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Virtual Screening and Molecular Dynamics Simulations from a Bank of Molecules of the Amazon Region Against Functional NS3-4A Protease-Helicase Enzyme of Hepatitis C Virus

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Abstract

Hepatitis C virus (HCV) infection is a disease that affects approximately 3 % of the global population and requires new therapeutic agents without the inconvenience associated with current anti-HCV treatment. This paper reports on a study of a virtual screening and a molecular dynamics simulation of compounds derived from natural products from the Amazon region that are potentially effective against the NS3-4A enzyme of HCV, which plays an important role in the replication process of this virus. According to the results of the molecular docking calculations and subsequent consensual analysis, the best scored compounds showed interactions between hydrogen and residues of the catalytic triad as well as interactions with residues that guide ligands to the active site of the enzyme. They also showed stability in the molecular dynamics simulation, as the structures preserved important interactions at the active site of the enzyme. The root mean square deviation (RMSD) values were stabilized at the end of the simulation time. Such compounds are considered promising as novel therapies against HCV.

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Acknowledgments

The authors are indebted to CNPq for the financial support provided to this research.

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Authors and Affiliations

  1. Laboratório de Modelagem Molecular, Instituto de Ciências Exatas e Naturais, Universidade Federal do Pará, CP 11101, 60075-110, Belém, PA, Brazil

    Alan Sena Pinheiro, Jaqueline Bianca Carvalho Duarte & Fábio Alberto de Molfetta

  2. Planejamento e Desenvolvimento de Fármacos, Instituto de Ciências Exatas e Naturais, Universidade Federal do Pará, CP 11101, 60075-110, Belém, PA, Brazil

    Cláudio Nahum Alves

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  1. Alan Sena Pinheiro
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  2. Jaqueline Bianca Carvalho Duarte
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  3. Cláudio Nahum Alves
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  4. Fábio Alberto de Molfetta
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Correspondence to Fábio Alberto de Molfetta.

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Pinheiro, A.S., Duarte, J.B.C., Alves, C.N. et al. Virtual Screening and Molecular Dynamics Simulations from a Bank of Molecules of the Amazon Region Against Functional NS3-4A Protease-Helicase Enzyme of Hepatitis C Virus. Appl Biochem Biotechnol 176, 1709–1721 (2015). https://doi.org/10.1007/s12010-015-1672-5

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