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Singh MK, Lakshman MK. Recent developments in the utility of saturated azaheterocycles in peptidomimetics. Org Biomol Chem 2022; 20:963-979. [PMID: 35018952 DOI: 10.1039/d1ob01329g] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/07/2023]
Abstract
To a large extent, the physical and chemical properties of peptidomimetic molecules are dictated by the integrated heterocyclic scaffolds they contain. Heterocyclic moieties are introduced into a majority of peptide-mimicking molecules to modulate conformational flexibility, improve bioavailability, and fine-tune electronics, and in order to achieve potency similar to or better than that of the natural peptide ligand. This mini-review delineates recent developments, limited to the past five years, in the utility of selected saturated 3- to 6-membered heterocyclic moieties in peptidomimetic design. Also discussed is the chemistry involved in the synthesis of the azaheterocyclic scaffolds and the structural implications of the introduction of these azaheterocycles in peptide backbones as well as side chains of the peptide mimics.
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Affiliation(s)
- Manish K Singh
- Department of Science, Technology, and Mathematics, Lincoln University, 820 Chestnut Street, Jefferson City, Missouri 65101, USA.
| | - Mahesh K Lakshman
- Department of Chemistry and Biochemistry, The City College of New York, 160 Convent Avenue, New York, New York 10031, USA.,The Ph.D. Program in Chemistry, The Graduate Center of the City University of New York, New York, NY 10016, USA
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2
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Akhdar A, Gautier A, Hjelmgaard T, Faure S. N-Alkylated Aromatic Poly- and Oligoamides. Chempluschem 2021; 86:298-312. [PMID: 33620768 DOI: 10.1002/cplu.202000825] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/30/2020] [Revised: 02/15/2021] [Indexed: 01/18/2023]
Abstract
N-alkylated aromatic poly- and oligoamides are a particular class of abiotic foldamers that is deprived of the capability of forming intramolecular hydrogen-bonding networks to stabilize their tri-dimensional structure. The alkylation of the backbone amide nitrogen atoms greatly increases the chemical diversity accessible for aromatic poly- and oligoamides. However, the nature and the conformational preferences of the N,N-disubstituted amides profoundly modify the folding properties of these aromatic poly- and oligoamides. In this Review, representative members of this class of aromatic poly- and oligoamides will be highlighted, among them N-alkylated phenylene terephthalamides, benzanilides, pyridylamides, and aminomethyl benzamide oligomers. The principal synthetic pathways to the main classes of N-alkylated aromatic polyamides with narrow to broad molecular-weight distribution, or oligoamides with specific sequences, will be detailed and their foldameric properties will be discussed. The Review will end by describing the few applications reported to date and future prospects for the field.
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Affiliation(s)
- Ayman Akhdar
- Université Clermont Auvergne, CNRS, SIGMA Clermont, ICCF, 63000, Clermont-Ferrand, France
| | - Arnaud Gautier
- Université Clermont Auvergne, CNRS, SIGMA Clermont, ICCF, 63000, Clermont-Ferrand, France
| | - Thomas Hjelmgaard
- Rockwool International A/S, Hovedgaden 584, 2640, Hedehusene, Denmark
| | - Sophie Faure
- Université Clermont Auvergne, CNRS, SIGMA Clermont, ICCF, 63000, Clermont-Ferrand, France
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3
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El-Faham A, Albericio F, Manne SR, de la Torre BG. OxymaPure Coupling Reagents: Beyond Solid-Phase Peptide Synthesis. SYNTHESIS-STUTTGART 2020. [DOI: 10.1055/s-0040-1706296] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
Abstract
AbstractOxymaPure [ethyl 2-cyano-2-(hydroxyimino)acetate] is an exceptional reagent with which to suppress racemization and enhance coupling efficiency during amide bond formation. The tremendous popularity of OxymaPure has led to the development of several Oxyma-based reagents. OxymaPure and its derived reagents are widely used in solid- and solution-phase peptide chemistry. This review summarizes the recent developments and applications of OxymaPure and Oxyma-based reagents in peptide chemistry, in particular in solution-phase chemistry. Moreover, the side reaction associated with OxymaPure is also discussed.1 Introduction2 Oxyma-Based Coupling Reagents2.1 Aminium/Uronium Salts of OxymaPure2.2 Phosphonium Salts of OxymaPure2.3 Oxyma-Based Phosphates2.4 Sulfonate Esters of OxymaPure2.5 Benzoate Esters of OxymaPure2.6 Carbonates of OxymaPure Derivatives3 OxymaPure Derivatives4 Other Oxime-Based Additives and Coupling Reagents5 Side Reactions Using OxymaPure Derivatives6 Conclusion7 List of Abbreviations
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Affiliation(s)
- Ayman El-Faham
- Department of Chemistry, College of Science, King Saud University
- Department of Chemistry, Faculty of Science, Alexandria University,
| | - Fernando Albericio
- Peptide Science Laboratory, School of Chemistry and Physics, University of KwaZulu-Natal
- Department of Chemistry, College of Science, King Saud University
- Institute for Advanced Chemistry of Catalonia (IQAC-CSIC)
- CIBER-BBN, Networking Centre on Bioengineering, Biomaterials and Nanomedicine, and Department of Organic Chemistry, University of Barcelona
| | - Srinivasa Rao Manne
- Peptide Science Laboratory, School of Chemistry and Physics, University of KwaZulu-Natal
| | - Beatriz G. de la Torre
- Peptide Science Laboratory, School of Chemistry and Physics, University of KwaZulu-Natal
- KwaZulu-Natal Research Innovation and Sequencing Platform (KRISP), School of Laboratory Medicine and Medical Sciences, College of Health Sciences, University of KwaZulu-Natal
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4
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Albericio F, El-Faham A. Choosing the Right Coupling Reagent for Peptides: A Twenty-Five-Year Journey. Org Process Res Dev 2018. [DOI: 10.1021/acs.oprd.8b00159] [Citation(s) in RCA: 81] [Impact Index Per Article: 13.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/03/2023]
Affiliation(s)
- Fernando Albericio
- School of Chemistry and Physics, University of KwaZulu-Natal, University Road,
Westville, Durban 4001, South Africa
- Department of Chemistry, College of Science, King Saud University, P.O. Box 2455, Riyadh 11451, Saudi Arabia
- Department of Organic Chemistry, University of Barcelona, Martí i Franqués 1-11, Barcelona 08028, Spain
- CIBER-BBN, Networking Centre on Bioengineering, Biomaterials and Nanomedicine, Barcelona Science Park, Baldiri Reixac 10, Barcelona 08028, Spain
| | - Ayman El-Faham
- Department of Chemistry, College of Science, King Saud University, P.O. Box 2455, Riyadh 11451, Saudi Arabia
- Department of Chemistry, Faculty of Science, Alexandria University, P.O. Box 426,
Ibrahimia, Alexandria 21321, Egypt
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5
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Solid-Phase Synthesis of Azole-Comprising Peptidomimetics and Coordination of a Designed Analog to Zn 2. Molecules 2018; 23:molecules23051035. [PMID: 29710766 PMCID: PMC6102547 DOI: 10.3390/molecules23051035] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/06/2018] [Revised: 04/23/2018] [Accepted: 04/26/2018] [Indexed: 12/14/2022] Open
Abstract
Peptidomimetics that can coordinate transition metals have a variety of potential applications as catalysts, sensors, or materials. A new modular peptidomimetic scaffold, the “azole peptoid”, is introduced here. We report methods for the solid-phase synthesis of eleven examples of trimeric N-substituted oligoamides that include oxazole- or thiazole-functionalized backbones. The products prepared comprise a diversity of functionality, including a metal-coordinating terpyridine group. The modular synthetic approach enables ready preparation of analogs for specific applications. To highlight a potential use of this new synthetic scaffold, a trimeric azole peptoid functionalized with a terpyridine residue was prepared and studied. The characteristic 2:1 ligand:metal binding of this terpyridine-functionalized azole peptoid to Zn2+ in aqueous solution was observed. These studies introduce azole peptoids as a useful class of biomimetic molecules for further study and application.
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6
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Hayakawa M, Ohsawa A, Takeda K, Torii R, Kitamura Y, Katagiri H, Ikeda M. Cyclic arylopeptoid oligomers: synthesis and conformational propensities of peptide-mimetic aromatic macrocycles. Org Biomol Chem 2018; 16:8505-8512. [DOI: 10.1039/c8ob01962b] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
Abstract
Dynamic macrocyclic peptide-mimetic molecule bearing sequence-controlled side chains.
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Affiliation(s)
- Masahide Hayakawa
- Department of Life Science and Chemistry
- Graduate School of Natural Science and Technology
- Gifu University
- Gifu 501-1193
- Japan
| | - Ayaka Ohsawa
- Department of Life Science and Chemistry
- Graduate School of Natural Science and Technology
- Gifu University
- Gifu 501-1193
- Japan
| | - Kumi Takeda
- Department of Life Science and Chemistry
- Graduate School of Natural Science and Technology
- Gifu University
- Gifu 501-1193
- Japan
| | - Ryo Torii
- Department of Life Science and Chemistry
- Graduate School of Natural Science and Technology
- Gifu University
- Gifu 501-1193
- Japan
| | - Yoshiaki Kitamura
- Department of Life Science and Chemistry
- Graduate School of Natural Science and Technology
- Gifu University
- Gifu 501-1193
- Japan
| | - Hiroshi Katagiri
- Graduate School of Science and Engineering
- Yamagata University
- Yamagata 992-8510
- Japan
| | - Masato Ikeda
- Department of Life Science and Chemistry
- Graduate School of Natural Science and Technology
- Gifu University
- Gifu 501-1193
- Japan
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7
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Hjelmgaard T, Nauton L, De Riccardis F, Jouffret L, Faure S. Topologically Diverse Shapes Accessible by Modular Design of Arylopeptoid Macrocycles. Org Lett 2017; 20:268-271. [DOI: 10.1021/acs.orglett.7b03660] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Thomas Hjelmgaard
- Department
of Chemistry, Section for Chemical Biology and Nanobioscience, Faculty
of Science, University of Copenhagen, Thorvaldsensvej 40, 1871 Frederiksberg C, Denmark
| | - Lionel Nauton
- Université Clermont Auvergne, CNRS, SIGMA Clermont, Institut de Chimie de Clermont-Ferrand, F-63000 Clermont-Ferrand, France
| | - Francesco De Riccardis
- Department
of Chemistry and Biology, University of Salerno, Via Giovanni
Paolo II n. 132, I-84084 Fisciano, SA, Italy
| | - Laurent Jouffret
- Université Clermont Auvergne, CNRS, SIGMA Clermont, Institut de Chimie de Clermont-Ferrand, F-63000 Clermont-Ferrand, France
| | - Sophie Faure
- Université Clermont Auvergne, CNRS, SIGMA Clermont, Institut de Chimie de Clermont-Ferrand, F-63000 Clermont-Ferrand, France
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8
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Meli A, Gambaro S, Costabile C, Talotta C, Della Sala G, Tecilla P, Milano D, Tosolini M, Izzo I, De Riccardis F. Synthesis and complexing properties of cyclic benzylopeptoids – a new family of extended macrocyclic peptoids. Org Biomol Chem 2016; 14:9055-9062. [DOI: 10.1039/c6ob01683a] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2023]
Abstract
Members of a new class of cyclic “extended” peptoids (the “benzylopeptoids”) efficiently capture sodium ions with different stoichiometries depending on the ring morphology.
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Affiliation(s)
- A. Meli
- Department of Chemistry and Biology “A. Zambelli”
- University of Salerno
- Fisciano
- Italy
| | - S. Gambaro
- Department of Chemistry and Biology “A. Zambelli”
- University of Salerno
- Fisciano
- Italy
| | - C. Costabile
- Department of Chemistry and Biology “A. Zambelli”
- University of Salerno
- Fisciano
- Italy
| | - C. Talotta
- Department of Chemistry and Biology “A. Zambelli”
- University of Salerno
- Fisciano
- Italy
| | - G. Della Sala
- Department of Chemistry and Biology “A. Zambelli”
- University of Salerno
- Fisciano
- Italy
| | - P. Tecilla
- Department of Chemical and Pharmaceutical Sciences
- University of Trieste
- I-34127 Trieste
- Italy
| | - D. Milano
- Department of Chemical and Pharmaceutical Sciences
- University of Trieste
- I-34127 Trieste
- Italy
| | - M. Tosolini
- Department of Chemical and Pharmaceutical Sciences
- University of Trieste
- I-34127 Trieste
- Italy
| | - I. Izzo
- Department of Chemistry and Biology “A. Zambelli”
- University of Salerno
- Fisciano
- Italy
| | - F. De Riccardis
- Department of Chemistry and Biology “A. Zambelli”
- University of Salerno
- Fisciano
- Italy
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9
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Rasmussen JE, Boccia MM, Nielsen J, Taillefumier C, Faure S, Hjelmgaard T. Rapid and convenient semi-automated microwave-assisted solid-phase synthesis of arylopeptoids. Tetrahedron Lett 2014. [DOI: 10.1016/j.tetlet.2014.08.119] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/23/2023]
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10
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Hjelmgaard T, Plesner M, Dissing MM, Andersen JM, Frydenvang K, Nielsen J. Advances towards Aromatic Oligoamide Foldamers: Synthesis and X-ray Structures of Dimeric Arylopeptoids with Conformation-Directing Side Chains. European J Org Chem 2014. [DOI: 10.1002/ejoc.201402040] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
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11
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12
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Hjelmgaard T, Roy O, Nauton L, El-Ghozzi M, Avignant D, Didierjean C, Taillefumier C, Faure S. Macrocyclic arylopeptoids – a novel type of cyclic N-alkylated aromatic oligoamides forming nanotubular assemblies. Chem Commun (Camb) 2014; 50:3564-7. [DOI: 10.1039/c4cc00821a] [Citation(s) in RCA: 29] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/03/2023]
Abstract
The head-to-tail macrocyclisation of arylopeptoids (oligomeric N-substituted aminomethyl benzamides) has enabled the first X-ray structures of arylopeptoid constructs and the identification of well-defined architectures in solution.
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Affiliation(s)
- Thomas Hjelmgaard
- Department of Chemistry
- Section for Chemical Biology and Nanoscience
- Faculty of Science
- University of Copenhagen
- 1871 Frederiksberg C, Denmark
| | - Olivier Roy
- Clermont Université
- Université Blaise Pascal
- Institut de Chimie de Clermont-Ferrand
- 63000 Clermont-Ferrand, France
- CNRS
| | - Lionel Nauton
- Clermont Université
- Université Blaise Pascal
- Institut de Chimie de Clermont-Ferrand
- 63000 Clermont-Ferrand, France
- CNRS
| | - Malika El-Ghozzi
- Clermont Université
- Université Blaise Pascal
- Institut de Chimie de Clermont-Ferrand
- 63000 Clermont-Ferrand, France
- CNRS
| | - Daniel Avignant
- Clermont Université
- Université Blaise Pascal
- Institut de Chimie de Clermont-Ferrand
- 63000 Clermont-Ferrand, France
- CNRS
| | | | - Claude Taillefumier
- Clermont Université
- Université Blaise Pascal
- Institut de Chimie de Clermont-Ferrand
- 63000 Clermont-Ferrand, France
- CNRS
| | - Sophie Faure
- Clermont Université
- Université Blaise Pascal
- Institut de Chimie de Clermont-Ferrand
- 63000 Clermont-Ferrand, France
- CNRS
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13
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Discovery of new PPARγ agonists based on arylopeptoids. Bioorg Med Chem Lett 2013; 23:4162-5. [DOI: 10.1016/j.bmcl.2013.05.034] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/10/2013] [Revised: 05/07/2013] [Accepted: 05/09/2013] [Indexed: 11/17/2022]
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14
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Subirós-Funosas R, Nieto-Rodriguez L, Jensen KJ, Albericio F. COMU: scope and limitations of the latest innovation in peptide acyl transfer reagents. J Pept Sci 2013; 19:408-14. [PMID: 23712932 DOI: 10.1002/psc.2517] [Citation(s) in RCA: 31] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/01/2013] [Revised: 04/16/2013] [Accepted: 04/16/2013] [Indexed: 11/08/2022]
Abstract
The methodology for peptide bond formation is undergoing a continuous evolution where the main actors are being renewed. In recent years, coupling reagents based on the Oxyma scaffold, such as the uronium salt COMU, has been a groundbreaking contribution to the field. The advantages of COMU over classic benzotriazole-based reagents (HATU, HBTU, HCTU, TBTU) were proven in terms of solubility and coupling efficiency in bulky junctions in our groups and others. However, some aspects of the use of COMU need to be revised and improved, such as the stability of commercial samples in organic solvents, which hampers the compatibility with long synthesis in automated synthesizers. In this review, an overview of the main features and suggestions to improve the use of COMU are presented, along with a discussion on the best conditions for its use in microwave-assisted peptide robots.
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Affiliation(s)
- Ramon Subirós-Funosas
- Chemistry and Molecular Pharmacology Program, Institute for Research in Biomedicine, Barcelona Science Park, Baldiri Reixac 10, 08028, Barcelona, Spain
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15
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Aromatic Oligoamides with a Rareortho-Connectivity: Synthesis and Study ofortho-Arylopeptoids. European J Org Chem 2013. [DOI: 10.1002/ejoc.201300398] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
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16
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Szekely T, Caumes C, Roy O, Faure S, Taillefumier C. α-Peptoïdes et composés apparentés : synthèse et contrôle de la conformation. CR CHIM 2013. [DOI: 10.1016/j.crci.2012.11.015] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
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17
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Wu H, Amin MN, Niu Y, Qiao Q, Harfouch N, Nimer A, Cai J. Solid-phase synthesis of γ-AApeptides using a submonomeric approach. Org Lett 2012; 14:3446-9. [PMID: 22731678 DOI: 10.1021/ol301406a] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
The solid-phase synthesis of γ-AApeptides using a novel submonomeric approach that utilizes an allyl protection is reported. The strategy successfully circumvents the necessity of preparing γ-AApeptide building blocks in order to prepare γ-AApeptide sequences. This method will maximize the potential of developing chemically diverse γ-AApeptide libraries and thereby facilitate the biological applications of γ-AApeptides in the future.
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Affiliation(s)
- Haifan Wu
- Department of Chemistry, University of South Florida, Tampa, Florida 33620, USA
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18
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Hjelmgaard T, Faure S, De Santis E, Staerk D, Alexander BD, Edwards AA, Taillefumier C, Nielsen J. Improved solid-phase synthesis and study of arylopeptoids with conformation-directing side chains. Tetrahedron 2012. [DOI: 10.1016/j.tet.2011.12.049] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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19
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Aditya A, Kodadek T. Incorporation of heterocycles into the backbone of peptoids to generate diverse peptoid-inspired one bead one compound libraries. ACS COMBINATORIAL SCIENCE 2012; 14:164-9. [PMID: 22320121 DOI: 10.1021/co200195t] [Citation(s) in RCA: 47] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Combinatorial libraries of peptoids (oligo-N-substituted glycines) have proven to be useful sources of protein ligands. Each unit of the peptoid oligomer is derived from 2-haloacetic acid and a primary amine. To increase the chemical diversity available in peptoid libraries, we demonstrate here that heterocyclic halomethyl carboxylic acids can be employed as backbone building blocks in the synthesis of peptoid-based oligomers. Optimized conditions are reported that allow the creation of large, high quality combinatorial libraries containing these units.
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Affiliation(s)
- Animesh Aditya
- Department of Chemistry and Department of Cancer Biology, The Scripps Research Institute, Scripps Florida, 130
Scripps Way, Jupiter, Florida 33458, United States
| | - Thomas Kodadek
- Department of Chemistry and Department of Cancer Biology, The Scripps Research Institute, Scripps Florida, 130
Scripps Way, Jupiter, Florida 33458, United States
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