast, the second amide bond was found to be highly sensitive to the same modification, suggesting that it is involved in biologically essential intra- or intermolecular interactions. Finally, we observed that the affinity and activity of analogs containing an E-alkene at either the third or fourth position were partially reduced, indicating that these amide bonds are less important for these intra- or intermolecular interactions. Overall, our study demonstrates that the systematic and sequential replacement of amide bonds by E-alkene represents an efficient way to explore peptide backbones.
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Affiliation(s)
| | | | | | - Yves L. Dory
- Laboratoire de synthèse supramoléculaire, Département de chimie,
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21
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Cheung L, Yudin A. Synthesis of Highly Substituted Cyclobutane Fused-Ring Systems from N-Vinyl β-Lactams through a One-Pot Domino Process. Chemistry 2010; 16:4100-9. [DOI: 10.1002/chem.200902748] [Citation(s) in RCA: 13] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
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22
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Carrillo R, López-Rodríguez M, Martín VS, Martín T. Crystal structures of self-assembled nanotubes from flexible macrocycles by weak interactions. CrystEngComm 2010. [DOI: 10.1039/c001261k] [Citation(s) in RCA: 13] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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Bélanger D, Tong X, Soumaré S, Dory Y, Zhao Y. Cyclic Peptide-Polymer Complexes and Their Self-Assembly. Chemistry 2009; 15:4428-36. [DOI: 10.1002/chem.200802337] [Citation(s) in RCA: 29] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
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24
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Fischer L, Decossas M, Briand JP, Didierjean C, Guichard G. Control of Duplex Formation and Columnar Self-Assembly with Heterogeneous Amide/Urea Macrocycles. Angew Chem Int Ed Engl 2009. [DOI: 10.1002/ange.200804019] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
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25
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Fischer L, Decossas M, Briand JP, Didierjean C, Guichard G. Control of Duplex Formation and Columnar Self-Assembly with Heterogeneous Amide/Urea Macrocycles. Angew Chem Int Ed Engl 2009; 48:1625-8. [DOI: 10.1002/anie.200804019] [Citation(s) in RCA: 37] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
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