101
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Two novel quadruple hydrogen-bonding motifs: the formation of supramolecular polymers, vesicles, and organogels. Tetrahedron Lett 2010. [DOI: 10.1016/j.tetlet.2009.10.115] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
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102
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Zhao Y. Spacer-Dependent Folding and Aggregation of Oligocholates in SDS Micelles. J Org Chem 2009; 74:7470-80. [DOI: 10.1021/jo901651h] [Citation(s) in RCA: 13] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Yan Zhao
- Department of Chemistry, Iowa State University, Ames, Iowa 50011-3111
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103
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Wang K, Wu YS, Wang GT, Wang RX, Jiang XK, Fu HB, Li ZT. Hydrogen bonding-mediated foldamer-bridged zinc porphyrin-C60 dyads: ideal face-to-face orientation and tunable donor–acceptor interacion. Tetrahedron 2009. [DOI: 10.1016/j.tet.2009.06.087] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
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104
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Jiang X, Lim YK, Zhang BJ, Opsitnick EA, Baik MH, Lee D. Dendritic molecular switch: chiral folding and helicity inversion. J Am Chem Soc 2009; 130:16812-22. [PMID: 19554697 DOI: 10.1021/ja806723e] [Citation(s) in RCA: 48] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/28/2023]
Abstract
Appropriately designed chemical architectures can fold to adopt well-defined secondary structures without the need for structural motifs of biological origin. We have designed tris(N-salicylideneaniline)-based hyperbranched molecules that spontaneously collapse to compact three-blade propeller geometry of either (P)- or (M)-handedness. For a homologous series of compounds, a direct correlation was established between the absolute screw sense, either (P)- or (M)-, of this helical folding and the absolute configuration, either (R)- or (S)-, of the chiral alcohol groups introducing local asymmetric bias to the conformationally restricted molecular backbone. 1H NMR and CD spectroscopic studies provided significant insights into structural folding and unfolding of these chiral molecules in solution, which proceed via reversible assembly and disassembly of the C3-symmetric hydrogen-bonding network. Notably, solvents profoundly influenced this dynamic process. A strong correlation between the solvent donor number (DN) or solvent basicity (SB) parameters and the change in the Cotton effects pointed toward specific O-H...solvent interactions that drive structural unfolding and eventual refolding to apparently opposite helicity. This unusual chirality inversion process could also be induced by installation of chemical protecting groups that simulate specific solvent-solute interactions. Removal of this covalent mimic of the solvent shell restored the original screw sense of the parent molecule, thus establishing the feasibility of covalently triggered helicity inversion as a new mode of operation for chiroptical molecular switches.
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Affiliation(s)
- Xuan Jiang
- Department of Chemistry, Indiana University, 800 East Kirkwood Avenue, Bloomington, Indiana 47405, USA
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105
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Srivastava RM, Neves Filho RAW, da Silva CA, Bortoluzzi AJ. First ultrasound-mediated one-pot synthesis of N-substituted amides. ULTRASONICS SONOCHEMISTRY 2009; 16:737-42. [PMID: 19435673 DOI: 10.1016/j.ultsonch.2009.04.006] [Citation(s) in RCA: 26] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/17/2008] [Revised: 03/17/2009] [Accepted: 04/15/2009] [Indexed: 05/17/2023]
Abstract
Ultrasound irradiation, an efficient and innocuous technique of reagent activation for synthesizing organic compounds, has been applied with success to transform seven carboxylic acids to fourteen secondary amides in good to excellent yields. The reaction has worked well either with aryl or alkyl carboxylic acids as well as with aromatic or aliphatic amines. This methodology is expeditious and reliable for preparing secondary carboxamides which in many cases are embedded in the C-5 side-chain of 1,2,4-oxadiazoles (14, 15, 17-27). The elemental analyses of new compounds (19-27) in conjunction with the spectral data of all synthesized amides gave an idea about their structures, while the crystallographic data of one of the compounds (26) supplied information concerning the configurational behavior of the amidic part and also the conformational aspect of the entire molecule in the crystalline state.
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Affiliation(s)
- Rajendra M Srivastava
- Departamento de Quimica Fundamental, Universidade Federal de Pernambuco, 50.740-540 Recife, PE, Brazil.
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106
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Xu XN, Wang L, Wang GT, Lin JB, Li GY, Jiang XK, Li ZT. Hydrogen-Bonding-Mediated Dynamic Covalent Synthesis of Macrocycles and Capsules: New Receptors for Aliphatic Ammonium Ions and the Formation of Pseudo[3]rotaxanes. Chemistry 2009; 15:5763-74. [DOI: 10.1002/chem.200900309] [Citation(s) in RCA: 52] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
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107
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Mikami K, Tanatani A, Yokoyama A, Yokozawa T. Helical Folding of Poly(naphthalenecarboxamide) Prompted by Solvophobic Effect. Macromolecules 2009. [DOI: 10.1021/ma900663q] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Koichiro Mikami
- Department of Material and Life Chemistry, Kanagawa University, Rokkakubashi, Kanagawa-ku, Yokohama 221-8686, Japan
| | - Aya Tanatani
- Department of Chemistry, Faculty of Science, Ochanomizu University, 2-1-1 Otsuka, Bunkyo-ku, Tokyo 112-8610, Japan
| | - Akihiro Yokoyama
- Department of Material and Life Chemistry, Kanagawa University, Rokkakubashi, Kanagawa-ku, Yokohama 221-8686, Japan
| | - Tsutomu Yokozawa
- Department of Material and Life Chemistry, Kanagawa University, Rokkakubashi, Kanagawa-ku, Yokohama 221-8686, Japan
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108
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Campbell F, Wilson AJ. An ‘impossible’ macrocyclisation using conformation directing protecting groups. Tetrahedron Lett 2009. [DOI: 10.1016/j.tetlet.2009.02.186] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
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109
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Yamato K, Gong B. Folding and aggregation of backbone-rigidified oligo(m-phenylene ethynylenes) in polar and nonpolar media. Supramol Chem 2009. [DOI: 10.1080/10610270802527002] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 10/21/2022]
Affiliation(s)
- Kazuhiro Yamato
- a Department of Chemistry , University at Buffalo, The State University of New York , Buffalo, NY, USA
| | - Bing Gong
- a Department of Chemistry , University at Buffalo, The State University of New York , Buffalo, NY, USA
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110
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Liu Z, Remsing RC, Liu D, Moyna G, Pophristic V. Hydrogen Bonding in ortho-Substituted Arylamides: The Influence of Protic Solvents. J Phys Chem B 2009; 113:7041-4. [DOI: 10.1021/jp902155j] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Zhiwei Liu
- Department of Chemistry & Biochemistry and Center for Drug Design and Delivery, University of the Sciences in Philadelphia, 600 South 43rd Street, Philadelphia, Pennsylvania 19104-4495, and Polymedix Inc., 170 North Radnor Chester Road Suite 300, Radnor, Pennsylvania 19087-5280
| | - Richard C. Remsing
- Department of Chemistry & Biochemistry and Center for Drug Design and Delivery, University of the Sciences in Philadelphia, 600 South 43rd Street, Philadelphia, Pennsylvania 19104-4495, and Polymedix Inc., 170 North Radnor Chester Road Suite 300, Radnor, Pennsylvania 19087-5280
| | - Dahui Liu
- Department of Chemistry & Biochemistry and Center for Drug Design and Delivery, University of the Sciences in Philadelphia, 600 South 43rd Street, Philadelphia, Pennsylvania 19104-4495, and Polymedix Inc., 170 North Radnor Chester Road Suite 300, Radnor, Pennsylvania 19087-5280
| | - Guillermo Moyna
- Department of Chemistry & Biochemistry and Center for Drug Design and Delivery, University of the Sciences in Philadelphia, 600 South 43rd Street, Philadelphia, Pennsylvania 19104-4495, and Polymedix Inc., 170 North Radnor Chester Road Suite 300, Radnor, Pennsylvania 19087-5280
| | - Vojislava Pophristic
- Department of Chemistry & Biochemistry and Center for Drug Design and Delivery, University of the Sciences in Philadelphia, 600 South 43rd Street, Philadelphia, Pennsylvania 19104-4495, and Polymedix Inc., 170 North Radnor Chester Road Suite 300, Radnor, Pennsylvania 19087-5280
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111
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Huang K, Rzayev J. Well-Defined Organic Nanotubes from Multicomponent Bottlebrush Copolymers. J Am Chem Soc 2009; 131:6880-5. [DOI: 10.1021/ja901936g] [Citation(s) in RCA: 200] [Impact Index Per Article: 13.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Kun Huang
- Department of Chemistry, University at Buffalo, The State University of New York, Buffalo, New York 14260-3000
| | - Javid Rzayev
- Department of Chemistry, University at Buffalo, The State University of New York, Buffalo, New York 14260-3000
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112
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Wolffs M, Delsuc N, Veldman D, Anh NV, Williams RM, Meskers SCJ, Janssen RAJ, Huc I, Schenning APHJ. Helical Aromatic Oligoamide Foldamers as Organizational Scaffolds for Photoinduced Charge Transfer. J Am Chem Soc 2009; 131:4819-29. [DOI: 10.1021/ja809367u] [Citation(s) in RCA: 86] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Martin Wolffs
- Laboratory of Macromolecular and Organic Chemistry, Eindhoven University of Technology, P.O. Box 513, 5600 MB Eindhoven, The Netherlands, Institut Européen de Chimie et Biologie, Université de Bordeaux, CNRS UMR5248, 2 rue Robert Escarpit, 33607 Pessac Cedex, France, and Molecular Photonics Group, Van’t Hoff Institute for Molecular Sciences, University of Amsterdam, Nieuwe Achtergracht 166, 1018 WV Amsterdam, The Netherlands
| | - Nicolas Delsuc
- Laboratory of Macromolecular and Organic Chemistry, Eindhoven University of Technology, P.O. Box 513, 5600 MB Eindhoven, The Netherlands, Institut Européen de Chimie et Biologie, Université de Bordeaux, CNRS UMR5248, 2 rue Robert Escarpit, 33607 Pessac Cedex, France, and Molecular Photonics Group, Van’t Hoff Institute for Molecular Sciences, University of Amsterdam, Nieuwe Achtergracht 166, 1018 WV Amsterdam, The Netherlands
| | - Dirk Veldman
- Laboratory of Macromolecular and Organic Chemistry, Eindhoven University of Technology, P.O. Box 513, 5600 MB Eindhoven, The Netherlands, Institut Européen de Chimie et Biologie, Université de Bordeaux, CNRS UMR5248, 2 rue Robert Escarpit, 33607 Pessac Cedex, France, and Molecular Photonics Group, Van’t Hoff Institute for Molecular Sciences, University of Amsterdam, Nieuwe Achtergracht 166, 1018 WV Amsterdam, The Netherlands
| | - Nguyễn Vân Anh
- Laboratory of Macromolecular and Organic Chemistry, Eindhoven University of Technology, P.O. Box 513, 5600 MB Eindhoven, The Netherlands, Institut Européen de Chimie et Biologie, Université de Bordeaux, CNRS UMR5248, 2 rue Robert Escarpit, 33607 Pessac Cedex, France, and Molecular Photonics Group, Van’t Hoff Institute for Molecular Sciences, University of Amsterdam, Nieuwe Achtergracht 166, 1018 WV Amsterdam, The Netherlands
| | - René M. Williams
- Laboratory of Macromolecular and Organic Chemistry, Eindhoven University of Technology, P.O. Box 513, 5600 MB Eindhoven, The Netherlands, Institut Européen de Chimie et Biologie, Université de Bordeaux, CNRS UMR5248, 2 rue Robert Escarpit, 33607 Pessac Cedex, France, and Molecular Photonics Group, Van’t Hoff Institute for Molecular Sciences, University of Amsterdam, Nieuwe Achtergracht 166, 1018 WV Amsterdam, The Netherlands
| | - Stefan C. J. Meskers
- Laboratory of Macromolecular and Organic Chemistry, Eindhoven University of Technology, P.O. Box 513, 5600 MB Eindhoven, The Netherlands, Institut Européen de Chimie et Biologie, Université de Bordeaux, CNRS UMR5248, 2 rue Robert Escarpit, 33607 Pessac Cedex, France, and Molecular Photonics Group, Van’t Hoff Institute for Molecular Sciences, University of Amsterdam, Nieuwe Achtergracht 166, 1018 WV Amsterdam, The Netherlands
| | - René A. J. Janssen
- Laboratory of Macromolecular and Organic Chemistry, Eindhoven University of Technology, P.O. Box 513, 5600 MB Eindhoven, The Netherlands, Institut Européen de Chimie et Biologie, Université de Bordeaux, CNRS UMR5248, 2 rue Robert Escarpit, 33607 Pessac Cedex, France, and Molecular Photonics Group, Van’t Hoff Institute for Molecular Sciences, University of Amsterdam, Nieuwe Achtergracht 166, 1018 WV Amsterdam, The Netherlands
| | - Ivan Huc
- Laboratory of Macromolecular and Organic Chemistry, Eindhoven University of Technology, P.O. Box 513, 5600 MB Eindhoven, The Netherlands, Institut Européen de Chimie et Biologie, Université de Bordeaux, CNRS UMR5248, 2 rue Robert Escarpit, 33607 Pessac Cedex, France, and Molecular Photonics Group, Van’t Hoff Institute for Molecular Sciences, University of Amsterdam, Nieuwe Achtergracht 166, 1018 WV Amsterdam, The Netherlands
| | - Albertus P. H. J. Schenning
- Laboratory of Macromolecular and Organic Chemistry, Eindhoven University of Technology, P.O. Box 513, 5600 MB Eindhoven, The Netherlands, Institut Européen de Chimie et Biologie, Université de Bordeaux, CNRS UMR5248, 2 rue Robert Escarpit, 33607 Pessac Cedex, France, and Molecular Photonics Group, Van’t Hoff Institute for Molecular Sciences, University of Amsterdam, Nieuwe Achtergracht 166, 1018 WV Amsterdam, The Netherlands
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113
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114
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Yan Y, Qin B, Shu Y, Chen X, Yip YK, Zhang D, Su H, Zeng H. Helical Organization in Foldable Aromatic Oligoamides by a Continuous Hydrogen-Bonding Network. Org Lett 2009; 11:1201-4. [DOI: 10.1021/ol802679p] [Citation(s) in RCA: 55] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Yan Yan
- Department of Chemistry and NUS MedChem Program of the Office of Life Sciences, National University of Singapore, 3 Science Drive 3, Singapore 117543, Division of Materials Science, Nanyang Technological University, 50 Nanyang Avenue, Singapore 639798, and Division of Chemistry and Biological Chemistry, Nanyang Technological University, 21 Nanyang Link, Singapore 637371
| | - Bo Qin
- Department of Chemistry and NUS MedChem Program of the Office of Life Sciences, National University of Singapore, 3 Science Drive 3, Singapore 117543, Division of Materials Science, Nanyang Technological University, 50 Nanyang Avenue, Singapore 639798, and Division of Chemistry and Biological Chemistry, Nanyang Technological University, 21 Nanyang Link, Singapore 637371
| | - Yingying Shu
- Department of Chemistry and NUS MedChem Program of the Office of Life Sciences, National University of Singapore, 3 Science Drive 3, Singapore 117543, Division of Materials Science, Nanyang Technological University, 50 Nanyang Avenue, Singapore 639798, and Division of Chemistry and Biological Chemistry, Nanyang Technological University, 21 Nanyang Link, Singapore 637371
| | - Xiuying Chen
- Department of Chemistry and NUS MedChem Program of the Office of Life Sciences, National University of Singapore, 3 Science Drive 3, Singapore 117543, Division of Materials Science, Nanyang Technological University, 50 Nanyang Avenue, Singapore 639798, and Division of Chemistry and Biological Chemistry, Nanyang Technological University, 21 Nanyang Link, Singapore 637371
| | - Yeow Kwan Yip
- Department of Chemistry and NUS MedChem Program of the Office of Life Sciences, National University of Singapore, 3 Science Drive 3, Singapore 117543, Division of Materials Science, Nanyang Technological University, 50 Nanyang Avenue, Singapore 639798, and Division of Chemistry and Biological Chemistry, Nanyang Technological University, 21 Nanyang Link, Singapore 637371
| | - Dawei Zhang
- Department of Chemistry and NUS MedChem Program of the Office of Life Sciences, National University of Singapore, 3 Science Drive 3, Singapore 117543, Division of Materials Science, Nanyang Technological University, 50 Nanyang Avenue, Singapore 639798, and Division of Chemistry and Biological Chemistry, Nanyang Technological University, 21 Nanyang Link, Singapore 637371
| | - Haibin Su
- Department of Chemistry and NUS MedChem Program of the Office of Life Sciences, National University of Singapore, 3 Science Drive 3, Singapore 117543, Division of Materials Science, Nanyang Technological University, 50 Nanyang Avenue, Singapore 639798, and Division of Chemistry and Biological Chemistry, Nanyang Technological University, 21 Nanyang Link, Singapore 637371
| | - Huaqiang Zeng
- Department of Chemistry and NUS MedChem Program of the Office of Life Sciences, National University of Singapore, 3 Science Drive 3, Singapore 117543, Division of Materials Science, Nanyang Technological University, 50 Nanyang Avenue, Singapore 639798, and Division of Chemistry and Biological Chemistry, Nanyang Technological University, 21 Nanyang Link, Singapore 637371
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115
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Zhu YY, Jiang L, Li ZT. Intramolecular six-membered N–H⋯Br and N–H⋯I hydrogen bonding in aromatic amides in the absence of competing interactions. CrystEngComm 2009. [DOI: 10.1039/b814859g] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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116
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Xu XN, Wang L, Li ZT. Reverse vesicles formed by hydrogen bonded arylamide-derived triammonium cyclophanes and hexaammonium capsule. Chem Commun (Camb) 2009:6634-6. [DOI: 10.1039/b914030a] [Citation(s) in RCA: 38] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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117
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Zhu YY, Wang GT, Li ZT. A click chemistry approach for the synthesis of macrocycles from aryl amide-based precursors directed by hydrogen bonding. Org Biomol Chem 2009; 7:3243-50. [DOI: 10.1039/b907457k] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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118
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119
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Intramolecular N–H···O and N–H···N hydrogen bonding patterns in N-benzyl and N-(pyridin-2-ylmethyl) benzamides. Tetrahedron Lett 2009. [DOI: 10.1016/j.tetlet.2008.11.001] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
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120
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LIN J, WU J, JIANG X, LI Z. Dynamic Covalent Self-Assembly of Mono-, Bi- and Trimacrocycles from Hydrogen Bonded Preorganized Templates. CHINESE J CHEM 2009. [DOI: 10.1002/cjoc.200990002] [Citation(s) in RCA: 14] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
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121
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Complexation of two non-fully hydrogen bonded aromatic hydrazide heptamers toward n-octyl-α-L-glucopyranoside in chloroform. ACTA ACUST UNITED AC 2008. [DOI: 10.1007/s11426-008-0142-0] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/21/2022]
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122
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Pan X, Zhao Y. Efficient Construction of Oligocholate Foldamers via “Click” Chemistry and Their Tolerance of Structural Heterogeneity. Org Lett 2008; 11:69-72. [DOI: 10.1021/ol802364c] [Citation(s) in RCA: 15] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Xingang Pan
- Department of Chemistry, Iowa State University, Ames, Iowa 50011-3111
| | - Yan Zhao
- Department of Chemistry, Iowa State University, Ames, Iowa 50011-3111
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123
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Kim UI, Suk JM, Naidu V, Jeong KS. Folding and Anion-Binding Properties of Fluorescent Oligoindole Foldamers. Chemistry 2008; 14:11406-14. [DOI: 10.1002/chem.200801713] [Citation(s) in RCA: 75] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
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124
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Delsuc N, Kawanami T, Lefeuvre J, Shundo A, Ihara H, Takafuji M, Huc I. Kinetics of helix-handedness inversion: folding and unfolding in aromatic amide oligomers. Chemphyschem 2008; 9:1882-90. [PMID: 18726966 DOI: 10.1002/cphc.200800310] [Citation(s) in RCA: 73] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
Abstract
A series of helically folded oligoamides of 8-amino-2-quinoline carboxylic acid possessing 6, 7, 8, 9, 10 or 16 units are prepared following convergent synthetic schemes. The right-handed (P) and the left-handed (M) helical conformers of these oligomers undergo an exchange slow enough to allow their chromatographic separation on a chiral stationary phase. Thus, the M conformer is isolated for each of these oligomers and its slow racemization in hexane/CHCl(3) solutions is monitored at various temperatures using chiral HPLC. The kinetics of racemization at different temperatures in hexane/CHCl(3) (75:25 vol/vol) are fitted to a first order kinetic model to yield the kinetic constant and the Gibbs energy of activation for oligomers having 6, 7, 8, 9, 10 or 16 quinoline units. This energy gives the first quantitative measure of the exceptional stability of the helical conformers of an aromatic amide foldamer with respect to its partly unfolded conformations that occur between an M helix and a P helix. The trend of the Gibbs energy as a function of oligomer length suggests that helix-handedness inversion does not require a complete unfolding of a helical strand and may instead occur through the propagation of a local unfolding separating two segments of opposite handedness.
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Affiliation(s)
- Nicolas Delsuc
- Institut Européen de Chimie et Biologie, Université de Bordeaux - CNRS UMR 5248, 2 rue Escarpit, 33607 Pessac, France
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125
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Lin JB, Xu XN, Jiang XK, Li ZT. Hydrogen Bonding-Directed Multicomponent Dynamic Covalent Assembly of Mono- and Bimacrocycles. Self-Sorting and Macrocycle Exchange. J Org Chem 2008; 73:9403-10. [DOI: 10.1021/jo801972s] [Citation(s) in RCA: 55] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Jian-Bin Lin
- State Key Laboratory of Bio-Organic and Natural Products Chemistry, Shanghai Institute of Organic Chemistry, Chinese Academy of Sciences, Shanghai 200032, China
| | - Xiao-Na Xu
- State Key Laboratory of Bio-Organic and Natural Products Chemistry, Shanghai Institute of Organic Chemistry, Chinese Academy of Sciences, Shanghai 200032, China
| | - Xi-Kui Jiang
- State Key Laboratory of Bio-Organic and Natural Products Chemistry, Shanghai Institute of Organic Chemistry, Chinese Academy of Sciences, Shanghai 200032, China
| | - Zhan-Ting Li
- State Key Laboratory of Bio-Organic and Natural Products Chemistry, Shanghai Institute of Organic Chemistry, Chinese Academy of Sciences, Shanghai 200032, China
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126
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Naidu VR, Kim MC, Suk JM, Kim HJ, Lee M, Sim E, Jeong KS. Biased Helical Folding of Chiral Oligoindole Foldamers. Org Lett 2008; 10:5373-6. [DOI: 10.1021/ol8022243] [Citation(s) in RCA: 63] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
| | - Min Cheol Kim
- Department of Chemistry, Yonsei University, Seoul-120-749 Korea
| | - Jae-min Suk
- Department of Chemistry, Yonsei University, Seoul-120-749 Korea
| | - Ho-Joong Kim
- Department of Chemistry, Yonsei University, Seoul-120-749 Korea
| | - Myongsoo Lee
- Department of Chemistry, Yonsei University, Seoul-120-749 Korea
| | - Eunji Sim
- 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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127
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Qin B, Chen X, Fang X, Shu Y, Yip YK, Yan Y, Pan S, Ong WQ, Ren C, Su H, Zeng H. Crystallographic Evidence of an Unusual, Pentagon-Shaped Folding Pattern in a Circular Aromatic Pentamer. Org Lett 2008; 10:5127-30. [DOI: 10.1021/ol801980h] [Citation(s) in RCA: 71] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Bo Qin
- Department of Chemistry and NUS MedChem Program of the Office of Life Sciences, 3 Science Drive 3, National University of Singapore, Singapore 117543, Singapore, and Division of Materials Science, 50 Nanyang Avenue, Nanyang Technological University, Singapore 639798, Singapore
| | - Xiuying Chen
- Department of Chemistry and NUS MedChem Program of the Office of Life Sciences, 3 Science Drive 3, National University of Singapore, Singapore 117543, Singapore, and Division of Materials Science, 50 Nanyang Avenue, Nanyang Technological University, Singapore 639798, Singapore
| | - Xiao Fang
- Department of Chemistry and NUS MedChem Program of the Office of Life Sciences, 3 Science Drive 3, National University of Singapore, Singapore 117543, Singapore, and Division of Materials Science, 50 Nanyang Avenue, Nanyang Technological University, Singapore 639798, Singapore
| | - Yingying Shu
- Department of Chemistry and NUS MedChem Program of the Office of Life Sciences, 3 Science Drive 3, National University of Singapore, Singapore 117543, Singapore, and Division of Materials Science, 50 Nanyang Avenue, Nanyang Technological University, Singapore 639798, Singapore
| | - Yeow Kwan Yip
- Department of Chemistry and NUS MedChem Program of the Office of Life Sciences, 3 Science Drive 3, National University of Singapore, Singapore 117543, Singapore, and Division of Materials Science, 50 Nanyang Avenue, Nanyang Technological University, Singapore 639798, Singapore
| | - Yan Yan
- Department of Chemistry and NUS MedChem Program of the Office of Life Sciences, 3 Science Drive 3, National University of Singapore, Singapore 117543, Singapore, and Division of Materials Science, 50 Nanyang Avenue, Nanyang Technological University, Singapore 639798, Singapore
| | - Siyan Pan
- Department of Chemistry and NUS MedChem Program of the Office of Life Sciences, 3 Science Drive 3, National University of Singapore, Singapore 117543, Singapore, and Division of Materials Science, 50 Nanyang Avenue, Nanyang Technological University, Singapore 639798, Singapore
| | - Wei Qiang Ong
- Department of Chemistry and NUS MedChem Program of the Office of Life Sciences, 3 Science Drive 3, National University of Singapore, Singapore 117543, Singapore, and Division of Materials Science, 50 Nanyang Avenue, Nanyang Technological University, Singapore 639798, Singapore
| | - Changliang Ren
- Department of Chemistry and NUS MedChem Program of the Office of Life Sciences, 3 Science Drive 3, National University of Singapore, Singapore 117543, Singapore, and Division of Materials Science, 50 Nanyang Avenue, Nanyang Technological University, Singapore 639798, Singapore
| | - Haibin Su
- Department of Chemistry and NUS MedChem Program of the Office of Life Sciences, 3 Science Drive 3, National University of Singapore, Singapore 117543, Singapore, and Division of Materials Science, 50 Nanyang Avenue, Nanyang Technological University, Singapore 639798, Singapore
| | - Huaqiang Zeng
- Department of Chemistry and NUS MedChem Program of the Office of Life Sciences, 3 Science Drive 3, National University of Singapore, Singapore 117543, Singapore, and Division of Materials Science, 50 Nanyang Avenue, Nanyang Technological University, Singapore 639798, Singapore
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Peterca M, Percec V, Imam MR, Leowanawat P, Morimitsu K, Heiney PA. Molecular Structure of Helical Supramolecular Dendrimers. J Am Chem Soc 2008; 130:14840-52. [DOI: 10.1021/ja806524m] [Citation(s) in RCA: 114] [Impact Index Per Article: 7.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Mihai Peterca
- Roy and Diana Vagelos Laboratories, Department of Chemistry, University of Pennsylvania, Philadelphia, Pennsylvania 19104-6323, and Department of Physics and Astronomy, University of Pennsylvania, Philadelphia, Pennsylvania 19104-6396
| | - Virgil Percec
- Roy and Diana Vagelos Laboratories, Department of Chemistry, University of Pennsylvania, Philadelphia, Pennsylvania 19104-6323, and Department of Physics and Astronomy, University of Pennsylvania, Philadelphia, Pennsylvania 19104-6396
| | - Mohammad R. Imam
- Roy and Diana Vagelos Laboratories, Department of Chemistry, University of Pennsylvania, Philadelphia, Pennsylvania 19104-6323, and Department of Physics and Astronomy, University of Pennsylvania, Philadelphia, Pennsylvania 19104-6396
| | - Pawaret Leowanawat
- Roy and Diana Vagelos Laboratories, Department of Chemistry, University of Pennsylvania, Philadelphia, Pennsylvania 19104-6323, and Department of Physics and Astronomy, University of Pennsylvania, Philadelphia, Pennsylvania 19104-6396
| | - Kentaro Morimitsu
- Roy and Diana Vagelos Laboratories, Department of Chemistry, University of Pennsylvania, Philadelphia, Pennsylvania 19104-6323, and Department of Physics and Astronomy, University of Pennsylvania, Philadelphia, Pennsylvania 19104-6396
| | - Paul A. Heiney
- Roy and Diana Vagelos Laboratories, Department of Chemistry, University of Pennsylvania, Philadelphia, Pennsylvania 19104-6323, and Department of Physics and Astronomy, University of Pennsylvania, Philadelphia, Pennsylvania 19104-6396
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129
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Delsuc N, Hutin M, Campbell VE, Kauffmann B, Nitschke JR, Huc I. Metal-directed dynamic formation of tertiary structure in foldamer assemblies: orienting helices at an angle. Chemistry 2008; 14:7140-3. [PMID: 18604861 DOI: 10.1002/chem.200800988] [Citation(s) in RCA: 32] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Affiliation(s)
- Nicolas Delsuc
- Institut Européen de Chimie et Biologie, Université de Bordeaux-CNRS UMR5248 and UMS3033, 2 rue Robert Escarpit, Pessac, France
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130
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Li ZT, Hou JL, Li C. Peptide mimics by linear arylamides: a structural and functional diversity test. Acc Chem Res 2008; 41:1343-53. [PMID: 18361513 DOI: 10.1021/ar700219m] [Citation(s) in RCA: 162] [Impact Index Per Article: 10.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Hydrogen-bonded oligoamide foldamers represent a large family of peptide mimics. Pioneered by Gellman and Seebach (Appella , J. Am. Chem. Soc. 1996, 118, 13071- 13072; Seebach , Helv. Chim. Acta 1996, 79, 913- 941), aliphatic amino acid-based mimic structures have been extensively studied. Results of these studies have found many useful applications in areas including chemical biology and drug design. This Account describes our efforts in creating arylamide-based foldamers whose compact conformations are stabilized by hydrogen bonding. The aim of our study was to test whether this class of mimic structures is sufficiently rigid to lead to new interesting functions. It was envisioned that, if our approach was workable, it might be developed into a new family of useful soft frameworks for studies toward molecular recognition, self-assembly, and materials science. Three classes of mimic structures, that is, folded or helical, zigzag, and straight oligomers, have been constructed by simply changing the positions of the substituents at the benzene rings in the backbones. Both amide and hydrazide units have been employed to construct the frameworks. In most cases, O...H-N hydrogen bonding was chosen to stabilize the compact conformations. Notably, for the first time the F...H-N hydrogen-bonding pattern has been used to tune the size of the cavity. To test their usefulness, these frameworks have been extensively modified and functionalized. (1)H NMR, UV-vis, fluorescence, circular dichroism, and X-ray diffraction techniques have all been employed to establish the compact structures and their interactions with guest molecules. The properties or functions of the mimic structures have been studied in seven aspects. (1) Acyclic molecular receptors: The amide foldamers can bind amine cations, while the hydrazide foldamers can complex saccharides. (2) Acceleration of anisole hydrolysis: Several folded oligomers are able to bind alkali metal cations and consequently promote the hydrolysis of the nitro-substituted anisole by alkali hydroxides. (3) Facilitation of macrocyclization: The straight and zigzag backbones can be readily functionalized, from which two classes of macrocycles have been prepared. (4) Homoduplex assembly: Zigzag oligomers that are appended with amide units at one side can form stable homoduplexes through the cooperative self-binding of the amide units. (5) Assembly of molecular tweezers: Discrete binding moieties are introduced at the ends of the oligomers, which can bind structurally matched guests. (6) Assembly of nano networks: F...H-N hydrogen-bonded foldamers can stack with fullerenes; thus a mixture of fullerenes with a trifoldamer generates honeycomb-styled nanoarchitectures. (7) Assembly of dynamic [2]catenanes: A preorganized porphyrin tweezer has been synthesized, from which dynamic three-component [2]catenanes have been assembled in high yields. Our results demonstrate that hydrogen-bonding-driven arylamide oligomers are a class of structurally unique mimic structures. The folded oligomers themselves can be used as synthetic receptors for binding different guest molecules, while incorporation of different segments into one system can produce many desired shapes. In addition, all of the rigid frameworks can be readily functionalized at specific sites. We believe that our results have helped to open the door for some new chemistry in molecular recognition, self-assembly, and other related areas.
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Affiliation(s)
- Zhan-Ting Li
- State Key Laboratory of Bio-Organic and Natural Products Chemistry, Shanghai Institute of Organic Chemistry, Chinese Academy of Sciences, 354 Fenglin Lu, Shanghai 200032, China
| | - Jun-Li Hou
- State Key Laboratory of Bio-Organic and Natural Products Chemistry, Shanghai Institute of Organic Chemistry, Chinese Academy of Sciences, 354 Fenglin Lu, Shanghai 200032, China
| | - Chuang Li
- State Key Laboratory of Bio-Organic and Natural Products Chemistry, Shanghai Institute of Organic Chemistry, Chinese Academy of Sciences, 354 Fenglin Lu, Shanghai 200032, China
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131
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Abstract
The functions performed by proteins and nucleic acids provide the foundation for life. Chemists have recently begun to ask whether it is possible to design synthetic oligomers that approach the structural and functional complexities of these biopolymers. The study of foldamers, non-natural oligomers displaying discrete folding propensities, has demonstrated that there are several synthetic backbones that exhibit biopolymer-like conformational behavior. Early work in this area focused on oligomers comprised of a single type of monomer subunit, but recent efforts have highlighted the potential of mixed or "heterogeneous" backbones to expand the structural and functional repertoire of foldamers. In this Account, we illustrate the promise of heterogeneous backbone foldamers by focusing on examples containing both alpha- and beta-amino acid residues. Some beta-residues bear protein-like side chains, while others have cyclic structures that confer conformational rigidity. The study of heterogeneous backbone foldamers has several advantages over that of their homogeneous backbone counterparts, including access to many new molecular shapes based on variations in the stoichiometries and patterns of the subunit combinations and improved prospects for side chain diversification. Recent efforts to develop alpha/beta-peptide foldamers can be divided into two conceptually distinct classes. The first includes entities prepared using a "block" strategy, in which alpha-peptide segments and beta-peptide segments are combined to form a hybrid oligomer. The second class encompasses designs in which alpha- and beta-amino acid monomers are interspersed in a regular pattern throughout an oligomer sequence. One alpha/beta-peptide helical secondary structure, containing C=O(i)...H-N(i+4) H-bonds analogous to those in the alpha-helix, has been shown via crystallography to form helix bundle quaternary structures. Desirable biological functions have been elicited from alpha/beta-peptide foldamers. Efforts to mimic naturally occurring host-defense alpha-peptides have yielded new antimicrobial agents and have led to a reexamination of the long-held views regarding structure-activity relationships among these alpha-peptides and their analogues. Foldamers offer new platforms for mimicry of the molecular surfaces involved in specific protein-protein recognition events; recent achievements in the preparation of alpha/beta-peptide inhibitors of the protein-protein interactions involved in apoptotic signaling (e.g., between Bcl-xL and pro-apoptotic partners) have revealed the benefits of employing heterogeneous backbones relative to homogeneous backbones for foldamer-based designs. These initial successes in the development of alpha/beta-peptides exhibiting specific biological activities highlight the potential of heterogeneous backbone foldamers for use in biomedical applications and provide guidelines for future studies into new target functions.
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Affiliation(s)
- W. Seth Horne
- Department of Chemistry, University of Wisconsin, Madison, Wisconsin 53706
| | - Samuel H. Gellman
- Department of Chemistry, University of Wisconsin, Madison, Wisconsin 53706
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132
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Zhang Y, Yamato K, Zhong K, Zhu J, Deng J, Gong B. Aggregation and Columnar Assembly of Crescent Oligoamides. Org Lett 2008; 10:4339-42. [DOI: 10.1021/ol801410f] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Yunfeng Zhang
- Chengdu Institute of Organic Chemistry, Chinese Academy of Sciences, Chengdu, 610041, China, and Department of Chemistry, University at Buffalo, The State University of New York, Buffalo, New York 14260
| | - Kazuhiro Yamato
- Chengdu Institute of Organic Chemistry, Chinese Academy of Sciences, Chengdu, 610041, China, and Department of Chemistry, University at Buffalo, The State University of New York, Buffalo, New York 14260
| | - Kai Zhong
- Chengdu Institute of Organic Chemistry, Chinese Academy of Sciences, Chengdu, 610041, China, and Department of Chemistry, University at Buffalo, The State University of New York, Buffalo, New York 14260
| | - Jin Zhu
- Chengdu Institute of Organic Chemistry, Chinese Academy of Sciences, Chengdu, 610041, China, and Department of Chemistry, University at Buffalo, The State University of New York, Buffalo, New York 14260
| | - Jingen Deng
- Chengdu Institute of Organic Chemistry, Chinese Academy of Sciences, Chengdu, 610041, China, and Department of Chemistry, University at Buffalo, The State University of New York, Buffalo, New York 14260
| | - Bing Gong
- Chengdu Institute of Organic Chemistry, Chinese Academy of Sciences, Chengdu, 610041, China, and Department of Chemistry, University at Buffalo, The State University of New York, Buffalo, New York 14260
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133
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Takagi K, Sugihara K, Ohta J, Yuki Y, Matsuoka SI, Suzuki M. Conjugated Oligomers Containing Imidazole in Main Chain with Intramolecular Hydrogen Bonding. Polym J 2008. [DOI: 10.1295/polymj.pj2008045] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
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134
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Bao C, Kauffmann B, Gan Q, Srinivas K, Jiang H, Huc I. Converting Sequences of Aromatic Amino Acid Monomers into Functional Three-Dimensional Structures: Second-Generation Helical Capsules. Angew Chem Int Ed Engl 2008. [DOI: 10.1002/ange.200800625] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
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135
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Bao C, Kauffmann B, Gan Q, Srinivas K, Jiang H, Huc I. Converting Sequences of Aromatic Amino Acid Monomers into Functional Three-Dimensional Structures: Second-Generation Helical Capsules. Angew Chem Int Ed Engl 2008; 47:4153-6. [DOI: 10.1002/anie.200800625] [Citation(s) in RCA: 76] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
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136
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Cai W, Wang GT, Xu YX, Jiang XK, Li ZT. Vesicles and Organogels from Foldamers: A Solvent-Modulated Self-Assembling Process. J Am Chem Soc 2008; 130:6936-7. [DOI: 10.1021/ja801618p] [Citation(s) in RCA: 154] [Impact Index Per Article: 9.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Wei Cai
- State Key Laboratory of Bioorganic and Natural Products Chemistry, Shanghai Institute of Organic Chemistry, Chinese Academy of Sciences, 354 Fenglin Lu, Shanghai 200032, China
| | - Gui-Tao Wang
- State Key Laboratory of Bioorganic and Natural Products Chemistry, Shanghai Institute of Organic Chemistry, Chinese Academy of Sciences, 354 Fenglin Lu, Shanghai 200032, China
| | - Yun-Xiang Xu
- State Key Laboratory of Bioorganic and Natural Products Chemistry, Shanghai Institute of Organic Chemistry, Chinese Academy of Sciences, 354 Fenglin Lu, Shanghai 200032, China
| | - Xi-Kui Jiang
- State Key Laboratory of Bioorganic and Natural Products Chemistry, Shanghai Institute of Organic Chemistry, Chinese Academy of Sciences, 354 Fenglin Lu, Shanghai 200032, China
| | - Zhan-Ting Li
- State Key Laboratory of Bioorganic and Natural Products Chemistry, Shanghai Institute of Organic Chemistry, Chinese Academy of Sciences, 354 Fenglin Lu, Shanghai 200032, China
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137
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Gan Q, Bao C, Kauffmann B, Grélard A, Xiang J, Liu S, Huc I, Jiang H. Quadruple and Double Helices of 8-Fluoroquinoline Oligoamides. Angew Chem Int Ed Engl 2008; 47:1715-8. [DOI: 10.1002/anie.200704938] [Citation(s) in RCA: 122] [Impact Index Per Article: 7.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
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138
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Gan Q, Bao C, Kauffmann B, Grélard A, Xiang J, Liu S, Huc I, Jiang H. Quadruple and Double Helices of 8-Fluoroquinoline Oligoamides. Angew Chem Int Ed Engl 2008. [DOI: 10.1002/ange.200704938] [Citation(s) in RCA: 41] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
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139
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Kohmoto S, Takeichi H, Kishikawa K, Masu H, Azumaya I. Conformation of S-shaped aromatic imide foldamers and their induced circular dichroism. Tetrahedron Lett 2008. [DOI: 10.1016/j.tetlet.2007.12.034] [Citation(s) in RCA: 15] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/22/2022]
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140
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Zhu YY, Li C, Li GY, Jiang XK, Li ZT. Hydrogen-Bonded Aryl Amide Macrocycles: Synthesis, Single-Crystal Structures, and Stacking Interactions with Fullerenes and Coronene. J Org Chem 2008; 73:1745-51. [DOI: 10.1021/jo702046f] [Citation(s) in RCA: 70] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Yuan-Yuan Zhu
- State Key Laboratory of Bio-Organic and Natural Products Chemistry, Shanghai Institute of Organic Chemistry, Chinese Academy of Sciences, 354 Fenglin Lu, Shanghai 200032, China
| | - Chuang Li
- State Key Laboratory of Bio-Organic and Natural Products Chemistry, Shanghai Institute of Organic Chemistry, Chinese Academy of Sciences, 354 Fenglin Lu, Shanghai 200032, China
| | - Guang-Yu Li
- State Key Laboratory of Bio-Organic and Natural Products Chemistry, Shanghai Institute of Organic Chemistry, Chinese Academy of Sciences, 354 Fenglin Lu, Shanghai 200032, China
| | - Xi-Kui Jiang
- State Key Laboratory of Bio-Organic and Natural Products Chemistry, Shanghai Institute of Organic Chemistry, Chinese Academy of Sciences, 354 Fenglin Lu, Shanghai 200032, China
| | - Zhan-Ting Li
- State Key Laboratory of Bio-Organic and Natural Products Chemistry, Shanghai Institute of Organic Chemistry, Chinese Academy of Sciences, 354 Fenglin Lu, Shanghai 200032, China
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141
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Abstract
Three aromatic oligoamides have been prepared that have alternating 1,6-diaminopyridine and 1,6-pyridinedicarboxylic acid units at the center of the sequence and two 8-amino-2-quinolinecarboxylic acid units at each extremity. The three oligomers differ in the number--3, 5, or 7-of pyridine units in the sequence. They were designed to adopt helically folded conformations in solution and in the solid state. The sequence of monomers was chosen so that the diameter of the helix is larger in the center than at each extremity, and hence they resemble helically wrapped apple peels. According to modeling studies, the pyridine units were expected to define a polar hollow within the helix that is large enough to accommodate small polar guests, whereas the quinoline units at each end of the oligomeric sequences were expected to completely cap the hollow and transform the helix cavities into a closed shell that may act as a capsule. Crystallographic studies demonstrate that the oligomers do fold into helices that define a cavity isolated from the surrounding medium in the solid state. Depending on the number of pyridine rings, one or two water molecules are bound within the capsules. The crystal structure of a capsule fragment shows that MeOH can also be hosted by the largest oligomer. Solution NMR studies confirm that binding of water also occurs in solution with the same stoichiometry as observed in the solid state. The capsules have distinct signals depending on whether they are empty, half-full, or full, and these species are in slow exchange on the NMR timescale at low temperature. Indeed, the binding and release of water molecules requires a significant conformational distortion of the helix that slows down these processes. The addition of small polar molecules such as methanol, hydrazine, hydrogen peroxide, or formic acid to the largest capsule leads to the observation of new sets of NMR signals of the capsules that were assigned to complexes with these guests. However, water appears to be the preferred guest.
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Affiliation(s)
- Joachim Garric
- Université Bordeaux 1 - ENITAB - CNRS UMR5248, Institut Européen, de Chimie et Biologie, 2 rue Robert Escarpit, 33607 Pessac, France
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142
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Plante J, Campbell F, Malkova B, Kilner C, Warriner SL, Wilson AJ. Synthesis of functionalised aromatic oligamide rods. Org Biomol Chem 2008; 6:138-46. [PMID: 18075658 PMCID: PMC2679363 DOI: 10.1039/b712606a] [Citation(s) in RCA: 52] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/22/2023]
Abstract
A current goal in synthetic chemistry is the design and synthesis of molecules that adopt well defined conformations-so called foldamers. In this manuscript we describe a modular approach for construction of rod shaped para-oligobenzamide molecules. Our approach permits regiospecific incorporation of side chains through a phenolic ether linkage on the scaffold; a feature that partly restricts the conformation of the rod through intramolecular hydrogen-bonding.
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Affiliation(s)
- Jeffrey Plante
- School of Chemistry, University of Leeds, Woodhouse Lane, Leeds, LS29JT, United Kingdom.
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143
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144
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Berni E, Garric J, Lamit C, Kauffmann B, Léger JM, Huc I. Interpenetrating single helical capsules. Chem Commun (Camb) 2008:1968-70. [DOI: 10.1039/b719712h] [Citation(s) in RCA: 32] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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145
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Affiliation(s)
- Romuald Poteau
- Laboratoire de Physique et Chimie des Nano-Objets (UMR5215, CNRS-UPS-INSA), IRSAMC, Institut National des Sciences Appliquées, 31077 Toulouse Cedex 4, France
| | - Georges Trinquier
- Laboratoire de Physique et Chimie des Nano-Objets (UMR5215, CNRS-UPS-INSA), IRSAMC, Institut National des Sciences Appliquées, 31077 Toulouse Cedex 4, France
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146
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Li C, Zhu YY, Yi HP, Li CZ, Jiang XK, Li ZT, Yu YH. Strong Stacking between F⋅⋅⋅HN Hydrogen-Bonded Foldamers and Fullerenes: Formation of Supramolecular Nano Networks. Chemistry 2007; 13:9990-8. [PMID: 17886850 DOI: 10.1002/chem.200701047] [Citation(s) in RCA: 40] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Abstract
The stacking interactions between FH--N hydrogen-bonded foldamers 1-3, bis-foldamer 4, and tris-foldamer 5 and C(60) and C(70) are described. Compound 4 contains two folded units, which are connected by an isophthalamide linker, whereas 5 has a C(3)-symmetrical discotic structure, in which three folded units are connected by a benzene-1,3,5-tricarboxamide unit. UV/Vis, fluorescence, and NMR experiments have revealed that the foldamers or folded units strongly stack with fullerenes in chloroform. The (apparent) association constants of the respective complexes have been determined by a fluorescence titration method. The strong association is tentatively attributed to intermolecular cooperative fluorophenylpi and solvophobic interactions. A similar but weaker interaction has also been observed between an MeOH--N hydrogen-bonded foldamer and fullerenes. AFM studies have revealed that the surfaces of 3 and 4 show fibrous networks, while the surface of 5 shows particles. In sharp contrast, mixtures of 3 and 4 with C(60) have been shown to generate thinner separated fibrils, whereas a mixture of 5 and C(60) produces honeycomb-like nano networks, for which a columnar cooperative stacking pattern is proposed. The results demonstrate the usefulness of FH--N hydrogen-bonded folded structures in the construction of nanoscaled materials.
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Affiliation(s)
- Chuang Li
- State Key Laboratory of Bio-Organic and Natural Products Chemistry, Shanghai Institute of Organic Chemistry, Chinese Academy of Sciences, 354 Fenglin Lu, Shanghai, China
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147
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Garner J, Harding MM. Design and synthesis of alpha-helical peptides and mimetics. Org Biomol Chem 2007; 5:3577-85. [PMID: 17971985 DOI: 10.1039/b710425a] [Citation(s) in RCA: 113] [Impact Index Per Article: 6.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Abstract
The alpha-helix is the most abundant secondary structural element in proteins and is an important structural domain for mediating protein-protein and protein-nucleic acid interactions. Strategies for the rational design and synthesis of alpha-helix mimetics have not matured as well as other secondary structure mimetics such as strands and turns. This perspective will focus on developments in the design, synthesis and applications of alpha-helices and mimetics, particularly in the last 5 years. Examples where synthetic compounds have delivered promising biological results will be highlighted as well as opportunities for the design of mimetics of the type I alpha-helical antifreeze proteins.
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Affiliation(s)
- James Garner
- School of Chemistry, The University of New South Wales, Sydney, NSW 2052, Australia
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148
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Hydrogen bonding-driven elastic bis(zinc)porphyrin receptors for neutral and cationic electron-deficient guests with a sandwich-styled complexing pattern. Tetrahedron Lett 2007. [DOI: 10.1016/j.tetlet.2007.06.161] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
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149
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Zhang A, Ferguson JS, Yamato K, Zheng C, Gong B. Improving foldamer synthesis through protecting group induced unfolding of aromatic oligoamides. Org Lett 2007; 8:5117-20. [PMID: 17048857 DOI: 10.1021/ol062103d] [Citation(s) in RCA: 36] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
The hydrogen bond rigidified backbones of aromatic oligoamides are temporarily interrupted by replacing the amide hydrogens with the acid-labile 2,4-dimethoxybenzyl (DMB) group, which allows the efficient preparation of long folding oligomers that, upon removal of the DMB groups, fold into multiturn helices. [structure: see text]
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Affiliation(s)
- Aimin Zhang
- Department of Chemistry, University at Buffalo, The State University of New York, Buffalo, NY 14260, USA
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150
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Vemparala S, Ivanov I, Pophristic V, Spiegel K, Klein ML. Ab initio calculations of intramolecular parameters for a class of arylamide polymers. J Comput Chem 2007; 27:693-700. [PMID: 16634095 DOI: 10.1002/jcc.20382] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
Abstract
Using DFT methods, we have determined intramolecular parameters for an important class of arylamide polymers displaying antimicrobial and anticoagulant inhibitory properties. A strong link has been established between these functions and the conformation that the polymers adopt in solution and at lipid bilayer interfaces. Thus, it is imperative for molecular dynamics simulations designed to probe the conformational behavior of these systems to accurately describe the torsional degrees of freedom. Standard force fields were shown to be deficient in this respect. Therefore, we have computed the relevant torsional energy profiles using a series of constrained geometry optimizations. We have also determined electrostatic parameters using our results in combination with standard RESP charge optimization. Force constants for bond and angle potentials were calculated by iteratively matching quantum and classical normal modes via a Monte Carlo scheme. The resulting new set of parameters accurately described the conformation and dynamical behavior of the arylamide polymers.
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Affiliation(s)
- Satyavani Vemparala
- Department of Chemistry, University of Pennsylvania, Philadelphia, Pennsylvania 19104, USA
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