Molecular Modeling Approaches for Determining Gene Function: Application to a Putative Poly-A Binding Protein from Leishmania amazonensis (LaPABP)

Detalhes bibliográficos
Autor(a) principal: Silva Jr, F. P.
Data de Publicação: 2002
Outros Autores: Veyl, F. Z., Clos, J., De Simone, Salvatore Giovanni
Tipo de documento: Artigo
Idioma: eng
Título da fonte: Repositório Institucional da FIOCRUZ (ARCA)
Texto Completo: https://www.arca.fiocruz.br/handle/icict/44181
Resumo: Fundação Oswaldo Cruz. Instituto Oswaldo Cruz. Departamento de Bioquímica e Biologia Molecular. Laboratório de Bioquímica de Proteínas e Peptídeos Rio de Janeiro, RJ, Brasil.
id CRUZ_4e240631347e73dddf256aeb5bfefbe6
oai_identifier_str oai:www.arca.fiocruz.br:icict/44181
network_acronym_str CRUZ
network_name_str Repositório Institucional da FIOCRUZ (ARCA)
repository_id_str 2135
spelling Silva Jr, F. P.Veyl, F. Z.Clos, J.De Simone, Salvatore Giovanni2020-10-25T19:45:24Z2020-10-25T19:45:24Z2002SILVA JR, F. P. et al. Molecular Modeling Approaches for Determining Gene Function: Application to a Putative Poly-A Binding Protein from Leishmania amazonensis (LaPABP). Memórias do Instituto Oswaldo Cruz, Rio de Janeiro, v. 97, n. 3, p. 335-341, Apr. 2002.0074-0276https://www.arca.fiocruz.br/handle/icict/4418110.1590/S0074-027620020003000101678-8060engFundação Oswaldo Cruz. Instituto Oswaldo Cruz.Modelagem molecularProteína de ligação poli-ALeishmania amazonensisBioinformaticsMolecular modelingPoly-A binding proteinLeishmania amazonensisLaPABPBioinformaticsMolecular Modeling Approaches for Determining Gene Function: Application to a Putative Poly-A Binding Protein from Leishmania amazonensis (LaPABP)info:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/articleFundação Oswaldo Cruz. Instituto Oswaldo Cruz. Departamento de Bioquímica e Biologia Molecular. Laboratório de Bioquímica de Proteínas e Peptídeos Rio de Janeiro, RJ, Brasil.Tropical Medicine Institute. Unit of Leishmania Cloning. Hamburg, Germany.Tropical Medicine Institute. Unit of Leishmania Cloning. Hamburg, Germany.Fundação Oswaldo Cruz. Instituto Oswaldo Cruz. Departamento de Bioquímica e Biologia Molecular. Laboratório de Bioquímica de Proteínas e Peptídeos Rio de Janeiro, RJ, Brasil.he great expansion in the number of genome sequencing projects has revealed the importance of computational methods to speed up the characterization of unknown genes. These studies have been improved by the use of three dimensional information from the predicted proteins generated by molecular modeling techniques. In this work, we disclose the structure-function relationship of a gene product from Leishmania amazonensis by applying molecular modeling and bioinformatics techniques. The analyzed sequence encodes a 159 aminoacids polypeptide (estimated 18 kDa) and was denoted LaPABP for its high homology with poly-A binding proteins from trypanosomatids. The domain structure, clustering analysis and a three dimensional model of LaPABP, basically obtained by homology modeling on the structure of the human poly-A binding protein, are described. Based on the analysis of the electrostatic potential mapped on the model's surface and conservation of intramolecular contacts responsible for folding stabilization we hypothesize that this protein may have less avidity to RNA than it's L. major counterpart but still account for a significant functional activity in the parasite. The model obtained will help in the design of mutagenesis experiments aimed to elucidate the mechanism of gene expression in trypanosomatids and serve as a starting point for its exploration as a potential source of targets for a rational chemotherapy.info:eu-repo/semantics/openAccessreponame:Repositório Institucional da FIOCRUZ (ARCA)instname:Fundação Oswaldo Cruz (FIOCRUZ)instacron:FIOCRUZLICENSElicense.txtlicense.txttext/plain; charset=utf-82991https://www.arca.fiocruz.br/bitstream/icict/44181/1/license.txt5a560609d32a3863062d77ff32785d58MD51ORIGINALSGiovanni_DeSimone_etal_IOC_2002.pdfSGiovanni_DeSimone_etal_IOC_2002.pdfapplication/pdf222142https://www.arca.fiocruz.br/bitstream/icict/44181/2/SGiovanni_DeSimone_etal_IOC_2002.pdf471a6947b403698ee4d2226f44dfd8c2MD52TEXTSGiovanni_DeSimone_etal_IOC_2002.pdf.txtSGiovanni_DeSimone_etal_IOC_2002.pdf.txtExtracted texttext/plain29168https://www.arca.fiocruz.br/bitstream/icict/44181/3/SGiovanni_DeSimone_etal_IOC_2002.pdf.txt33c843f0c1151c858afae5dd3e3f3cf4MD53icict/441812020-10-26 02:04:49.201oai:www.arca.fiocruz.br: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ório InstitucionalPUBhttps://www.arca.fiocruz.br/oai/requestrepositorio.arca@fiocruz.bropendoar:21352020-10-26T05:04:49Repositório Institucional da FIOCRUZ (ARCA) - Fundação Oswaldo Cruz (FIOCRUZ)false
dc.title.pt_BR.fl_str_mv Molecular Modeling Approaches for Determining Gene Function: Application to a Putative Poly-A Binding Protein from Leishmania amazonensis (LaPABP)
title Molecular Modeling Approaches for Determining Gene Function: Application to a Putative Poly-A Binding Protein from Leishmania amazonensis (LaPABP)
spellingShingle Molecular Modeling Approaches for Determining Gene Function: Application to a Putative Poly-A Binding Protein from Leishmania amazonensis (LaPABP)
Silva Jr, F. P.
Modelagem molecular
Proteína de ligação poli-A
Leishmania amazonensis
Bioinformatics
Molecular modeling
Poly-A binding protein
Leishmania amazonensis
LaPABP
Bioinformatics
title_short Molecular Modeling Approaches for Determining Gene Function: Application to a Putative Poly-A Binding Protein from Leishmania amazonensis (LaPABP)
title_full Molecular Modeling Approaches for Determining Gene Function: Application to a Putative Poly-A Binding Protein from Leishmania amazonensis (LaPABP)
title_fullStr Molecular Modeling Approaches for Determining Gene Function: Application to a Putative Poly-A Binding Protein from Leishmania amazonensis (LaPABP)
title_full_unstemmed Molecular Modeling Approaches for Determining Gene Function: Application to a Putative Poly-A Binding Protein from Leishmania amazonensis (LaPABP)
title_sort Molecular Modeling Approaches for Determining Gene Function: Application to a Putative Poly-A Binding Protein from Leishmania amazonensis (LaPABP)
author Silva Jr, F. P.
author_facet Silva Jr, F. P.
Veyl, F. Z.
Clos, J.
De Simone, Salvatore Giovanni
author_role author
author2 Veyl, F. Z.
Clos, J.
De Simone, Salvatore Giovanni
author2_role author
author
author
dc.contributor.author.fl_str_mv Silva Jr, F. P.
Veyl, F. Z.
Clos, J.
De Simone, Salvatore Giovanni
dc.subject.other.pt_BR.fl_str_mv Modelagem molecular
Proteína de ligação poli-A
Leishmania amazonensis
Bioinformatics
topic Modelagem molecular
Proteína de ligação poli-A
Leishmania amazonensis
Bioinformatics
Molecular modeling
Poly-A binding protein
Leishmania amazonensis
LaPABP
Bioinformatics
dc.subject.en.pt_BR.fl_str_mv Molecular modeling
Poly-A binding protein
Leishmania amazonensis
LaPABP
Bioinformatics
description Fundação Oswaldo Cruz. Instituto Oswaldo Cruz. Departamento de Bioquímica e Biologia Molecular. Laboratório de Bioquímica de Proteínas e Peptídeos Rio de Janeiro, RJ, Brasil.
publishDate 2002
dc.date.issued.fl_str_mv 2002
dc.date.accessioned.fl_str_mv 2020-10-25T19:45:24Z
dc.date.available.fl_str_mv 2020-10-25T19:45:24Z
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 SILVA JR, F. P. et al. Molecular Modeling Approaches for Determining Gene Function: Application to a Putative Poly-A Binding Protein from Leishmania amazonensis (LaPABP). Memórias do Instituto Oswaldo Cruz, Rio de Janeiro, v. 97, n. 3, p. 335-341, Apr. 2002.
dc.identifier.uri.fl_str_mv https://www.arca.fiocruz.br/handle/icict/44181
dc.identifier.issn.pt_BR.fl_str_mv 0074-0276
dc.identifier.doi.none.fl_str_mv 10.1590/S0074-02762002000300010
dc.identifier.eissn.none.fl_str_mv 1678-8060
identifier_str_mv SILVA JR, F. P. et al. Molecular Modeling Approaches for Determining Gene Function: Application to a Putative Poly-A Binding Protein from Leishmania amazonensis (LaPABP). Memórias do Instituto Oswaldo Cruz, Rio de Janeiro, v. 97, n. 3, p. 335-341, Apr. 2002.
0074-0276
10.1590/S0074-02762002000300010
1678-8060
url https://www.arca.fiocruz.br/handle/icict/44181
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.publisher.none.fl_str_mv Fundação Oswaldo Cruz. Instituto Oswaldo Cruz.
publisher.none.fl_str_mv Fundação Oswaldo Cruz. Instituto Oswaldo Cruz.
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)
collection Repositório Institucional da FIOCRUZ (ARCA)
bitstream.url.fl_str_mv https://www.arca.fiocruz.br/bitstream/icict/44181/1/license.txt
https://www.arca.fiocruz.br/bitstream/icict/44181/2/SGiovanni_DeSimone_etal_IOC_2002.pdf
https://www.arca.fiocruz.br/bitstream/icict/44181/3/SGiovanni_DeSimone_etal_IOC_2002.pdf.txt
bitstream.checksum.fl_str_mv 5a560609d32a3863062d77ff32785d58
471a6947b403698ee4d2226f44dfd8c2
33c843f0c1151c858afae5dd3e3f3cf4
bitstream.checksumAlgorithm.fl_str_mv MD5
MD5
MD5
repository.name.fl_str_mv Repositório Institucional da FIOCRUZ (ARCA) - Fundação Oswaldo Cruz (FIOCRUZ)
repository.mail.fl_str_mv repositorio.arca@fiocruz.br
_version_ 1798324643283599360

Registros relacionados