1
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Corvaglia V, Wu J, Deepak D, Loos M, Huc I. Enhancing the Features of DNA Mimic Foldamers for Structural Investigations. Chemistry 2024; 30:e202303650. [PMID: 38193643 DOI: 10.1002/chem.202303650] [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: 11/03/2023] [Revised: 12/21/2023] [Accepted: 01/09/2024] [Indexed: 01/10/2024]
Abstract
DNA mimic foldamers based on aromatic oligoamide helices bearing anionic phosphonate side chains have been shown to bind to DNA-binding proteins sometimes orders of magnitude better than DNA itself. Here, we introduce new features in the DNA mimic foldamers to facilitate structural investigations of their interactions with proteins. Thirteen new foldamer sequences have been synthesized and characterized using NMR, circular dichroism, molecular modeling, and X-ray crystallography. The results show that foldamer helix handedness can be quantitatively biased by means of a single stereogenic center, that the foldamer structure can be made C2-symmetrical as in palindromic B-DNA sequences, and that associations between foldamer helices can be promoted utilizing dedicated C-terminal residues that act as sticky ends in B-DNA structures.
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Affiliation(s)
- Valentina Corvaglia
- Department of Pharmacy, Ludwig-Maximilians-Universität München, Butenandtstr. 5-13, 81377, Munich, Germany
- Current address: Institute for Stem-Cell Biology, Regenerative Medicine and Innovative Therapies, IRCCS Casa Sollievo della Sofferenza, San Giovanni Rotondo (Italy) & Center for Nanomedicine and Tissue Engineering (CNTE), ASST Grande Ospedale Metropolitano Niguarda, 20162, Milan, Italy
| | - Jiaojiao Wu
- Department of Pharmacy, Ludwig-Maximilians-Universität München, Butenandtstr. 5-13, 81377, Munich, Germany
| | - Deepak Deepak
- Department of Pharmacy, Ludwig-Maximilians-Universität München, Butenandtstr. 5-13, 81377, Munich, Germany
| | - Manuel Loos
- Department of Pharmacy, Ludwig-Maximilians-Universität München, Butenandtstr. 5-13, 81377, Munich, Germany
| | - Ivan Huc
- Department of Pharmacy, Ludwig-Maximilians-Universität München, Butenandtstr. 5-13, 81377, Munich, Germany
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2
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Amblard F, LeCher JC, De R, Zhou S, Liu P, Goh SL, Tao S, Patel D, Downs-Bowen J, Zandi K, Zhang H, Chaudhry G, McBrayer T, Muczynski M, Al-Homoudi A, Engel J, Lan S, Sarafianos SG, Kovari LC, Schinazi RF. Synthesis and biological evaluation of novel peptidomimetic inhibitors of the coronavirus 3C-like protease. Eur J Med Chem 2024; 268:116263. [PMID: 38432056 PMCID: PMC11188152 DOI: 10.1016/j.ejmech.2024.116263] [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: 12/13/2023] [Revised: 02/13/2024] [Accepted: 02/17/2024] [Indexed: 03/05/2024]
Abstract
Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), and related variants, are responsible for the devastating coronavirus disease 2019 (COVID-19) pandemic. The SARS-CoV-2 main protease (Mpro) plays a central role in the replication of the virus and represents an attractive drug target. Herein, we report the discovery of novel SARS-CoV-2 Mpro covalent inhibitors, including highly effective compound NIP-22c which displays high potency against several key variants and clinically relevant nirmatrelvir Mpro E166V mutants.
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Affiliation(s)
- Franck Amblard
- Center for ViroScience and Cure, Laboratory of Biochemical Pharmacology, Department of Pediatrics, Emory University School of Medicine, and Children's Healthcare of Atlanta, Atlanta, GA, 30322, USA.
| | - Julia C LeCher
- Center for ViroScience and Cure, Laboratory of Biochemical Pharmacology, Department of Pediatrics, Emory University School of Medicine, and Children's Healthcare of Atlanta, Atlanta, GA, 30322, USA
| | - Ramyani De
- Center for ViroScience and Cure, Laboratory of Biochemical Pharmacology, Department of Pediatrics, Emory University School of Medicine, and Children's Healthcare of Atlanta, Atlanta, GA, 30322, USA
| | - Shaoman Zhou
- Center for ViroScience and Cure, Laboratory of Biochemical Pharmacology, Department of Pediatrics, Emory University School of Medicine, and Children's Healthcare of Atlanta, Atlanta, GA, 30322, USA
| | - Peng Liu
- Center for ViroScience and Cure, Laboratory of Biochemical Pharmacology, Department of Pediatrics, Emory University School of Medicine, and Children's Healthcare of Atlanta, Atlanta, GA, 30322, USA
| | - Shu Ling Goh
- Center for ViroScience and Cure, Laboratory of Biochemical Pharmacology, Department of Pediatrics, Emory University School of Medicine, and Children's Healthcare of Atlanta, Atlanta, GA, 30322, USA
| | - Sijia Tao
- Center for ViroScience and Cure, Laboratory of Biochemical Pharmacology, Department of Pediatrics, Emory University School of Medicine, and Children's Healthcare of Atlanta, Atlanta, GA, 30322, USA
| | - Dharmeshkumar Patel
- Center for ViroScience and Cure, Laboratory of Biochemical Pharmacology, Department of Pediatrics, Emory University School of Medicine, and Children's Healthcare of Atlanta, Atlanta, GA, 30322, USA
| | - Jessica Downs-Bowen
- Center for ViroScience and Cure, Laboratory of Biochemical Pharmacology, Department of Pediatrics, Emory University School of Medicine, and Children's Healthcare of Atlanta, Atlanta, GA, 30322, USA
| | - Keivan Zandi
- Center for ViroScience and Cure, Laboratory of Biochemical Pharmacology, Department of Pediatrics, Emory University School of Medicine, and Children's Healthcare of Atlanta, Atlanta, GA, 30322, USA
| | - Huanchun Zhang
- Center for ViroScience and Cure, Laboratory of Biochemical Pharmacology, Department of Pediatrics, Emory University School of Medicine, and Children's Healthcare of Atlanta, Atlanta, GA, 30322, USA
| | - Gitika Chaudhry
- Center for ViroScience and Cure, Laboratory of Biochemical Pharmacology, Department of Pediatrics, Emory University School of Medicine, and Children's Healthcare of Atlanta, Atlanta, GA, 30322, USA
| | - Tamara McBrayer
- Center for ViroScience and Cure, Laboratory of Biochemical Pharmacology, Department of Pediatrics, Emory University School of Medicine, and Children's Healthcare of Atlanta, Atlanta, GA, 30322, USA
| | - Michael Muczynski
- Department of Biochemistry, Microbiology, and Immunology, Wayne State University School of Medicine, Detroit, MI, 48201, USA
| | - Abdullah Al-Homoudi
- Department of Biochemistry, Microbiology, and Immunology, Wayne State University School of Medicine, Detroit, MI, 48201, USA
| | - Joseph Engel
- Department of Biochemistry, Microbiology, and Immunology, Wayne State University School of Medicine, Detroit, MI, 48201, USA
| | - Shuiyun Lan
- Center for ViroScience and Cure, Laboratory of Biochemical Pharmacology, Department of Pediatrics, Emory University School of Medicine, and Children's Healthcare of Atlanta, Atlanta, GA, 30322, USA
| | - Stefan G Sarafianos
- Center for ViroScience and Cure, Laboratory of Biochemical Pharmacology, Department of Pediatrics, Emory University School of Medicine, and Children's Healthcare of Atlanta, Atlanta, GA, 30322, USA
| | - Ladislau C Kovari
- Department of Biochemistry, Microbiology, and Immunology, Wayne State University School of Medicine, Detroit, MI, 48201, USA
| | - Raymond F Schinazi
- Center for ViroScience and Cure, Laboratory of Biochemical Pharmacology, Department of Pediatrics, Emory University School of Medicine, and Children's Healthcare of Atlanta, Atlanta, GA, 30322, USA.
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3
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Sang P, Cai J. Unnatural helical peptidic foldamers as protein segment mimics. Chem Soc Rev 2023; 52:4843-4877. [PMID: 37401344 PMCID: PMC10389297 DOI: 10.1039/d2cs00395c] [Citation(s) in RCA: 6] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/14/2022] [Indexed: 07/05/2023]
Abstract
Unnatural helical peptidic foldamers have attracted considerable attention owing to their unique folding behaviours, diverse artificial protein binding mechanisms, and promising applications in chemical, biological, medical, and material fields. Unlike the conventional α-helix consisting of molecular entities of native α-amino acids, unnatural helical peptidic foldamers are generally comprised of well-defined backbone conformers with unique and unnatural structural parameters. Their folded structures usually arise from unnatural amino acids such as N-substituted glycine, N-substituted-β-alanine, β-amino acid, urea, thiourea, α-aminoxy acid, α-aminoisobutyric acid, aza-amino acid, aromatic amide, γ-amino acid, as well as sulfono-γ-AA amino acid. They can exhibit intriguing and predictable three-dimensional helical structures, generally featuring superior resistance to proteolytic degradation, enhanced bioavailability, and improved chemodiversity, and are promising in mimicking helical segments of various proteins. Although it is impossible to include every piece of research work, we attempt to highlight the research progress in the past 10 years in exploring unnatural peptidic foldamers as protein helical segment mimics, by giving some representative examples and discussing the current challenges and future perspectives. We expect that this review will help elucidate the principles of structural design and applications of existing unnatural helical peptidic foldamers in protein segment mimicry, thereby attracting more researchers to explore and generate novel unnatural peptidic foldamers with unique structural and functional properties, leading to more unprecedented and practical applications.
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Affiliation(s)
- Peng Sang
- Tianjian Laboratory of Advanced Biomedical Sciences, School of Pharmaceutical Sciences, Zhengzhou University, Zhengzhou 450001, China.
| | - Jianfeng Cai
- Department of Chemistry, University of South Florida, Tampa, FL 33620, USA.
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4
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Gupta N, Wilczek M, Dobrzycki L, Pulka-Ziach K. Structural Consequences of N‐methylation of N‐terminus in Oligourea Foldamers. Chempluschem 2022; 87:e202200199. [DOI: 10.1002/cplu.202200199] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/08/2022] [Revised: 07/22/2022] [Indexed: 11/11/2022]
Affiliation(s)
- Naveen Gupta
- University of Warsaw: Uniwersytet Warszawski Faculty of Chemistry Pastuera 1 02-093 Warsaw POLAND
| | - Marcin Wilczek
- University of Warsaw: Uniwersytet Warszawski Faculty of Chemistry Pasteura 1 02-093 Warsaw POLAND
| | - Lukasz Dobrzycki
- University of Warsaw: Uniwersytet Warszawski Faculty of Chemistry Zwirki i Wigury 101 02-089 Warsaw POLAND
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5
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Abdildinova A, Kurth MJ, Gong Y. Solid‐Phase Synthesis of Peptidomimetics with Peptide Backbone Modifications. ASIAN J ORG CHEM 2021. [DOI: 10.1002/ajoc.202100264] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]
Affiliation(s)
- Aizhan Abdildinova
- Innovative Drug Library Research Center Department of Chemistry College of Science Dongguk University 26, 3-ga, Pil-dong, Jung-gu Seoul 04620 Korea
| | - Mark J. Kurth
- Department of Chemistry University of California Davis CA 95616 USA
| | - Young‐Dae Gong
- Innovative Drug Library Research Center Department of Chemistry College of Science Dongguk University 26, 3-ga, Pil-dong, Jung-gu Seoul 04620 Korea
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6
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Abstract
N,N'-linked oligoureas are a class of enantiopure, sequence-defined peptidomimetic oligomers without amino acids that form well-defined and predictable helical structures akin to the peptide α-helix. Oligourea-based foldamers combine a number of features-such as synthetic accessibility, sequence modularity, and folding fidelity-that bode well for their use in a range of applications from medicinal chemistry to catalysis. Moreover, it was recently recognized that this synthetic helical backbone can be combined with regular peptides to generate helically folded peptide-oligourea hybrids that display additional features in terms of helix mimicry and protein-surface recognition properties. Here we provide detailed protocols for the preparation of requested monomers and for the synthesis and purification of homo-oligoureas and peptide-oligourea hybrids.
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7
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Peptide-oligourea hybrids analogue of GLP-1 with improved action in vivo. Nat Commun 2019; 10:924. [PMID: 30804332 PMCID: PMC6389962 DOI: 10.1038/s41467-019-08793-y] [Citation(s) in RCA: 28] [Impact Index Per Article: 5.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/14/2017] [Accepted: 01/21/2019] [Indexed: 01/19/2023] Open
Abstract
Peptides have gained so much attention in the last decade that they are now part of the main strategies, with small molecules and biologics, for developing new medicines. Despite substantial progress, the successful development of peptides as drugs still requires a number of limitations to be addressed, including short in vivo half-lives and poor membrane permeability. Here, we describe the use of oligourea foldamers as tool to improve the pharmaceutical properties of GLP-1, a 31 amino acid peptide hormone involved in metabolism and glycemic control. Our strategy consists in replacing four consecutive amino acids of GLP-1 by three consecutive ureido residues by capitalizing on the structural resemblance of oligourea and α-peptide helices. The efficacy of the approach is demonstrated with three GLP-1-oligourea hybrids showing prolonged activity in vivo. Our findings should enable the use of oligoureas in other peptides to improve their pharmaceutical properties and may provide new therapeutic applications.
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8
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Yue P, Peng S, Parkin S, Li T, Yu F, Long S. Peptidomimicry with C 2
-Symmetric Oligourea Derivatives of 1,2-Diaminocyclohexane and 1,2-Diphenyl-1,2-diaminoethane: Chirality and Chain Length-Dependent Conformation. ChemistrySelect 2018. [DOI: 10.1002/slct.201801900] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Affiliation(s)
- Pengyun Yue
- Key Laboratory for Green Chemical Process of Ministry of Education, Hubei Key Laboratory of Novel Reactor and Green Chemical Technology; School of Chemical Engineering and Pharmacy, Wuhan Institute of Technology, 206 1 Rd Optics Valley, East Lake New Technology Development District, Wuhan, Hubei; 430205 China
| | - Siqing Peng
- Key Laboratory for Green Chemical Process of Ministry of Education, Hubei Key Laboratory of Novel Reactor and Green Chemical Technology; School of Chemical Engineering and Pharmacy, Wuhan Institute of Technology, 206 1 Rd Optics Valley, East Lake New Technology Development District, Wuhan, Hubei; 430205 China
| | - Sean Parkin
- Department of Chemistry; University of Kentucky, Lexington, Kentucky; 40506 USA
| | - Tonglei Li
- Department of Industrial and Physical Pharmacy; Purdue University, West Lafayette; Indiana 47907 U.S.A
| | - Faquan Yu
- Key Laboratory for Green Chemical Process of Ministry of Education, Hubei Key Laboratory of Novel Reactor and Green Chemical Technology; School of Chemical Engineering and Pharmacy, Wuhan Institute of Technology, 206 1 Rd Optics Valley, East Lake New Technology Development District, Wuhan, Hubei; 430205 China
| | - Sihui Long
- Key Laboratory for Green Chemical Process of Ministry of Education, Hubei Key Laboratory of Novel Reactor and Green Chemical Technology; School of Chemical Engineering and Pharmacy, Wuhan Institute of Technology, 206 1 Rd Optics Valley, East Lake New Technology Development District, Wuhan, Hubei; 430205 China
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9
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She F, Teng P, Peguero‐Tejada A, Wang M, Ma N, Odom T, Zhou M, Gjonaj E, Wojtas L, van der Vaart A, Cai J. De Novo Left‐Handed Synthetic Peptidomimetic Foldamers. Angew Chem Int Ed Engl 2018. [DOI: 10.1002/ange.201805184] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Affiliation(s)
- Fengyu She
- Department of Chemistry University of South Florida 4202 E. Fowler Avenue Tampa FL 33620 USA
| | - Peng Teng
- Department of Chemistry University of South Florida 4202 E. Fowler Avenue Tampa FL 33620 USA
| | - Alfredo Peguero‐Tejada
- Department of Chemistry University of South Florida 4202 E. Fowler Avenue Tampa FL 33620 USA
| | - Minghui Wang
- Department of Chemistry University of South Florida 4202 E. Fowler Avenue Tampa FL 33620 USA
| | - Ning Ma
- Department of Chemistry University of South Florida 4202 E. Fowler Avenue Tampa FL 33620 USA
| | - Timothy Odom
- Department of Chemistry University of South Florida 4202 E. Fowler Avenue Tampa FL 33620 USA
| | - Mi Zhou
- Department of Chemistry University of South Florida 4202 E. Fowler Avenue Tampa FL 33620 USA
| | - Erald Gjonaj
- Department of Chemistry University of South Florida 4202 E. Fowler Avenue Tampa FL 33620 USA
| | - Lukasz Wojtas
- Department of Chemistry University of South Florida 4202 E. Fowler Avenue Tampa FL 33620 USA
| | - Arjan van der Vaart
- Department of Chemistry University of South Florida 4202 E. Fowler Avenue Tampa FL 33620 USA
| | - Jianfeng Cai
- Department of Chemistry University of South Florida 4202 E. Fowler Avenue Tampa FL 33620 USA
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10
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She F, Teng P, Peguero-Tejada A, Wang M, Ma N, Odom T, Zhou M, Gjonaj E, Wojtas L, van der Vaart A, Cai J. De Novo Left-Handed Synthetic Peptidomimetic Foldamers. Angew Chem Int Ed Engl 2018; 57:9916-9920. [PMID: 29889349 DOI: 10.1002/anie.201805184] [Citation(s) in RCA: 47] [Impact Index Per Article: 7.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/03/2018] [Indexed: 11/10/2022]
Abstract
The development of peptidomimetic helical foldamers with a wide repertoire of functions is of significant interest. Herein, we report the X-ray crystal structures of a series of homogeneous l-sulfono-γ-AA foldamers and elucidate their folding conformation at the atomic level. Single-crystal X-ray crystallography revealed that this class of oligomers fold into unprecedented dragon-boat-shaped and unexpected left-handed helices, which are stabilized by the 14-hydrogen-bonding pattern present in all sequences. These l-sulfono-γ-AApeptides have a helical pitch of 5.1 Å and exactly four side chains per turn, and the side chains lie perfectly on top of each other along the helical axis. 2D NMR spectroscopy, computational simulations, and CD studies support the folding conformation in solution. Our results provide a structural basis at the atomic level for the design of novel biomimetics with a precise arrangement of functional groups in three dimensions.
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Affiliation(s)
- Fengyu She
- Department of Chemistry, University of South Florida, 4202 E. Fowler Avenue, Tampa, FL, 33620, USA
| | - Peng Teng
- Department of Chemistry, University of South Florida, 4202 E. Fowler Avenue, Tampa, FL, 33620, USA
| | - Alfredo Peguero-Tejada
- Department of Chemistry, University of South Florida, 4202 E. Fowler Avenue, Tampa, FL, 33620, USA
| | - Minghui Wang
- Department of Chemistry, University of South Florida, 4202 E. Fowler Avenue, Tampa, FL, 33620, USA
| | - Ning Ma
- Department of Chemistry, University of South Florida, 4202 E. Fowler Avenue, Tampa, FL, 33620, USA
| | - Timothy Odom
- Department of Chemistry, University of South Florida, 4202 E. Fowler Avenue, Tampa, FL, 33620, USA
| | - Mi Zhou
- Department of Chemistry, University of South Florida, 4202 E. Fowler Avenue, Tampa, FL, 33620, USA
| | - Erald Gjonaj
- Department of Chemistry, University of South Florida, 4202 E. Fowler Avenue, Tampa, FL, 33620, USA
| | - Lukasz Wojtas
- Department of Chemistry, University of South Florida, 4202 E. Fowler Avenue, Tampa, FL, 33620, USA
| | - Arjan van der Vaart
- Department of Chemistry, University of South Florida, 4202 E. Fowler Avenue, Tampa, FL, 33620, USA
| | - Jianfeng Cai
- Department of Chemistry, University of South Florida, 4202 E. Fowler Avenue, Tampa, FL, 33620, USA
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11
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Amblard F, Zhou S, Liu P, Yoon J, Cox B, Muzzarelli K, Kuiper BD, Kovari LC, Schinazi RF. Synthesis and antiviral evaluation of novel peptidomimetics as norovirus protease inhibitors. Bioorg Med Chem Lett 2018; 28:2165-2170. [PMID: 29779977 PMCID: PMC6425952 DOI: 10.1016/j.bmcl.2018.05.012] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/19/2018] [Accepted: 05/07/2018] [Indexed: 11/30/2022]
Abstract
A series of tripeptidyl transition state inhibitors with new P1 and warhead moieties were synthesized and evaluated in a GI-1 norovirus replicon system and against GII-4 and GI-1 norovirus proteases. Compound 19, containing a 6-membered ring at the P1 position and a reactive aldehyde warhead exhibited sub-micromolar replicon inhibition. Retaining the same peptidyl scaffold, several reactive warheads were tested for protease inhibition and norovirus replicon inhibition. Of the six that were synthesized and tested, compounds 42, 43, and 45 potently inhibited the protease in biochemical assay and GI-1 norovirus replicon in the nanomolar range.
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Affiliation(s)
- Franck Amblard
- Center for AIDS Research, Laboratory of Biochemical Pharmacology, Department of Pediatrics, Emory University School of Medicine, Atlanta, GA 30322, USA
| | - Shaoman Zhou
- Center for AIDS Research, Laboratory of Biochemical Pharmacology, Department of Pediatrics, Emory University School of Medicine, Atlanta, GA 30322, USA
| | - Peng Liu
- Center for AIDS Research, Laboratory of Biochemical Pharmacology, Department of Pediatrics, Emory University School of Medicine, Atlanta, GA 30322, USA
| | - Jack Yoon
- Center for AIDS Research, Laboratory of Biochemical Pharmacology, Department of Pediatrics, Emory University School of Medicine, Atlanta, GA 30322, USA
| | - Bryan Cox
- Center for AIDS Research, Laboratory of Biochemical Pharmacology, Department of Pediatrics, Emory University School of Medicine, Atlanta, GA 30322, USA
| | - Kendall Muzzarelli
- Department of Biochemistry, Microbiology, and Immunology, Wayne State University School of Medicine, Detroit, MI 48201, USA
| | - Benjamin D Kuiper
- Department of Biochemistry, Microbiology, and Immunology, Wayne State University School of Medicine, Detroit, MI 48201, USA
| | - Ladislau C Kovari
- Department of Biochemistry, Microbiology, and Immunology, Wayne State University School of Medicine, Detroit, MI 48201, USA
| | - Raymond F Schinazi
- Center for AIDS Research, Laboratory of Biochemical Pharmacology, Department of Pediatrics, Emory University School of Medicine, Atlanta, GA 30322, USA.
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12
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Pulka-Ziach K, Antunes S, Perdriau C, Kauffmann B, Pasco M, Douat C, Guichard G. Postelongation Strategy for the Introduction of Guanidinium Units in the Main Chain of Helical Oligourea Foldamers. J Org Chem 2018; 83:2530-2541. [PMID: 29381363 DOI: 10.1021/acs.joc.7b01895] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
The synthesis of hybrid urea-based foldamers containing isosteric guanidinium linkages at selected positions in the sequence is described. We used a postelongation approach whereby the guanidinium moiety is introduced by direct transformation of a parent oligo(urea/thiourea) foldamer precursor. The method involves activation of the thiourea by treatment with methyl iodide and subsequent reaction with amines. To avoid undesired cyclization with the preceding urea moiety, resulting in heterocyclic guanidinium formation in the main chain, the urea unit preceding the thiourea unit in the sequence was replaced by an isoatomic and isostructural γ-amino acid. The approach was extended to solid-phase techniques to accelerate the synthesis of longer and more functionalized sequences. Under optimized conditions, an octamer hybrid oligomer incorporating a central guanidinium linkage was obtained in good overall yield and purity. This work also reports data related to the structural consequences of urea by guanidinium replacements in solution and reveals that helical folding is substantially reduced in oligomers containing a guanidinium group.
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Affiliation(s)
- Karolina Pulka-Ziach
- Institut de Chimie et Biologie des Membranes et des Nano-objets 6 (CBMN), UMR 5248, Institut Européen de Chimie et Biologie, Université de Bordeaux, Centre National de la Recherche Scientifique (CNRS) , 2 rue Robert Escarpit, F-33607 Pessac, France.,Faculty of Chemistry, Universtiy of Warsaw , Pasteura 1, 02-093 Warsaw, Poland
| | - Stéphanie Antunes
- Institut de Chimie et Biologie des Membranes et des Nano-objets 6 (CBMN), UMR 5248, Institut Européen de Chimie et Biologie, Université de Bordeaux, Centre National de la Recherche Scientifique (CNRS) , 2 rue Robert Escarpit, F-33607 Pessac, France
| | - Camille Perdriau
- Institut de Chimie et Biologie des Membranes et des Nano-objets 6 (CBMN), UMR 5248, Institut Européen de Chimie et Biologie, Université de Bordeaux, Centre National de la Recherche Scientifique (CNRS) , 2 rue Robert Escarpit, F-33607 Pessac, France
| | - Brice Kauffmann
- Institut Européen de Chimie et Biologie, UMS3033/US001, Université de Bordeaux, Institut National de la Santé et de la Recherche Médicale (INSERM), CNRS , F-33607 Pessac, France
| | - Morgane Pasco
- Institut de Chimie et Biologie des Membranes et des Nano-objets 6 (CBMN), UMR 5248, Institut Européen de Chimie et Biologie, Université de Bordeaux, Centre National de la Recherche Scientifique (CNRS) , 2 rue Robert Escarpit, F-33607 Pessac, France
| | - Céline Douat
- Institut de Chimie et Biologie des Membranes et des Nano-objets 6 (CBMN), UMR 5248, Institut Européen de Chimie et Biologie, Université de Bordeaux, Centre National de la Recherche Scientifique (CNRS) , 2 rue Robert Escarpit, F-33607 Pessac, France
| | - Gilles Guichard
- Institut de Chimie et Biologie des Membranes et des Nano-objets 6 (CBMN), UMR 5248, Institut Européen de Chimie et Biologie, Université de Bordeaux, Centre National de la Recherche Scientifique (CNRS) , 2 rue Robert Escarpit, F-33607 Pessac, France
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13
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Hirashima SI, Narushima T, Kawada M, Nakashima K, Hanai K, Koseki Y, Miura T. Asymmetric Conjugate Additions of Carbonyl Compounds to Nitroalkenes under Solvent-Free Conditions Using Fluorous Diaminomethylenemalononitrile Organocatalyst. Chem Pharm Bull (Tokyo) 2018; 65:1185-1190. [PMID: 29199223 DOI: 10.1248/cpb.c17-00596] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Abstract
The novel fluorous organocatalyst bearing a diaminomethylenemalononitrile motif is prepared. The fluorous organocatalyst efficiently promotes asymmetric conjugate additions of ketones to nitroalkenes and results in high yields of these addition products with excellent enantioselectivities under solvent-free conditions.
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Affiliation(s)
| | | | | | | | - Kaori Hanai
- Tokyo University of Pharmacy and Life Sciences
| | - Yuji Koseki
- Tokyo University of Pharmacy and Life Sciences
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14
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Pulka-Ziach K, Sęk S. α-Helicomimetic foldamers as electron transfer mediators. NANOSCALE 2017; 9:14913-14920. [PMID: 28949361 DOI: 10.1039/c7nr05209j] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/07/2023]
Abstract
α-Helical peptides are known as efficient mediators of electron transfer; however, their use is limited to compounds longer that 7-10 residues. To overcome this limitation, α-helicomimetic foldamers, based on the oligourea backbone with the general formula [-CH(R)-CH2-NH-CO-NH]n, were synthesized. Oligoureas are known to adopt a robust 2.5-helical conformation where only four residues are enough to form stable 1.5 helical turns. This feature makes them great models to study the charge transfer process and the dependence of the mechanism of the electron transition on the length of the mediator. Two families of different chain length (2, 4 and 6 residues) oligoureas were synthesized with a thiol group attached to the δ+ or δ- helix dipole pole. This enables the adsorption of the molecules onto the gold surface, leading to the formation of self-assembled monolayers. The helicity of compounds was confirmed in solution and in the solid state. Such systems were used to study the electron transfer process by current sensing atomic force microscopy (CS-AFM). The results showed that oligoureas may act as electron transfer mediators. Additionally, it was shown by the increasing force applied to the AFM tip that the oligourea helix is more stable than the helix formed by peptides.
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Affiliation(s)
- K Pulka-Ziach
- Faculty of Chemistry, University of Warsaw, Pasteura 1, 02-093 Warsaw, Poland.
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15
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Teng P, Ma N, Cerrato DC, She F, Odom T, Wang X, Ming LJ, van der Vaart A, Wojtas L, Xu H, Cai J. Right-Handed Helical Foldamers Consisting of De Novo d-AApeptides. J Am Chem Soc 2017; 139:7363-7369. [PMID: 28480699 PMCID: PMC5885761 DOI: 10.1021/jacs.7b03007] [Citation(s) in RCA: 45] [Impact Index Per Article: 6.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/08/2023]
Abstract
New types of foldamer scaffolds are formidably challenging to design and synthesize, yet highly desirable as structural mimics of peptides/proteins with a wide repertoire of functions. In particular, the development of peptidomimetic helical foldamers holds promise for new biomaterials, catalysts, and drug molecules. Unnatural l-sulfono-γ-AApeptides were recently developed and shown to have potential applications in both biomedical and material sciences. However, d-sulfono-γ-AApeptides, the enantiomers of l-sulfono-γ-AApeptides, have never been studied due to the lack of high-resolution three-dimensional structures to guide structure-based design. Herein, we report the first synthesis and X-ray crystal structures of a series of 2:1 l-amino acid/d-sulfono-γ-AApeptide hybrid foldamers, and elucidate their folded conformation at the atomic level. Single-crystal X-ray crystallography indicates that this class of oligomers folds into well-defined right-handed helices with unique helical parameters. The helical structures were consistent with data obtained from solution 2D NMR, CD studies, and molecular dynamics simulations. Our findings are expected to inspire the structure-based design of this type of unique folding biopolymers for biomaterials and biomedical applications.
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Affiliation(s)
- Peng Teng
- Department of Chemistry, University of South Florida, 4202 East Fowler Avenue, Tampa, Florida 33620, United States
| | - Ning Ma
- Department of Chemistry, University of South Florida, 4202 East Fowler Avenue, Tampa, Florida 33620, United States
| | - Darrell Cole Cerrato
- Department of Chemistry, University of South Florida, 4202 East Fowler Avenue, Tampa, Florida 33620, United States
| | - Fengyu She
- Department of Chemistry, University of South Florida, 4202 East Fowler Avenue, Tampa, Florida 33620, United States
| | - Timothy Odom
- Department of Chemistry, University of South Florida, 4202 East Fowler Avenue, Tampa, Florida 33620, United States
| | - Xiang Wang
- College of Chemistry and Chemical Engineering, Central South University, Changsha, Hunan 410083, China
| | - Li-June Ming
- Department of Chemistry, University of South Florida, 4202 East Fowler Avenue, Tampa, Florida 33620, United States
| | - Arjan van der Vaart
- Department of Chemistry, University of South Florida, 4202 East Fowler Avenue, Tampa, Florida 33620, United States
| | - Lukasz Wojtas
- Department of Chemistry, University of South Florida, 4202 East Fowler Avenue, Tampa, Florida 33620, United States
| | - Hai Xu
- College of Chemistry and Chemical Engineering, Central South University, Changsha, Hunan 410083, China
| | - Jianfeng Cai
- Department of Chemistry, University of South Florida, 4202 East Fowler Avenue, Tampa, Florida 33620, United States
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16
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Abstract
Bio-inspired synthetic backbones leading to foldamers can provide effective biopolymer mimics with new and improved properties in a physiological environment, and in turn could serve as useful tools to study biology and lead to practical applications in the areas of diagnostics or therapeutics. Remarkable progress has been accomplished over the past 20 years with the discovery of many potent bioactive foldamers originating from diverse backbones and targeting a whole spectrum of bio(macro)molecules such as membranes, protein surfaces, and nucleic acids. These current achievements, future opportunities, and key challenges that remain are discussed in this article.
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17
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Diemer V, Fischer L, Kauffmann B, Guichard G. Anion Recognition by Aliphatic Helical Oligoureas. Chemistry 2016; 22:15684-15692. [DOI: 10.1002/chem.201602481] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/24/2016] [Indexed: 11/09/2022]
Affiliation(s)
- Vincent Diemer
- Université de Bordeaux, UMR 5248 CBMN; Institut Européen de Chimie et Biologie; 2 rue Robert Escarpit 33607 Pessac France
- CNRS; UMR 5248 CBMN; 33607 Pessac France
- UMR CNRS 8161; Pasteur Institute of Lille; Univ Lille; 1 rue du Professeur Calmette 59021 Lille France
| | - Lucile Fischer
- Université de Bordeaux, UMR 5248 CBMN; Institut Européen de Chimie et Biologie; 2 rue Robert Escarpit 33607 Pessac France
- CNRS; UMR 5248 CBMN; 33607 Pessac France
| | - Brice Kauffmann
- Université de Bordeaux, CNRS, UMS 3033, INSERM US001; Institut Européen de Chimie et de Biologie; 2 rue Robert Escarpit 33607 Pessac France
| | - Gilles Guichard
- Université de Bordeaux, UMR 5248 CBMN; Institut Européen de Chimie et Biologie; 2 rue Robert Escarpit 33607 Pessac France
- CNRS; UMR 5248 CBMN; 33607 Pessac France
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18
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Wechsel R, Raftery J, Cavagnat D, Guichard G, Clayden J. The meso
Helix: Symmetry and Symmetry-Breaking in Dynamic Oligourea Foldamers with Reversible Hydrogen-Bond Polarity. Angew Chem Int Ed Engl 2016. [DOI: 10.1002/ange.201604496] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
Affiliation(s)
- Romina Wechsel
- School of Chemistry; University of Manchester; Oxford Road Manchester M13 9PL UK
| | - James Raftery
- School of Chemistry; University of Manchester; Oxford Road Manchester M13 9PL UK
| | - Dominique Cavagnat
- ISM, UMR CNRS 5255; Université de Bordeaux; 351 cours de la Libération 33405 Talence France
| | - Gilles Guichard
- Université de Bordeaux, CBMN, UMR 5248; Institut Européen de Chimie et Biologie; 2 rue Robert Escarpit 33607 Pessac France
- CNRS, CBMN, UMR 5248; 33600 Pessac France
| | - Jonathan Clayden
- School of Chemistry; University of Bristol; Cantock's Close Bristol BS8 1TS UK
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19
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Wechsel R, Raftery J, Cavagnat D, Guichard G, Clayden J. The meso
Helix: Symmetry and Symmetry-Breaking in Dynamic Oligourea Foldamers with Reversible Hydrogen-Bond Polarity. Angew Chem Int Ed Engl 2016; 55:9657-61. [DOI: 10.1002/anie.201604496] [Citation(s) in RCA: 30] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/09/2016] [Indexed: 01/10/2023]
Affiliation(s)
- Romina Wechsel
- School of Chemistry; University of Manchester; Oxford Road Manchester M13 9PL UK
| | - James Raftery
- School of Chemistry; University of Manchester; Oxford Road Manchester M13 9PL UK
| | - Dominique Cavagnat
- ISM, UMR CNRS 5255; Université de Bordeaux; 351 cours de la Libération 33405 Talence France
| | - Gilles Guichard
- Université de Bordeaux, CBMN, UMR 5248; Institut Européen de Chimie et Biologie; 2 rue Robert Escarpit 33607 Pessac France
- CNRS, CBMN, UMR 5248; 33600 Pessac France
| | - Jonathan Clayden
- School of Chemistry; University of Bristol; Cantock's Close Bristol BS8 1TS UK
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20
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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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21
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Collie GW, Pulka-Ziach K, Guichard G. Surfactant-facilitated crystallisation of water-soluble foldamers. Chem Sci 2016; 7:3377-3383. [PMID: 29997832 PMCID: PMC6006954 DOI: 10.1039/c6sc00090h] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/07/2016] [Accepted: 02/10/2016] [Indexed: 12/16/2022] Open
Abstract
Common surfactants promote the crystallisation of a series of water-soluble oligourea foldamers which had previously proven resistant to crystallisation efforts.
X-ray crystallography has played a major role in the advancement of foldamer research, however, obtaining well-formed single crystals of suitable quality for structure determination by X-ray diffraction methods is often rather challenging. Towards this end, we report here the ability of common surfactants to promote the crystallisation of a series of water-soluble oligourea foldamers which had previously proven highly resistant to crystallisation. Four high-resolution crystal structures are reported, suggesting certain surfactants could be potentially useful tools for the crystallisation of intractable water-soluble foldamers (or peptides).
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Affiliation(s)
- G W Collie
- Univ. Bordeaux , CBMN , UMR 5248 , Institut Européen de Chimie et Biologie , 2 rue Robert Escarpit , 33607 Pessac , France . .,CNRS , CBMN , UMR 5248 , F-33600 , Pessac , France
| | - K Pulka-Ziach
- Univ. Bordeaux , CBMN , UMR 5248 , Institut Européen de Chimie et Biologie , 2 rue Robert Escarpit , 33607 Pessac , France . .,CNRS , CBMN , UMR 5248 , F-33600 , Pessac , France
| | - G Guichard
- Univ. Bordeaux , CBMN , UMR 5248 , Institut Européen de Chimie et Biologie , 2 rue Robert Escarpit , 33607 Pessac , France . .,CNRS , CBMN , UMR 5248 , F-33600 , Pessac , France
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22
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Mauran L, Kauffmann B, Odaert B, Guichard G. Stabilization of an α-helix by short adjacent accessory foldamers. CR CHIM 2016. [DOI: 10.1016/j.crci.2015.07.003] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]
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23
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Shaping quaternary assemblies of water-soluble non-peptide helical foldamers by sequence manipulation. Nat Chem 2015; 7:871-8. [DOI: 10.1038/nchem.2353] [Citation(s) in RCA: 90] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/06/2015] [Accepted: 08/19/2015] [Indexed: 12/28/2022]
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24
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Douat C, Aisenbrey C, Antunes S, Decossas M, Lambert O, Bechinger B, Kichler A, Guichard G. A cell-penetrating foldamer with a bioreducible linkage for intracellular delivery of DNA. Angew Chem Int Ed Engl 2015; 54:11133-7. [PMID: 26246005 DOI: 10.1002/anie.201504884] [Citation(s) in RCA: 56] [Impact Index Per Article: 6.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/29/2015] [Revised: 07/04/2015] [Indexed: 12/21/2022]
Abstract
Despite significant advances in foldamer chemistry, tailored delivery systems based on foldamer architectures, which provide a high level of control over secondary structure, are curiously rare among non-viral technologies for transporting nucleic acids into cells. A potent pH-responsive, bioreducible cell-penetrating foldamer (CPF) was developed through covalent dimerization of a short (8-mer) amphipathic oligourea sequence bearing histidine-type units. This CPF exhibits a high capacity to assemble with pDNA and mediates efficient delivery of nucleic acids into the cell. Furthermore, it does not adversely affect cellular viability and was shown to compare favorably with a cognate peptide transfection agent based on His-rich sequences.
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Affiliation(s)
- Céline Douat
- Univ. Bordeaux, CBMN, UMR 5248, Institut Européen de Chimie et Biologie (IECB), 2 rue Robert Escarpit, 33607 Pessac (France).,CNRS, CBMN, UMR 5248, 33600 Pessac (France)
| | - Christopher Aisenbrey
- Membrane Biophysics and NMR, Chemistry Institute, University of Strasbourg-CNRS UMR7177, 4, Rue Blaise Pascal, 67008 Strasbourg (France)
| | - Stéphanie Antunes
- Univ. Bordeaux, CBMN, UMR 5248, Institut Européen de Chimie et Biologie (IECB), 2 rue Robert Escarpit, 33607 Pessac (France).,CNRS, CBMN, UMR 5248, 33600 Pessac (France)
| | - Marion Decossas
- CNRS, CBMN, UMR 5248, 33600 Pessac (France).,Univ. Bordeaux, CBMN, UMR 5248, All. Geoffroy Saint-Hilaire, 33600 Pessac (France)
| | - Olivier Lambert
- CNRS, CBMN, UMR 5248, 33600 Pessac (France).,Univ. Bordeaux, CBMN, UMR 5248, All. Geoffroy Saint-Hilaire, 33600 Pessac (France)
| | - Burkhard Bechinger
- Membrane Biophysics and NMR, Chemistry Institute, University of Strasbourg-CNRS UMR7177, 4, Rue Blaise Pascal, 67008 Strasbourg (France)
| | - Antoine Kichler
- Laboratoire "Vecteurs: Synthèse et Applications Thérapeutiques", UMR 7199 CNRS-Université de Strasbourg, Labex Medalis, Faculté de Pharmacie, 74 route du Rhin, 67401 Illkirch cedex (France).
| | - Gilles Guichard
- Univ. Bordeaux, CBMN, UMR 5248, Institut Européen de Chimie et Biologie (IECB), 2 rue Robert Escarpit, 33607 Pessac (France). .,CNRS, CBMN, UMR 5248, 33600 Pessac (France).
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25
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Douat C, Aisenbrey C, Antunes S, Decossas M, Lambert O, Bechinger B, Kichler A, Guichard G. A Cell-Penetrating Foldamer with a Bioreducible Linkage for Intracellular Delivery of DNA. Angew Chem Int Ed Engl 2015. [DOI: 10.1002/ange.201504884] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2023]
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26
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Fremaux J, Mauran L, Pulka-Ziach K, Kauffmann B, Odaert B, Guichard G. α-Peptide-Oligourea Chimeras: Stabilization of Short α-Helices by Non-Peptide Helical Foldamers. Angew Chem Int Ed Engl 2015. [DOI: 10.1002/ange.201500901] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]
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27
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Fremaux J, Mauran L, Pulka‐Ziach K, Kauffmann B, Odaert B, Guichard G. α‐Peptide–Oligourea Chimeras: Stabilization of Short α‐Helices by Non‐Peptide Helical Foldamers. Angew Chem Int Ed Engl 2015; 54:9816-20. [DOI: 10.1002/anie.201500901] [Citation(s) in RCA: 48] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/30/2015] [Revised: 04/23/2015] [Indexed: 01/27/2023]
Affiliation(s)
- Juliette Fremaux
- Univ. Bordeaux, CBMN, UMR 5248, Institut Européen de Chimie et Biologie (IECB), 2 rue Robert Escarpit, 33607 Pessac (France)
- CNRS, CBMN, UMR 5248, 33600 Pessac (France)
- UREkA, Sarl, 2 rue Robert Escarpit, 33607 Pessac (France)
| | - Laura Mauran
- Univ. Bordeaux, CBMN, UMR 5248, Institut Européen de Chimie et Biologie (IECB), 2 rue Robert Escarpit, 33607 Pessac (France)
- CNRS, CBMN, UMR 5248, 33600 Pessac (France)
- UREkA, Sarl, 2 rue Robert Escarpit, 33607 Pessac (France)
| | - Karolina Pulka‐Ziach
- Univ. Bordeaux, CBMN, UMR 5248, Institut Européen de Chimie et Biologie (IECB), 2 rue Robert Escarpit, 33607 Pessac (France)
- CNRS, CBMN, UMR 5248, 33600 Pessac (France)
- Present address: Faculty of Chemistry, University of Warsaw, Pasteura 1, 02‐093 Warsaw (Poland)
| | - Brice Kauffmann
- Univ. Bordeaux, IECB, UMS 3033/US 001, 2 rue Escarpit, 33607 Pessac (France)
- CNRS, IECB, UMS 3033, 33600 Pessac (France)
- INSERM, IECB, US 001, 33600 Pessac (France)
| | - Benoit Odaert
- CNRS, CBMN, UMR 5248, 33600 Pessac (France)
- Univ. Bordeaux, CBMN, UMR 5248, All. Geoffroy Saint‐Hilaire, 33600 Pessac (France)
| | - Gilles Guichard
- Univ. Bordeaux, CBMN, UMR 5248, Institut Européen de Chimie et Biologie (IECB), 2 rue Robert Escarpit, 33607 Pessac (France)
- CNRS, CBMN, UMR 5248, 33600 Pessac (France)
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28
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Nelli YR, Antunes S, Salaün A, Thinon E, Massip S, Kauffmann B, Douat C, Guichard G. Isosteric Substitutions of Urea to Thiourea and Selenourea in Aliphatic Oligourea Foldamers: Site-Specific Perturbation of the Helix Geometry. Chemistry 2014; 21:2870-80. [DOI: 10.1002/chem.201405792] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/23/2014] [Indexed: 01/05/2023]
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29
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Wechsel R, Maury J, Fremaux J, France SP, Guichard G, Clayden J. Inducing achiral aliphatic oligoureas to fold into helical conformations. Chem Commun (Camb) 2014; 50:15006-9. [DOI: 10.1039/c4cc06754a] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/10/2023]
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30
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Fremaux J, Kauffmann B, Guichard G. Synthesis and Folding Propensity of Aliphatic Oligoureas Containing Repeats of Proline-Type Units. J Org Chem 2014; 79:5494-502. [DOI: 10.1021/jo5006075] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/03/2023]
Affiliation(s)
- Juliette Fremaux
- Université de Bordeaux, CNRS, IPB, UMR 5248, CBMN, Institut Européen de Chimie et de Biologie, 2 rue Robert Escarpit, 33607 Pessac, France
| | - Brice Kauffmann
- Université de Bordeaux, CNRS, UMS 3033, INSERM US001, Institut Européen de Chimie et de Biologie, 2 rue Robert Escarpit, 33607 Pessac, France
| | - Gilles Guichard
- Université de Bordeaux, CNRS, IPB, UMR 5248, CBMN, Institut Européen de Chimie et de Biologie, 2 rue Robert Escarpit, 33607 Pessac, France
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31
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Pyrrolidine-diaminomethylenemalononitrile organocatalyst for Michael additions of carbonyl compounds to nitroalkenes under solvent-free conditions. Tetrahedron Lett 2014. [DOI: 10.1016/j.tetlet.2014.03.042] [Citation(s) in RCA: 28] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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32
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Singleton ML, Castellucci N, Massip S, Kauffmann B, Ferrand Y, Huc I. Synthesis of 1,8-diazaanthracenes as building blocks for internally functionalized aromatic oligoamide foldamers. J Org Chem 2014; 79:2115-22. [PMID: 24506270 DOI: 10.1021/jo402852m] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/17/2023]
Abstract
The synthesis of a variety of 9-functionalized 1,8-diazaanthracene diesters and amino acids is described. Derivatization at the 9-position relies on facile reactions performed on the 9-chloro and 9-bromomethyl precursors. This has allowed the incorporation of nucleophilic or sensitive functional groups that otherwise cannot be incorporated under standard methods for synthesizing these compounds. Additionally, the synthesis of the protected amino acids via a high-yielding monosaponification and subsequent Curtius rearrangement has been accomplished on a multigram scale. These units, together with the functionalized derivatives, should prove to be useful monomers in the synthesis of aromatic oligoamide foldamers.
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Affiliation(s)
- Michael L Singleton
- University of Bordeaux, CBMN (UMR 5248), Institut Européen de Chimie Biologie, 2 rue Robert Escarpit, 33600 Pessac, France
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33
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Nelli YR, Fischer L, Collie GW, Kauffmann B, Guichard G. Structural characterization of short hybrid urea/carbamate (U/C) foldamers: A case of partial helix unwinding. Biopolymers 2013; 100:687-97. [DOI: 10.1002/bip.22302] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/13/2013] [Revised: 05/21/2013] [Accepted: 05/28/2013] [Indexed: 12/31/2022]
Affiliation(s)
- Yella Reddy Nelli
- Université de Bordeaux, CNRS UMR 5248; CBMN, Institut Européen de Chimie et Biologie; 2 rue Robert Escarpit 33607 Pessac France
| | - Lucile Fischer
- Université de Bordeaux, CNRS UMR 5248; CBMN, Institut Européen de Chimie et Biologie; 2 rue Robert Escarpit 33607 Pessac France
| | - Gavin W. Collie
- Université de Bordeaux, CNRS UMR 5248; CBMN, Institut Européen de Chimie et Biologie; 2 rue Robert Escarpit 33607 Pessac France
| | - Brice Kauffmann
- Université de Bordeaux, CNRS UMS 3033; INSERM US001, Institut Européen de Chimie et Biologie; 2 rue Robert Escarpit 33607 Pessac France
| | - Gilles Guichard
- Université de Bordeaux, CNRS UMR 5248; CBMN, Institut Européen de Chimie et Biologie; 2 rue Robert Escarpit 33607 Pessac France
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34
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André C, Legrand B, Moulat L, Wenger E, Didierjean C, Aubert E, Averlant-Petit MC, Martinez J, Amblard M, Calmes M. Mixed Oligoureas Based on Constrained Bicyclic and Acyclic β-Amino Acids Derivatives: On the Significance of the Subunit Configuration for Folding. Chemistry 2013; 19:16963-71. [DOI: 10.1002/chem.201302829] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/18/2013] [Indexed: 01/03/2023]
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35
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Schneider TL, Halloran KT, Hillner JA, Conry RR, Linton BR. Application of H/D Exchange to Hydrogen Bonding in Small Molecules. Chemistry 2013; 19:15101-4. [DOI: 10.1002/chem.201302354] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/20/2013] [Indexed: 11/09/2022]
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36
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Taylor L, Chen X, Ayres N. Synthesis of a glycosaminoglycan polymer mimetic using an N
-alkyl-N
,N
-linked urea oligomer containing glucose pendant groups. POLYM INT 2013. [DOI: 10.1002/pi.4567] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022]
Affiliation(s)
- Leeanne Taylor
- University of Cincinnati; Department of Chemistry; 301 Clifton Court, PO Box 210172 Cincinnati OH 45221 USA
| | - Xiaoping Chen
- University of Cincinnati; Department of Chemistry; 301 Clifton Court, PO Box 210172 Cincinnati OH 45221 USA
| | - Neil Ayres
- University of Cincinnati; Department of Chemistry; 301 Clifton Court, PO Box 210172 Cincinnati OH 45221 USA
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Roy N, Buhler E, Lehn JM. The Tris-Urea Motif and Its Incorporation into Polydimethylsiloxane-Based Supramolecular Materials Presenting Self-Healing Features. Chemistry 2013; 19:8814-20. [DOI: 10.1002/chem.201203518] [Citation(s) in RCA: 44] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/03/2012] [Revised: 03/27/2013] [Indexed: 11/10/2022]
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38
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Pendem N, Douat C, Claudon P, Laguerre M, Castano S, Desbat B, Cavagnat D, Ennifar E, Kauffmann B, Guichard G. Helix-Forming Propensity of Aliphatic Urea Oligomers Incorporating Noncanonical Residue Substitution Patterns. J Am Chem Soc 2013; 135:4884-92. [DOI: 10.1021/ja401151v] [Citation(s) in RCA: 46] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Affiliation(s)
- Nagendar Pendem
- Université de Bordeaux-CNRS UMR 5248, CBMN, Institut Européen
de Chimie et Biologie, 2 rue Robert Escarpit, 33607 Pessac, France
| | - Céline Douat
- Université de Bordeaux-CNRS UMR 5248, CBMN, Institut Européen
de Chimie et Biologie, 2 rue Robert Escarpit, 33607 Pessac, France
| | - Paul Claudon
- Université de Bordeaux-CNRS UMR 5248, CBMN, Institut Européen
de Chimie et Biologie, 2 rue Robert Escarpit, 33607 Pessac, France
| | - Michel Laguerre
- Université de Bordeaux-CNRS UMR 5248, CBMN, Institut Européen
de Chimie et Biologie, 2 rue Robert Escarpit, 33607 Pessac, France
| | - Sabine Castano
- Université de Bordeaux-CNRS UMR 5248, CBMN, Institut Européen
de Chimie et Biologie, 2 rue Robert Escarpit, 33607 Pessac, France
| | - Bernard Desbat
- Université de Bordeaux-CNRS UMR 5248, CBMN, Institut Européen
de Chimie et Biologie, 2 rue Robert Escarpit, 33607 Pessac, France
| | - Dominique Cavagnat
- ISM, UMR CNRS 5255, Université de Bordeaux, 351 cours de la Libération,
33405 Talence, France
| | - Eric Ennifar
- Université de Strasbourg-CNRS UPR 9002, Architecture et Réactivité
de l’ARN, IBMC, CNRS, 15 rue René Descartes, 67084 Strasbourg,
France
| | - Brice Kauffmann
- Université de Bordeaux-CNRS UMS 3033, INSERM US001, Institut Européen
de Chimie et Biologie, 2 rue Robert Escarpit, 33607 Pessac, France
| | - Gilles Guichard
- Université de Bordeaux-CNRS UMR 5248, CBMN, Institut Européen
de Chimie et Biologie, 2 rue Robert Escarpit, 33607 Pessac, France
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39
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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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40
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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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41
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Qaroush AK, Al-Hamayda AS, Khashman YK, Vagin SI, Troll C, Rieger B. Highly efficient isocyanate-free microwave-assisted synthesis of [6]-oligourea. Catal Sci Technol 2013. [DOI: 10.1039/c3cy00117b] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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42
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Fremaux J, Dolain C, Kauffmann B, Clayden J, Guichard G. Influence of achiral units with gem-dimethyl substituents on the helical character of aliphatic oligourea foldamers. Chem Commun (Camb) 2013; 49:7415-7. [DOI: 10.1039/c3cc40961a] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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43
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Legrand B, André C, Wenger E, Didierjean C, Averlant-Petit MC, Martinez J, Calmes M, Amblard M. Robust Helix Formation in a New Family of Oligoureas Based on a Constrained Bicyclic Building Block. Angew Chem Int Ed Engl 2012; 51:11267-70. [DOI: 10.1002/anie.201205842] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/24/2012] [Indexed: 01/22/2023]
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44
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Legrand B, André C, Wenger E, Didierjean C, Averlant-Petit MC, Martinez J, Calmes M, Amblard M. Robust Helix Formation in a New Family of Oligoureas Based on a Constrained Bicyclic Building Block. Angew Chem Int Ed Engl 2012. [DOI: 10.1002/ange.201205842] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/19/2023]
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45
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Ramesh VV, Puranik VG, Sanjayan GJ. Carbohydrate-derived conformationally restricted bicyclic dipeptides as potential hetero foldamer building blocks. ACTA ACUST UNITED AC 2012. [DOI: 10.1016/j.tetasy.2012.08.007] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/03/2023]
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46
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Kim MJ, Lee HW, Moon D, Jeong KS. Helically Foldable Diphenylureas as Anion Receptors: Modulation of the Binding Affinity by the Chain Length. Org Lett 2012; 14:5042-5. [DOI: 10.1021/ol302266w] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
Affiliation(s)
- Min Jung Kim
- Department of Chemistry, Yonsei University, Seoul 120-749, South Korea, and Pohang Accelerator Laboratory, San 31 Hyoja-Dong, Nam-Gu, Pohang, KyungBuk 790-784, South Korea
| | - Hye-Won Lee
- Department of Chemistry, Yonsei University, Seoul 120-749, South Korea, and Pohang Accelerator Laboratory, San 31 Hyoja-Dong, Nam-Gu, Pohang, KyungBuk 790-784, South Korea
| | - Dohyun Moon
- Department of Chemistry, Yonsei University, Seoul 120-749, South Korea, and Pohang Accelerator Laboratory, San 31 Hyoja-Dong, Nam-Gu, Pohang, KyungBuk 790-784, South Korea
| | - Kyu-Sung Jeong
- Department of Chemistry, Yonsei University, Seoul 120-749, South Korea, and Pohang Accelerator Laboratory, San 31 Hyoja-Dong, Nam-Gu, Pohang, KyungBuk 790-784, South Korea
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47
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Nelli YR, Douat-Casassus C, Claudon P, Kauffmann B, Didierjean C, Guichard G. An activated building block for the introduction of the histidine side chain in aliphatic oligourea foldamers. Tetrahedron 2012. [DOI: 10.1016/j.tet.2011.11.066] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/14/2022]
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48
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Douat-Casassus C, Pulka K, Claudon P, Guichard G. Microwave-Enhanced Solid-Phase Synthesis of N,N′-Linked Aliphatic Oligoureas and Related Hybrids. Org Lett 2012; 14:3130-3. [DOI: 10.1021/ol3012106] [Citation(s) in RCA: 38] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Céline Douat-Casassus
- Université de Bordeaux–CNRS UMR 5248, Institut Européen de Chimie et Biologie, 2 rue Robert Escarpit, 33607 Pessac Cedex, France
| | - Karolina Pulka
- Université de Bordeaux–CNRS UMR 5248, Institut Européen de Chimie et Biologie, 2 rue Robert Escarpit, 33607 Pessac Cedex, France
| | - Paul Claudon
- Université de Bordeaux–CNRS UMR 5248, Institut Européen de Chimie et Biologie, 2 rue Robert Escarpit, 33607 Pessac Cedex, France
| | - Gilles Guichard
- Université de Bordeaux–CNRS UMR 5248, Institut Européen de Chimie et Biologie, 2 rue Robert Escarpit, 33607 Pessac Cedex, France
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49
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Aisenbrey C, Pendem N, Guichard G, Bechinger B. Solid state NMR studies of oligourea foldamers: Interaction of 15N-labelled amphiphilic helices with oriented lipid membranes. Org Biomol Chem 2012; 10:1440-7. [DOI: 10.1039/c1ob06278f] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/07/2023]
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50
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Priya G, Kotmale AS, Gawade RL, Mishra D, Pal S, Puranik VG, Rajamohanan PR, Sanjayan GJ. Helical folding in heterogeneous foldamers without inter-residual backbone hydrogen-bonding. Chem Commun (Camb) 2012; 48:8922-4. [DOI: 10.1039/c2cc33235c] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
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