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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: |
26/03/2009 |
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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: |
MANCINI, A. L.; JARDINE, J. G.; MAZONI, I.; BORRO, L. C.; ALVARENGA, D.; CECILIO, P. L.; PELLIGRINELLI, T. V.; NESHICH, G. |
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Afiliação: |
ADAUTO LUIZ MANCINI, CNPTIA; JOSE GILBERTO JARDINE, CNPTIA; IVAN MAZONI, CNPTIA; LUIZ CÉSAR BORRO; DANIEL ALVARENGA; PABLO LIRA CECÍLIO; THAÍS VITAL PELLIGRINELLI; GORAN NESHICH, CNPTIA. |
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Título: |
Structure descriptors of chameleon sequences. |
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Ano de publicação: |
2008 |
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Fonte/Imprenta: |
In: RED IBEROAMERICANA DE BIOINFORMÁTICA CONGRESS, 5., 2008, Chile. Program and abstracts... Santiago: Pontificia Universidad Católica de Chile, 2008. |
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Páginas: |
Não paginado. |
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Idioma: |
Inglês |
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Notas: |
RIB 2008. |
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Conteúdo: |
It has been know since the early work by Sander and Kabsch in 1984 that some identical sequence motifs make completely different local (but extented) folds. In that work, Sander and Kabsch showed the existence of a number of pentapeptides, capable of nucleating both alpha helix and beta strand in different sequence and structure constellations. However, the authors had at that time a very limited universe on which to base their conclusions; namely, the size of the PDB at that time (1984) was only 154 protein structure available. In 2008 the number of available structure is 51,079 (May 27th), 47137containing proteins only. Consequenly, the database is 306 times larger and we took full advantage of this fact. In order to analyze chameleon sequences, we established very strict rules and considered only those ones that passed the test of consensus among HSSP and STRIDE definitions for the Secondary Structure Elements. This is a major difference in our approach versus that of Sander and Kabsch. We then created a data mart of sequences and respective structures with variable size and subjected them to analysis of structure descriptors stored in STING_RDB. Results are discussed in terms of the influence that a local 3D environment has on SSE necleation. |
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Palavras-Chave: |
Bioinformática; Proteinas. |
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Thesaurus Nal: |
Bioinformatics; Proteins. |
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Categoria do assunto: |
X Pesquisa, Tecnologia e Engenharia |
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Marc: |
LEADER 02073nam a2200265 a 4500
001 1031817
005 2020-01-15
008 2008 bl uuuu u00u1 u #d
100 1 $aMANCINI, A. L.
245 $aStructure descriptors of chameleon sequences.$h[electronic resource]
260 $aIn: RED IBEROAMERICANA DE BIOINFORMÁTICA CONGRESS, 5., 2008, Chile. Program and abstracts... Santiago: Pontificia Universidad Católica de Chile$c2008
300 $aNão paginado.
500 $aRIB 2008.
520 $aIt has been know since the early work by Sander and Kabsch in 1984 that some identical sequence motifs make completely different local (but extented) folds. In that work, Sander and Kabsch showed the existence of a number of pentapeptides, capable of nucleating both alpha helix and beta strand in different sequence and structure constellations. However, the authors had at that time a very limited universe on which to base their conclusions; namely, the size of the PDB at that time (1984) was only 154 protein structure available. In 2008 the number of available structure is 51,079 (May 27th), 47137containing proteins only. Consequenly, the database is 306 times larger and we took full advantage of this fact. In order to analyze chameleon sequences, we established very strict rules and considered only those ones that passed the test of consensus among HSSP and STRIDE definitions for the Secondary Structure Elements. This is a major difference in our approach versus that of Sander and Kabsch. We then created a data mart of sequences and respective structures with variable size and subjected them to analysis of structure descriptors stored in STING_RDB. Results are discussed in terms of the influence that a local 3D environment has on SSE necleation.
650 $aBioinformatics
650 $aProteins
653 $aBioinformática
653 $aProteinas
700 1 $aJARDINE, J. G.
700 1 $aMAZONI, I.
700 1 $aBORRO, L. C.
700 1 $aALVARENGA, D.
700 1 $aCECILIO, P. L.
700 1 $aPELLIGRINELLI, T. V.
700 1 $aNESHICH, G.
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Registro original: |
Embrapa Agricultura Digital (CNPTIA) |
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| Registros recuperados : 26 | |
| 6. |  | BORRO, L. C.; SALIM, J. A.; MAZONI, I.; YANO, I.; JARDINE, J. G.; NESHICH, G. Improving binding affinity prediction by using a rule-based model with physical-chemical and structural descriptors of the nano-environment for protein-ligand interactions. In: CONGRESS OF THE INTERNATIONAL UNION FOR BIOCHEMISTRY AND MOLECULAR BIOLOGY, 23.; ANNUAL MEETING OF THE BRAZILIAN SOCIETY FOR BIOCHEMISTRY AND MOLECULAR BIOLOGY, 44., 2015, Foz do Iguaçu. Biochemistry for a better world: abstracts book. [Foz do Iguaçu]: SBBq, 2015. p. 153. C.047.| Tipo: Resumo em Anais de Congresso |
| Biblioteca(s): Embrapa Agricultura Digital. |
|    |
| 7. | | MAZONI, I.; JARDINE, J. G.; BORRO, L. C.; ALVARENGA, D.; NESHICH, G. Electrostatic potential at the alpha carbon atoms along the alpha helices and beta strands. In: ANNUAL MEETING OF SBBQ, 37.; CONGRESS OF THE PAN-AMERICAN ASSOCIATION FOR BIOCHEMISTRY AND MOLECULAR BIOLOGY, 11, 2008, Águas de Lindóia. Program and index... Águas de Lindóia, Program and index... Águas de Lindóia: SBBq, 2008. Não paginado. PABMB.| Tipo: Resumo em Anais de Congresso |
| Biblioteca(s): Embrapa Agricultura Digital. |
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| 8. | | JARDINE, J. G.; MAZONI, I.; BORRO, L. C.; ALVARENGA, D.; NESHICH, G. Signature contact coordination patterns for secondary structure elements in protein structures. In: ANNUAL MEETING OF SBBQ, 37.; CONGRESS OF THE PAN-AMERICAN ASSOCIATION FOR BIOCHEMISTRY AND MOLECULAR BIOLOGY, 11, 2008, Águas de Lindóia. Program and index... Águas de Lindóia: SBBq, 2008. Não paginado. PABMB.| Tipo: Resumo em Anais de Congresso |
| Biblioteca(s): Embrapa Agricultura Digital. |
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| 9. | | MAZONI, I.; BORRO, L. C.; ALVARENGA, D.; JARDINE, J. G.; NESHICH, G. Studying structure function relationship of proteins using "remediated" PDB files. In: ANNUAL MEETING OF SBBQ, 37.; CONGRESS OF THE PAN-AMERICAN ASSOCIATION FOR BIOCHEMISTRY AND MOLECULAR BIOLOGY, 11, 2008, Águas de Lindóia. Program and index... Águas de Lindóia, Program and index... Águas de Lindóia: SBBq, 2008. Não paginado. PABMB.| Tipo: Resumo em Anais de Congresso |
| Biblioteca(s): Embrapa Agricultura Digital. |
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| 10. | | MAZONI, I.; BORRO, L. C.; JARDINE, J. G.; YANO, I. H.; SALIM, J. A.; NESHICH, G. Study of specific nanoenvironments containing [alfa]-helices in all-[alfa] and ([alfa]+[beta])+([alfa]/[beta]) proteins. Plos One, v. 13, n. 7, p. 1-25, 2018. Artigo e0200018.| Tipo: Artigo em Periódico Indexado | Circulação/Nível: A - 1 |
| Biblioteca(s): Embrapa Agricultura Digital; Embrapa Territorial. |
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| 13. | | KUSER, P.; YAMAGISHI, M. E. B.; OLIVEIRA, S. R. M.; MAZONI, I.; SANTOS, E. H. dos; VIEIRA, F. D.; JARDINE, J. G.; BORRO, L. C.; NESHICH, G. BlueStar STING - a multiplatform environment for protein structure analysis. In: ANNUAL INTERNATIONAL CONFERENCE ON INTELLIGENT SYSTEMS FOR MOLECULAR BIOLOGY, 14.; ANNUAL AB3C CONFERENCE, 2., 2006, Fortaleza. Conference Program... Fortaleza: ISCB, 2006. Não paginado. ISMB, X-MEETING 2006. Poster I-22. Na publicação: Paula Kuser, Stanley R. M. Oliveira, Edgard H. Santos.| Tipo: Resumo em Anais de Congresso |
| Biblioteca(s): Embrapa Agricultura Digital. |
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| 14. | | MAZONI, I.; BORRO, L. C.; MANCINI, A.; SALIM, J. A.; MORAES, F. R.; JARDINE, J. G.; NESHICH, I. P.; NESHICH, G. Computational analysis of the secondary structure elements based on the physical chemical and geometrical descriptors and statistics data. In: INTERNATIONAL CONFERENCE OF THE BRAZILIAN ASSOCIATION FOR BIOINFORMATICS AND COMPUTATIONAL BIOLOGY, 5., 2009, Angra dos Reis. Abstracts book... Angra dos Reis: ABBCB, 2009. Não paginado X-Meeting 2009.| Tipo: Resumo em Anais de Congresso |
| Biblioteca(s): Embrapa Agricultura Digital. |
|  |
| 15. | | JARDINE, J. G.; MAZONI, I.; MANCINI, A. L.; BORRO, L. C.; ALVARENGA, D.; CECÍLIO, P. L.; PELLIGRINELLI, T. V.; NESHICH, G. How did the structure function descriptors of proteins change with introduction of 'remediated' PDB files. In: RED IBEROAMERICANA DE BIOINFORMÁTICA CONGRESS, 5., 2008, Santiago. Program and abstracts... Santiago. Pontificia Universidade Católica de Chile, 2008. p. 15.| Tipo: Resumo em Anais de Congresso |
| Biblioteca(s): Embrapa Agricultura Digital. |
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| 16. | | MAZONI, I.; BORRO, L. C.; MANCINI, A.; SALIM, J. A.; MORAES, F. R.; JARDINE, J. G.; NESHICH, I. A. P.; NESHICH, G. Comparison between physical chemical and geometrical characteristics of the amino acids present in alpha-helices and beta-sheets. In: INTERNATIONAL CONFERENCE OF THE BRAZILIAN ASSOCIATION FOR BIOINFORMATICS AND COMPUTATIONAL BIOLOGY, 5., 2009, Angra dos Reis. Abstracts book... Angra dos Reis: ABBCB, 2009. Não pagiando. X-Meeting 2009.| Tipo: Resumo em Anais de Congresso |
| Biblioteca(s): Embrapa Agricultura Digital. |
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| 17. | | FULAZ, S. F.; CABRINI, F. M.; CARVALHO, D. J. P.; BORRO, L. C.; SANTOS, C. A. dos; BELOTI, L. L.; NESHICH, G.; SOUZA, A. P. de; TASIC, L. Design of inhibitors for the PilT protein from Xylella fastidiosa using in silico and in vitro approaches. In: ANNUAL MEETING OF THE BRAZILIAN SOCIETY FOR BIOCHEMISTRY AND MOLECULAR BIOLOGY, 45., 2016, Natal. Livro de resumos... [Natal]: Sociedade Brasileira de Bioquímica e Biologia Molecular, 2016. Não paginado.| Tipo: Resumo em Anais de Congresso |
| Biblioteca(s): Embrapa Agricultura Digital. |
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| 18. | | FALCÃO, P. R. K.; MAZONI, I.; YAMAGISHI, M. E. B.; BORRO, L. C.; JARDINE, J. G.; SANTOS, E. H. dos; OLIVEIRA, S. R. de M.; NESHICH, G. Protein ligand contacts analyzed in an integrated environment with the other sequence and structure related parameters. In: ANNUAL INTERNATIONAL CONFERENCE ON INTELLIGENT SYSTEMS FOR MOLECULAR BIOLOGY, 14.; ANNUAL AB3C CONFERENCE, 2., 2006, Fortaleza. Conference Program... Fortaleza: ISCB, 2006. Não paginado. Na publicação: Paula Kuser, Stanley R. M. Oliveira. ISMB, X-MEETING 2006. Poster I-49.| Tipo: Resumo em Anais de Congresso |
| Biblioteca(s): Embrapa Agricultura Digital. |
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| 19. | | MANCINI, A. L.; JARDINE, J. G.; MAZONI, I.; BORRO, L. C.; ALVARENGA, D.; CECILIO, P. L.; PELLIGRINELLI, T. V.; NESHICH, G. Structure descriptors of chameleon sequences. In: RED IBEROAMERICANA DE BIOINFORMÁTICA CONGRESS, 5., 2008, Chile. Program and abstracts... Santiago: Pontificia Universidad Católica de Chile, 2008. Não paginado. RIB 2008.| Tipo: Resumo em Anais de Congresso |
| Biblioteca(s): Embrapa Agricultura Digital. |
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| 20. | | YAMAGISHI, M. E. B.; FALCAO, P. R. K.; BORRO, L. C.; OLIVEIRA, S. R. de M.; SANTOS, E. H. dos; JARDINE, J. G.; VIEIRA, F. D.; MAZONI, I.; NARCISO, M. G.; NESHICH, G. Analysing protein-protein interface using JPIV. In: ANNUAL INTERNATIONAL CONFERENCE ON INTELLIGENT SYSTEMS FOR MOLECULAR BIOLOGY, 14.; ANNUAL AB3C CONFERENCE, 2., 2006, Fortaleza. Conference Program... Fortaleza: ISCB, 2006. Não paginado. ISMB, X-MEETING 2006. Poster I-14. Na publicação: Paula R. Kuser-Falcão, Stanley R. M. Oliveira, Edgard H. Santos.| Tipo: Resumo em Anais de Congresso |
| Biblioteca(s): Embrapa Agricultura Digital. |
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| Registros recuperados : 26 | |
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| Nenhum registro encontrado para a expressão de busca informada. |
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