title: 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.
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.
authors.affiliation: Laboratório de Modelagem Molecular, Instituto de Ciências Exatas e Naturais, Universidade Federal do Pará, CP 11101, 60075-110, Belém, PA, Brazil.
authors.forename: Alan Sena
authors.initials: AS
authors.lastname: Pinheiro
authors.forename: Jaqueline Bianca Carvalho
authors.initials: JB
authors.lastname: Duarte
authors.forename: Cláudio Nahum
authors.initials: CN
authors.lastname: Alves
authors.forename: Fábio Alberto
authors.initials: FA
authors.lastname: de Molfetta
mesh_terms: D000998:Antiviral Agents / Q000737:chemistry*; D001938:Brazil; D004353:Drug Evaluation, Preclinical / Q000379:methods; D005260:Female; D016174:Hepacivirus / Q000201:enzymology*; D006801:Humans; D008297:Male; D056004:Molecular Dynamics Simulation; D011480:Protease Inhibitors / Q000737:chemistry*; D017361:Viral Nonstructural Proteins / Q000037:antagonists & inhibitors / Q000737:chemistry*; D012697:Serine Endopeptidases; D043583:Nucleoside-Triphosphatase; D053487:DEAD-box RNA Helicases; D000085242:Viral Proteases
chemical_list: D000998:Antiviral Agents; D011480:Protease Inhibitors; D017361:Viral Nonstructural Proteins; C084422:NS3 protein, hepatitis C virus; D012697:Serine Endopeptidases; D043583:Nucleoside-Triphosphatase; D053487:DEAD-box RNA Helicases; D000085242:Viral Proteases