Computational screening for potential drug candidates against SARS-CoV-2 main protease

Detalhes bibliográficos
Autor(a) principal: Andrade, Bruno Silva
Data de Publicação: 2020
Outros Autores: Ghosh, Preetam, Barh, Debmalya, Tiwari, Sandeep, Silva, Raner José Santana, Soares, Wagner Rodrigues de Assis, Melo, Tarcisio Silva, Freitas, Andria dos Santos, Grande, Patrícia González, Palmeira, Lucas Sousa, Alcantara, Luiz Carlos Junior, Giovanetti, Marta, Góes Neto, Aristóteles, Azevedo, Vasco Ariston de Carvalho
Tipo de documento: Artigo
Idioma: eng
Título da fonte: Repositório Institucional da FIOCRUZ (ARCA)
Texto Completo: https://www.arca.fiocruz.br/handle/icict/42414
Resumo: Universidade Estadual do Sudoeste da Bahia. Departamento de Ciências Biológicas. Laboratório de Bioinformática e Química Computacional. Jeuié, BA, Brasil.
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spelling Andrade, Bruno SilvaGhosh, PreetamBarh, DebmalyaTiwari, SandeepSilva, Raner José SantanaSoares, Wagner Rodrigues de AssisMelo, Tarcisio SilvaFreitas, Andria dos SantosGrande, Patrícia GonzálezPalmeira, Lucas SousaAlcantara, Luiz Carlos JuniorGiovanetti, MartaGóes Neto, AristótelesAzevedo, Vasco Ariston de Carvalho2020-07-27T20:14:28Z2020-07-27T20:14:28Z2020ANDRADE, Bruno Silva et al. Computational screening for potential drug candidates against SARS-CoV-2 main protease. Preprints, p. 1-27, 2020.https://www.arca.fiocruz.br/handle/icict/4241410.20944/preprints202004.0003.v1engSARS-CoV-2ProteaseTriagem virtualFarmacopropárioInibidoresCompostos naturaisCOVID-19SARS-CoV-2ProteaseVirtual screeningPharmacophoreNatural compoundsCOVID-19BetacoronavirusComputational screening for potential drug candidates against SARS-CoV-2 main proteaseinfo:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/articleUniversidade Estadual do Sudoeste da Bahia. Departamento de Ciências Biológicas. Laboratório de Bioinformática e Química Computacional. Jeuié, BA, Brasil.Virginia Commonwealth University. Department of Computer Science. Richmond, VA, USA.Centre for Genomics and AppliedCentre for Genomics and Applied Gene Technology. Institute of Integrative Omics and Applied Biotechnology (IIOAB), Purba Medinipur, India.Universidade Federal de Minas Gerais. Instituto de Ciências Biológicas. Departamento de Biologia Geral. Laboratório de Genética Celular e Molecular. Belo Horizonte, MG, Brasil.Universidade Estadual de Santa Cruz. Programa de Pós-graduação em Genética e Biologia Molecular. Ilhéus, BA, Brasil.Universidade Estadual do Sudoeste da Bahia. Departamento de Saúde II. Jequié, BA, Brasil.Universidade Estadual do Sudoeste da Bahia. Departamento de Ciências Biológicas. Laboratório de Bioinformática e Química Computacional. Jeuié, BA, Brasil.Universidade Estadual de Santa Cruz. Programa de Pós-graduação em Genética e Biologia Molecular. Ilhéus, BA, Brasil.Universidade Estadual de Santa Cruz. Programa de Pós-graduação em Genética e Biologia Molecular. Ilhéus, BA, Brasil.Universidade Estadual do Sudoeste da Bahia. Departamento de Ciências Biológicas. Laboratório de Bioinformática e Química Computacional. Jeuié, BA, Brasil.Fundação Oswaldo Cruz. Instituto Oswaldo Cruz. Laboratório de Flavivírus. Rio de Janeiro, RJ, Brasil.Universidade Federal de Minas Gerais. Instituto de Ciências Biológicas. Departamento de Biologia Geral. Laboratório de Genética Celular e Molecular. Belo Horizonte, MG, Brasil / Fundação Oswaldo Cruz. Instituto Oswaldo Cruz. Laboratório de Flavivírus. Rio de Janeiro, RJ, Brasil.Universidade Federal de Minas Gerais. Instituto de Ciências Biológicas. Departamento de Microbiologia. Laboratório de Biologia Molecular e Computacional de Fungos. Belo Horizonte, MG, Brasil.Universidade Federal de Minas Gerais. Instituto de Ciências Biológicas. Departamento de Biologia Geral. Laboratório de Genética Celular e Molecular. Belo Horizonte, MG, Brasil.Background: SARS-CoV-2 that are the causal agent of a current pandemic are enveloped, positive-sense, single-stranded RNA viruses of the Coronaviridae family. Proteases of SARS-CoV-2 are necessary for viral replication, structural assembly and pathogenicity. The ~33.8KDa Mpro protease of SARS-CoV-2 is a non-human homologue and highly conserved among several coronaviruses indicating Mpro could be a potential drug target for Coronaviruses.Methods: Here we performed computational ligand screening of four pharmacophores (OEW, Remdesivir, Hydroxycholoquine and N3) that are presumed to have positive effects against SARS-CoV-2 Mpro protease (6LU7) and also screened 50,000 molecules from the ZINC Database dataset against this protease target.Results: We found 40 pharmacophore-like structures of natural compounds from diverse chemical classes that exhibited better affinity of docking as compared to the known ligands. The 10 best selected ligands namely, ZINC1845382, ZINC1875405, ZINC2092396, ZINC2104424, ZINC44018332, ZINC2101723, ZINC2094526, ZINC2094304, ZINC2104482, ZINC3984030, and ZINC1531664, are mainly classified as β-carboline, Alkaloids and Polyflavonoids, and all of them displayed interactions with dyad CYS145 and HIS41 from the protease pocket in a similar way as with other known ligands.Conclusion: Our results suggest that these 10 molecules could be effective against SARS-CoV-2 protease and may be tested in vitro and in vivo to develop novel drugs against this virus.info:eu-repo/semantics/openAccessreponame:Repositório Institucional da FIOCRUZ (ARCA)instname:Fundação Oswaldo Cruz (FIOCRUZ)instacron:FIOCRUZLICENSElicense.txtlicense.txttext/plain; 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dc.title.pt_BR.fl_str_mv Computational screening for potential drug candidates against SARS-CoV-2 main protease
title Computational screening for potential drug candidates against SARS-CoV-2 main protease
spellingShingle Computational screening for potential drug candidates against SARS-CoV-2 main protease
Andrade, Bruno Silva
SARS-CoV-2
Protease
Triagem virtual
Farmacopropário
Inibidores
Compostos naturais
COVID-19
SARS-CoV-2
Protease
Virtual screening
Pharmacophore
Natural compounds
COVID-19
Betacoronavirus
title_short Computational screening for potential drug candidates against SARS-CoV-2 main protease
title_full Computational screening for potential drug candidates against SARS-CoV-2 main protease
title_fullStr Computational screening for potential drug candidates against SARS-CoV-2 main protease
title_full_unstemmed Computational screening for potential drug candidates against SARS-CoV-2 main protease
title_sort Computational screening for potential drug candidates against SARS-CoV-2 main protease
author Andrade, Bruno Silva
author_facet Andrade, Bruno Silva
Ghosh, Preetam
Barh, Debmalya
Tiwari, Sandeep
Silva, Raner José Santana
Soares, Wagner Rodrigues de Assis
Melo, Tarcisio Silva
Freitas, Andria dos Santos
Grande, Patrícia González
Palmeira, Lucas Sousa
Alcantara, Luiz Carlos Junior
Giovanetti, Marta
Góes Neto, Aristóteles
Azevedo, Vasco Ariston de Carvalho
author_role author
author2 Ghosh, Preetam
Barh, Debmalya
Tiwari, Sandeep
Silva, Raner José Santana
Soares, Wagner Rodrigues de Assis
Melo, Tarcisio Silva
Freitas, Andria dos Santos
Grande, Patrícia González
Palmeira, Lucas Sousa
Alcantara, Luiz Carlos Junior
Giovanetti, Marta
Góes Neto, Aristóteles
Azevedo, Vasco Ariston de Carvalho
author2_role author
author
author
author
author
author
author
author
author
author
author
author
author
dc.contributor.author.fl_str_mv Andrade, Bruno Silva
Ghosh, Preetam
Barh, Debmalya
Tiwari, Sandeep
Silva, Raner José Santana
Soares, Wagner Rodrigues de Assis
Melo, Tarcisio Silva
Freitas, Andria dos Santos
Grande, Patrícia González
Palmeira, Lucas Sousa
Alcantara, Luiz Carlos Junior
Giovanetti, Marta
Góes Neto, Aristóteles
Azevedo, Vasco Ariston de Carvalho
dc.subject.other.pt_BR.fl_str_mv SARS-CoV-2
Protease
Triagem virtual
Farmacopropário
Inibidores
Compostos naturais
COVID-19
topic SARS-CoV-2
Protease
Triagem virtual
Farmacopropário
Inibidores
Compostos naturais
COVID-19
SARS-CoV-2
Protease
Virtual screening
Pharmacophore
Natural compounds
COVID-19
Betacoronavirus
dc.subject.en.pt_BR.fl_str_mv SARS-CoV-2
Protease
Virtual screening
Pharmacophore
Natural compounds
COVID-19
dc.subject.decs.pt_BR.fl_str_mv Betacoronavirus
description Universidade Estadual do Sudoeste da Bahia. Departamento de Ciências Biológicas. Laboratório de Bioinformática e Química Computacional. Jeuié, BA, Brasil.
publishDate 2020
dc.date.accessioned.fl_str_mv 2020-07-27T20:14:28Z
dc.date.available.fl_str_mv 2020-07-27T20:14:28Z
dc.date.issued.fl_str_mv 2020
dc.type.status.fl_str_mv info:eu-repo/semantics/publishedVersion
dc.type.driver.fl_str_mv info:eu-repo/semantics/article
format article
status_str publishedVersion
dc.identifier.citation.fl_str_mv ANDRADE, Bruno Silva et al. Computational screening for potential drug candidates against SARS-CoV-2 main protease. Preprints, p. 1-27, 2020.
dc.identifier.uri.fl_str_mv https://www.arca.fiocruz.br/handle/icict/42414
dc.identifier.doi.pt_BR.fl_str_mv 10.20944/preprints202004.0003.v1
identifier_str_mv ANDRADE, Bruno Silva et al. Computational screening for potential drug candidates against SARS-CoV-2 main protease. Preprints, p. 1-27, 2020.
10.20944/preprints202004.0003.v1
url https://www.arca.fiocruz.br/handle/icict/42414
dc.language.iso.fl_str_mv eng
language eng
dc.rights.driver.fl_str_mv info:eu-repo/semantics/openAccess
eu_rights_str_mv openAccess
dc.source.none.fl_str_mv reponame:Repositório Institucional da FIOCRUZ (ARCA)
instname:Fundação Oswaldo Cruz (FIOCRUZ)
instacron:FIOCRUZ
instname_str Fundação Oswaldo Cruz (FIOCRUZ)
instacron_str FIOCRUZ
institution FIOCRUZ
reponame_str Repositório Institucional da FIOCRUZ (ARCA)
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