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Frolov AI, Ostapchuk EN, Pashenko AE, Chuchvera YO, Rusanov EB, Volochnyuk DM, Ryabukhin SV. Selective α-Methylation of Ketones. J Org Chem 2021; 86:7333-7346. [PMID: 34042433 DOI: 10.1021/acs.joc.1c00148] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
The convenient and scalable preparative approach for the two-step α-methylation of ketones is described. The optimized protocols for regioselective preparation of enaminones with further diastereoselective and functional groups tolerant hydrogenation to α-methylketones are developed. The scope and limitations of the proposed methodology are discussed. The advantages compared to known procedures are demonstrated. The unexpected role of acetone in the hydrogenation is suggested. The evaluation of the method for both early building block synthesis and late-stage CH-functionalization is shown. The elaborate procedures' preparability and scalability are demonstrated by the synthesis of several α-methyl ketones up to 100 g amount.
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Affiliation(s)
- Andriy I Frolov
- Enamine Ltd, 78 Chervonotkatska str., Kyiv 02094, Ukraine.,Taras Shevchenko National University of Kyiv, 60 Volodymyrska str., Kyiv 01033, Ukraine
| | - Eugeniy N Ostapchuk
- Enamine Ltd, 78 Chervonotkatska str., Kyiv 02094, Ukraine.,Taras Shevchenko National University of Kyiv, 60 Volodymyrska str., Kyiv 01033, Ukraine
| | - Alexander E Pashenko
- Enamine Ltd, 78 Chervonotkatska str., Kyiv 02094, Ukraine.,Taras Shevchenko National University of Kyiv, 60 Volodymyrska str., Kyiv 01033, Ukraine
| | | | - Eduard B Rusanov
- Institute of Organic Chemistry, National Academy of Sciences of Ukraine, 5 Murmanska str., Kyiv 02094, Ukraine
| | - Dmitriy M Volochnyuk
- Enamine Ltd, 78 Chervonotkatska str., Kyiv 02094, Ukraine.,Taras Shevchenko National University of Kyiv, 60 Volodymyrska str., Kyiv 01033, Ukraine.,Institute of Organic Chemistry, National Academy of Sciences of Ukraine, 5 Murmanska str., Kyiv 02094, Ukraine
| | - Sergey V Ryabukhin
- Enamine Ltd, 78 Chervonotkatska str., Kyiv 02094, Ukraine.,Taras Shevchenko National University of Kyiv, 60 Volodymyrska str., Kyiv 01033, Ukraine
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2
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Synthesis and cytotoxic activity of novel 4-amino-5-cyano-2-sulfonylpyrimidines. MENDELEEV COMMUNICATIONS 2020. [DOI: 10.1016/j.mencom.2020.09.017] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
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3
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Vallade M, Jewginski M, Fischer L, Buratto J, Bathany K, Schmitter JM, Stupfel M, Godde F, Mackereth CD, Huc I. Assessing Interactions between Helical Aromatic Oligoamide Foldamers and Protein Surfaces: A Tethering Approach. Bioconjug Chem 2019; 30:54-62. [PMID: 30395443 DOI: 10.1021/acs.bioconjchem.8b00710] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/17/2023]
Abstract
Helically folded aromatic foldamers may constitute suitable candidates for the ab initio design of ligands for protein surfaces. As preliminary steps toward the exploration of this hypothesis, a tethering approach was developed to detect interactions between a protein and a foldamer by confining the former at the surface of the latter. Cysteine mutants of two therapeutically relevant enzymes, CypA and IL4, were produced. Two series of ten foldamers were synthesized bearing different proteinogenic side chains and either a long or a short linker functionalized with an activated disulfide. Disulfide exchange between the mutated cysteines and the activated disulfides yielded 20 foldamer-IL4 and 20 foldamer-CypA adducts. Effectiveness of the reaction was demonstrated by LC-MS, by MS analysis after proteolytic digestion, and by 2D NMR. Circular dichroism then revealed diastereoselective interactions between the proteins and the foldamers confined at their surface which resulted in a preferred handedness of the foldamer helix. Helix sense bias occurred sometimes with both the short and the long linkers and sometimes with only one of them. In a few cases, helix handedness preference is found to be close to quantitative. These cases constitute valid candidates for structural elucidation of the interactions involved.
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Affiliation(s)
- Maëlle Vallade
- Université Bordeaux, CNRS, IPB, CBMN (UMR 5248), Institut Européen de Chimie et Biologie , 2 rue Robert Escarpit , 33600 Pessac , France
| | - Michal Jewginski
- Université Bordeaux, CNRS, IPB, CBMN (UMR 5248), Institut Européen de Chimie et Biologie , 2 rue Robert Escarpit , 33600 Pessac , France.,Department of Bioorganic Chemistry, Faculty of Chemistry , Wrocław University of Technology , 50-370 Wrocław , Poland
| | - Lucile Fischer
- Université Bordeaux, CNRS, IPB, CBMN (UMR 5248), Institut Européen de Chimie et Biologie , 2 rue Robert Escarpit , 33600 Pessac , France
| | - Jérémie Buratto
- Université Bordeaux, CNRS, IPB, CBMN (UMR 5248), Institut Européen de Chimie et Biologie , 2 rue Robert Escarpit , 33600 Pessac , France
| | - Katell Bathany
- Université Bordeaux, CNRS, IPB, CBMN (UMR 5248), Institut Européen de Chimie et Biologie , 2 rue Robert Escarpit , 33600 Pessac , France
| | - Jean-Marie Schmitter
- Université Bordeaux, CNRS, IPB, CBMN (UMR 5248), Institut Européen de Chimie et Biologie , 2 rue Robert Escarpit , 33600 Pessac , France
| | - Marine Stupfel
- Université Bordeaux, CNRS, IPB, CBMN (UMR 5248), Institut Européen de Chimie et Biologie , 2 rue Robert Escarpit , 33600 Pessac , France
| | - Frédéric Godde
- Université Bordeaux, CNRS, IPB, CBMN (UMR 5248), Institut Européen de Chimie et Biologie , 2 rue Robert Escarpit , 33600 Pessac , France
| | - Cameron D Mackereth
- Université Bordeaux, INSERM, CNRS, ARNA (U 1212 and UMR 5320), Institut Européen de Chimie et Biologie , 2 rue Robert Escarpit , 33600 Pessac , France
| | - Ivan Huc
- Université Bordeaux, CNRS, IPB, CBMN (UMR 5248), Institut Européen de Chimie et Biologie , 2 rue Robert Escarpit , 33600 Pessac , France.,Department Pharmazie , Ludwig-Maximilians-Universität , Butenandtstraße 5-13 , D-81377 München , Germany
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4
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Lim Z, Duggan PJ, Wan SS, Lessene G, Meyer AG, Tuck KL. Exploiting the Biginelli reaction: nitrogen-rich pyrimidine-based tercyclic α-helix mimetics. Tetrahedron 2016. [DOI: 10.1016/j.tet.2015.12.044] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/22/2022]
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5
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Lee JH, Oh M, Kim HS, Lee H, Im W, Lim HS. Converting One-Face α-Helix Mimetics into Amphiphilic α-Helix Mimetics as Potent Inhibitors of Protein-Protein Interactions. ACS COMBINATORIAL SCIENCE 2016; 18:36-42. [PMID: 26651509 DOI: 10.1021/acscombsci.5b00080] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
Abstract
Many biologically active α-helical peptides adopt amphiphilic helical structures that contain hydrophobic residues on one side and hydrophilic residues on the other side. Therefore, α-helix mimetics capable of mimicking such amphiphilic helical peptides should possess higher binding affinity and specificity to target proteins. Here we describe an efficient method for generating amphiphilic α-helix mimetics. One-face α-helix mimetics having hydrophobic side chains on one side was readily converted into amphiphilic α-helix mimetics by introducing appropriate charged residues on the opposite side. We also demonstrate that such two-face amphiphilic α-helix mimetics indeed show remarkably improved binding affinity to a target protein, compared to one-face hydrophobic α-helix mimetics. We believe that generating a large combinatorial library of these amphiphilic α-helix mimetics can be valuable for rapid discovery of highly potent and specific modulators of protein-protein interactions.
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Affiliation(s)
- Ji Hoon Lee
- New
Drug Development Center, Daegu Gyeongbuk Medical Innovation Foundation, Daegu 701-310, South Korea
| | - Misook Oh
- Department
of Chemistry, Pohang University of Science and Technology (POSTECH), Pohang 790-784, South Korea
- Department
of Biochemistry and Molecular Biology, Indiana University School of Medicine, Indianapolis, Indiana 46202, United States
| | - Hyun Soo Kim
- Department
of Chemistry, Pohang University of Science and Technology (POSTECH), Pohang 790-784, South Korea
| | - Huisun Lee
- Department
of Molecular Biosciences and Centre for Computational Biology, The University of Kansas, Lawrence, Kansas 66047, United States
| | - Wonpil Im
- Department
of Molecular Biosciences and Centre for Computational Biology, The University of Kansas, Lawrence, Kansas 66047, United States
| | - Hyun-Suk Lim
- Department
of Chemistry, Pohang University of Science and Technology (POSTECH), Pohang 790-784, South Korea
- Department
of Biochemistry and Molecular Biology, Indiana University School of Medicine, Indianapolis, Indiana 46202, United States
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6
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Aryan R, Nojavan M, Sadeghi F. A New Facile, High Yielding and Efficient Protocol for the Synthesis of Novel 4-Phenylsulfonamido-6-Aryl-2-Phenylpyrimidine-5-Carbonitrile Derivatives. PHOSPHORUS SULFUR 2015. [DOI: 10.1080/10426507.2015.1050017] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
Affiliation(s)
- Reza Aryan
- Department of Chemistry, Faculty of Science, University of Zabol, P.O. Box 9861335856, Zabol, Iran
| | - Masoomeh Nojavan
- Department of Chemistry, Faculty of Science, University of Zabol, P.O. Box 9861335856, Zabol, Iran
| | - Fatemeh Sadeghi
- Department of Chemistry, Faculty of Science, University of Zabol, P.O. Box 9861335856, Zabol, Iran
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7
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Borah A, Goswami L, Neog K, Gogoi P. DMF Dimethyl Acetal as Carbon Source for α-Methylation of Ketones: A Hydrogenation–Hydrogenolysis Strategy of Enaminones. J Org Chem 2015; 80:4722-8. [DOI: 10.1021/acs.joc.5b00084] [Citation(s) in RCA: 31] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Affiliation(s)
- Ashwini Borah
- Medicinal Chemistry Division, CSIR-North East Institute of Science and Technology, Jorhat 785006, India
| | - Limi Goswami
- Medicinal Chemistry Division, CSIR-North East Institute of Science and Technology, Jorhat 785006, India
| | - Kashmiri Neog
- Medicinal Chemistry Division, CSIR-North East Institute of Science and Technology, Jorhat 785006, India
| | - Pranjal Gogoi
- Medicinal Chemistry Division, CSIR-North East Institute of Science and Technology, Jorhat 785006, India
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8
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Moon H, Lim HS. Synthesis and screening of small-molecule α-helix mimetic libraries targeting protein–protein interactions. Curr Opin Chem Biol 2015; 24:38-47. [DOI: 10.1016/j.cbpa.2014.10.023] [Citation(s) in RCA: 38] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/18/2014] [Revised: 10/27/2014] [Accepted: 10/28/2014] [Indexed: 12/11/2022]
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9
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Moon H, Lee WS, Oh M, Lee H, Lee JH, Im W, Lim HS. Design, solid-phase synthesis, and evaluation of a phenyl-piperazine-triazine scaffold as α-helix mimetics. ACS COMBINATORIAL SCIENCE 2014; 16:695-701. [PMID: 25336412 DOI: 10.1021/co500114f] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/13/2023]
Abstract
α-Helices play a critical role in mediating many protein-protein interactions (PPIs) as recognition motifs. Therefore, there is a considerable interest in developing small molecules that can mimic helical peptide segments to modulate α-helix-mediated PPIs. Due to the relatively low aqueous solubility and synthetic difficulty of most current α-helix mimetic small molecules, one important goal in this area is to develop small molecules with favorable physicochemical properties and ease of synthesis. Here we designed phenyl-piperazine-triazine-based α-helix mimetics that possess improved water solubility and excellent synthetic accessibility. We developed a facile solid-phase synthetic route that allows for rapid creation of a large, diverse combinatorial library of α-helix mimetics. Further, we identified a selective inhibitor of the Mcl-1/BH3 interaction by screening a focused library of phenyl-piperazine-triazines, demonstrating that the scaffold is able to serve as functional mimetics of α-helical peptides. We believe that our phenyl-piperazine-triazine-based α-helix mimetics, along with the facile and divergent solid-phase synthetic method, have great potential as powerful tools for discovering potent inhibitors of given α-helix-mediated PPIs.
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Affiliation(s)
- Heejo Moon
- Department
of Chemistry, Pohang University of Science and Technology (POSTECH), Pohang 790-784, South Korea
| | - Woo Sirl Lee
- Department
of Chemistry, Pohang University of Science and Technology (POSTECH), Pohang 790-784, South Korea
| | - Misook Oh
- Department
of Chemistry, Pohang University of Science and Technology (POSTECH), Pohang 790-784, South Korea
- Department
of Biochemistry and Molecular Biology, Indiana University School of Medicine, Indianapolis, Indiana 46032, United States
| | - Huisun Lee
- Department
of Molecular Biosciences and Centre for Bioinformatics, The University of Kansas, Lawrence, Kansas 66047, United States
| | - Ji Hoon Lee
- Department
of Chemistry, Pohang University of Science and Technology (POSTECH), Pohang 790-784, South Korea
| | - Wonpil Im
- Department
of Molecular Biosciences and Centre for Bioinformatics, The University of Kansas, Lawrence, Kansas 66047, United States
| | - Hyun-Suk Lim
- Department
of Chemistry, Pohang University of Science and Technology (POSTECH), Pohang 790-784, South Korea
- Department
of Biochemistry and Molecular Biology, Indiana University School of Medicine, Indianapolis, Indiana 46032, United States
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10
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Fadda AA, El-Mekabaty A, Mousa IA, Elattar KM. Chemistry of 3-(1H-Indol-3-yl)-3-oxopropanenitrile. SYNTHETIC COMMUN 2014. [DOI: 10.1080/00397911.2013.861915] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/11/2023]
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11
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Lim Z, Duggan PJ, Meyer AG, Tuck KL. An iterative in silico and modular synthetic approach to aqueous soluble tercyclic α-helix mimetics. Org Biomol Chem 2014; 12:4432-44. [DOI: 10.1039/c4ob00647j] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
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12
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Rostamizadeh S, Nojavan M. An Environmentally Benign Multicomponent Synthesis of Some Novel 2-Methylthio Pyrimidine Derivatives Using MCM-41-NH2as Nanoreactor and Nanocatalyst. J Heterocycl Chem 2013. [DOI: 10.1002/jhet.1755] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Affiliation(s)
- Shahnaz Rostamizadeh
- Department of Chemistry, Faculty of Science; K. N. Toosi University of Technology; P.O. Box: 15875-4416 Tehran Iran
| | - Masoomeh Nojavan
- Department of Chemistry, Faculty of Science; K. N. Toosi University of Technology; P.O. Box: 15875-4416 Tehran Iran
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13
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Perato S, Fogha J, Sebban M, Voisin-Chiret AS, Sopkova-de Oliveira Santos J, Oulyadi H, Rault S. Conformation Control of Abiotic α-Helical Foldamers. J Chem Inf Model 2013; 53:2671-80. [DOI: 10.1021/ci400365y] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Serge Perato
- Normandie Université, France
- UNICAEN, CERMN (Centre d’Etudes
et de Recherche sur
le Médicament de Normandie UPRES EA 4258-FR CNRS 3038 INC3M,
Bd Becquerel), F-14032 Caen, France
| | - Jade Fogha
- Normandie Université, France
- UNICAEN, CERMN (Centre d’Etudes
et de Recherche sur
le Médicament de Normandie UPRES EA 4258-FR CNRS 3038 INC3M,
Bd Becquerel), F-14032 Caen, France
| | - Muriel Sebban
- Université de Rouen, COBRA-UMR 6014, Rue Lucien
Tesnières, F-76821 Mont-Saint-Aignan, France
| | - Anne Sophie Voisin-Chiret
- Normandie Université, France
- UNICAEN, CERMN (Centre d’Etudes
et de Recherche sur
le Médicament de Normandie UPRES EA 4258-FR CNRS 3038 INC3M,
Bd Becquerel), F-14032 Caen, France
| | - Jana Sopkova-de Oliveira Santos
- Normandie Université, France
- UNICAEN, CERMN (Centre d’Etudes
et de Recherche sur
le Médicament de Normandie UPRES EA 4258-FR CNRS 3038 INC3M,
Bd Becquerel), F-14032 Caen, France
| | - Hassan Oulyadi
- Université de Rouen, COBRA-UMR 6014, Rue Lucien
Tesnières, F-76821 Mont-Saint-Aignan, France
| | - Sylvain Rault
- Normandie Université, France
- UNICAEN, CERMN (Centre d’Etudes
et de Recherche sur
le Médicament de Normandie UPRES EA 4258-FR CNRS 3038 INC3M,
Bd Becquerel), F-14032 Caen, France
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Using halo (het) arylboronic species to achieve synthesis of foldamers as protein–protein interaction disruptors. PURE APPL CHEM 2012. [DOI: 10.1351/pac-con-11-10-30] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
Abstract
Protein–protein interactions (PPIs) play a central role in all biological processes and have been the focus of intense investigations from structural molecular biology to cell biology for the majority of the last two decades and, more recently, are emerging as important targets for pharmaceuticals. A common motif found at the interface of PPIs is the α-helix, and apart from the peptidic structures, numerous nonpeptidic small molecules have been developed to mimic α-helices. The first-generation terphenyl scaffold is able to successfully mimic key helix residues and disrupt relevant interactions, including Bcl-xL-Bak interactions that are implicated in apoptosis mechanism. These scaffolds were designed and evaluated in silico. Analysis revealed that substituents on aromatic scaffolds can efficiently mimic side-chain surfaces. Unfortunately, the literature describes a long and difficult procedure to access these aromatic-based scaffolds. The search for new simpler methodology is the aim of the research of our medicinal chemistry team. On the basis of structural requirements, we developed a program concerning the synthesis of new oligo(het)aryl scaffolds produced by iterative couplings of boronic species (garlanding) in which substituents on rings project functionality in spatial orientations that mimic residues of an α-helix.
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15
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Voisin-Chiret AS, Burzicki G, Perato S, De Giorgi M, Franchini C, Sopková-de Oliveira Santos J, Rault S. Aromatic garlands, as new foldamers, to mimic protein secondary structure. Tetrahedron 2012. [DOI: 10.1016/j.tet.2012.02.035] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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16
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Lee TK, Ahn JM. Solid-phase synthesis of tris-benzamides as α-helix mimetics. ACS COMBINATORIAL SCIENCE 2011; 13:107-11. [PMID: 21395339 DOI: 10.1021/co100056c] [Citation(s) in RCA: 32] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Small molecules mimicking α-helices are of great interest since numerous protein-protein interactions use helical structures at the interface. With a goal of generating libraries of α-helix mimetics, an efficient solid-phase synthetic method was developed to produce tris-benzamides. The tris-benzamide scaffold was designed to place three side-chain functional groups found at the i, i + 4, and i + 7 positions of an α-helix, emulating one helical face. The synthetic strategy involves simple and iterative reactions of removal of an allyl ester, formation of an amide bond via an O → N acyl migration, and an O-alkylation. A small library of twenty tris-benzamides containing a variety of functional groups was prepared in high purity (83-99%) to demonstrate the versatility of the synthetic approach. This methodology allowed the facile and rapid construction of α-helix mimetics that would facilitate the identification of small molecules for target proteins.
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Affiliation(s)
- Tae-Kyung Lee
- Department of Chemistry, University of Texas at Dallas, Richardson, Texas 75080, United States
| | - Jung-Mo Ahn
- Department of Chemistry, University of Texas at Dallas, Richardson, Texas 75080, United States
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