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Kovalishyn V, Severin O, Kachaeva M, Kobzar O, Keith KA, Harden EA, Hartline CB, James SH, Vovk A, Brovarets V. In Silico Design and Experimental Validation of Novel Oxazole Derivatives Against Varicella zoster virus. Mol Biotechnol 2024; 66:707-717. [PMID: 36709460 DOI: 10.1007/s12033-023-00670-w] [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: 09/30/2022] [Accepted: 01/14/2023] [Indexed: 01/30/2023]
Abstract
Varicella zoster virus (VZV) infection causes severe disease such as chickenpox, shingles, and postherpetic neuralgia, often leading to disability. Reactivation of latent VZV is associated with a decrease in specific cellular immunity in the elderly and in patients with immunodeficiency. However, due to the limited efficacy of existing therapy and the emergence of antiviral resistance, it has become necessary to develop new and effective antiviral drugs for the treatment of diseases caused by VZV, particularly in the setting of opportunistic infections. The goal of this work is to identify potent oxazole derivatives as anti-VZV agents by machine learning, followed by their synthesis and experimental validation. Predictive QSAR models were developed using the Online Chemical Modeling Environment (OCHEM). Data on compounds exhibiting antiviral activity were collected from the ChEMBL and uploaded in the OCHEM database. The predictive ability of the models was tested by cross-validation, giving coefficient of determination q2 = 0.87-0.9. The validation of the models using an external test set proves that the models can be used to predict the antiviral activity of newly designed and known compounds with reasonable accuracy within the applicability domain (q2 = 0.83-0.84). The models were applied to screen a virtual chemical library with expected activity of compounds against VZV. The 7 most promising oxazole derivatives were identified, synthesized, and tested. Two of them showed activity against the VZV Ellen strain upon primary in vitro antiviral screening. The synthesized compounds may represent an interesting starting point for further development of the oxazole derivatives against VZV. The developed models are available online at OCHEM http://ochem.eu/article/145978 and can be used to virtually screen for potential compounds with anti-VZV activity.
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Affiliation(s)
- Vasyl Kovalishyn
- V.P. Kukhar Institute of Bioorganic Chemistry and Petrochemistry of the National Academy of Science of Ukraine, Kyiv, 02094, Ukraine.
| | - Oleksandr Severin
- V.P. Kukhar Institute of Bioorganic Chemistry and Petrochemistry of the National Academy of Science of Ukraine, Kyiv, 02094, Ukraine
| | - Maryna Kachaeva
- V.P. Kukhar Institute of Bioorganic Chemistry and Petrochemistry of the National Academy of Science of Ukraine, Kyiv, 02094, Ukraine
| | - Oleksandr Kobzar
- V.P. Kukhar Institute of Bioorganic Chemistry and Petrochemistry of the National Academy of Science of Ukraine, Kyiv, 02094, Ukraine
| | - Kathy A Keith
- Department of Pediatrics, Division of Pediatric Infectious Diseases, University of Alabama at Birmingham, Birmingham, Alabama, 35233, USA
| | - Emma A Harden
- Department of Pediatrics, Division of Pediatric Infectious Diseases, University of Alabama at Birmingham, Birmingham, Alabama, 35233, USA
| | - Caroll B Hartline
- Department of Pediatrics, Division of Pediatric Infectious Diseases, University of Alabama at Birmingham, Birmingham, Alabama, 35233, USA
| | - Scott H James
- Department of Pediatrics, Division of Pediatric Infectious Diseases, University of Alabama at Birmingham, Birmingham, Alabama, 35233, USA
| | - Andriy Vovk
- V.P. Kukhar Institute of Bioorganic Chemistry and Petrochemistry of the National Academy of Science of Ukraine, Kyiv, 02094, Ukraine
| | - Volodymyr Brovarets
- V.P. Kukhar Institute of Bioorganic Chemistry and Petrochemistry of the National Academy of Science of Ukraine, Kyiv, 02094, Ukraine
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Mohamed BS, Nguyen MC, Wein S, Uttaro JP, Robert X, Violot S, Ballut L, Jugnarain V, Mathé C, Cerdan R, Aghajari N, Peyrottes S. Purine containing carbonucleoside phosphonate analogues as novel chemotype for Plasmodium falciparum Inhibition. Eur J Med Chem 2023; 258:115581. [PMID: 37402342 DOI: 10.1016/j.ejmech.2023.115581] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/05/2023] [Revised: 06/06/2023] [Accepted: 06/17/2023] [Indexed: 07/06/2023]
Abstract
The nucleotidase ISN1 is a potential therapeutic target of the purine salvage pathway of the malaria parasite Plasmodium falciparum. We identified PfISN1 ligands by in silico screening of a small library of nucleos(t)ide analogues and by thermal shift assays. Starting from a racemic cyclopentyl carbocyclic phosphonate scaffold, we explored the diversity on the nucleobase moiety and also proposed a convenient synthetic pathway to access the pure enantiomers of our initial hit (compound (±)-2). 2,6-Disubstituted purine containing derivatives such as compounds 1, (±)-7e and β-L-(+)-2 showed the most potent inhibition of the parasite in vitro, with low micromolar IC50 values. These results are remarkable considering the anionic nature of nucleotide analogues, which are known to lack activity in cell culture experiments due to their scarce capacity to cross cell membranes. For the first time, we report the antimalarial activity of a carbocyclic methylphosphonate nucleoside with an L-like configuration.
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Affiliation(s)
- Bemba Sidi Mohamed
- IBMM, Univ Montpellier, CNRS, ENSCM, Pôle Chimie Balard Recherche, 1919, Route de Mende, 34293, Montpellier, France
| | - Minh Chau Nguyen
- Molecular Microbiology and Structural Biochemistry, CNRS-Univ Lyon 1, UMR5086, 7 passage du Vercors, 69367, Lyon, France
| | - Sharon Wein
- LPHI, Univ Montpellier, CNRS, Campus Triolet, Place Eugène Bataillon, 34095, Montpellier, France
| | - Jean-Pierre Uttaro
- IBMM, Univ Montpellier, CNRS, ENSCM, Pôle Chimie Balard Recherche, 1919, Route de Mende, 34293, Montpellier, France
| | - Xavier Robert
- Molecular Microbiology and Structural Biochemistry, CNRS-Univ Lyon 1, UMR5086, 7 passage du Vercors, 69367, Lyon, France
| | - Sébastien Violot
- Molecular Microbiology and Structural Biochemistry, CNRS-Univ Lyon 1, UMR5086, 7 passage du Vercors, 69367, Lyon, France
| | - Lionel Ballut
- Molecular Microbiology and Structural Biochemistry, CNRS-Univ Lyon 1, UMR5086, 7 passage du Vercors, 69367, Lyon, France
| | - Vinesh Jugnarain
- Molecular Microbiology and Structural Biochemistry, CNRS-Univ Lyon 1, UMR5086, 7 passage du Vercors, 69367, Lyon, France
| | - Christophe Mathé
- IBMM, Univ Montpellier, CNRS, ENSCM, Pôle Chimie Balard Recherche, 1919, Route de Mende, 34293, Montpellier, France.
| | - Rachel Cerdan
- LPHI, Univ Montpellier, CNRS, Campus Triolet, Place Eugène Bataillon, 34095, Montpellier, France
| | - Nushin Aghajari
- Molecular Microbiology and Structural Biochemistry, CNRS-Univ Lyon 1, UMR5086, 7 passage du Vercors, 69367, Lyon, France
| | - Suzanne Peyrottes
- IBMM, Univ Montpellier, CNRS, ENSCM, Pôle Chimie Balard Recherche, 1919, Route de Mende, 34293, Montpellier, France.
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Advances and Perspectives in the Management of Varicella-Zoster Virus Infections. Molecules 2021; 26:molecules26041132. [PMID: 33672709 PMCID: PMC7924330 DOI: 10.3390/molecules26041132] [Citation(s) in RCA: 39] [Impact Index Per Article: 13.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/12/2021] [Revised: 02/10/2021] [Accepted: 02/12/2021] [Indexed: 02/06/2023] Open
Abstract
Varicella-zoster virus (VZV), a common and ubiquitous human-restricted pathogen, causes a primary infection (varicella or chickenpox) followed by establishment of latency in sensory ganglia. The virus can reactivate, causing herpes zoster (HZ, shingles) and leading to significant morbidity but rarely mortality, although in immunocompromised hosts, VZV can cause severe disseminated and occasionally fatal disease. We discuss VZV diseases and the decrease in their incidence due to the introduction of live-attenuated vaccines to prevent varicella or HZ. We also focus on acyclovir, valacyclovir, and famciclovir (FDA approved drugs to treat VZV infections), brivudine (used in some European countries) and amenamevir (a helicase-primase inhibitor, approved in Japan) that augur the beginning of a new era of anti-VZV therapy. Valnivudine hydrochloride (FV-100) and valomaciclovir stearate (in advanced stage of development) and several new molecules potentially good as anti-VZV candidates described during the last year are examined. We reflect on the role of antiviral agents in the treatment of VZV-associated diseases, as a large percentage of the at-risk population is not immunized, and on the limitations of currently FDA-approved anti-VZV drugs. Their low efficacy in controlling HZ pain and post-herpetic neuralgia development, and the need of multiple dosing regimens requiring daily dose adaptation for patients with renal failure urges the development of novel anti-VZV drugs.
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Fu Y, Liu D, Zeng H, Ren X, Song B, Hu D, Gan X. New chalcone derivatives: synthesis, antiviral activity and mechanism of action. RSC Adv 2020; 10:24483-24490. [PMID: 35516226 PMCID: PMC9055036 DOI: 10.1039/d0ra03684f] [Citation(s) in RCA: 31] [Impact Index Per Article: 7.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/24/2020] [Accepted: 06/19/2020] [Indexed: 01/28/2023] Open
Abstract
In this work, twenty-eight chalcone derivatives containing a purine (sulfur) ether moiety were synthesized and their antiviral activities were evaluated. Biological results showed that compound 5d exhibited outstanding inactive activity against tobacco mosaic virus (TMV) in vivo (EC50 = 65.8 μg mL−1), which is significantly superior to that of ribavirin (EC50 = 154.3 μg mL−1). Transmission electron microscopy indicated that compound 5d can break the integrity of TMV particles. The results of microscale thermophoresis, fluorescence titration and molecular docking showed that compound 5d had stronger combining affinity (Ka = 1.02 ×105 L mol−1, Kd = 13.4 μmol L−1) with TMV coat protein (TMV-CP), which is due to the formation of five hydrogen bonds between compound 5d and the amino-acid residues of TMV-CP. These findings revealed that compound 5d can effectively inhibit the infective ability of TMV. This work provides inspiration and reference for the discovery of new antiviral agents. The chalcone derivatives containing a purine (sulfur) ether moiety were synthesized. The antiviral mechanism suggested that the antiviral activity of compound 5d may depend on its stronger binding affinity with TMV-CP.![]()
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Affiliation(s)
- Yun Fu
- State Key Laboratory Breeding Base of Green Pesticide and Agricultural Bioengineering
- Key Laboratory of Green Pesticide and Agricultural Bioengineering
- Ministry of Education
- Center for Research and Development of Fine Chemicals
- Guizhou University
| | - Dan Liu
- State Key Laboratory Breeding Base of Green Pesticide and Agricultural Bioengineering
- Key Laboratory of Green Pesticide and Agricultural Bioengineering
- Ministry of Education
- Center for Research and Development of Fine Chemicals
- Guizhou University
| | - Huanan Zeng
- State Key Laboratory Breeding Base of Green Pesticide and Agricultural Bioengineering
- Key Laboratory of Green Pesticide and Agricultural Bioengineering
- Ministry of Education
- Center for Research and Development of Fine Chemicals
- Guizhou University
| | - Xiaoli Ren
- State Key Laboratory Breeding Base of Green Pesticide and Agricultural Bioengineering
- Key Laboratory of Green Pesticide and Agricultural Bioengineering
- Ministry of Education
- Center for Research and Development of Fine Chemicals
- Guizhou University
| | - Baoan Song
- State Key Laboratory Breeding Base of Green Pesticide and Agricultural Bioengineering
- Key Laboratory of Green Pesticide and Agricultural Bioengineering
- Ministry of Education
- Center for Research and Development of Fine Chemicals
- Guizhou University
| | - Deyu Hu
- State Key Laboratory Breeding Base of Green Pesticide and Agricultural Bioengineering
- Key Laboratory of Green Pesticide and Agricultural Bioengineering
- Ministry of Education
- Center for Research and Development of Fine Chemicals
- Guizhou University
| | - Xiuhai Gan
- State Key Laboratory Breeding Base of Green Pesticide and Agricultural Bioengineering
- Key Laboratory of Green Pesticide and Agricultural Bioengineering
- Ministry of Education
- Center for Research and Development of Fine Chemicals
- Guizhou University
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Arsanious M, Darwish S, Shalaby ES, El-Ghwas D. Synthesis, X-ray, DFT Studies and Antimicrobial Properties of New Quinolinylphosphonates. LETT ORG CHEM 2019. [DOI: 10.2174/1570178616666181231161801] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Abstract
The phosphorus atom in hexamethyl phosphorus triamide 5 attacks the carbonyl function in
2-chloroquinoline-3-carbaldehyde 4a to give the bis-quinolinyl ethanone product 6. On the other hand,
quinoline ring-attack proceeds by the same phosphorus reagent upon reaction with 2-chloroquinoline-
3-aldoxime 4b yielding phosphonate 7. Meanwhile, the reaction of the tris-aminophosphine reagent 5
with 2-chloroquinoline- 3-(p-chlorophenyl)imine 4c affords the respective α-aminophosphonate 8.
Moreover, the attack by phosphine 5 on 2-chloroquinoline-3-imines 4d and 4e produces the respective
cyclic azophosphole derivatives 9a and 9b. [(2-chloroquinolin-3-yl)methylidene]propane dinitrile 4f
reacts with phosphine 5 to yield [(2-chloroquinolinen-3-yl) 2,2-dicyanoethyl]tetramethylphosphonic
diamide 10. Structural elucidations for the new products were based on compatible analytical and spectroscopic
data. Moreover, the structures assigned for compounds 7 and 9a were unambiguously confirmed
by X-ray crystallographic measurements. Biological evaluations indicated that compounds 4a,c
exhibit antibacterial potency against Gram-positive bacteria and 4a,c and 9a show activity against
Candida albicans strain.
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Affiliation(s)
- Mona Arsanious
- Organometallic and Organometalloid Chemistry Department, National Research Centre, El Bohouth St, Dokki, Giza, P.O. Box 12622, Egypt
| | - Shaban Darwish
- Organometallic and Organometalloid Chemistry Department, National Research Centre, El Bohouth St, Dokki, Giza, P.O. Box 12622, Egypt
| | - El-Sayed Shalaby
- X-Ray Crystallography Lab, National Research Centre, El Bohouth St, Dokki, Giza, P.O. Box 12622, Egypt
| | - Dina El-Ghwas
- Chemistry of Natural and Microbial Products Department, National Research Centre, El Bohouth St, Dokki, Giza, P.O. Box 12622, Egypt
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