1
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Wang S, Wicher B, Douat C, Maurizot V, Huc I. Domain Swapping in Abiotic Foldamers. Angew Chem Int Ed Engl 2024; 63:e202405091. [PMID: 38661252 DOI: 10.1002/anie.202405091] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/14/2024] [Revised: 04/22/2024] [Accepted: 04/24/2024] [Indexed: 04/26/2024]
Abstract
Foldamer sequences that adopt tertiary helix-turn-helix folds mediated by helix-helix hydrogen bonding in organic solvents have been previously reported. In an attempt to create genuine abiotic quaternary structures, i.e. assemblies of tertiary structures, new sequences were prepared that possess additional hydrogen bond donors at positions that may promote an association between the tertiary folds. However, a solid state structure and extensive solution state investigations by Nuclear Magnetic Resonance (NMR) and Circular Dichroism (CD) show that, instead of forming a quaternary structure, the tertiary folds assemble into stable domain-swapped dimer motifs. Domain swapping entails a complete reorganization of the arrays of hydrogen bonds and changes in relative helix orientation and handedness that can all be rationalized.
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Affiliation(s)
- Shuhe Wang
- Department of Pharmacy, Ludwig-Maximilians-Universität in Munich, Butenandtstr. 5-13, 81377, München, Germany
| | - Barbara Wicher
- Department of Chemical Technology of Drugs, Poznan University of Medical Sciences, 3 Rokietnicka St., 60-806, Poznan, Poland
| | - Céline Douat
- Department of Pharmacy, Ludwig-Maximilians-Universität in Munich, Butenandtstr. 5-13, 81377, München, Germany
| | - Victor Maurizot
- CBMN (UMR 5248), Univ. Bordeaux, CNRS, Bordeaux INP, 2, Rue Robert Escarpit, 33600, Pessac, France
| | - Ivan Huc
- Department of Pharmacy, Ludwig-Maximilians-Universität in Munich, Butenandtstr. 5-13, 81377, München, Germany
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2
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Menke FS, Wicher B, Maurizot V, Huc I. Homochiral versus Heterochiral Dimeric Helical Foldamer Bundles: Chlorinated-Solvent-Dependent Self-Sorting. Angew Chem Int Ed Engl 2023; 62:e202217325. [PMID: 36625790 DOI: 10.1002/anie.202217325] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/24/2022] [Revised: 01/09/2023] [Accepted: 01/10/2023] [Indexed: 01/11/2023]
Abstract
Aromatic oligoamide sequences programmed to fold into stable helical conformations were designed to display a linear array of hydrogen-bond donors and acceptors at their surface. Sequences were prepared by solid-phase synthesis. Solution 1 H NMR spectroscopic studies and solid-state crystallographic structures demonstrated the formation of stable hydrogen-bond-mediated dimeric helix bundles that could be either heterochiral (with a P and an M helix) or homochiral (with two P or two M helices). Formation of the hetero- or homochiral dimers could be driven quantitatively using different chlorinated solvents-exemplifying a remarkable case of either social or narcissistic chiral self-sorting or upon imposing absolute handedness to the helices to forbid PM species.
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Affiliation(s)
- Friedericke S Menke
- Department of Pharmacy, Ludwig-Maximilians-University of Munich, Butenandtstr. 5-13, 81377, München, Germany
| | - Barbara Wicher
- Department of Chemical Technology of Drugs, Poznan University of Medical Sciences, 6 Grunwaldzka St., 60-780, Poznan, Poland
| | - Victor Maurizot
- CBMN (UMR 5248), Univ. Bordeaux, CNRS, Bordeaux INP, 2, Rue Robert Escarpit, 33600, Pessac, France
| | - Ivan Huc
- Department of Pharmacy, Ludwig-Maximilians-University of Munich, Butenandtstr. 5-13, 81377, München, Germany
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3
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Menke FS, Mazzier D, Wicher B, Allmendinger L, Kauffmann B, Maurizot V, Huc I. Molecular torsion springs: alteration of helix curvature in frustrated tertiary folds. Org Biomol Chem 2023; 21:1275-1283. [PMID: 36645374 DOI: 10.1039/d2ob02109a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2023]
Abstract
The first abiotic foldamer tertiary structures have been recently reported in the form of aromatic helix-turn-helix motifs based on oligo-quinolinecarboxamides held together by intramolecular hydrogen bonds. Tertiary folds were predicted by computational modelling of the hydrogen-bonding interfaces between helices and later verified by X-ray crystallography. However, the prognosis of how the conformational preference inherent to each helix influences the tertiary structure warranted further investigation. Several new helix-turn-helix sequences were synthesised in which some hydrogen bonds have been removed. Contrary to expectations, this change did not strongly destabilise the tertiary folds. On closer inspection, a new crystal structure revealed that helices adopt their natural curvature when some hydrogen bonds are missing and undergo some spring torsion upon forming the said hydrogen bonds, thus potentially giving rise to a conformational frustration. This phenomenon sheds light on the aggregation behaviour of the helices when they are not linked by a turn unit.
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Affiliation(s)
- Friedericke S Menke
- Department of Pharmacy, Ludwig-Maximilians-University, Butenandstraße 5-13, 81377 Munich, Germany.
| | - Daniela Mazzier
- Department of Pharmacy, Ludwig-Maximilians-University, Butenandstraße 5-13, 81377 Munich, Germany.
| | - Barbara Wicher
- Department of Chemical Technology of Drugs, Poznan University of Medical Sciences, Grunwaldzka 6, 60-780 Poznan, Poland
| | - Lars Allmendinger
- Department of Pharmacy, Ludwig-Maximilians-University, Butenandstraße 5-13, 81377 Munich, Germany.
| | - Brice Kauffmann
- Institut Européen de Chimie et Biologie (UMS3011/US001), CNRS, Inserm, Université de Bordeaux, 2 rue Robert Escarpit, F-33600 Pessac, France
| | - Victor Maurizot
- CBMN (UMR 5248), Univ. Bordeaux, CNRS, Bordeaux INP, 2 rue Robert Escarpit, 33600 Pessac, France
| | - Ivan Huc
- Department of Pharmacy, Ludwig-Maximilians-University, Butenandstraße 5-13, 81377 Munich, Germany.
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4
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Bindl D, Mandal PK, Huc I. Generalizing the Aromatic δ‐Amino Acid Foldamer Helix. Chemistry 2022; 28:e202200538. [PMID: 35332956 PMCID: PMC9322652 DOI: 10.1002/chem.202200538] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/18/2022] [Indexed: 11/12/2022]
Abstract
A series of aromatic oligoamide foldamer sequences containing different proportions of three δ‐amino acids derived from quinoline, pyridine, and benzene and possessing varying flexibility, for example due to methylene bridges, were synthesized. Crystallographic structures of two key sequences and 1H NMR data in water concur to show that a canonical aromatic helix fold prevails in almost all cases and that helix stability critically depends on the ratio between rigid and flexible units. Notwithstanding subtle variations of curvature, i. e. the numbers of units per turn, the aromatic δ‐peptide helix is therefore shown to be general and tolerant of a great number of sp3 centers. We also demonstrate canonical helical folding upon alternating two monomers that do not promote folding when taken separately: folding occurs with two methylenes between every other unit, not with one methylene between every unit. These findings highlight that a fine‐tuning of helix handedness inversion kinetics, curvature, and side chain positioning in aromatic δ‐peptidic foldamers can be realized by systematically combining different yet compatible δ‐amino acids.
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Affiliation(s)
- Daniel Bindl
- Department of Pharmacy and Center for Integrated Protein Science Ludwig-Maximilians-Universität Butenandtstraße 5–13 München 81377 Germany
| | - Pradeep K. Mandal
- Department of Pharmacy and Center for Integrated Protein Science Ludwig-Maximilians-Universität Butenandtstraße 5–13 München 81377 Germany
| | - Ivan Huc
- Department of Pharmacy and Center for Integrated Protein Science Ludwig-Maximilians-Universität Butenandtstraße 5–13 München 81377 Germany
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Selby J, Holzapfel M, Radacki K, Swain AK, Braunschweig H, Lambert C. Polymeric Indolenine–Squaraine Foldamers with a Preferred Helix Twist Sense and Their Chiroptical Absorption and Emission Properties. Macromolecules 2022. [DOI: 10.1021/acs.macromol.1c02155] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Joshua Selby
- Institut für Organische Chemie, Universität Würzburg, Am Hubland, 97074 Würzburg, Germany
| | - Marco Holzapfel
- Institut für Organische Chemie, Universität Würzburg, Am Hubland, 97074 Würzburg, Germany
| | - Krzysztof Radacki
- Institut für Anorganische Chemie, Universität Würzburg, Am Hubland, 97074 Würzburg, Germany
- Institute for Sustainable Chemistry & Catalysis with Boron, Julius-Maximilians-Universität Würzburg, Am Hubland, 97074 Würzburg, Germany
| | - Asim Kumar Swain
- Institut für Organische Chemie, Universität Würzburg, Am Hubland, 97074 Würzburg, Germany
| | - Holger Braunschweig
- Institut für Anorganische Chemie, Universität Würzburg, Am Hubland, 97074 Würzburg, Germany
- Center for Nanosystems Chemistry, Universität Würzburg, Am Hubland, 97074 Würzburg, Germany
- Institute for Sustainable Chemistry & Catalysis with Boron, Julius-Maximilians-Universität Würzburg, Am Hubland, 97074 Würzburg, Germany
| | - Christoph Lambert
- Institut für Organische Chemie, Universität Würzburg, Am Hubland, 97074 Würzburg, Germany
- Center for Nanosystems Chemistry, Universität Würzburg, Am Hubland, 97074 Würzburg, Germany
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6
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Bindl D, Heinemann E, Mandal PK, Huc I. Quantitative helix handedness bias through a single H vs. CH 3 stereochemical differentiation. Chem Commun (Camb) 2021; 57:5662-5665. [PMID: 33972976 DOI: 10.1039/d1cc01452h] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Abstract
A novel chiral aromatic δ-amino acid building block was shown to fully induce handedness in quinoline oligoamide foldamers with the possibility of further increasing the bias by combining multiples of these units in the same sequence. Through its incorporation within the helix, both N- and C-termini are still accessible for further functionalisation.
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Affiliation(s)
- Daniel Bindl
- Department of Pharmacy and Center for Integrated Protein Science, Ludwig-Maximilians-Universität, Butenandtstraße 5-13, München 81377, Germany.
| | - Elisabeth Heinemann
- Department of Pharmacy and Center for Integrated Protein Science, Ludwig-Maximilians-Universität, Butenandtstraße 5-13, München 81377, Germany.
| | - Pradeep K Mandal
- Department of Pharmacy and Center for Integrated Protein Science, Ludwig-Maximilians-Universität, Butenandtstraße 5-13, München 81377, Germany.
| | - Ivan Huc
- Department of Pharmacy and Center for Integrated Protein Science, Ludwig-Maximilians-Universität, Butenandtstraße 5-13, München 81377, Germany.
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7
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Wang J, Wicher B, Maurizot V, Huc I. Oligo-Quinolylene-Vinylene Foldamers. Chemistry 2021; 27:1031-1038. [PMID: 32881144 PMCID: PMC7839515 DOI: 10.1002/chem.202003559] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/30/2020] [Revised: 09/01/2020] [Indexed: 01/26/2023]
Abstract
Quinoline based aromatic amide foldamers are known to adopt stable folded conformations. We have developed a synthetic approach to produce similar oligomers where all amide bonds, or part of them, have been replaced by an isosteric vinylene group. The results of solution and solid state structural studies show that oligomers exclusively containing vinylene linkages are not well folded, and adopt predominantly flat conformations. In contrast, a vinylene segment flanked by helical oligoamides also folds in a helix, albeit with a slightly lower curvature. The presence of vinylene functions also result in an extension of π-conjugation across the oligomer that may change charge transport properties. Altogether, these results pave the way to foldamers in which both structural control and specific electronic properties may be engineered.
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Affiliation(s)
- Jinhua Wang
- CBMN (UMR5248), Univ. Bordeaux–CNRS–IPBInstitut Européen de Chimie et Biologie2 rue Escarpit33600PessacFrance
| | - Barbara Wicher
- Department of Chemical Technology of DrugsPoznan University of Medical SciencesGrunwaldzka 660-780PoznanPoland
| | - Victor Maurizot
- CBMN (UMR5248), Univ. Bordeaux–CNRS–IPBInstitut Européen de Chimie et Biologie2 rue Escarpit33600PessacFrance
| | - Ivan Huc
- CBMN (UMR5248), Univ. Bordeaux–CNRS–IPBInstitut Européen de Chimie et Biologie2 rue Escarpit33600PessacFrance
- Department of Pharmacy and Cluster e-conversionLudwig-Maximilians-UniversiätButenandtstrasse 5–1381377MünchenGermany
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8
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Hu X, Mandal PK, Kauffmann B, Huc I. Hybrid Sequences that Express both Aromatic Amide and α-Peptidic Folding Features. Chempluschem 2020; 85:1580-1586. [PMID: 32729681 PMCID: PMC7496704 DOI: 10.1002/cplu.202000416] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/27/2020] [Revised: 07/05/2020] [Indexed: 01/28/2023]
Abstract
Foldamers combining aliphatic and aromatic main-chain units often produce atypical structures that cannot easily be accessed from purely aromatic or aliphatic sequences. We report solid-state evidence that sequences comprising α-amino acids and quinoline-based monomers adopt conformations that combine the folding propensities of both components. Foldamers 2 and 3 having an XQQ repeat motif (X=α-amino acid, Q=quinoline) were synthesized. Crystals of 2 (X=Phe, Q with an anionic side chain) obtained from water revealed an aromatic helix where amide groups belonging to the α-amino acids created a hydrogen-bond array typical of peptidic helices. Crystals of 3 (X=Ser, Q with a lipophilic side chain) obtained from organic solvents revealed a helix-turn-helix structure in which α-amino acid side chains interfere with main-chain hydrogen bonding. High sequence-dependency of the conformation is typical of peptides but is shown here to include aromatic folding features.
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Affiliation(s)
- Xiaobo Hu
- CBMN (UMR5248)Univ. Bordeaux-CNRS-IPBInstitut Européen de Chimie et Biologie2 rue Robert Escarpit33600PessacFrance
| | - Pradeep K. Mandal
- Department PharmazieCenter for Integrated Protein ScienceLudwig-Maximilians-Universität MünchenButenandtstr. 5–1381377MünchenGermany
| | - Brice Kauffmann
- IECB (UMS3033)Univ. Bordeaux-CNRS-INSERMInstitut Européen de Chimie et Biologie2 rue Robert Escarpit33600PessacFrance
| | - Ivan Huc
- Department PharmazieCenter for Integrated Protein ScienceLudwig-Maximilians-Universität MünchenButenandtstr. 5–1381377MünchenGermany
- CBMN (UMR5248)Univ. Bordeaux-CNRS-IPBInstitut Européen de Chimie et Biologie2 rue Robert Escarpit33600PessacFrance
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9
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Tsiamantas C, Kwon S, Rogers JM, Douat C, Huc I, Suga H. Ribosomal Incorporation of Aromatic Oligoamides as Peptide Sidechain Appendages. Angew Chem Int Ed Engl 2020; 59:4860-4864. [PMID: 31894626 PMCID: PMC7496375 DOI: 10.1002/anie.201914654] [Citation(s) in RCA: 18] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/16/2019] [Revised: 12/24/2019] [Indexed: 01/06/2023]
Abstract
Derivatives of 4-aminomethyl-l-phenylalanine with aromatic oligoamide foldamers as sidechain appendages were successfully charged on tRNA by means of flexizymes. Their subsequent incorporation both at the C-terminus of, and within, peptide sequences by the ribosome, was demonstrated. These results expand the registry of chemical structures tolerated by the ribosome to sidechains significantly larger and more structurally defined than previously demonstrated.
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Affiliation(s)
- Christos Tsiamantas
- Department of ChemistrySchool of ScienceThe University of Tokyo7-3-1 HongoBunkyoTokyo113-0033Japan
| | - Sunbum Kwon
- Department of Pharmacy and Center for Integrated Protein ScienceLudwig-Maximilians-UniversitätButenandtstr. 5–1381377MünchenGermany
- Department of ChemistryChung-Ang University84 Heukseok-roDongjak-guSeoul06974Republic of Korea
| | - Joseph M. Rogers
- Department of ChemistrySchool of ScienceThe University of Tokyo7-3-1 HongoBunkyoTokyo113-0033Japan
| | - Céline Douat
- Department of Pharmacy and Center for Integrated Protein ScienceLudwig-Maximilians-UniversitätButenandtstr. 5–1381377MünchenGermany
| | - Ivan Huc
- Department of Pharmacy and Center for Integrated Protein ScienceLudwig-Maximilians-UniversitätButenandtstr. 5–1381377MünchenGermany
| | - Hiroaki Suga
- Department of ChemistrySchool of ScienceThe University of Tokyo7-3-1 HongoBunkyoTokyo113-0033Japan
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Tsiamantas C, Kwon S, Rogers JM, Douat C, Huc I, Suga H. Ribosomal Incorporation of Aromatic Oligoamides as Peptide Sidechain Appendages. Angew Chem Int Ed Engl 2020. [DOI: 10.1002/ange.201914654] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
Affiliation(s)
- Christos Tsiamantas
- Department of ChemistrySchool of ScienceThe University of Tokyo 7-3-1 Hongo Bunkyo Tokyo 113-0033 Japan
| | - Sunbum Kwon
- Department of Pharmacy and Center for Integrated Protein ScienceLudwig-Maximilians-Universität Butenandtstr. 5–13 81377 München Germany
- Department of ChemistryChung-Ang University 84 Heukseok-ro Dongjak-gu Seoul 06974 Republic of Korea
| | - Joseph M. Rogers
- Department of ChemistrySchool of ScienceThe University of Tokyo 7-3-1 Hongo Bunkyo Tokyo 113-0033 Japan
| | - Céline Douat
- Department of Pharmacy and Center for Integrated Protein ScienceLudwig-Maximilians-Universität Butenandtstr. 5–13 81377 München Germany
| | - Ivan Huc
- Department of Pharmacy and Center for Integrated Protein ScienceLudwig-Maximilians-Universität Butenandtstr. 5–13 81377 München Germany
| | - Hiroaki Suga
- Department of ChemistrySchool of ScienceThe University of Tokyo 7-3-1 Hongo Bunkyo Tokyo 113-0033 Japan
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Mazzier D, De S, Wicher B, Maurizot V, Huc I. Parallele homochirale und antiparallele heterochirale Wasserstoffbrücken‐Interaktionsflächen in multihelikalen abiotischen Foldameren. Angew Chem Int Ed Engl 2020. [DOI: 10.1002/ange.201912805] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Affiliation(s)
- Daniela Mazzier
- Department of Pharmacy and Centre for Integrated Protein Science Ludwig-Maximilians-Universität Butenandtstraße 5–13 81377 Munich Deutschland
- CBMN Laboratory Université de Bordeaux CNRS, IPB Institut Européen de Chimie et Biologie 2 rue Escarpit 33600 Pessac Frankreich
| | - Soumen De
- CBMN Laboratory Université de Bordeaux CNRS, IPB Institut Européen de Chimie et Biologie 2 rue Escarpit 33600 Pessac Frankreich
| | - Barbara Wicher
- Department of Chemical Technology of Drugs Poznan University of Medical Sciences Grunwaldzka 6 60–780 Poznan Polen
| | - Victor Maurizot
- CBMN Laboratory Université de Bordeaux CNRS, IPB Institut Européen de Chimie et Biologie 2 rue Escarpit 33600 Pessac Frankreich
| | - Ivan Huc
- Department of Pharmacy and Centre for Integrated Protein Science Ludwig-Maximilians-Universität Butenandtstraße 5–13 81377 Munich Deutschland
- CBMN Laboratory Université de Bordeaux CNRS, IPB Institut Européen de Chimie et Biologie 2 rue Escarpit 33600 Pessac Frankreich
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12
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Mazzier D, De S, Wicher B, Maurizot V, Huc I. Parallel Homochiral and Anti-Parallel Heterochiral Hydrogen-Bonding Interfaces in Multi-Helical Abiotic Foldamers. Angew Chem Int Ed Engl 2020; 59:1606-1610. [PMID: 31671236 PMCID: PMC7004161 DOI: 10.1002/anie.201912805] [Citation(s) in RCA: 22] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/07/2019] [Indexed: 11/25/2022]
Abstract
A hydrogen-bonding interface between helical aromatic oligoamide foldamers has been designed to promote the folding of a helix-turn-helix motif with a head-to-tail arrangement of two helices of opposite handedness. This design complements an earlier helix-turn-helix motif with a head-to-head arrangement of two helices of identical handedness interface. The two motifs were shown to have comparable stability and were combined in a unimolecular tetra-helix fold constituting the largest abiotic tertiary structure to date.
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Affiliation(s)
- Daniela Mazzier
- Department of Pharmacy and Centre for Integrated Protein ScienceLudwig-Maximilians-UniversitätButenandtstrasse 5–1381377MunichGermany
- CBMN LaboratoryUniversité de BordeauxCNRS, IPBInstitut Européen de Chimie et Biologie2 rue Escarpit33600PessacFrance
| | - Soumen De
- CBMN LaboratoryUniversité de BordeauxCNRS, IPBInstitut Européen de Chimie et Biologie2 rue Escarpit33600PessacFrance
| | - Barbara Wicher
- Department of Chemical Technology of DrugsPoznan University of Medical SciencesGrunwaldzka 660–780PoznanPoland
| | - Victor Maurizot
- CBMN LaboratoryUniversité de BordeauxCNRS, IPBInstitut Européen de Chimie et Biologie2 rue Escarpit33600PessacFrance
| | - Ivan Huc
- Department of Pharmacy and Centre for Integrated Protein ScienceLudwig-Maximilians-UniversitätButenandtstrasse 5–1381377MunichGermany
- CBMN LaboratoryUniversité de BordeauxCNRS, IPBInstitut Européen de Chimie et Biologie2 rue Escarpit33600PessacFrance
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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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14
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Mazzier D, De S, Wicher B, Maurizot V, Huc I. Interplay of secondary and tertiary folding in abiotic foldamers. Chem Sci 2019; 10:6984-6991. [PMID: 31588265 PMCID: PMC6676331 DOI: 10.1039/c9sc01322a] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/18/2019] [Accepted: 06/08/2019] [Indexed: 12/30/2022] Open
Abstract
The first true abiotic tertiary folded structures, i.e. at the exclusion of any aliphatic amino acid, have recently been introduced under the form of aromatic oligoamide helix-turn-helix foldamers stabilized by hydrogen bonds in organic solvents. We present an investigation of the interplay of secondary and tertiary folding and of some cooperative effects in these systems. A solid phase synthesis approach to the preparation of these sequences was developed to facilitate systematic variation. Flexible pyridine-based units were introduced in various proportions in replacement of more rigid quinoline-based units. Conformational behaviour was assessed in solution by NMR, in the solid state by X-ray crystallography, and computationally through molecular dynamics simulations. Altogether, our results demonstrate that tertiary folding stabilizes otherwise flexible secondary structures, and that the disruption of tertiary folds upon adding polar solvents follows different mechanisms depending on whether secondary structures are inherently stable or not. These findings constitute a solid basis on which to further increase the size and complexity of abiotic folded structures and to eventually orchestrate folding dynamics and responsiveness.
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Affiliation(s)
- Daniela Mazzier
- Department of Pharmacy , Centre for Integrated Protein Science , Ludwig-Maximilians-Universität , Butenandtstraße 5-13 , D-81377 Munich , Germany .
- CBMN Laboratory , Université de Bordeaux , CNRS , IPB , Institut Européen de Chimie et Biologie , 2 rue Escarpit , 33600 Pessac , France
| | - Soumen De
- CBMN Laboratory , Université de Bordeaux , CNRS , IPB , Institut Européen de Chimie et Biologie , 2 rue Escarpit , 33600 Pessac , France
| | - Barbara Wicher
- Department of Chemical Technology of Drugs , Poznan University of Medical Sciences , Grunwaldzka 6 , 60-780 Poznan , Poland
| | - Victor Maurizot
- CBMN Laboratory , Université de Bordeaux , CNRS , IPB , Institut Européen de Chimie et Biologie , 2 rue Escarpit , 33600 Pessac , France
| | - Ivan Huc
- Department of Pharmacy , Centre for Integrated Protein Science , Ludwig-Maximilians-Universität , Butenandtstraße 5-13 , D-81377 Munich , Germany .
- CBMN Laboratory , Université de Bordeaux , CNRS , IPB , Institut Européen de Chimie et Biologie , 2 rue Escarpit , 33600 Pessac , France
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15
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Enhancing Aromatic Foldamer Helix Dynamics to Probe Interactions with Protein Surfaces. European J Org Chem 2018. [DOI: 10.1002/ejoc.201800855] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
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16
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Ziach K, Chollet C, Parissi V, Prabhakaran P, Marchivie M, Corvaglia V, Bose PP, Laxmi-Reddy K, Godde F, Schmitter JM, Chaignepain S, Pourquier P, Huc I. Single helically folded aromatic oligoamides that mimic the charge surface of double-stranded B-DNA. Nat Chem 2018; 10:511-518. [PMID: 29610464 DOI: 10.1038/s41557-018-0018-7] [Citation(s) in RCA: 50] [Impact Index Per Article: 8.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/07/2016] [Accepted: 01/31/2018] [Indexed: 01/15/2023]
Abstract
Numerous essential biomolecular processes require the recognition of DNA surface features by proteins. Molecules mimicking these features could potentially act as decoys and interfere with pharmacologically or therapeutically relevant protein-DNA interactions. Although naturally occurring DNA-mimicking proteins have been described, synthetic tunable molecules that mimic the charge surface of double-stranded DNA are not known. Here, we report the design, synthesis and structural characterization of aromatic oligoamides that fold into single helical conformations and display a double helical array of negatively charged residues in positions that match the phosphate moieties in B-DNA. These molecules were able to inhibit several enzymes possessing non-sequence-selective DNA-binding properties, including topoisomerase 1 and HIV-1 integrase, presumably through specific foldamer-protein interactions, whereas sequence-selective enzymes were not inhibited. Such modular and synthetically accessible DNA mimics provide a versatile platform to design novel inhibitors of protein-DNA interactions.
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Affiliation(s)
- Krzysztof Ziach
- Univ. Bordeaux - CNRS - IPB, CBMN Laboratory (UMR5248), Institut Européen de Chimie et Biologie, Pessac, France
| | - Céline Chollet
- Univ. Bordeaux - CNRS - IPB, CBMN Laboratory (UMR5248), Institut Européen de Chimie et Biologie, Pessac, France
| | - Vincent Parissi
- Univ. Bordeaux - CNRS, Laboratoire de Microbiologie Fondamentale et Pathogénicité (UMR 5234), Bordeaux, France
| | - Panchami Prabhakaran
- Univ. Bordeaux - CNRS - IPB, CBMN Laboratory (UMR5248), Institut Européen de Chimie et Biologie, Pessac, France
| | | | - Valentina Corvaglia
- Univ. Bordeaux - CNRS - IPB, CBMN Laboratory (UMR5248), Institut Européen de Chimie et Biologie, Pessac, France
| | - Partha Pratim Bose
- Univ. Bordeaux - CNRS - IPB, CBMN Laboratory (UMR5248), Institut Européen de Chimie et Biologie, Pessac, France
| | - Katta Laxmi-Reddy
- Univ. Bordeaux - CNRS - IPB, CBMN Laboratory (UMR5248), Institut Européen de Chimie et Biologie, Pessac, France
| | - Frédéric Godde
- Univ. Bordeaux - CNRS - IPB, CBMN Laboratory (UMR5248), Institut Européen de Chimie et Biologie, Pessac, France
| | - Jean-Marie Schmitter
- Univ. Bordeaux - CNRS - IPB, CBMN Laboratory (UMR5248), Institut Européen de Chimie et Biologie, Pessac, France
| | - Stéphane Chaignepain
- Univ. Bordeaux - CNRS - IPB, CBMN Laboratory (UMR5248), Institut Européen de Chimie et Biologie, Pessac, France
| | - Philippe Pourquier
- INSERM U1194, Institut de Recherche en Cancérologie de Montpellier & Université de Montpellier, Montpellier, France
| | - Ivan Huc
- Univ. Bordeaux - CNRS - IPB, CBMN Laboratory (UMR5248), Institut Européen de Chimie et Biologie, Pessac, France. .,Department of Pharmacy, Ludwig-Maximilians-Universität, München, Germany.
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17
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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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18
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Annala R, Suhonen A, Laakkonen H, Permi P, Nissinen M. Structural Tuning and Conformational Stability of Aromatic Oligoamide Foldamers. Chemistry 2017; 23:16671-16680. [PMID: 29105164 DOI: 10.1002/chem.201703985] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/24/2017] [Indexed: 11/09/2022]
Abstract
A series of aromatic oligoamide foldamers with two or three pyridine-2,6-dicarboxamide units as their main folding motifs and varying aromatic building blocks as linkers have been synthetized to study the effects of the structural variation on the folding properties and conformational stability. Crystallographic studies showed that in the solid state the central linker unit either elongates the helices and more open S-shaped conformations, compresses the helices to more compact conformations, or acts as a rigid spacer separating the pyridine-2,6-dicarboxamide units, which for their part add the predictability of the conformational properties. Multidimensional NMR studies showed that, even in solution, foldamers show conformational stability and folded conformations comparable to the solid-state structures.
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Affiliation(s)
- Riia Annala
- Department of Chemistry, Nanoscience Center, University of Jyvaskyla, P.O. Box 35, 40014 University of, Jyvaskyla, Finland
| | - Aku Suhonen
- Department of Chemistry, Nanoscience Center, University of Jyvaskyla, P.O. Box 35, 40014 University of, Jyvaskyla, Finland
| | - Heikki Laakkonen
- Department of Chemistry, Nanoscience Center, University of Jyvaskyla, P.O. Box 35, 40014 University of, Jyvaskyla, Finland
| | - Perttu Permi
- Department of Chemistry, Nanoscience Center, University of Jyvaskyla, P.O. Box 35, 40014 University of, Jyvaskyla, Finland.,Department of Chemistry and Department of Biological and Environmental Sciences, Nanoscience Center, University of Jyvaskyla, P.O. Box 35, 40014 University of, Jyvaskyla, Finland
| | - Maija Nissinen
- Department of Chemistry, Nanoscience Center, University of Jyvaskyla, P.O. Box 35, 40014 University of, Jyvaskyla, Finland
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19
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Méndez-Ardoy A, Markandeya N, Li X, Tsai YT, Pecastaings G, Buffeteau T, Maurizot V, Muccioli L, Castet F, Huc I, Bassani DM. Multi-dimensional charge transport in supramolecular helical foldamer assemblies. Chem Sci 2017; 8:7251-7257. [PMID: 29147547 PMCID: PMC5633016 DOI: 10.1039/c7sc03341a] [Citation(s) in RCA: 30] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/01/2017] [Accepted: 09/04/2017] [Indexed: 11/21/2022] Open
Abstract
Aromatic foldamers are bioinspired architectures whose potential use in materials remains largely unexplored. Here we report our investigation of vertical and horizontal charge transport over long distances in helical oligo-quinolinecarboxamide foldamers organized as single monolayers on Au or SiO2. Conductive atomic force microscopy showed that vertical conductivity is efficient and that it displays a low attenuation with foldamer length (0.06 Å-1). In contrast, horizontal charge transport is found to be negligible, demonstrating the strong anisotropy of foldamer monolayers. Kinetic Monte Carlo calculations were used to probe the mechanism of charge transport in these helical molecules and revealed the presence of intramolecular through-space charge transfer integrals approaching those found in pentacene and rubrene crystals, in line with experimental results. Kinetic Monte Carlo simulations of charge hopping along the foldamer chain evidence the strong contribution of multiple 1D and 3D pathways in these architectures and their dependence on conformational order. These findings show that helical foldamer architectures may provide a route for achieving charge transport over long distance by combining multiple charge transport pathways.
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Affiliation(s)
- Alejandro Méndez-Ardoy
- Univ. Bordeaux CNRS UMR 5255 ISM , 351, Cours de la Libération , 33405 Talence , France .
| | - Nagula Markandeya
- Univ. Bordeaux CNRS UMR 5248 CBMN , 2 rue Escarpit , 33600 Pessac , France .
| | - Xuesong Li
- Univ. Bordeaux CNRS UMR 5248 CBMN , 2 rue Escarpit , 33600 Pessac , France .
| | - Yu-Tang Tsai
- Univ. Bordeaux CNRS UMR 5255 ISM , 351, Cours de la Libération , 33405 Talence , France .
| | - Gilles Pecastaings
- Inst. Polytechnique de Bordeaux CNRS UMR 5629 LCPO , 16, Av. Pey-Berland , 33600 Pessac , France
| | - Thierry Buffeteau
- Univ. Bordeaux CNRS UMR 5255 ISM , 351, Cours de la Libération , 33405 Talence , France .
| | - Victor Maurizot
- Univ. Bordeaux CNRS UMR 5248 CBMN , 2 rue Escarpit , 33600 Pessac , France .
| | - Luca Muccioli
- Univ. Bordeaux CNRS UMR 5255 ISM , 351, Cours de la Libération , 33405 Talence , France .
| | - Frédéric Castet
- Univ. Bordeaux CNRS UMR 5255 ISM , 351, Cours de la Libération , 33405 Talence , France .
| | - Ivan Huc
- Univ. Bordeaux CNRS UMR 5248 CBMN , 2 rue Escarpit , 33600 Pessac , France .
| | - Dario M Bassani
- Univ. Bordeaux CNRS UMR 5255 ISM , 351, Cours de la Libération , 33405 Talence , France .
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20
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De S, Chi B, Granier T, Qi T, Maurizot V, Huc I. Designing cooperatively folded abiotic uni- and multimolecular helix bundles. Nat Chem 2017; 10:51-57. [PMID: 29256508 DOI: 10.1038/nchem.2854] [Citation(s) in RCA: 54] [Impact Index Per Article: 7.7] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/16/2017] [Accepted: 07/27/2017] [Indexed: 01/09/2023]
Abstract
Abiotic foldamers, that is foldamers that have backbones chemically remote from peptidic and nucleotidic skeletons, may give access to shapes and functions different to those of peptides and nucleotides. However, design methodologies towards abiotic tertiary and quaternary structures are yet to be developed. Here we report rationally designed interactional patterns to guide the folding and assembly of abiotic helix bundles. Computational design facilitated the introduction of hydrogen-bonding functionalities at defined locations on the aromatic amide backbones that promote cooperative folding into helix-turn-helix motifs in organic solvents. The hydrogen-bond-directed aggregation of helices not linked by a turn unit produced several thermodynamically and kinetically stable homochiral dimeric and trimeric bundles with structures that are distinct from the designed helix-turn-helix. Relative helix orientation within the bundles may be changed from parallel to tilted on subtle solvent variations. Altogether, these results prefigure the richness and uniqueness of abiotic tertiary structure behaviour.
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Affiliation(s)
- Soumen De
- CBMN Laboratory, Université de Bordeaux, CNRS, IPB, Institut Européen de Chimie et Biologie, 2 rue Escarpit, 33600 Pessac, France
| | - Bo Chi
- CBMN Laboratory, Université de Bordeaux, CNRS, IPB, Institut Européen de Chimie et Biologie, 2 rue Escarpit, 33600 Pessac, France
| | - Thierry Granier
- CBMN Laboratory, Université de Bordeaux, CNRS, IPB, Institut Européen de Chimie et Biologie, 2 rue Escarpit, 33600 Pessac, France
| | - Ting Qi
- CBMN Laboratory, Université de Bordeaux, CNRS, IPB, Institut Européen de Chimie et Biologie, 2 rue Escarpit, 33600 Pessac, France
| | - Victor Maurizot
- CBMN Laboratory, Université de Bordeaux, CNRS, IPB, Institut Européen de Chimie et Biologie, 2 rue Escarpit, 33600 Pessac, France
| | - Ivan Huc
- CBMN Laboratory, Université de Bordeaux, CNRS, IPB, Institut Européen de Chimie et Biologie, 2 rue Escarpit, 33600 Pessac, France
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21
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Greenfield JL, Rizzuto FJ, Goldberga I, Nitschke JR. Self-Assembly of Conjugated Metallopolymers with Tunable Length and Controlled Regiochemistry. Angew Chem Int Ed Engl 2017; 56:7541-7545. [PMID: 28470946 DOI: 10.1002/anie.201702320] [Citation(s) in RCA: 32] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/03/2017] [Indexed: 01/01/2023]
Abstract
Self-assembled materials can be designed to express useful optoelectronic properties; however, achieving structural control is a necessary precondition for the optimization of desired properties. Here we report a simple, metal-templated polymerization process that generates helical metallopolymer strands over 75 repeat units long (28 kDa) from a single bifunctional monomer and CuI . The resulting polymer consists of a double helix of two identical conjugated organic strands enclosing a central column of metal ions. The length of this metallopolymer can be controlled by adding monofunctional subcomponents to end-cap the conjugated ligands. The use of ditopic and bulky monotopic subcomponents, respectively, allows a head-to-head or head-to-tail double helix to be generated. Spectroscopic measurements of different polymer lengths demonstrate how control over polymer length leads to control over the electronic and luminescent properties of the resulting material, thereby enabling tunable white-light emission.
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Affiliation(s)
- Jake L Greenfield
- Chemistry Department, University of Cambridge, Lensfield Road, Cambridge, CB2 1EW, UK
| | - Felix J Rizzuto
- Chemistry Department, University of Cambridge, Lensfield Road, Cambridge, CB2 1EW, UK
| | - Ieva Goldberga
- Chemistry Department, University of Cambridge, Lensfield Road, Cambridge, CB2 1EW, UK
| | - Jonathan R Nitschke
- Chemistry Department, University of Cambridge, Lensfield Road, Cambridge, CB2 1EW, UK
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22
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Greenfield JL, Rizzuto FJ, Goldberga I, Nitschke JR. Self-Assembly of Conjugated Metallopolymers with Tunable Length and Controlled Regiochemistry. Angew Chem Int Ed Engl 2017. [DOI: 10.1002/ange.201702320] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/21/2023]
Affiliation(s)
- Jake L. Greenfield
- Chemistry Department; University of Cambridge; Lensfield Road Cambridge CB2 1EW UK
| | - Felix J. Rizzuto
- Chemistry Department; University of Cambridge; Lensfield Road Cambridge CB2 1EW UK
| | - Ieva Goldberga
- Chemistry Department; University of Cambridge; Lensfield Road Cambridge CB2 1EW UK
| | - Jonathan R. Nitschke
- Chemistry Department; University of Cambridge; Lensfield Road Cambridge CB2 1EW UK
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23
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Gan Q, Wang X, Kauffmann B, Rosu F, Ferrand Y, Huc I. Translation of rod-like template sequences into homochiral assemblies of stacked helical oligomers. NATURE NANOTECHNOLOGY 2017; 12:447-452. [PMID: 28288116 PMCID: PMC5420310 DOI: 10.1038/nnano.2017.15] [Citation(s) in RCA: 55] [Impact Index Per Article: 7.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/18/2016] [Accepted: 01/23/2017] [Indexed: 05/02/2023]
Abstract
At the molecular level, translation refers to the production of a new entity according to a template that has a different chemical composition. In this way, chemical information may be translated from one molecule to another. The process is useful to synthesize structures and thus functions that might be difficult to create otherwise, and it reaches exquisite levels of efficiency in biological systems, as illustrated by protein expression from mRNA templates or by the assembly of the tobacco mosaic virus capsid protein according to the length of its RNA. In synthetic systems, examples of template-directed syntheses are numerous, but general and versatile schemes in which a non-natural sequence actually encodes the information necessary to produce a different sequence are few and far from being optimized. Here we show a high-fidelity enzyme-free translation of long rod-like alkylcarbamate oligomers into well-defined sequences of stacked helical aromatic oligoamides. The features present in the rods, which include the number and distance between carbamate functions and stereogenic centres, template the self-assembly of complementary stacks of helices that each have a defined right (P) or left (M) handedness, length and single or double helicity. This process enables the production of very large (>20 kDa) abiotic artificial folded architectures (foldamers) that may, for example, serve as scaffolds to organize appended functional features at positions in space defined with atomic precision across nanometric distances.
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Affiliation(s)
- Quan Gan
- Université de Bordeaux, CNRS, IPB, CBMN – UMR 5248, Institut Européen de Chimie et Biologie, 2 rue Robert Escarpit, 33600 Pessac, France
| | - Xiang Wang
- Université de Bordeaux, CNRS, IPB, CBMN – UMR 5248, Institut Européen de Chimie et Biologie, 2 rue Robert Escarpit, 33600 Pessac, France
| | - Brice Kauffmann
- Université de Bordeaux, CNRS, INSERM, IECB – UMS3033 – US001, Institut Européen de Chimie et Biologie, 2 rue Robert Escarpit, 33600 Pessac, France
| | - Frédéric Rosu
- Université de Bordeaux, CNRS, INSERM, IECB – UMS3033 – US001, Institut Européen de Chimie et Biologie, 2 rue Robert Escarpit, 33600 Pessac, France
| | - Yann Ferrand
- Université de Bordeaux, CNRS, IPB, CBMN – UMR 5248, Institut Européen de Chimie et Biologie, 2 rue Robert Escarpit, 33600 Pessac, France
| | - Ivan Huc
- Université de Bordeaux, CNRS, IPB, CBMN – UMR 5248, Institut Européen de Chimie et Biologie, 2 rue Robert Escarpit, 33600 Pessac, France
- Correspondence and requests for materials should be addressed to I.H. ()
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24
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Kim J, Jeon HG, Kang P, Jeong KS. Stereospecific control of the helical orientation of indolocarbazole–pyridine hybrid foldamers by rational modification of terminal chiral appendages. Chem Commun (Camb) 2017; 53:6508-6511. [DOI: 10.1039/c7cc03552g] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2023]
Abstract
The helical handedness excess of an indolocarbazole–pyridine hybrid oligomer capable of folding into a stable helical structure was achieved up to 96% by rational modification of terminal chiral residues.
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Affiliation(s)
- Junyoung Kim
- Department of Chemistry
- Yonsei University
- Seoul 120-749
- Korea
| | - Hae-Geun Jeon
- Department of Chemistry
- Yonsei University
- Seoul 120-749
- Korea
| | - Philjae Kang
- Department of Chemistry
- Yonsei University
- Seoul 120-749
- Korea
| | - Kyu-Sung Jeong
- Department of Chemistry
- Yonsei University
- Seoul 120-749
- Korea
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25
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Yashima E, Ousaka N, Taura D, Shimomura K, Ikai T, Maeda K. Supramolecular Helical Systems: Helical Assemblies of Small Molecules, Foldamers, and Polymers with Chiral Amplification and Their Functions. Chem Rev 2016; 116:13752-13990. [PMID: 27754649 DOI: 10.1021/acs.chemrev.6b00354] [Citation(s) in RCA: 1198] [Impact Index Per Article: 149.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/12/2023]
Abstract
In this review, we describe the recent advances in supramolecular helical assemblies formed from chiral and achiral small molecules, oligomers (foldamers), and helical and nonhelical polymers from the viewpoints of their formations with unique chiral phenomena, such as amplification of chirality during the dynamic helically assembled processes, properties, and specific functionalities, some of which have not been observed in or achieved by biological systems. In addition, a brief historical overview of the helical assemblies of small molecules and remarkable progress in the synthesis of single-stranded and multistranded helical foldamers and polymers, their properties, structures, and functions, mainly since 2009, will also be described.
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Affiliation(s)
- Eiji Yashima
- Department of Molecular Design and Engineering, Graduate School of Engineering, Nagoya University , Chikusa-ku, Nagoya 464-8603, Japan
| | - Naoki Ousaka
- Department of Molecular Design and Engineering, Graduate School of Engineering, Nagoya University , Chikusa-ku, Nagoya 464-8603, Japan
| | - Daisuke Taura
- Department of Molecular Design and Engineering, Graduate School of Engineering, Nagoya University , Chikusa-ku, Nagoya 464-8603, Japan
| | - Kouhei Shimomura
- Department of Molecular Design and Engineering, Graduate School of Engineering, Nagoya University , Chikusa-ku, Nagoya 464-8603, Japan
| | - Tomoyuki Ikai
- Graduate School of Natural Science and Technology, Kanazawa University , Kakuma-machi, Kanazawa 920-1192, Japan
| | - Katsuhiro Maeda
- Graduate School of Natural Science and Technology, Kanazawa University , Kakuma-machi, Kanazawa 920-1192, Japan
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26
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Zhang P, Zhang L, Wang ZK, Zhang YC, Guo R, Wang H, Zhang DW, Li ZT. Guest-Induced Arylamide Polymer Helicity: Twist-Sense Bias and Solvent-Dependent Helicity Inversion. Chem Asian J 2016; 11:1725-30. [DOI: 10.1002/asia.201600289] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/05/2016] [Indexed: 01/07/2023]
Affiliation(s)
- Peng Zhang
- Department of Chemistry, Collaborative Innovation Centre of Chemistry for Energy Materials (iChEM); Fudan University; 220 Handan Road Shanghai 200433 China
| | - Liang Zhang
- Department of Chemistry, Collaborative Innovation Centre of Chemistry for Energy Materials (iChEM); Fudan University; 220 Handan Road Shanghai 200433 China
| | - Ze-Kun Wang
- Department of Chemistry, Collaborative Innovation Centre of Chemistry for Energy Materials (iChEM); Fudan University; 220 Handan Road Shanghai 200433 China
| | - Yun-Chang Zhang
- Department of Chemistry, Collaborative Innovation Centre of Chemistry for Energy Materials (iChEM); Fudan University; 220 Handan Road Shanghai 200433 China
| | - Rong Guo
- Department of Chemistry, Collaborative Innovation Centre of Chemistry for Energy Materials (iChEM); Fudan University; 220 Handan Road Shanghai 200433 China
| | - Hui Wang
- Department of Chemistry, Collaborative Innovation Centre of Chemistry for Energy Materials (iChEM); Fudan University; 220 Handan Road Shanghai 200433 China
| | - Dan-Wei Zhang
- Department of Chemistry, Collaborative Innovation Centre of Chemistry for Energy Materials (iChEM); Fudan University; 220 Handan Road Shanghai 200433 China
| | - Zhan-Ting Li
- Department of Chemistry, Collaborative Innovation Centre of Chemistry for Energy Materials (iChEM); Fudan University; 220 Handan Road Shanghai 200433 China
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27
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Kudo M, Carbajo López D, Maurizot V, Masu H, Tanatani A, Huc I. Synthesis and Conformational Analysis of Quinoline-Oxazole Peptides. European J Org Chem 2016. [DOI: 10.1002/ejoc.201600229] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
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28
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Tsiamantas C, de Hatten X, Douat C, Kauffmann B, Maurizot V, Ihara H, Takafuji M, Metzler-Nolte N, Huc I. Selective Dynamic Assembly of Disulfide Macrocyclic Helical Foldamers with Remote Communication of Handedness. Angew Chem Int Ed Engl 2016; 55:6848-52. [DOI: 10.1002/anie.201601156] [Citation(s) in RCA: 46] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/01/2016] [Indexed: 11/10/2022]
Affiliation(s)
- Christos Tsiamantas
- University of Bordeaux, CBMN (UMR 5248); Institut Européen de Chimie et Biologie; 2 rue Escarpit 33600 Pessac France
- CNRS, CBMN (UMR 5248); France
| | - Xavier de Hatten
- University of Bordeaux, CBMN (UMR 5248); Institut Européen de Chimie et Biologie; 2 rue Escarpit 33600 Pessac France
- CNRS, CBMN (UMR 5248); France
| | - Céline Douat
- University of Bordeaux, CBMN (UMR 5248); Institut Européen de Chimie et Biologie; 2 rue Escarpit 33600 Pessac France
- CNRS, CBMN (UMR 5248); France
| | - Brice Kauffmann
- University of Bordeaux; Institut Européen de Chimie et Biologie (UMS3033); 2 rue Escarpit 33600 Pessac France
- CNRS, IECB (UMS 3033); Pessac France
- INSERM, IECB (US 001); Pessac France
| | - Victor Maurizot
- University of Bordeaux, CBMN (UMR 5248); Institut Européen de Chimie et Biologie; 2 rue Escarpit 33600 Pessac France
- CNRS, CBMN (UMR 5248); France
| | - Hirotaka Ihara
- Kumamoto University; Department of Applied Chemistry and Biochemistry; 2-39-1 Kurokami Kumamoto 860-8555 Japan
| | - Makoto Takafuji
- Kumamoto University; Department of Applied Chemistry and Biochemistry; 2-39-1 Kurokami Kumamoto 860-8555 Japan
| | - Nils Metzler-Nolte
- Ruhr University Bochum; Faculty for Chemistry and Biochemistry; Universitätstrasse 150 44801 Bochum Germany
| | - 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
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29
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Tsiamantas C, de Hatten X, Douat C, Kauffmann B, Maurizot V, Ihara H, Takafuji M, Metzler-Nolte N, Huc I. Selective Dynamic Assembly of Disulfide Macrocyclic Helical Foldamers with Remote Communication of Handedness. Angew Chem Int Ed Engl 2016. [DOI: 10.1002/ange.201601156] [Citation(s) in RCA: 24] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Affiliation(s)
- Christos Tsiamantas
- University of Bordeaux, CBMN (UMR 5248); Institut Européen de Chimie et Biologie; 2 rue Escarpit 33600 Pessac France
- CNRS, CBMN (UMR 5248); France
| | - Xavier de Hatten
- University of Bordeaux, CBMN (UMR 5248); Institut Européen de Chimie et Biologie; 2 rue Escarpit 33600 Pessac France
- CNRS, CBMN (UMR 5248); France
| | - Céline Douat
- University of Bordeaux, CBMN (UMR 5248); Institut Européen de Chimie et Biologie; 2 rue Escarpit 33600 Pessac France
- CNRS, CBMN (UMR 5248); France
| | - Brice Kauffmann
- University of Bordeaux; Institut Européen de Chimie et Biologie (UMS3033); 2 rue Escarpit 33600 Pessac France
- CNRS, IECB (UMS 3033); Pessac France
- INSERM, IECB (US 001); Pessac France
| | - Victor Maurizot
- University of Bordeaux, CBMN (UMR 5248); Institut Européen de Chimie et Biologie; 2 rue Escarpit 33600 Pessac France
- CNRS, CBMN (UMR 5248); France
| | - Hirotaka Ihara
- Kumamoto University; Department of Applied Chemistry and Biochemistry; 2-39-1 Kurokami Kumamoto 860-8555 Japan
| | - Makoto Takafuji
- Kumamoto University; Department of Applied Chemistry and Biochemistry; 2-39-1 Kurokami Kumamoto 860-8555 Japan
| | - Nils Metzler-Nolte
- Ruhr University Bochum; Faculty for Chemistry and Biochemistry; Universitätstrasse 150 44801 Bochum Germany
| | - 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
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30
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Li X, Qi T, Srinivas K, Massip S, Maurizot V, Huc I. Synthesis and Multibromination of Nanosized Helical Aromatic Amide Foldamers via Segment-Doubling Condensation. Org Lett 2016; 18:1044-7. [DOI: 10.1021/acs.orglett.6b00165] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Xuesong Li
- Department
of Chemistry, University of Liège, B6a Sart-Tilman, 4000 Liège, Belgium
| | - Ting Qi
- CBMN
(UMR 5248), CNRS, 33600 Pessac, France
| | | | - Stéphane Massip
- IECB
(UMS 3033), CNRS, 33600 Pessac, France
- IECB (US001), INSERM, 33600 Pessac, France
| | | | - Ivan Huc
- CBMN
(UMR 5248), CNRS, 33600 Pessac, France
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31
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Hu X, Dawson SJ, Nagaoka Y, Tanatani A, Huc I. Solid-Phase Synthesis of Water-Soluble Helically Folded Hybrid α-Amino Acid/Quinoline Oligoamides. J Org Chem 2016; 81:1137-50. [PMID: 26703882 DOI: 10.1021/acs.joc.5b02671] [Citation(s) in RCA: 31] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
We report here a solid phase synthesis methodology that allows the incorporation of α-amino acids (X) into quinoline (Q) oligoamide foldamer sequences. Water-soluble hybrid oligoamides based on the XQ2 trimer repeat motif were shown to adopt helical conformations presenting α-amino acid side chains in a predictable linear array on one face of the helix. In contrast, sequences based on the XQ dimer motif expressed less well-defined behavior, most likely due to local conformational variability precluding long-range order. Also presented is a full structural investigation by NMR of a dodecameric XQ2-type foldamer containing four different amino acid residues (Lys, Ala, Asp, and Ser).
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Affiliation(s)
- Xiaobo Hu
- Université de Bordeaux, CBMN (UMR5248) , Institut Européen de Chimie et Biologie, 2 Rue Escarpit, 33600 Pessac, France
| | - Simon J Dawson
- CNRS, CBMN (UMR 5248) , Institut Européen de Chimie et Biologie, 2 Rue Escarpit, 33600 Pessac, France
| | - Yui Nagaoka
- Department of Chemistry, Faculty of Science, Ochanomizu University , 2-1-1 Otsuka, Bunkyo-ku, Tokyo 112-8610, Japan
| | - Aya Tanatani
- Department of Chemistry, Faculty of Science, Ochanomizu University , 2-1-1 Otsuka, Bunkyo-ku, Tokyo 112-8610, Japan
| | - Ivan Huc
- Université de Bordeaux, CBMN (UMR5248) , Institut Européen de Chimie et Biologie, 2 Rue Escarpit, 33600 Pessac, France
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32
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Suhonen A, Kortelainen M, Nauha E, Yliniemelä-Sipari S, Pihko PM, Nissinen M. Conformational properties and folding analysis of a series of seven oligoamide foldamers. CrystEngComm 2016. [DOI: 10.1039/c5ce02458g] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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33
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Dhasaiyan P, Parekh N, Vijai Kumar Reddy T, Sandhya Rani G, Prabhavathi Devi BLA, Prasad BLV. Self-assembly of isomannide-based monoesters of C 18-fatty acids and their cellular uptake studies. RSC Adv 2016. [DOI: 10.1039/c6ra05608c] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
The self-assembling behavior of oleic, elaidic and stearic acid-isomannide glycolipids is revealed.
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Affiliation(s)
- Prabhu Dhasaiyan
- Physical and Materials Chemistry Division
- CSIR-National Chemical Laboratory
- Pune – 411008
- India
- Academy of Scientific and Innovative Research (AcSIR)
| | - Nimisha Parekh
- Chemical Engineering and Process Development Division
- CSIR-National Chemical Laboratory
- Pune – 411008
- India
| | - T. Vijai Kumar Reddy
- Centre for Lipid Research
- CSIR-Indian Institute of Chemical Technology
- Hyderabad – 500007
- India
| | - G. Sandhya Rani
- Centre for Lipid Research
- CSIR-Indian Institute of Chemical Technology
- Hyderabad – 500007
- India
| | | | - B. L. V. Prasad
- Physical and Materials Chemistry Division
- CSIR-National Chemical Laboratory
- Pune – 411008
- India
- Academy of Scientific and Innovative Research (AcSIR)
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34
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Kim JS, Jeon HG, Jeong KS. Modulation of helix stability of indolocarbazole–pyridine hybrid foldamers. Chem Commun (Camb) 2016; 52:3406-9. [DOI: 10.1039/c6cc00045b] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/24/2023]
Abstract
The kinetic stabilities of the helical conformations of indolocarbazole–pyridine hybrid foldamers were modulated through single site modification.
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35
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Jeon HG, Jung JY, Kang P, Choi MG, Jeong KS. Folding-Generated Molecular Tubes Containing One-Dimensional Water Chains. J Am Chem Soc 2015; 138:92-5. [DOI: 10.1021/jacs.5b11808] [Citation(s) in RCA: 51] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/08/2023]
Affiliation(s)
- Hae-Geun Jeon
- Department of Chemistry, Yonsei University, Seoul 120-749, Korea
| | - Jin Young Jung
- Department of Chemistry, Yonsei University, Seoul 120-749, Korea
| | - Philjae Kang
- Department of Chemistry, Yonsei University, Seoul 120-749, Korea
| | - Moon-Gun Choi
- Department of Chemistry, Yonsei University, Seoul 120-749, Korea
| | - Kyu-Sung Jeong
- Department of Chemistry, Yonsei University, Seoul 120-749, Korea
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36
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Kudo M, Maurizot V, Masu H, Tanatani A, Huc I. Structural elucidation of foldamers with no long range conformational order. Chem Commun (Camb) 2015; 50:10090-3. [PMID: 25050415 DOI: 10.1039/c4cc03822c] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/12/2023]
Abstract
The synthesis and structural investigation of aromatic-aliphatic oligoamide foldamers reveals a zig-zag tape conformation with local conformational variability that precludes long range order.
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Affiliation(s)
- Mayumi Kudo
- Department of Chemistry, Faculty of Science, Ochanomizu University, 2-1-1 Otsuka, Bunkyo-ku, Tokyo 112-8610, Japan.
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37
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Kulikov OV, Siriwardane DA, Reuther JF, McCandless GT, Sun HJ, Li Y, Mahmood SF, Sheiko SS, Percec V, Novak BM. Characterization of Fibrous Aggregated Morphologies and Other Complex Architectures Self-Assembled from Helical Alkyne and Triazole Polycarbodiimides (R)- and (S)-Families in the Bulk and Thin Film. Macromolecules 2015. [DOI: 10.1021/acs.macromol.5b00407] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/28/2023]
Affiliation(s)
- Oleg V. Kulikov
- Department
of Chemistry, University of Texas at Dallas, Richardson, Texas 75080, United States
| | | | - James F. Reuther
- Department
of Chemistry, University of Texas at Austin, Austin, Texas 78712, United States
| | - Gregory T. McCandless
- Department
of Chemistry, University of Texas at Dallas, Richardson, Texas 75080, United States
| | - Hao-Jan Sun
- Department
of Chemistry, University of Pennsylvania, Philadelphia, Pennsylvania 19104, United States
| | - Yuanchao Li
- Department
of Chemistry, The University at North Carolina at Chapel Hill, Chapel Hill, North Carolina 27599, United States
| | - Samsuddin F. Mahmood
- Department
of Chemistry, University of Texas at Dallas, Richardson, Texas 75080, United States
| | - Sergei S. Sheiko
- Department
of Chemistry, The University at North Carolina at Chapel Hill, Chapel Hill, North Carolina 27599, United States
| | - Virgil Percec
- Department
of Chemistry, University of Pennsylvania, Philadelphia, Pennsylvania 19104, United States
| | - Bruce M. Novak
- Department
of Chemistry, University of Texas at Dallas, Richardson, Texas 75080, United States
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38
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Kortelainen M, Suhonen A, Hamza A, Pápai I, Nauha E, Yliniemelä-Sipari S, Nissinen M, Pihko PM. Folding Patterns in a Family of Oligoamide Foldamers. Chemistry 2015; 21:9493-504. [PMID: 25965104 DOI: 10.1002/chem.201406521] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/17/2014] [Indexed: 11/07/2022]
Abstract
A series of small, unsymmetrical pyridine-2,6-dicarboxylamide oligoamide foldamers with varying lengths and substituents at the end groups were synthetized to study their conformational properties and folding patterns. The @-type folding pattern resembled the oxyanion-hole motifs of enzymes, but several alternative folding patterns could also be characterized. Computational studies revealed several alternative conformers of nearly equal stability. These folding patterns differed from each other in their intramolecular hydrogen-bonding patterns and aryl-aryl interactions. In the solid state, the foldamers adopted either the globular @-type fold or the more extended S-type conformers, which were very similar to those foldamers obtained computationally. In some cases, the same foldamer molecule could even crystallize into two different folding patterns, thus confirming that the different folding patterns are very close in energy in spite of their completely different shapes. Finally, the best match for the observed NOE interactions in the liquid state was a conformation that matched the computationally characterized helix-type fold.
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Affiliation(s)
- Minna Kortelainen
- Department of Chemistry, Nanoscience Center, University of Jyväskylä, P.O. Box 35, 40014 JYU (Finland), Fax: (+358) 14-260-2501
| | - Aku Suhonen
- Department of Chemistry, Nanoscience Center, University of Jyväskylä, P.O. Box 35, 40014 JYU (Finland), Fax: (+358) 14-260-2501
| | - Andrea Hamza
- Institute of Organic Chemistry, Research Center for Natural Sciences, Hungarian Academy of Sciences, Magyar Tudósok Körútja 2, 1117, Budapest (Hungary)
| | - Imre Pápai
- Institute of Organic Chemistry, Research Center for Natural Sciences, Hungarian Academy of Sciences, Magyar Tudósok Körútja 2, 1117, Budapest (Hungary).
| | - Elisa Nauha
- Department of Chemistry, Nanoscience Center, University of Jyväskylä, P.O. Box 35, 40014 JYU (Finland), Fax: (+358) 14-260-2501
| | - Sanna Yliniemelä-Sipari
- Department of Chemistry, Nanoscience Center, University of Jyväskylä, P.O. Box 35, 40014 JYU (Finland), Fax: (+358) 14-260-2501
| | - Maija Nissinen
- Department of Chemistry, Nanoscience Center, University of Jyväskylä, P.O. Box 35, 40014 JYU (Finland), Fax: (+358) 14-260-2501.
| | - Petri M Pihko
- Department of Chemistry, Nanoscience Center, University of Jyväskylä, P.O. Box 35, 40014 JYU (Finland), Fax: (+358) 14-260-2501.
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39
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Nair RV, Vijayadas KN, Roy A, Sanjayan GJ. Heterogeneous Foldamers from Aliphatic-Aromatic Amino Acid Building Blocks: Current Trends and Future Prospects. European J Org Chem 2014. [DOI: 10.1002/ejoc.201402877] [Citation(s) in RCA: 32] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
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40
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Zhang DW, Zhao X, Li ZT. Aromatic amide and hydrazide foldamer-based responsive host-guest systems. Acc Chem Res 2014; 47:1961-70. [PMID: 24673152 DOI: 10.1021/ar5000242] [Citation(s) in RCA: 140] [Impact Index Per Article: 14.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/20/2023]
Abstract
CONSPECTUS: In host-guest chemistry, a larger host molecule selectively and noncovalently binds to a smaller guest molecule or ion. Early studies of host-guest chemistry focused on the recognition of spherical metal or ammonium ions by macrocyclic hosts, such as cyclic crown ethers. In these systems, preorganization enables their binding sites to cooperatively contact and attract a guest. Although some open-chain crown ether analogues possess similar, but generally lower, binding affinities, the design of acyclic molecular recognition hosts has remained challenging. One of the most successful examples was rigid molecular tweezers, acyclic covalently bonded preorganized host molecules with open cavities that bind tightly as they stiffen. Depending on the length of the atomic backbones, hydrogen bonding-driven aromatic amide foldamers can form open or closed cavities. Through rational design of the backbones and the introduction of added functional groups, researchers can regulate the shape and size of the cavity. The directionality of hydrogen bonding and the inherent rigidity of aromatic amide units allow researchers to predict both the shape and size of the cavity of an aromatic amide foldamer. Therefore, researchers can then design guest molecules with structure that matches the cavity shape, size, and binding sites of the foldamer host. In addition, because hydrogen bonds are dynamic, researchers can design structures that can adapt to outside stimuli to produce responsive supramolecular architectures. In this Account, we discuss how aromatic amide and hydrazide foldamers induced by hydrogen bonding can produce responsive host-guest systems, based on research by our group and others. First we highlight the helical chirality induced as binding occurs in solution, which includes the induction of helicity by chiral guests in oligomeric and polymeric foldamers, the formation of diastereomeric complexes between chiral foldamer hosts and guests, and the induction of helical chirality by chiral guests into inherently flexible backbones. In addition, molecular or ion-pair guests can produce supramolecular helical chirality in the organogel state. Such structures exhibit remarkable time-dependence and a "Sergeants and Soldiers" effect that are not observed for other two-component organogels that have been reported. We further illustrate that the reversible folding behavior of an aromatic amide foldamer segment can modulate the switching behavior of donor-acceptor interaction-based [2]rotaxanes. Finally we show that a folded oligomer can induce folding in one or two attached intrinsically flexible oligomers, an example of a solvent-responsive intramolecular host-guest system.
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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 Lu, Shanghai 200032, China
| | - Zhan-Ting Li
- Department
of Chemistry, Fudan University, 220 Handan Road, Shanghai 200433, China
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41
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Aminomethylenehelicene Oligomers Possessing Flexible Two-Atom Linker Form a Stimuli-Responsive Double-Helix in Solution. ASIAN J ORG CHEM 2014. [DOI: 10.1002/ajoc.201402065] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
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42
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Dhasaiyan P, Pandey PR, Visaveliya N, Roy S, Prasad BLV. Vesicle Structures from Bolaamphiphilic Biosurfactants: Experimental and Molecular Dynamics Simulation Studies on the Effect of Unsaturation on Sophorolipid Self‐Assemblies. Chemistry 2014; 20:6246-50. [DOI: 10.1002/chem.201304719] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/03/2013] [Revised: 02/26/2014] [Indexed: 01/14/2023]
Affiliation(s)
- Prabhu Dhasaiyan
- Physical and Materials Chemistry Division, CSIR—National Chemical Laboratory, Pune (411 008) India
| | - Prithvi Raj Pandey
- Physical and Materials Chemistry Division, CSIR—National Chemical Laboratory, Pune (411 008) India
| | - Nikunjkumar Visaveliya
- Physical and Materials Chemistry Division, CSIR—National Chemical Laboratory, Pune (411 008) India
| | - Sudip Roy
- Physical and Materials Chemistry Division, CSIR—National Chemical Laboratory, Pune (411 008) India
| | - B. L. V. Prasad
- Physical and Materials Chemistry Division, CSIR—National Chemical Laboratory, Pune (411 008) India
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43
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Wierzbicki M, Gilski M, Rissanen K, Jaskólski M, Szumna A. Experiences with applications of macromolecular tools in supramolecular crystallography. CrystEngComm 2014. [DOI: 10.1039/c3ce42288g] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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44
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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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45
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Li Y, Li B, Fu Y, Lin S, Yang Y. Solvent-induced handedness inversion of dipeptide sodium salts derived from alanine. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2013; 29:9721-9726. [PMID: 23915244 DOI: 10.1021/la402174w] [Citation(s) in RCA: 43] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/02/2023]
Abstract
The relationship between amino acid sequences and their resulting nanostructure has been well studied, but that between amino acid chirality and nanostructure handedness has not. Four dipeptide sodium salts with long alkyl chains derived from L- and D-alanines were synthesized. The behavior of their self-assembly into physical gels in water and THF was studied using field-emission scanning electron microscopy, circular dichroism (CD), FT-IR spectroscopy, (1)H NMR spectroscopy, and X-ray diffraction. The dipeptide salts organized into twisted nanoribbons, whose handedness was controlled by the terminal alanine chirality. The handedness of nanoribbons formed in water was opposite to that of those formed in THF. The dipeptide salts self-assembled into similar interdigitated bilayer structures in water and THF, but CD spectra of the gels indicated that the stacking of carbonyl groups was opposite. The formation of this handedness inversion is proposed to arise from the difference in interlayer distance and chiral stacking of carbonyl groups near the C-terminals.
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Affiliation(s)
- Yi Li
- Jiangsu Key Laboratory of Advanced Functional Polymer Design and Application, Department of Polymer Science and Engineering, College of Chemistry, Chemical Engineering and Materials Science, Soochow University, Suzhou 215123, PR China
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46
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Kudo M, Maurizot V, Kauffmann B, Tanatani A, Huc I. Folding of a Linear Array of α-Amino Acids within a Helical Aromatic Oligoamide Frame. J Am Chem Soc 2013; 135:9628-31. [DOI: 10.1021/ja404656z] [Citation(s) in RCA: 67] [Impact Index Per Article: 6.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
Affiliation(s)
- Mayumi Kudo
- Department of Chemistry,
Faculty
of Science, Ochanomizu University, 2-1-1
Otsuka, Bunkyo-ku, Tokyo 112-8610, Japan
- Université de Bordeaux, CBMN (UMR 5248), Institut Européen
de Chimie Biologie, 2 rue Escarpit, 33600 Pessac, France
- CNRS, CBMN
(UMR 5248), France
| | - Victor Maurizot
- Université de Bordeaux, CBMN (UMR 5248), Institut Européen
de Chimie Biologie, 2 rue Escarpit, 33600 Pessac, France
- CNRS, CBMN
(UMR 5248), France
| | - Brice Kauffmann
- Université de Bordeaux, Institut Européen de Chimie Biologie
(UMS 3033/US 001), 2 rue Escarpit, 33600 Pessac, France
- CNRS,
Institut Européen de Chimie Biologie (UMS 3033), 33600 Pessac,
France
- INSERM,
Institut Européen de Chimie Biologie (US 001), 33600 Pessac,
France
| | - Aya Tanatani
- Department of Chemistry,
Faculty
of Science, Ochanomizu University, 2-1-1
Otsuka, Bunkyo-ku, Tokyo 112-8610, Japan
| | - Ivan Huc
- Université de Bordeaux, CBMN (UMR 5248), Institut Européen
de Chimie Biologie, 2 rue Escarpit, 33600 Pessac, France
- CNRS, CBMN
(UMR 5248), France
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47
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Murphy NS, Prabhakaran P, Azzarito V, Plante JP, Hardie MJ, Kilner CA, Warriner SL, Wilson AJ. Solid-phase methodology for synthesis of O-alkylated aromatic oligoamide inhibitors of α-helix-mediated protein-protein interactions. Chemistry 2013; 19:5546-50. [PMID: 23508712 PMCID: PMC3743211 DOI: 10.1002/chem.201204098] [Citation(s) in RCA: 34] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/15/2012] [Indexed: 01/18/2023]
Abstract
Rapid access to rigid rods: A method is described for the synthesis of 3-O-alkylated aromatic oligobenzamide foldamers that could be used for assembly of libraries of α-helix mimetic inhibitors of protein-protein interactions (see scheme; Fmoc=9-fluorenylmethoxycarbonyl).
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Affiliation(s)
- Natasha S Murphy
- School of Chemistry, University of Leeds, Woodhouse Lane, Leeds, UK
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48
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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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49
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Pendem N, Nelli YR, Douat C, Fischer L, Laguerre M, Ennifar E, Kauffmann B, Guichard G. Controlling Helix Formation in the γ-Peptide Superfamily: Heterogeneous Foldamers with Urea/Amide and Urea/Carbamate Backbones. Angew Chem Int Ed Engl 2013; 52:4147-51. [DOI: 10.1002/anie.201209838] [Citation(s) in RCA: 43] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/09/2012] [Indexed: 11/08/2022]
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50
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Pendem N, Nelli YR, Douat C, Fischer L, Laguerre M, Ennifar E, Kauffmann B, Guichard G. Controlling Helix Formation in the γ-Peptide Superfamily: Heterogeneous Foldamers with Urea/Amide and Urea/Carbamate Backbones. Angew Chem Int Ed Engl 2013. [DOI: 10.1002/ange.201209838] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022]
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