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 | Acesso ao texto completo restrito à biblioteca da Embrapa Agricultura Digital. Para informações adicionais entre em contato com cnptia.biblioteca@embrapa.br. |
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Registro Completo |
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Biblioteca(s): |
Embrapa Agricultura Digital. |
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Data corrente: |
26/11/2009 |
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Data da última atualização: |
15/01/2020 |
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Tipo da produção científica: |
Resumo em Anais de Congresso |
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Autoria: |
MAZONI, I.; BORRO, L. C.; MANCINI, A.; SALIM, J. A.; MORAES, F. R.; JARDINE, J. G.; NESHICH, I. P.; NESHICH, G. |
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Afiliação: |
IVAN MAZONI, CNPTIA; L. C. BORRO, CNPTIA; ADAUTO LUIZ MANCINI, CNPTIA; JOSÉ AUGUSTO SALIM, Estagiário/CNPTIA; FABIO ROGERIO DE MORAES, Bolsista/CNPTIA; JOSE GILBERTO JARDINE, CNPTIA; IZABELLA PENA NESHICH, Estagiária/CNPTIA; GORAN NESHICH, CNPTIA. |
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Título: |
Computational analysis of the secondary structure elements based on the physical chemical and geometrical descriptors and statistics data. |
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Ano de publicação: |
2009 |
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Fonte/Imprenta: |
In: INTERNATIONAL CONFERENCE OF THE BRAZILIAN ASSOCIATION FOR BIOINFORMATICS AND COMPUTATIONAL BIOLOGY, 5., 2009, Angra dos Reis. Abstracts book... Angra dos Reis: ABBCB, 2009. |
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Páginas: |
Não paginado |
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Idioma: |
Inglês |
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Notas: |
X-Meeting 2009. |
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Conteúdo: |
JSSD is software developed on the Java programming language, to analyze the secondary structure elements of the proteins. This analysis is based on the information about the amino acids physical chemical and geometrical parameters and allows characterize the functional proteins nanoenvironment, where the nucleation of secondary structure elements (alpha-helix, beta-sheets and loops) occurs (composed by initiation, propagation and termination). JSSD uses a database containing 720 different descriptors for each amino acid in any protein deposited in the PDB. Considering that each protein has 2 chains with 300 amino acids each one and there are more than 60000 structures deposited in the PDB, our database has 720 x 2 x 300 x 60,000 = 25,920,000,000 registers approximately. A first experiment was done with 40,710 proteins. We created data marts (extracts from PDB based on strict rules for selecting a particular characteristic) from these structures for the proteins families: all-alpha, all-beta and alpha + beta. Using only the amino acids sequence matching the initial and final position at selected secondary structure element and that has consensus on all three identifiers PDB, DSSP and Stride, the experiment showed that there are 34,095 alpha-helices on the all-alpha protein family; 8,645 beta-sheets on the all-beta protein family and 306,556 alpha-helices and 250,674 beta-sheets on the alpha + beta protein family (both secondary structure element of variable size starting from minimum 5 amino acids). MenosJSSD is software developed on the Java programming language, to analyze the secondary structure elements of the proteins. This analysis is based on the information about the amino acids physical chemical and geometrical parameters and allows characterize the functional proteins nanoenvironment, where the nucleation of secondary structure elements (alpha-helix, beta-sheets and loops) occurs (composed by initiation, propagation and termination). JSSD uses a database containing 720 different descriptors for each amino acid in any protein deposited in the PDB. Considering that each protein has 2 chains with 300 amino acids each one and there are more than 60000 structures deposited in the PDB, our database has 720 x 2 x 300 x 60,000 = 25,920,000,000 registers approximately. A first experiment was done with 40,710 proteins. We created data marts (extracts from PDB based on strict rules for selecting a particular characteristic) from these structures for the proteins families: all-alpha, all-beta and alpha + beta. Using only the amino acids sequence matching the initial and final position at selected secondary structure element and that has consensus on all three identifiers PDB, DSSP and Stride, the experiment showed that there are 34,095 alpha-helices on the all-alpha protein family; 8,645 beta-sheets on the all-beta protein family and 306,556 alpha-helices and 250,674 beta-sheets on the alpha + beta protein family (both secondary structure element of variable size starting from... Mostrar Tudo |
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Palavras-Chave: |
Análise computacional; Elementos de estrutura secundária; JSSD. |
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Thesagro: |
Dados Estatísticos. |
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Thesaurus Nal: |
Computer software. |
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Categoria do assunto: |
X Pesquisa, Tecnologia e Engenharia |
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Marc: |
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001 1576280
005 2020-01-15
008 2009 bl uuuu u00u1 u #d
100 1 $aMAZONI, I.
245 $aComputational analysis of the secondary structure elements based on the physical chemical and geometrical descriptors and statistics data.$h[electronic resource]
260 $aIn: INTERNATIONAL CONFERENCE OF THE BRAZILIAN ASSOCIATION FOR BIOINFORMATICS AND COMPUTATIONAL BIOLOGY, 5., 2009, Angra dos Reis. Abstracts book... Angra dos Reis: ABBCB$c2009
300 $aNão paginado
500 $aX-Meeting 2009.
520 $aJSSD is software developed on the Java programming language, to analyze the secondary structure elements of the proteins. This analysis is based on the information about the amino acids physical chemical and geometrical parameters and allows characterize the functional proteins nanoenvironment, where the nucleation of secondary structure elements (alpha-helix, beta-sheets and loops) occurs (composed by initiation, propagation and termination). JSSD uses a database containing 720 different descriptors for each amino acid in any protein deposited in the PDB. Considering that each protein has 2 chains with 300 amino acids each one and there are more than 60000 structures deposited in the PDB, our database has 720 x 2 x 300 x 60,000 = 25,920,000,000 registers approximately. A first experiment was done with 40,710 proteins. We created data marts (extracts from PDB based on strict rules for selecting a particular characteristic) from these structures for the proteins families: all-alpha, all-beta and alpha + beta. Using only the amino acids sequence matching the initial and final position at selected secondary structure element and that has consensus on all three identifiers PDB, DSSP and Stride, the experiment showed that there are 34,095 alpha-helices on the all-alpha protein family; 8,645 beta-sheets on the all-beta protein family and 306,556 alpha-helices and 250,674 beta-sheets on the alpha + beta protein family (both secondary structure element of variable size starting from minimum 5 amino acids).
650 $aComputer software
650 $aDados Estatísticos
653 $aAnálise computacional
653 $aElementos de estrutura secundária
653 $aJSSD
700 1 $aBORRO, L. C.
700 1 $aMANCINI, A.
700 1 $aSALIM, J. A.
700 1 $aMORAES, F. R.
700 1 $aJARDINE, J. G.
700 1 $aNESHICH, I. P.
700 1 $aNESHICH, G.
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Registro original: |
Embrapa Agricultura Digital (CNPTIA) |
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| Registros recuperados : 15 | |
| 1. |  | FONTANA, A.; CORDEIRO, F. R. Carbono orgânico das frações húmicas dos solos da RCC de Rondônia. In: LUMBRERAS, J. F.; SILVA, L. M. da; ANJOS, L. H. C. dos; OLIVEIRA, V. A. de; WADT, P. G. S.; PEREIRA, M. G.; DELARMELINDA-HONORÉ, E. A.; BURITY, K. T. L. (Ed.). Guia de campo da XII Reunião Brasileira de Classificação e Correlação de Solos: RCC de Rondônia. Brasília, DF: Embrapa, 2019. E-book. cap. 13.| Tipo: Capítulo em Livro Técnico-Científico |
| Biblioteca(s): Embrapa Solos. |
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| 4. | | CORDEIRO, F. R.; FONTANA, A.; MENEZES, A. R.; TEIXEIRA, W. G.; ANJOS, L. H. C. dos. Amazonian Dark Earth: proposal of modification of the pretic horizon criteria. In: WORLD CONGRESS OF SOIL SCIENCE, 21., 2018, Rio de Janeiro. Soil science: beyond food and fuel: proceedings... Viçosa, MG: SBCS, 2019. v. 2, p. 51. WCSS 2018.| Tipo: Resumo em Anais de Congresso |
| Biblioteca(s): Embrapa Solos. |
|  |
| 5. | | TEIXEIRA, W. G.; LUMBRERAS, J. F.; CORDEIRO, F. R.; MAESTÁ, B. C.; CERNICCHIARO, G.; SHINZATO, E. Avaliação da susceptibilidade magnética e da condutividade elétrica aparente dos perfis da XIII Reunião Brasileira de Classificação e Correlação de Solos: RCC do Maranhão. In: SILVA, M. B. e; LUMBRERAS, J. F.; COELHO, M. R.; OLIVEIRA, V. A. de (ed.). Guia de campo da XIII Reunião Brasileira de Classificação e Correlação de Solos: RCC do Maranhão. Brasília, DF: Embrapa, 2020. E-book. cap. 11.| Tipo: Capítulo em Livro Técnico-Científico |
| Biblioteca(s): Embrapa Solos. |
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| 7. | | CORDEIRO, F. R.; FONTANA, A.; BALIEIRO, F. de C.; TEIXEIRA, W. G. Condutividade hidráulica insaturada em solos de textura leve no Oeste da Bahia. In: SIMPÓSIO BRASILEIRO DE SOLOS ARENOSOS, 3., 2019, Campo Grande, MS. Intensificação agropecuária sustentável em solos arenosos: anais... Brasília, DF: Embrapa, 2019. E-book.| Tipo: Artigo em Anais de Congresso |
| Biblioteca(s): Embrapa Solos. |
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| 12. | | SILVEIRA, J. G. da; ASSAD, L. T.; OLIVEIRA NETO, S. N. de; BONET, M. S.; CANTO, A. C. B. do; CORDEIRO, F. R.; LEITE, F. F. G. D.; MUÑOZ, A. M.; SANTOS, R. R. dos; RODRIGUES, R. de A. R. Implementation of low-carbon technology in the Brazilian Amazon. In: WORLD CONGRESS ON INTEGRATED CROP-LIVESTOCK-FORESTRY SYSTEMS, 2., 2021. WCCLF 2021 proceedings. Brasília, DF: Embrapa, 2021. p. 893-899. WCCLF 2021. Evento online.| Tipo: Artigo em Anais de Congresso |
| Biblioteca(s): Embrapa Solos. |
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| 13. | | CONCEIÇÃO, M. C. G. da; RODRIGUES, R. de A. R.; CORDEIRO, F. R.; CESÁRIO, F. V.; SELVA, G. V.; MARIA, C.; MATOS, E. da S.; CORDEIRO, R. C.; BIDONE, E. D. International climate change negotiation: the role of Brazil. Sustentabilidade em Debate, v. 10, n. 3, p. 379-395, 2019.| Tipo: Artigo em Periódico Indexado | Circulação/Nível: B - 1 |
| Biblioteca(s): Embrapa Solos. |
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| 14. | | SILVEIRA, J. G. da; OLIVEIRA NETO, S. N. de; CANTO, A. C. B. do; LEITE, F. F. G. D.; CORDEIRO, F. R.; ASSAD, L. T.; SILVA, G. C. C.; MARQUES, R. de O.; CARDOSO, M. S. L. D.; FERREIRA, I. G. M.; CONCEIÇÃO, M. C. G. da; RODRIGUES, R. de A. R. Land use, land cover change and sustainable intensification of agriculture and livestock in the Amazon and the Atlantic Forest in Brazil. Sustainability, v. 14, n. 5, 2563, 2022.| Tipo: Artigo em Periódico Indexado | Circulação/Nível: A - 2 |
| Biblioteca(s): Embrapa Solos. |
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| 15. | | SILVEIRA, J. G. da; ASSAD, L. T.; OLIVEIRA NETO, S. N. de; BONET, M. S.; LEITE, F. F. G. D.; CANTO, A. C. B. do; CORDEIRO, F. R.; MUÑOZ, A. M.; RAMOS, M. B. de C.; RODRIGUES, R. de A. R. Selection of species for implantation in low-carbon technology in the Brazilian Atlantic Forest. In: WORLD CONGRESS ON INTEGRATED CROP-LIVESTOCK-FORESTRY SYSTEMS, 2., 2021. WCCLF 2021 proceedings. Brasília, DF: Embrapa, 2021. p. 738-743. WCCLF 2021. Evento online.| Tipo: Artigo em Anais de Congresso |
| Biblioteca(s): Embrapa Solos. |
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| Registros recuperados : 15 | |
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| Nenhum registro encontrado para a expressão de busca informada. |
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