1
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Ferjancic Z, Bihelovic F, Vulovic B, Matovic R, Trmcic M, Jankovic A, Pavlovic M, Djurkovic F, Prodanovic R, Djurdjevic Djelmas A, Kalicanin N, Zlatovic M, Sladic D, Vallet T, Vignuzzi M, Saicic RN. Development of iminosugar-based glycosidase inhibitors as drug candidates for SARS-CoV-2 virus via molecular modelling and in vitro studies. J Enzyme Inhib Med Chem 2024; 39:2289007. [PMID: 38086763 DOI: 10.1080/14756366.2023.2289007] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/12/2023] [Accepted: 11/24/2023] [Indexed: 12/18/2023] Open
Abstract
We developed new iminosugar-based glycosidase inhibitors against SARS-CoV-2. Known drugs (miglustat, migalastat, miglitol, and swainsonine) were chosen as lead compounds to develop three classes of glycosidase inhibitors (α-glucosidase, α-galactosidase, and mannosidase). Molecular modelling of the lead compounds, synthesis of the compounds with the highest docking scores, enzyme inhibition tests, and in vitro antiviral assays afforded rationally designed inhibitors. Two highly active α-glucosidase inhibitors were discovered, where one of them is the most potent iminosugar-based anti-SARS-CoV-2 agent to date (EC90 = 1.94 µM in A549-ACE2 cells against Omicron BA.1 strain). However, galactosidase inhibitors did not exhibit antiviral activity, whereas mannosidase inhibitors were both active and cytotoxic. As our iminosugar-based drug candidates act by a host-directed mechanism, they should be more resilient to drug resistance. Moreover, this strategy could be extended to identify potential drug candidates for other viral infections.
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Affiliation(s)
| | - Filip Bihelovic
- Faculty of Chemistry, University of Belgrade, Belgrade, Serbia
| | - Bojan Vulovic
- Faculty of Chemistry, University of Belgrade, Belgrade, Serbia
| | - Radomir Matovic
- University of Belgrade-Institute of Chemistry, Technology and Metallurgy, Belgrade, Serbia
| | - Milena Trmcic
- Innovation Centre of the Faculty of Chemistry, Belgrade, Serbia
| | - Aleksandar Jankovic
- University of Belgrade-Institute of Chemistry, Technology and Metallurgy, Belgrade, Serbia
| | - Milos Pavlovic
- Faculty of Chemistry, University of Belgrade, Belgrade, Serbia
| | - Filip Djurkovic
- Faculty of Chemistry, University of Belgrade, Belgrade, Serbia
| | | | | | - Nevena Kalicanin
- University of Belgrade-Institute of Chemistry, Technology and Metallurgy, Belgrade, Serbia
| | - Mario Zlatovic
- Faculty of Chemistry, University of Belgrade, Belgrade, Serbia
| | - Dusan Sladic
- Faculty of Chemistry, University of Belgrade, Belgrade, Serbia
| | - Thomas Vallet
- Institut Pasteur, Center for the Viral Populations and Pathogenesis, Paris, France
| | - Marco Vignuzzi
- Institut Pasteur, Center for the Viral Populations and Pathogenesis, Paris, France
- A*STAR Infectious Diseases Labs (A*STAR ID Labs), Agency for Science, Technology and Research (A*STAR), Singapore, Singapore
| | - Radomir N Saicic
- Faculty of Chemistry, University of Belgrade, Belgrade, Serbia
- Serbian Academy of Sciences and Arts, Belgrade, Serbia
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2
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Chen WA, Li HY, Sayyad A, Huang CY, Cheng WC. Synthesis of Nitrone-derived Pyrrolidine Scaffolds and Their Combinatorial Libraries to Develop Selective α-l-Rhamnosidase Inhibitors. Chem Asian J 2022; 17:e202200172. [PMID: 35535638 DOI: 10.1002/asia.202200172] [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: 02/23/2022] [Revised: 04/28/2022] [Indexed: 11/06/2022]
Abstract
A general and flexible approach toward the development of α-l-rhamnosidase (α-l-Rha-ase) inhibitors is described. Five enantiopure poly-substituted pyrrolidine-based scaffolds bearing the C1-aminomethyl moiety were designed and synthesized from five-membered cyclic nitrones. Each structurally diversified amide library of these scaffolds was rapidly generated via combinatorial parallel synthesis and applied for in-situ inhibition study against α-l-Rha-ase, allowing us to efficiently identify new inhibition hits. Surprisingly, all promising inhibitors are derived from the same scaffold 3. Among them, the most potent and selective inhibitor is pyrrolidine 19 with Ki =0.24 μM, approximately 24-fold more potent than the reference compound DAA (Ki =5.7 μM). It is the first study to comprehensively prepare pyrrolidine-based scaffolds and libraries for inhibition study against α-l-Rha-ase.
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Affiliation(s)
- Wei-An Chen
- Genomics Research Centre, Academia Sinica, 128, Section 2, Academia Road, 11529, Taipei, Taiwan
| | - Huang-Yi Li
- Genomics Research Centre, Academia Sinica, 128, Section 2, Academia Road, 11529, Taipei, Taiwan
| | - Ashik Sayyad
- Genomics Research Centre, Academia Sinica, 128, Section 2, Academia Road, 11529, Taipei, Taiwan
| | - Chun-Yen Huang
- Genomics Research Centre, Academia Sinica, 128, Section 2, Academia Road, 11529, Taipei, Taiwan
| | - Wei-Chieh Cheng
- Genomics Research Centre, Academia Sinica, 128, Section 2, Academia Road, 11529, Taipei, Taiwan
- Department of Chemistry, National Cheng-Kung University, 1, University Road, 701, Tainan, Taiwan
- Department of Applied Chemistry, National Chiayi University, 300, Xuefu Rd., East Dist., 600, Chiayi, Taiwan
- Department of Medicinal and Applied Chemistry, Kaohsiung Medical University, 100 Shih-Chuan 1st Rd., 807, Kaohsiung, Taiwan
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3
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Perera N, Brun J, Alonzi DS, Tyrrell BE, Miller JL, Zitzmann N. Antiviral effects of deoxynojirimycin (DNJ)-based iminosugars in dengue virus-infected primary dendritic cells. Antiviral Res 2022; 199:105269. [DOI: 10.1016/j.antiviral.2022.105269] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/05/2021] [Revised: 02/12/2022] [Accepted: 02/22/2022] [Indexed: 11/29/2022]
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4
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Wu J, Hu B, Lu S, Duan R, Deng H, Li L, He L, Zhao Y, Wang J, Yu Z. Identification of raloxifene as a novel α-glucosidase inhibitor using a systematic drug repurposing approach in combination with cross molecular docking-based virtual screening and experimental verification. Carbohydr Res 2021; 511:108478. [PMID: 34801925 DOI: 10.1016/j.carres.2021.108478] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/10/2021] [Revised: 11/05/2021] [Accepted: 11/09/2021] [Indexed: 01/14/2023]
Abstract
α-Glucosidase is a promising target for the treatment of diabetes. Drug repurposing can increase the chances of discovering an active inhibitor. Therefore, this study aimed to identify potential α-glucosidase inhibitor using drug repurposing and in silico strategies. We identified critical amino acid residues of the three α-glucosidase proteins. Based on cross molecular docking studies of three α-glucosidase proteins and drugs in the FDA database, we screened hits with the favorable binding affinities and modes targeting the three proteins. Subsequently, an in vitro activity assay showed that raloxifene was an excellent inhibitor of α-glucosidase. Moreover, molecular dynamics simulations of raloxifene and three proteins were performed to assess the stability of the protein-hit systems in physiological conditions and clarify protein-hit interactions. We also performed the binding free energy calculation, Hirshfeld surface and alanine scanning mutagenesis analyses. These results demonstrated that binding between raloxifene and the three proteins was stable, and the critical amino acid residues of the three proteins formed stable contacts with raloxifene. The molecular mechanisms agree well with its activity, reinforcing that raloxifene is a candidate α-glucosidase inhibitor. Our study smoothes the path for the development of novel a-glucosidase inhibitors with high efficacy and low toxicity for the treatment of diabetes.
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Affiliation(s)
- Jiaofeng Wu
- School of Pharmacy, Shenyang Pharmaceutical University, Shenyang, 110016, PR China
| | - Baichun Hu
- School of Pharmaceutical Engineering, Shenyang Pharmaceutical University, Shenyang, 110016, PR China; Key Laboratory of Structure-Based Drug Design &Discovery of Ministry of Education, Shenyang Pharmaceutical University, Shenyang, 110016, PR China
| | - Shuaizhong Lu
- School of Pharmaceutical Engineering, Shenyang Pharmaceutical University, Shenyang, 110016, PR China; Key Laboratory of Structure-Based Drug Design &Discovery of Ministry of Education, Shenyang Pharmaceutical University, Shenyang, 110016, PR China
| | - Rong Duan
- School of Pharmacy, Shenyang Pharmaceutical University, Shenyang, 110016, PR China
| | - Haoran Deng
- School of Pharmacy, Shenyang Pharmaceutical University, Shenyang, 110016, PR China
| | - Lele Li
- School of Pharmacy, Shenyang Pharmaceutical University, Shenyang, 110016, PR China
| | - Lijuan He
- School of Pharmacy, Shenyang Pharmaceutical University, Shenyang, 110016, PR China
| | - Yunli Zhao
- School of Pharmacy, Shenyang Pharmaceutical University, Shenyang, 110016, PR China
| | - Jian Wang
- School of Pharmaceutical Engineering, Shenyang Pharmaceutical University, Shenyang, 110016, PR China; Key Laboratory of Structure-Based Drug Design &Discovery of Ministry of Education, Shenyang Pharmaceutical University, Shenyang, 110016, PR China.
| | - Zhiguo Yu
- School of Pharmacy, Shenyang Pharmaceutical University, Shenyang, 110016, PR China.
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5
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Li RF, Yang JX, Liu J, Ai GM, Zhang HY, Xu LY, Chen SB, Zhang HX, Li XL, Cao ZR, Wang KR. Positional Isomeric Effects on the Optical Properties, Multivalent Glycosidase Inhibition Effect, and Hypoglycemic Effect of Perylene Bisimide-deoxynojirimycin Conjugates. J Med Chem 2021; 64:5863-5873. [PMID: 33886333 DOI: 10.1021/acs.jmedchem.1c00036] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Although multivalent glycosidase inhibitors have shown enhanced glycosidase inhibition activities, further applications and research directions need to be developed in the future. In this paper, two positional isomeric perylene bisimide derivatives (PBI-4DNJ-1 and PBI-4DNJ-2) with 1-deoxynojirimycin conjugated were synthesized. Furthermore, PBI-4DNJ-1 and PBI-4DNJ-2 showed positional isomeric effects on the optical properties, self-assembly behaviors, glycosidase inhibition activities, and hypoglycemic effects. Importantly, PBI-4DNJ-1 exhibited potent hypoglycemic effects in mice with 41.33 ± 2.84 and 37.45 ± 3.94% decreases in blood glucose at 15 and 30 min, respectively. The molecular docking results showed that the active fragment of PBI-4DNJ-1 has the highest binding energy (9.649 kcal/mol) and the highest total hydrogen bond energy (62.83 kJ/mol), which were related to the positional isomeric effect on the hypoglycemic effect in mice. This work introduced a new means to develop antihyperglycemic agents in the field of multivalent glycomimetics.
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Affiliation(s)
- Ren-Feng Li
- College of Chemistry and Environmental Science, Hebei University, Baoding 071002, P. R. China.,Key Laboratory of Medicinal Chemistry and Molecular Diagnosis (Ministry of Education), Key Laboratory of Chemical Biology of Hebei Province, Baoding 071002, P. R. China.,Department of Immunology, School of Basic Medical Science, Hebei University, Baoding 071002, P. R. China
| | - Jian-Xing Yang
- College of Chemistry and Environmental Science, Hebei University, Baoding 071002, P. R. China.,Key Laboratory of Medicinal Chemistry and Molecular Diagnosis (Ministry of Education), Key Laboratory of Chemical Biology of Hebei Province, Baoding 071002, P. R. China
| | - Jing Liu
- College of Veterinary Medicine, Hebei Agricultural University, Baoding 071000, P. R. China
| | - Guo-Min Ai
- Institute of Microbiology, Chinese Academy of Sciences, Beijing 100101, P. R. China
| | - Hui-Yan Zhang
- College of Chemistry and Environmental Science, Hebei University, Baoding 071002, P. R. China.,Key Laboratory of Medicinal Chemistry and Molecular Diagnosis (Ministry of Education), Key Laboratory of Chemical Biology of Hebei Province, Baoding 071002, P. R. China
| | - Li-Yue Xu
- College of Chemistry and Environmental Science, Hebei University, Baoding 071002, P. R. China
| | - Si-Bing Chen
- College of Chemistry and Environmental Science, Hebei University, Baoding 071002, P. R. China
| | - Hong-Xin Zhang
- Medical Comprehensive Experimental Center, Hebei University, Baoding 071002, P. R. China
| | - Xiao-Liu Li
- College of Chemistry and Environmental Science, Hebei University, Baoding 071002, P. R. China.,Key Laboratory of Medicinal Chemistry and Molecular Diagnosis (Ministry of Education), Key Laboratory of Chemical Biology of Hebei Province, Baoding 071002, P. R. China
| | - Zhi-Ran Cao
- Department of Immunology, School of Basic Medical Science, Hebei University, Baoding 071002, P. R. China
| | - Ke-Rang Wang
- College of Chemistry and Environmental Science, Hebei University, Baoding 071002, P. R. China.,Key Laboratory of Medicinal Chemistry and Molecular Diagnosis (Ministry of Education), Key Laboratory of Chemical Biology of Hebei Province, Baoding 071002, P. R. China
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6
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Li F, Lu X, Liu X, Su L, Li X, Chen H. Structural Modification of Benzimidazole-Iminosugars and Their Inhibitory Activities against β-Glycosidases. CHINESE J ORG CHEM 2021. [DOI: 10.6023/cjoc202105003] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
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7
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Liu X, Su L, Zhou Z, Niu L, Gao L, Ju H, Li F, Li X, Chen H. Design and Synthesis of Benzimidazole-Iminosugars and Their Inhibitory Activities against Glycosidases. CHINESE J ORG CHEM 2021. [DOI: 10.6023/cjoc202101055] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
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8
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Evans DeWald L, Starr C, Butters T, Treston A, Warfield KL. Iminosugars: A host-targeted approach to combat Flaviviridae infections. Antiviral Res 2020; 184:104881. [PMID: 32768411 PMCID: PMC7405907 DOI: 10.1016/j.antiviral.2020.104881] [Citation(s) in RCA: 21] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/19/2020] [Revised: 07/07/2020] [Accepted: 07/13/2020] [Indexed: 12/12/2022]
Abstract
N-linked glycosylation is the most common form of protein glycosylation and is required for the proper folding, trafficking, and/or receptor binding of some host and viral proteins. As viruses lack their own glycosylation machinery, they are dependent on the host's machinery for these processes. Certain iminosugars are known to interfere with the N-linked glycosylation pathway by targeting and inhibiting α-glucosidases I and II in the endoplasmic reticulum (ER). Perturbing ER α-glucosidase function can prevent these enzymes from removing terminal glucose residues on N-linked glycans, interrupting the interaction between viral glycoproteins and host chaperone proteins that is necessary for proper folding of the viral protein. Iminosugars have demonstrated broad-spectrum antiviral activity in vitro and in vivo against multiple viruses. This review discusses the broad activity of iminosugars against Flaviviridae. Iminosugars have shown favorable activity against multiple members of the Flaviviridae family in vitro and in murine models of disease, although the activity and mechanism of inhibition can be virus-specfic. While iminosugars are not currently approved for the treatment of viral infections, their potential use as future host-targeted antiviral (HTAV) therapies continues to be investigated.
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Affiliation(s)
| | - Chloe Starr
- Emergent BioSolutions, Gaithersburg, MD, 20879, USA
| | | | | | - Kelly L. Warfield
- Emergent BioSolutions, Gaithersburg, MD, 20879, USA,Corresponding author. 400 Professional Drive, Gaithersburg, MD, 20879, USA
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9
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Ito Y, Kajihara Y, Takeda Y. Chemical‐Synthesis‐Based Approach to Glycoprotein Functions in the Endoplasmic Reticulum. Chemistry 2020; 26:15461-15470. [DOI: 10.1002/chem.202004158] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/15/2020] [Indexed: 12/18/2022]
Affiliation(s)
- Yukishige Ito
- Project Research Center for Fundamental Sciences Graduate School of Science Osaka University Toyonaka Osaka 5600043 Japan
- RIKEN Cluster for Pioneering Research Wako Saitama 3510198 Japan
| | - Yasuhiro Kajihara
- Project Research Center for Fundamental Sciences Graduate School of Science Osaka University Toyonaka Osaka 5600043 Japan
- Department of Chemistry Graduate School of Science Osaka University Toyonaka Osaka 5600043 Japan
| | - Yoichi Takeda
- Department of Biotechnology Ritsumeikan University Kusatsu Shiga 5258577 Japan
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10
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Haarr M, Lopéz Ó, Pejov L, Fernández-Bolaños JG, Lindbäck E, Sydnes MO. 1,4-Dideoxy-1,4-imino-d-arabinitol (DAB) Analogues Possessing a Hydrazide Imide Moiety as Potent and Selective α-Mannosidase Inhibitors. ACS OMEGA 2020; 5:18507-18514. [PMID: 32743229 PMCID: PMC7391959 DOI: 10.1021/acsomega.0c02466] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/26/2020] [Accepted: 06/30/2020] [Indexed: 05/08/2023]
Abstract
The synthesis of two polyhydroxylated pyrrolidines as 1,4-dideoxy-1,4-imino-d-arabinitol (DAB) analogues bearing a hydrazide moiety is described. The DAB analogues act as selective and potent inhibitors of α-mannosidase in the submicromolar concentration ranges (K i values ranging from 0.23 to 1.4 μM).
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Affiliation(s)
- Marianne
B. Haarr
- Department
of Chemistry, Bioscience and Environmental Engineering, Faculty of
Science and Technology, University of Stavanger, 4036 Stavanger, Norway
| | - Óscar Lopéz
- Departamento
de Química Orgánica, Facultad De Química, Universidad de Sevilla, c/Profesor García González 1, 41012 Seville, Spain
| | - Ljupcho Pejov
- Department
of Chemistry, Bioscience and Environmental Engineering, Faculty of
Science and Technology, University of Stavanger, 4036 Stavanger, Norway
| | - José G. Fernández-Bolaños
- Departamento
de Química Orgánica, Facultad De Química, Universidad de Sevilla, c/Profesor García González 1, 41012 Seville, Spain
| | - Emil Lindbäck
- Department
of Chemistry, Bioscience and Environmental Engineering, Faculty of
Science and Technology, University of Stavanger, 4036 Stavanger, Norway
| | - Magne O. Sydnes
- Department
of Chemistry, Bioscience and Environmental Engineering, Faculty of
Science and Technology, University of Stavanger, 4036 Stavanger, Norway
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11
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Dallasta Pedroso S, Caracelli I, Zukerman-Schpector J, Soto-Monsalve M, De Almeida Santos RH, Correia CRD, Llanes Garcia AL, Kwong HC, Tiekink ERT. 4-Nitro-benzyl 3,4-bis-(acet-yloxy)-2-(4-meth-oxy-phen-yl)pyrrolidine-1-carboxyl-ate: crystal structure, Hirshfeld surface analysis and computational chemistry. Acta Crystallogr E Crystallogr Commun 2020; 76:1080-1086. [PMID: 32695456 PMCID: PMC7336773 DOI: 10.1107/s2056989020007914] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/10/2020] [Accepted: 06/11/2020] [Indexed: 11/10/2022]
Abstract
The title compound, C23H24N2O9, is a tetra-substituted pyrrolidine derivative with a twisted conformation, with the twist evident in the C-C bond bearing the adjacent acet-yloxy substituents. These are flanked on one side by a C-bound 4-meth-oxy-phen-yl group and on the other by a methyl-ene group. The almost sp 2-N atom [sum of angles = 357°] bears a 4-nitro-benzyl-oxycarbonyl substituent. In the crystal, ring-methyl-ene-C-H⋯O(acet-yloxy-carbon-yl) and methyl-ene-C-H⋯O(carbon-yl) inter-actions lead to supra-molecular layers lying parallel to (01); the layers stack without directional inter-actions between them. The analysis of the calculated Hirshfeld surfaces indicates the combined importance of H⋯H (42.3%), H⋯O/O⋯H (37.3%) and H⋯C/C⋯H (14.9%) surface contacts. Further, the inter-action energies, largely dominated by the dispersive term, point to the stabilizing influence of H⋯H and O⋯O contacts in the inter-layer region.
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Affiliation(s)
- Sofia Dallasta Pedroso
- Laboratório de Cristalografia, Esterodinâmica e Modelagem Molecular, Departamento de Química, Universidade Federal de São Carlos, 13565-905 São Carlos, SP, Brazil
| | - Ignez Caracelli
- Departmento de Física, Universidade Federal de São Carlos, 13565-905 São Carlos, SP, Brazil
| | - Julio Zukerman-Schpector
- Laboratório de Cristalografia, Esterodinâmica e Modelagem Molecular, Departamento de Química, Universidade Federal de São Carlos, 13565-905 São Carlos, SP, Brazil
| | - Monica Soto-Monsalve
- Instituto de Química de São Carlos, Universidade de São Paulo, São Carlos, SP, Brazil
| | | | - Carlos Roque D. Correia
- Instituto de Química, Universidade Estadual de Campinas, UNICAMP, C.P. 6154, CEP 13084-917 Campinas, Brazil
| | - Ariel L. Llanes Garcia
- Instituto de Química, Universidade Estadual de Campinas, UNICAMP, C.P. 6154, CEP 13084-917 Campinas, Brazil
| | - Huey Chong Kwong
- Research Centre for Crystalline Materials, School of Science and Technology, Sunway University, 47500 Bandar Sunway, Selangor Darul Ehsan, Malaysia
| | - Edward R. T. Tiekink
- Research Centre for Crystalline Materials, School of Science and Technology, Sunway University, 47500 Bandar Sunway, Selangor Darul Ehsan, Malaysia
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12
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Dallasta Pedroso S, Caracelli I, Zukerman-Schpector J, Soto-Monsalve M, De Almeida Santos RH, Correia CRD, Llanes Garcia AL, Kwong HC, Tiekink ERT. 1-Ethyl 2-methyl 3,4-bis-(acet-yloxy)pyrrolidine-1,2-di-carboxyl-ate: crystal structure, Hirshfeld surface analysis and computational chemistry. Acta Crystallogr E Crystallogr Commun 2020; 76:967-972. [PMID: 32523774 PMCID: PMC7273984 DOI: 10.1107/s205698902000701x] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/18/2020] [Accepted: 05/24/2020] [Indexed: 11/10/2022]
Abstract
The title compound, C13H19NO8, is based on a tetra-substituted pyrrolidine ring, which has a twisted conformation about the central C-C bond; the Cm-Ca-Ca-Cme torsion angle is 38.26 (15)° [m = methyl-carboxyl-ate, a = acet-yloxy and me = methyl-ene]. While the N-bound ethyl-carboxyl-ate group occupies an equatorial position, the remaining substituents occupy axial positions. In the crystal, supra-molecular double-layers are formed by weak methyl- and methyl-ene-C-H⋯O(carbon-yl) inter-actions involving all four carbonyl-O atoms. The two-dimensional arrays stack along the c axis without directional inter-actions between them. The Hirshfeld surface is dominated by H⋯H (55.7%) and H⋯C/C⋯H (37.0%) contacts; H⋯H contacts are noted in the inter-double-layer region. The inter-action energy calculations point to the importance of the dispersion energy term in the stabilization of the crystal.
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Affiliation(s)
- Sofia Dallasta Pedroso
- Laboratório de Cristalografia, Esterodinâmica e Modelagem Molecular, Departamento de Química, Universidade Federal de São Carlos, 13565-905 São Carlos, SP, Brazil
| | - Ignez Caracelli
- Departmento de Física, Universidade Federal de São Carlos, 13565-905 São Carlos, SP, Brazil
| | - Julio Zukerman-Schpector
- Laboratório de Cristalografia, Esterodinâmica e Modelagem Molecular, Departamento de Química, Universidade Federal de São Carlos, 13565-905 São Carlos, SP, Brazil
| | - Monica Soto-Monsalve
- Instituto de Química de São Carlos, Universidade de São Paulo, São Carlos, SP, Brazil
| | | | - Carlos Roque D. Correia
- Instituto de Química, Universidade Estadual de Campinas, UNICAMP, CP 6154, CEP 13084-917 Campinas, Brazil
| | - Ariel L. Llanes Garcia
- Instituto de Química, Universidade Estadual de Campinas, UNICAMP, CP 6154, CEP 13084-917 Campinas, Brazil
| | - Huey Chong Kwong
- Research Centre for Crystalline Materials, School of Science and Technology, Sunway University, 47500 Bandar Sunway, Selangor Darul Ehsan, Malaysia
| | - Edward R. T. Tiekink
- Research Centre for Crystalline Materials, School of Science and Technology, Sunway University, 47500 Bandar Sunway, Selangor Darul Ehsan, Malaysia
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13
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Suppression of N-glycan processing enzymes by deoxynojirimycin in tomato ( Solanum lycopersicum) fruit. 3 Biotech 2020; 10:218. [PMID: 32355592 DOI: 10.1007/s13205-020-02196-3] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/12/2020] [Accepted: 04/07/2020] [Indexed: 12/20/2022] Open
Abstract
The present study investigated the potential of a small molecule inhibitor, 1-deoxynojirimycin (DNJ), to extend the shelf life of tomatoes. The optimum concentration of DNJ and the proper ripening stage for treatment were standardized using response surface methodology, following a central composite design. The concentration of DNJ used for the analysis was 0.15 mM, and 0.30 mM and the ripening stages of the tomato fruit analysed were immature green, mature green, breaker, ripen and over-ripen. Analysis of the influence of the DNJ treatment of the fruit using quadratic multiple regression models considering the factors colour, texture, and free sugars revealed significant responses. A DNJ concentration of 0.30 mM and fruit-ripening stage of mature green was found to be optimal for the treatment. DNJ-treatment maintained fruit firmness throughout ripening with a significant reduction in reducing sugar formation. Enzyme activity of the N-glycan processing enzymes involved in cell wall softening, α-mannosidase and β-d-N-acetylhexosaminidase revealed a significant reduction in their activity by 2 and 3.5-fold, respectively. Down-regulation of expression of important ripening-related and softening process-associated genes, aminocyclopropane carboxylic synthase-4, aminocyclopropane carboxylic oxidase, polygalacturonase and pectin methylesterases at 4, 5, 6 and 5-fold, respectively, was also observed. The present results showed that the treatment of mature green tomato fruit with DNJ at a concentration of 0.30 mM can delay the ripening of the tomato fruit by inhibiting cell wall and N-glycan processing enzymes.
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14
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Warfield KL, Alonzi DS, Hill JC, Caputo AT, Roversi P, Kiappes JL, Sheets N, Duchars M, Dwek RA, Biggins J, Barnard D, Shresta S, Treston AM, Zitzmann N. Targeting Endoplasmic Reticulum α-Glucosidase I with a Single-Dose Iminosugar Treatment Protects against Lethal Influenza and Dengue Virus Infections. J Med Chem 2020; 63:4205-4214. [DOI: 10.1021/acs.jmedchem.0c00067] [Citation(s) in RCA: 22] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Affiliation(s)
| | - Dominic S. Alonzi
- Oxford Glycobiology Institute, Department of Biochemistry, University of Oxford, South Parks Road, Oxford OX1 3QU, England, U.K
| | - Johan C. Hill
- Oxford Glycobiology Institute, Department of Biochemistry, University of Oxford, South Parks Road, Oxford OX1 3QU, England, U.K
| | - Alessandro T. Caputo
- Oxford Glycobiology Institute, Department of Biochemistry, University of Oxford, South Parks Road, Oxford OX1 3QU, England, U.K
| | - Pietro Roversi
- Oxford Glycobiology Institute, Department of Biochemistry, University of Oxford, South Parks Road, Oxford OX1 3QU, England, U.K
- Leicester Institute of Structural and Chemical Biology, Department of Molecular and Cell Biology, University of Leicester, Henry Wellcome Building, Lancaster Road, Leicester LE1 7RH, England, U.K
| | - J. L. Kiappes
- Oxford Glycobiology Institute, Department of Biochemistry, University of Oxford, South Parks Road, Oxford OX1 3QU, England, U.K
| | - Nicholas Sheets
- La Jolla Institute for Allergy and Immunology, La Jolla, California 92037, United States
| | - Matthew Duchars
- Emergent BioSolutions, Gaithersburg, Maryland 20879, United States
| | - Raymond A. Dwek
- Oxford Glycobiology Institute, Department of Biochemistry, University of Oxford, South Parks Road, Oxford OX1 3QU, England, U.K
| | - Julia Biggins
- Integrated Biotherapeutics Inc., Gaithersburg, Maryland 20878, United States
| | - Dale Barnard
- Institute for Antiviral Research, Utah State University, Logan, Utah 84322, United States
| | - Sujan Shresta
- La Jolla Institute for Allergy and Immunology, La Jolla, California 92037, United States
| | | | - Nicole Zitzmann
- Oxford Glycobiology Institute, Department of Biochemistry, University of Oxford, South Parks Road, Oxford OX1 3QU, England, U.K
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15
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Synthesis of tricyclic benzimidazole-iminosugars as potential glycosidase inhibitors via a Mitsunobu reaction. Carbohydr Res 2019; 485:107807. [DOI: 10.1016/j.carres.2019.107807] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/13/2019] [Revised: 09/04/2019] [Accepted: 09/05/2019] [Indexed: 01/04/2023]
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16
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Watanabe Y, Bowden TA, Wilson IA, Crispin M. Exploitation of glycosylation in enveloped virus pathobiology. Biochim Biophys Acta Gen Subj 2019; 1863:1480-1497. [PMID: 31121217 PMCID: PMC6686077 DOI: 10.1016/j.bbagen.2019.05.012] [Citation(s) in RCA: 313] [Impact Index Per Article: 62.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/27/2019] [Revised: 05/13/2019] [Accepted: 05/17/2019] [Indexed: 12/12/2022]
Abstract
Glycosylation is a ubiquitous post-translational modification responsible for a multitude of crucial biological roles. As obligate parasites, viruses exploit host-cell machinery to glycosylate their own proteins during replication. Viral envelope proteins from a variety of human pathogens including HIV-1, influenza virus, Lassa virus, SARS, Zika virus, dengue virus, and Ebola virus have evolved to be extensively glycosylated. These host-cell derived glycans facilitate diverse structural and functional roles during the viral life-cycle, ranging from immune evasion by glycan shielding to enhancement of immune cell infection. In this review, we highlight the imperative and auxiliary roles glycans play, and how specific oligosaccharide structures facilitate these functions during viral pathogenesis. We discuss the growing efforts to exploit viral glycobiology in the development of anti-viral vaccines and therapies.
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Affiliation(s)
- Yasunori Watanabe
- School of Biological Sciences and Institute of Life Sciences, University of Southampton, Southampton SO17 1BJ, UK; Division of Structural Biology, University of Oxford, Wellcome Centre for Human Genetics, Oxford OX3 7BN, UK; Oxford Glycobiology Institute, Department of Biochemistry, University of Oxford, South Parks Road, Oxford OX1 3QU, UK
| | - Thomas A Bowden
- Division of Structural Biology, University of Oxford, Wellcome Centre for Human Genetics, Oxford OX3 7BN, UK
| | - Ian A Wilson
- Department of Integrative Structural and Computational Biology, The Scripps Research Institute, La Jolla, CA 92037, USA; Skaggs Institute for Chemical Biology, The Scripps Research Institute, La Jolla, CA 92037, USA
| | - Max Crispin
- School of Biological Sciences and Institute of Life Sciences, University of Southampton, Southampton SO17 1BJ, UK.
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17
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Hu JJ, Wang L, Chen BN, Chi GX, Zhao MJ, Li Y. Transition Metal Substituted Polyoxometalates as α-Glucosidase Inhibitors. Eur J Inorg Chem 2019. [DOI: 10.1002/ejic.201900306] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/13/2023]
Affiliation(s)
- Jing-Jing Hu
- College of Food and Biological Engineering; Jimei University; 361021 Xiamen P.R. China
| | - Li Wang
- College of Food and Biological Engineering; Jimei University; 361021 Xiamen P.R. China
| | | | - Guo-Xiang Chi
- College of Food and Biological Engineering; Jimei University; 361021 Xiamen P.R. China
| | - Mei-Juan Zhao
- College of Food and Biological Engineering; Jimei University; 361021 Xiamen P.R. China
| | - Yue Li
- College of Food and Biological Engineering; Jimei University; 361021 Xiamen P.R. China
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18
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Cuffaro D, Landi M, D'Andrea F, Guazzelli L. Preparation of 1,6-di-deoxy-d-galacto and 1,6-di-deoxy-l-altro nojirimycin derivatives by aminocyclization of a 1,5-dicarbonyl derivative. Carbohydr Res 2019; 482:107744. [PMID: 31306898 DOI: 10.1016/j.carres.2019.107744] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/14/2019] [Revised: 07/05/2019] [Accepted: 07/10/2019] [Indexed: 12/29/2022]
Abstract
Iminosugars are known glycosidase inhibitors which are the subject of drug development efforts against several diseases. The access to structurally-related families of iminosugars is of primary importance for running structure-activity relationship studies. In this work, the double reductive amination (aminocyclization) reaction of a dicarbonyl derivative of the l-arabino series, in turn obtained from lactose, is reported. Different ratios of 1,6-di-deoxy-d-galacto and 1,6-di-deoxy-l-altro nojirimycin derivatives were obtained depending on the amine employed in this transformation which provided an insight into the effects of their structure on the outcome of the reaction. Of particular interest were the results obtained when two enantiomeric amino acids (d-Phe-OMe and l-Phe-OMe) were used, which resulted in the inversion of the reaction stereoselectivity.
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Affiliation(s)
- Doretta Cuffaro
- Dipartimento di Farmacia, Università di Pisa, Via Bonanno 6/33, 56126, Pisa, Italy
| | - Martina Landi
- Dipartimento di Farmacia, Università di Pisa, Via Bonanno 6/33, 56126, Pisa, Italy
| | - Felicia D'Andrea
- Dipartimento di Farmacia, Università di Pisa, Via Bonanno 6/33, 56126, Pisa, Italy.
| | - Lorenzo Guazzelli
- Dipartimento di Farmacia, Università di Pisa, Via Bonanno 6/33, 56126, Pisa, Italy.
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19
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O’Keefe S, Roebuck QP, Nakagome I, Hirono S, Kato A, Nash R, High S. Characterizing the selectivity of ER α-glucosidase inhibitors. Glycobiology 2019; 29:530-542. [PMID: 30976784 PMCID: PMC6583763 DOI: 10.1093/glycob/cwz029] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/14/2018] [Revised: 03/15/2019] [Accepted: 04/08/2019] [Indexed: 02/06/2023] Open
Abstract
The endoplasmic reticulum (ER) contains both α-glucosidases and α-mannosidases which process the N-linked oligosaccharides of newly synthesized glycoproteins and thereby facilitate polypeptide folding and glycoprotein quality control. By acting as structural mimetics, iminosugars can selectively inhibit these ER localized α-glycosidases, preventing N-glycan trimming and providing a molecular basis for their therapeutic applications. In this study, we investigate the effects of a panel of nine iminosugars on the actions of ER luminal α-glucosidase I and α-glucosidase II. Using ER microsomes to recapitulate authentic protein N-glycosylation and oligosaccharide processing, we identify five iminosugars that selectively inhibit N-glycan trimming. Comparison of their inhibitory activities in ER microsomes against their effects on purified ER α-glucosidase II, suggests that 3,7a-diepi-alexine acts as a selective inhibitor of ER α-glucosidase I. The other active iminosugars all inhibit α-glucosidase II and, having identified 1,4-dideoxy-1,4-imino-D-arabinitol (DAB) as the most effective of these compounds, we use in silico modeling to understand the molecular basis for this enhanced activity. Taken together, our work identifies the C-3 substituted pyrrolizidines casuarine and 3,7a-diepi-alexine as promising "second-generation" iminosugar inhibitors.
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Affiliation(s)
- Sarah O’Keefe
- School of Biological Sciences, Faculty of Biology, Medicine and Health, University of Manchester, Manchester, UK
| | - Quentin P Roebuck
- School of Biological Sciences, Faculty of Biology, Medicine and Health, University of Manchester, Manchester, UK
| | - Izumi Nakagome
- School of Pharmaceutical Sciences, Kitasato University, Tokyo, Japan
| | - Shuichi Hirono
- School of Pharmaceutical Sciences, Kitasato University, Tokyo, Japan
| | - Atsushi Kato
- Department of Hospital Pharmacy, University of Toyama, 2630 Sugitani, Toyama, Japan
| | - Robert Nash
- PhytoQuest Ltd, Plas Gogerddan, Aberystwyth, Ceredigion, UK
| | - Stephen High
- School of Biological Sciences, Faculty of Biology, Medicine and Health, University of Manchester, Manchester, UK
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20
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Li M, Wang KR, Yang JX, Peng YT, Liu YX, Zhang HX, Li XL. Supramolecular azasugar clusters based on an amphiphilic fatty-acid-deoxynojirimycin derivative as multivalent glycosidase inhibitors. J Mater Chem B 2019; 7:1379-1383. [DOI: 10.1039/c8tb03249a] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2023]
Abstract
A novel supramolecular multivalent glycosidase inhibitor was constructed based on the amphiphilic deoxynojirimycin derivative FA-DNJ.
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Affiliation(s)
- Min Li
- Key Laboratory of Medicinal Chemistry and Molecular Diagnosis (Ministry of Education)
- Key Laboratory of Chemical Biology of Hebei Province
- College of Chemistry and Environmental Science
- Hebei University
- Baoding 071002
| | - Ke-Rang Wang
- Key Laboratory of Medicinal Chemistry and Molecular Diagnosis (Ministry of Education)
- Key Laboratory of Chemical Biology of Hebei Province
- College of Chemistry and Environmental Science
- Hebei University
- Baoding 071002
| | - Jian-Xing Yang
- Key Laboratory of Medicinal Chemistry and Molecular Diagnosis (Ministry of Education)
- Key Laboratory of Chemical Biology of Hebei Province
- College of Chemistry and Environmental Science
- Hebei University
- Baoding 071002
| | - Ya-Tong Peng
- Key Laboratory of Medicinal Chemistry and Molecular Diagnosis (Ministry of Education)
- Key Laboratory of Chemical Biology of Hebei Province
- College of Chemistry and Environmental Science
- Hebei University
- Baoding 071002
| | - Yi-Xuan Liu
- Key Laboratory of Medicinal Chemistry and Molecular Diagnosis (Ministry of Education)
- Key Laboratory of Chemical Biology of Hebei Province
- College of Chemistry and Environmental Science
- Hebei University
- Baoding 071002
| | - Hong-Xin Zhang
- Medical Comprehensive Experimental Center of Hebei University
- Baoding
- China
| | - Xiao-Liu Li
- Key Laboratory of Medicinal Chemistry and Molecular Diagnosis (Ministry of Education)
- Key Laboratory of Chemical Biology of Hebei Province
- College of Chemistry and Environmental Science
- Hebei University
- Baoding 071002
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21
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Onda M, Hakamata W. Antiviral Activity and Mechanism of Action of Endoplasmic Reticulum Glucosidase Inhibitors: A Mini Review. TRENDS GLYCOSCI GLYC 2018. [DOI: 10.4052/tigg.1753.1j] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
Affiliation(s)
- Momoko Onda
- Department of Chemistry and Life Science, College of Bioresource Sciences, Nihon University
| | - Wataru Hakamata
- Department of Chemistry and Life Science, College of Bioresource Sciences, Nihon University
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22
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Krol E, Wandzik I, Pastuch-Gawolek G, Szewczyk B. Anti-Hepatitis C Virus Activity of Uridine Derivatives of 2-Deoxy Sugars. Molecules 2018; 23:molecules23071547. [PMID: 29954068 PMCID: PMC6099588 DOI: 10.3390/molecules23071547] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/24/2018] [Revised: 06/22/2018] [Accepted: 06/26/2018] [Indexed: 12/16/2022] Open
Abstract
Hepatitis C virus (HCV), the etiological agent of the most common and dangerous diseases of the liver, is a major health problem worldwide. Despite many attempts, there is still no vaccine available. Although many drugs have been approved for use mostly in combination regimen, their high costs make them out of reach in less developed regions. Previously, we have synthesized a series of compounds belonging to uridine derivatives of 2-deoxy sugars and have proved that some of them possess antiviral activity against influenza A virus associated with N-glycosylation inhibition. Here, we analyze the antiviral properties of these compounds against HCV. Using cell culture-derived HCV (HCVcc), HCV pseudoparticles (HCVpp), and replicon cell lines, we have shown high anti-HCV activity of two compounds. Our results indicated that compounds 2 and 4 significantly reduced HCVcc propagation with IC50 values in low μM range. Further experiments using the HCVpp system confirmed that both compounds significantly impaired the infectivity of produced HCVpp due to the inhibition of the correct maturation of viral glycoproteins. Overall, our results suggest that inhibiting the glycosylation process might be a good target for new therapeutics not only against HCV, but other important viral pathogens which contain envelopes with highly glycosylated proteins.
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Affiliation(s)
- Ewelina Krol
- Department of Recombinant Vaccines, Intercollegiate Faculty of Biotechnology, University of Gdansk and Medical University of Gdansk, Abrahama 58, 80-307 Gdansk, Poland.
| | - Ilona Wandzik
- Department of Organic Chemistry, Bioorganic Chemistry and Biotechnology, Faculty of Chemistry, Silesian University of Technology, Krzywoustego 4, 44-100 Gliwice, Poland.
- Biotechnology Center, Silesian University of Technology, Krzywoustego 8, 44-100 Gliwice, Poland.
| | - Gabriela Pastuch-Gawolek
- Department of Organic Chemistry, Bioorganic Chemistry and Biotechnology, Faculty of Chemistry, Silesian University of Technology, Krzywoustego 4, 44-100 Gliwice, Poland.
- Biotechnology Center, Silesian University of Technology, Krzywoustego 8, 44-100 Gliwice, Poland.
| | - Boguslaw Szewczyk
- Department of Recombinant Vaccines, Intercollegiate Faculty of Biotechnology, University of Gdansk and Medical University of Gdansk, Abrahama 58, 80-307 Gdansk, Poland.
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