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Libardi SH, Ahmad A, Ferreira FB, Oliveira RJ, Caruso ÍP, Melo FA, de Albuquerque S, Cardoso DR, Burtoloso ACB, Borges JC. Interaction between diterpene icetexanes and old yellow enzymes of Leishmania braziliensis and Trypanosoma cruzi. Int J Biol Macromol 2024; 259:129192. [PMID: 38216013 DOI: 10.1016/j.ijbiomac.2023.129192] [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: 06/24/2023] [Revised: 12/21/2023] [Accepted: 12/31/2023] [Indexed: 01/14/2024]
Abstract
Old Yellow Enzymes (OYEs) are flavin-dependent redox enzymes that promote the asymmetric reduction of activated alkenes. Due to the high importance of flavoenzymes in the metabolism of organisms, the interaction between OYEs from the parasites Trypanosoma cruzi and Leishmania braziliensis and three diterpene icetexanes (brussonol and two analogs), were evaluated in the present study, and differences in the binding mechanism and inhibition capacity of these molecules were examined. Although the aforementioned compounds showed poor and negligible activities against T. cruzi and L. braziliensis cells, respectively, the experiments with the purified enzymes indicated that the interaction occurs by divergent mechanisms. Overall, the ligands' inhibitory effect depends on their accessibility to the N5 position of the flavin's isoalloxazine ring. The results also indicated that the OYEs found in both parasites share structural similarities and showed affinities for the diterpene icetexanes in the same range. Nevertheless, the interaction between OYEs and ligands is directed by enthalpy and/or entropy in distinct ways. In conclusion, the binding site of both OYEs exhibits remarkable plasticity, and a large range of different molecules, including that can be substrates and inhibitors, can bind this site. This plasticity should be considered in drug design using OYE as a target.
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Affiliation(s)
- Silvia H Libardi
- Instituto de Química de São Carlos, Universidade de São Paulo - USP, 13560-970 São Carlos, SP, Brazil
| | - Anees Ahmad
- Instituto de Química de São Carlos, Universidade de São Paulo - USP, 13560-970 São Carlos, SP, Brazil
| | | | - Ronaldo J Oliveira
- Instituto de Ciências Exatas, Naturais e Educação, Universidade Federal do Triângulo Mineiro, 38064-200 Uberaba, MG, Brazil
| | - Ícaro P Caruso
- Instituto de Biociências, Letras e Ciências Exatas (IBILCE) - UNESP, 15054-000 São José do Rio Preto, SP, Brazil; Instituto de Bioquímica Médica Leopoldo de Meis and Centro Nacional para Biologia Estrutural e Bioimagem, Universidade Federal do Rio de Janeiro (UFRJ), Rio de Janeiro, RJ, Brazil
| | - Fernando A Melo
- Instituto de Biociências, Letras e Ciências Exatas (IBILCE) - UNESP, 15054-000 São José do Rio Preto, SP, Brazil
| | - Sergio de Albuquerque
- Faculdade de Ciências Farmacêuticas de Ribeirão Preto, Universidade de São Paulo - USP, Ribeirão Preto, SP CEP 14040-903, Brazil
| | - Daniel R Cardoso
- Instituto de Química de São Carlos, Universidade de São Paulo - USP, 13560-970 São Carlos, SP, Brazil
| | - Antonio C B Burtoloso
- Instituto de Química de São Carlos, Universidade de São Paulo - USP, 13560-970 São Carlos, SP, Brazil
| | - Júlio C Borges
- Instituto de Química de São Carlos, Universidade de São Paulo - USP, 13560-970 São Carlos, SP, Brazil.
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López-Lira C, Tapia RA, Herrera A, Lapier M, Maya JD, Soto-Delgado J, Oliver AG, Graham Lappin A, Uriarte E. New benzimidazolequinones as trypanosomicidal agents. Bioorg Chem 2021; 111:104823. [PMID: 33798844 DOI: 10.1016/j.bioorg.2021.104823] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/28/2020] [Revised: 01/11/2021] [Accepted: 03/08/2021] [Indexed: 01/27/2023]
Abstract
Herein, the design and synthesis of new 2-phenyl(pyridinyl)benzimidazolequinones and their 5-phenoxy derivatives as potential anti-Trypanosoma cruzi agents are described. The compounds were evaluated in vitro against the epimastigotes and trypomastigote forms of Trypanosoma cruzi. The replacing of a benzene moiety in the naphthoquinone system by an imidazole enhanced the trypanosomicidal activity against Trypanosoma cruzi. Three of the tested compounds (11a-c) showed potent trypanosomicidal activity and compound 11a, with IC50 of 0.65 μM on the trypomastigote form of T. cruzi, proved to be 15 times more active than nifurtimox. Additionally, molecular docking studies indicate that the quinone derivatives 11a-c could have a multitarget profile interacting preferentially with trypanothione reductase and Old Yellow Enzyme.
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Affiliation(s)
- Claudia López-Lira
- Facultad de Química y de Farmacia, Pontificia Universidad Católica de Chile, Santiago 6094411, Chile
| | - Ricardo A Tapia
- Facultad de Química y de Farmacia, Pontificia Universidad Católica de Chile, Santiago 6094411, Chile.
| | - Alejandra Herrera
- Instituto de Ciencias Biomédicas (ICBM), Facultad de Medicina, Universidad de Chile, Santiago 8380453, Chile
| | - Michel Lapier
- Instituto de Ciencias Biomédicas (ICBM), Facultad de Medicina, Universidad de Chile, Santiago 8380453, Chile
| | - Juan D Maya
- Instituto de Ciencias Biomédicas (ICBM), Facultad de Medicina, Universidad de Chile, Santiago 8380453, Chile
| | - Jorge Soto-Delgado
- Departamento de Ciencias Químicas, Facultad de Ciencias Exactas, Universidad Andrés Bello, Viña del Mar 2531015, Chile.
| | - Allen G Oliver
- Department of Chemistry and Biochemistry, University of Notre Dame, Notre Dame, IN 46556, United States
| | - A Graham Lappin
- Department of Chemistry and Biochemistry, University of Notre Dame, Notre Dame, IN 46556, United States
| | - Eugenio Uriarte
- Departamento de Química Orgánica, Facultad de Farmacia, Universidad Santiago de Compostela, 15782 Santiago de Compostela, Spain
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Repositioned Drugs for Chagas Disease Unveiled via Structure-Based Drug Repositioning. Int J Mol Sci 2020; 21:ijms21228809. [PMID: 33233837 PMCID: PMC7699892 DOI: 10.3390/ijms21228809] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/22/2020] [Revised: 11/08/2020] [Accepted: 11/16/2020] [Indexed: 12/18/2022] Open
Abstract
Chagas disease, caused by the parasite Trypanosoma cruzi, affects millions of people in South America. The current treatments are limited, have severe side effects, and are only partially effective. Drug repositioning, defined as finding new indications for already approved drugs, has the potential to provide new therapeutic options for Chagas. In this work, we conducted a structure-based drug repositioning approach with over 130,000 3D protein structures to identify drugs that bind therapeutic Chagas targets and thus represent potential new Chagas treatments. The screening yielded over 500 molecules as hits, out of which 38 drugs were prioritized following a rigorous filtering process. About half of the latter were already known to have trypanocidal activity, while the others are novel to Chagas disease. Three of the new drug candidates—ciprofloxacin, naproxen, and folic acid—showed a growth inhibitory activity in the micromolar range when tested ex vivo on T. cruzi trypomastigotes, validating the prediction. We show that our drug repositioning approach is able to pinpoint relevant drug candidates at a fraction of the time and cost of a conventional screening. Furthermore, our results demonstrate the power and potential of structure-based drug repositioning in the context of neglected tropical diseases where the pharmaceutical industry has little financial interest in the development of new drugs.
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Din ZU, Lazarin-Bidóia D, Kaplum V, Garcia FP, Nakamura CV, Rodrigues-Filho E. The structure design of biotransformed unsymmetrical nitro-contained 1,5-diaryl-3-oxo-1,4-pentadienyls for the anti-parasitic activities. ARAB J CHEM 2019. [DOI: 10.1016/j.arabjc.2016.03.005] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022] Open
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Carneiro ZA, Lima JC, Lopes CD, Gaspari APS, de Albuquerque S, Dinelli LR, Veloso-Silva LLW, Paganelli MO, Libardi SH, Oliveira CG, Deflon VM, Oliveira RJ, Borges JC, Maia PIS. Heterobimetallic nickel(II) and palladium(II) complexes derived from S-benzyl-N- (ferrocenyl)methylenedithiocarbazate: Trypanocidal activity and interaction with Trypanosoma cruzi Old Yellow Enzyme (TcOYE). Eur J Med Chem 2019; 180:213-223. [PMID: 31306908 DOI: 10.1016/j.ejmech.2019.07.014] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/21/2019] [Revised: 06/10/2019] [Accepted: 07/04/2019] [Indexed: 10/26/2022]
Abstract
Reactions of Ni(II) and Pd(II) precursors with S-benzyl-N-(ferrocenyl)methylenedithiocarbazate (HFedtc) led to the formation of heterobimetallic complexes of the type [MII(Fedtc)2] (M = Ni and Pd). The characterization of the compounds involved the determination of melting point, FTIR, UV-Vis, 1H NMR, elemental analysis and electrochemical experiments. Furthermore, the crystalline structures of HFedtc and [NiII(Fedtc)2] were determined by single crystal X-ray diffraction. The compounds were evaluated against the intracellular form of Trypanosoma cruzi (Tulahuen Lac-Z strain) and the cytotoxicity assays were assessed using LLC-MK2 cells. The results showed that the coordination of HFedtc to Ni(II) or Pd(II) decreases the in vitro trypanocidal activity while the cytotoxicity against LLC-MK2 cells does not change significantly. [PdII(Fedtc)2] showed the greater potential between the two complexes studied, showing an SI value of 8.9. However, this value is not better than that of the free ligand with an SI of 40, a similar value to that of the standard drug benznidazole (SI = 48). Additionally, molecular docking simulations were performed with Trypanosoma cruzi Old Yellow Enzyme (TcOYE), which predicted that HFedtc binds to the protein, almost parallel to the flavin mononucleotide (FMN) prosthetic group, while the [NiII(Fedtc)2] complex was docked into the enzyme binding site in a significantly different manner. In order to confirm the hypothetical interaction, in vitro experiments of fluorescence quenching and enzymatic activity were performed which indicated that, although HFedtc was not processed by the enzyme, it was able to act as a competitive inhibitor, blocking the hydride transfer from the FMN prosthetic group of the enzyme to the menadione substrate.
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Affiliation(s)
- Zumira A Carneiro
- Departamento de Análises Clínicas, Toxicológicas e Bromatológicas, Faculdade de Ciências Farmacêuticas de Ribeirão Preto - FCFRP-USP, Universidade de São Paulo, Avenida do Café s/n, 14040-903, Ribeirão Preto, SP, Brazil
| | - Jackelinne C Lima
- Núcleo de Desenvolvimento de Compostos Bioativos (NDCBio), Universidade Federal do Triângulo Mineiro, Av. Dr. Randolfo Borges 1400, 38025-440, Uberaba, MG, Brazil
| | - Carla D Lopes
- Departamento de Análises Clínicas, Toxicológicas e Bromatológicas, Faculdade de Ciências Farmacêuticas de Ribeirão Preto - FCFRP-USP, Universidade de São Paulo, Avenida do Café s/n, 14040-903, Ribeirão Preto, SP, Brazil
| | - Ana P S Gaspari
- Instituto Federal do Paraná - Campus Paranavaí, Av. José Felipe Tequinha, 1400, 87703-536, Paranavaí, PR, Brazil
| | - Sergio de Albuquerque
- Departamento de Análises Clínicas, Toxicológicas e Bromatológicas, Faculdade de Ciências Farmacêuticas de Ribeirão Preto - FCFRP-USP, Universidade de São Paulo, Avenida do Café s/n, 14040-903, Ribeirão Preto, SP, Brazil
| | - Luis R Dinelli
- Faculdade de Ciências Integrada do Pontal, Universidade Federal de Uberlândia, Rua vinte, 1600, 38304-402, Ituiutaba, MG, Brazil
| | - Laudimir L W Veloso-Silva
- São Carlos Institute of Chemistry, University of São Paulo, São Carlos, SP, P.O. Box 780, 13560-970, Brazil
| | - Marcella O Paganelli
- São Carlos Institute of Chemistry, University of São Paulo, São Carlos, SP, P.O. Box 780, 13560-970, Brazil
| | - Silvia H Libardi
- São Carlos Institute of Chemistry, University of São Paulo, São Carlos, SP, P.O. Box 780, 13560-970, Brazil
| | - Carolina G Oliveira
- Instituto de Química, Universidade Federal de Uberlândia, Av. João Naves de Ávila 2121, 38400-902, Uberlândia, MG, Brazil
| | - Victor M Deflon
- São Carlos Institute of Chemistry, University of São Paulo, São Carlos, SP, P.O. Box 780, 13560-970, Brazil
| | - Ronaldo J Oliveira
- Núcleo de Desenvolvimento de Compostos Bioativos (NDCBio), Universidade Federal do Triângulo Mineiro, Av. Dr. Randolfo Borges 1400, 38025-440, Uberaba, MG, Brazil
| | - Júlio C Borges
- São Carlos Institute of Chemistry, University of São Paulo, São Carlos, SP, P.O. Box 780, 13560-970, Brazil
| | - Pedro I S Maia
- Núcleo de Desenvolvimento de Compostos Bioativos (NDCBio), Universidade Federal do Triângulo Mineiro, Av. Dr. Randolfo Borges 1400, 38025-440, Uberaba, MG, Brazil.
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Veloso-Silva LLW, Dores-Silva PR, Bertolino-Reis DE, Moreno-Oliveira LF, Libardi SH, Borges JC. Structural studies of Old Yellow Enzyme of Leishmania braziliensis in solution. Arch Biochem Biophys 2019; 661:87-96. [DOI: 10.1016/j.abb.2018.11.009] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/13/2018] [Revised: 11/10/2018] [Accepted: 11/11/2018] [Indexed: 01/18/2023]
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Díaz-Viraqué F, Chiribao ML, Trochine A, González-Herrera F, Castillo C, Liempi A, Kemmerling U, Maya JD, Robello C. Old Yellow Enzyme from Trypanosoma cruzi Exhibits In Vivo Prostaglandin F 2α Synthase Activity and Has a Key Role in Parasite Infection and Drug Susceptibility. Front Immunol 2018; 9:456. [PMID: 29563916 PMCID: PMC5845897 DOI: 10.3389/fimmu.2018.00456] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/26/2017] [Accepted: 02/20/2018] [Indexed: 01/26/2023] Open
Abstract
The discovery that trypanosomatids, unicellular organisms of the order Kinetoplastida, are capable of synthesizing prostaglandins raised questions about the role of these molecules during parasitic infections. Multiple studies indicate that prostaglandins could be related to the infection processes and pathogenesis in trypanosomatids. This work aimed to unveil the role of the prostaglandin F2α synthase TcOYE in the establishment of Trypanosoma cruzi infection, the causative agent of Chagas disease. This chronic disease affects several million people in Latin America causing high morbidity and mortality. Here, we propose a prokaryotic evolutionary origin for TcOYE, and then we used in vitro and in vivo experiments to show that T. cruzi prostaglandin F2α synthase plays an important role in modulating the infection process. TcOYE overexpressing parasites were less able to complete the infective cycle in cell culture infections and increased cardiac tissue parasitic load in infected mice. Additionally, parasites overexpressing the enzyme increased PGF2α synthesis from arachidonic acid. Finally, an increase in benznidazole and nifurtimox susceptibility in TcOYE overexpressing parasites showed its participation in activating the currently anti-chagasic drugs, which added to its observed ability to confer resistance to hydrogen peroxide, highlights the relevance of this enzyme in multiple events including host-parasite interaction.
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Affiliation(s)
| | - María Laura Chiribao
- Unidad de Biología Molecular, Institut Pasteur de Montevideo, Montevideo, Uruguay.,Departamento de Bioquímica, Facultad de Medicina Universidad de la República, Montevideo, Uruguay
| | - Andrea Trochine
- Unidad de Biología Molecular, Institut Pasteur de Montevideo, Montevideo, Uruguay
| | - Fabiola González-Herrera
- Programa de Farmacología Molecular y Clínica - ICBM, Facultad de Medicina Universidad de Chile, Santiago de Chile, Chile
| | - Christian Castillo
- Programa de Anatomía y Biología del Desarrollo - ICBM, Facultad de Medicina Universidad De Chile, Santiago de Chile, Chile
| | - Ana Liempi
- Programa de Anatomía y Biología del Desarrollo - ICBM, Facultad de Medicina Universidad De Chile, Santiago de Chile, Chile
| | - Ulrike Kemmerling
- Programa de Anatomía y Biología del Desarrollo - ICBM, Facultad de Medicina Universidad De Chile, Santiago de Chile, Chile
| | - Juan Diego Maya
- Programa de Farmacología Molecular y Clínica - ICBM, Facultad de Medicina Universidad de Chile, Santiago de Chile, Chile
| | - Carlos Robello
- Unidad de Biología Molecular, Institut Pasteur de Montevideo, Montevideo, Uruguay.,Departamento de Bioquímica, Facultad de Medicina Universidad de la República, Montevideo, Uruguay
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Gonçalves AC, Carneiro ZA, Oliveira CG, Danuello A, Guerra W, Oliveira RJ, Ferreira FB, Veloso-Silva LL, Batista FA, Borges JC, de Albuquerque S, Deflon VM, Maia PI. Pt II , Pd II and Au III complexes with a thiosemicarbazone derived from diacethylmonooxime: Structural analysis, trypanocidal activity, cytotoxicity and first insight into the antiparasitic mechanism of action. Eur J Med Chem 2017; 141:615-631. [DOI: 10.1016/j.ejmech.2017.10.013] [Citation(s) in RCA: 28] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/28/2017] [Revised: 09/19/2017] [Accepted: 10/07/2017] [Indexed: 11/28/2022]
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Nizam S, Gazara RK, Verma S, Singh K, Verma PK. Comparative structural modeling of six old yellow enzymes (OYEs) from the necrotrophic fungus Ascochyta rabiei: insight into novel OYE classes with differences in cofactor binding, organization of active site residues and stereopreferences. PLoS One 2014; 9:e95989. [PMID: 24776850 PMCID: PMC4002455 DOI: 10.1371/journal.pone.0095989] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/24/2014] [Accepted: 04/02/2014] [Indexed: 11/29/2022] Open
Abstract
Old Yellow Enzyme (OYE1) was the first flavin-dependent enzyme identified and characterized in detail by the entire range of physical techniques. Irrespective of this scrutiny, true physiological role of the enzyme remains a mystery. In a recent study, we systematically identified OYE proteins from various fungi and classified them into three classes viz. Class I, II and III. However, there is no information about the structural organization of Class III OYEs, eukaryotic Class II OYEs and Class I OYEs of filamentous fungi. Ascochyta rabiei, a filamentous phytopathogen which causes Ascochyta blight (AB) in chickpea possesses six OYEs (ArOYE1-6) belonging to the three OYE classes. Here we carried out comparative homology modeling of six ArOYEs representing all the three classes to get an in depth idea of structural and functional aspects of fungal OYEs. The predicted 3D structures of A. rabiei OYEs were refined and evaluated using various validation tools for their structural integrity. Analysis of FMN binding environment of Class III OYE revealed novel residues involved in interaction. The ligand para-hydroxybenzaldehyde (PHB) was docked into the active site of the enzymes and interacting residues were analyzed. We observed a unique active site organization of Class III OYE in comparison to Class I and II OYEs. Subsequently, analysis of stereopreference through structural features of ArOYEs was carried out, suggesting differences in R/S selectivity of these proteins. Therefore, our comparative modeling study provides insights into the FMN binding, active site organization and stereopreference of different classes of ArOYEs and indicates towards functional differences of these enzymes. This study provides the basis for future investigations towards the biochemical and functional characterization of these enigmatic enzymes.
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Affiliation(s)
- Shadab Nizam
- Plant Immunity Laboratory, National Institute of Plant Genome Research, Aruna Asaf Ali Marg, New Delhi, India
| | - Rajesh Kumar Gazara
- Plant Immunity Laboratory, National Institute of Plant Genome Research, Aruna Asaf Ali Marg, New Delhi, India
| | - Sandhya Verma
- Plant Immunity Laboratory, National Institute of Plant Genome Research, Aruna Asaf Ali Marg, New Delhi, India
| | - Kunal Singh
- Plant Immunity Laboratory, National Institute of Plant Genome Research, Aruna Asaf Ali Marg, New Delhi, India
| | - Praveen Kumar Verma
- Plant Immunity Laboratory, National Institute of Plant Genome Research, Aruna Asaf Ali Marg, New Delhi, India
- * E-mail:
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