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| Registros recuperados : 77 | |
| 2. |  | MAZONI, I.; NESHICH, G. DIPN: a dictionary of the internal proteins nanoenvironments and their potential for transformation into agricultural assets. In: MASSRUHÁ, S. M. F. S.; LEITE, M. A. de A.; OLIVEIRA, S. R. de M.; MEIRA, C. A. A.; LUCHIARI JUNIOR, A.; BOLFE, E. L. (ed.). Digital agriculture: research, development and innovation in production chains. Brasília, DF: Embrapa, 2023. cap. 9, p. 165-177.| Biblioteca(s): Embrapa Agricultura Digital. |
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| 3. | | MAZONI, I.; NESHICH, G. DPIN: um dicionário dos nanoambientes internos das proteínas e seu potencial para transformação em ativos para a agricultura. In: MASSRUHÁ, S. M. F. S.; LEITE, M. A. de A.; OLIVEIRA, S. R. de M.; MEIRA, C. A. A.; LUCHIARI JUNIOR, A.; BOLFE, E. L. (Ed.). Agricultura digital: pesquisa, desenvolvimento e inovação nas cadeias produtivas. Brasília, DF: Embrapa, 2020. cap. 9, p. 218-232.| Biblioteca(s): Embrapa Agricultura Digital. |
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| 10. | | MELO, R. C.; MAZONI, I.; NESHICH, G.; SANTORO, M. M.; MEIRA JÚNIOR, W. Contacts as the key elements for comparing two protein structures. 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-6.| Biblioteca(s): Embrapa Agricultura Digital. |
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| 11. | | NESHICH, G.; JARDINE, J. G.; BERNARDES, R.; MAZONI, I.; MANCINI, A. L.; SILVEIRA, C. da. "Cloud computation" na forma de serviços WEB para um banco de dados federativo STING_RDB. In: SIMPÓSIO SOBRE INOVAÇÃO E CRIATIVIDADE CIENTÍFICA NA EMBRAPA, 1., 2008, Brasília, DF. Comunicações Selecionadas. Brasília, DF: Embrapa, 2008. Não paginado.| Biblioteca(s): Embrapa Agricultura Digital. |
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| 12. | | SALIM, J. A.; BORRO, L.; MAZONI, I.; YANO, I. H.; JARDINE, J. G.; NESHICH, G. Multiple structure single parameter: analysis of a single protein nano environment descriptor characterizing a shared loci on structurally aligned proteins. Bioinformatics, v. 32, n. 12, p. 1885-1887, 2016.| Biblioteca(s): Embrapa Agricultura Digital. |
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| 16. | | 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.| Biblioteca(s): Embrapa Agricultura Digital. |
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| 17. | | 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.| Biblioteca(s): Embrapa Agricultura Digital. |
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| 18. | | 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.| Biblioteca(s): Embrapa Agricultura Digital; Embrapa Territorial. |
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| 20. | | 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.| Biblioteca(s): Embrapa Agricultura Digital. |
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| Registros recuperados : 77 | |
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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. |
Registro Completo
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Biblioteca(s): |
Embrapa Agricultura Digital; Embrapa Territorial. |
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Data corrente: |
17/02/2016 |
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Data da última atualização: |
30/11/2020 |
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Autoria: |
SALIM, J. A.; BORRO, L.; MAZONI, I.; JARDINE, J. G.; NESHICH, G. |
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Afiliação: |
JOSÉ AUGUSTO SALIM, Computational Biology Research Group; LUIZ BORRO, Computational Biology Research Group; IVAN MAZONI, CNPTIA; JOSÉ GILBERTO JARDINE, CNPM; GORAN NESIC, CNPTIA. |
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Título: |
Multiple Structures Single Parameter (MSSP): analysis of a single protein nano environment descriptor characterizing a shared loci on structurally aligned proteins. |
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Ano de publicação: |
2016 |
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Fonte/Imprenta: |
Bioinformatics Advance, v. 32, n. 12, p. 1885-1887, June 2016. |
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DOI: |
https://doi.org/10.1093/bioinformatics/btw082 |
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Idioma: |
Inglês |
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Conteúdo: |
Motivation: A graphical representation of physicochemical and structural descriptors attributed to amino acid residues occupying the same topological position in different, structurally aligned proteins can provide a more intuitive way to associate possible functional implications to identified variations in structural characteristics. This could be achieved by observing selected characteristics of amino acids and of their corresponding nano environments, described by the numerical value of matching descriptor. For this purpose, a webbased tool called Multiple Structures Single Parameter (MSSP) was developed and here presented. Results: MSSP produces a 2D plot of a single protein descriptor for a number of structurally aligned protein chains. From a total of 150 protein descriptors available in MSSP, selected out of more than 1500 parameters stored in the STING database, it is possible to create easily readable and highly informative XY-plots, where X-axis contains the amino acid position in the multiple structural alignment, and Yaxis contains the descriptor?s numerical values for each aligned structure. To illustrate one of possible MSSP contributions to the investigation of changes in physicochemical and structural properties of mutants, comparing them to the cognate wild type structure, the oncogenic mutation of M918T in RET Kinase is presented. The comparative analysis of wild type and mutant structures shows great changes in their electrostatic potential. These variations are easily depicted at the MSSP generated XY plot. MenosMotivation: A graphical representation of physicochemical and structural descriptors attributed to amino acid residues occupying the same topological position in different, structurally aligned proteins can provide a more intuitive way to associate possible functional implications to identified variations in structural characteristics. This could be achieved by observing selected characteristics of amino acids and of their corresponding nano environments, described by the numerical value of matching descriptor. For this purpose, a webbased tool called Multiple Structures Single Parameter (MSSP) was developed and here presented. Results: MSSP produces a 2D plot of a single protein descriptor for a number of structurally aligned protein chains. From a total of 150 protein descriptors available in MSSP, selected out of more than 1500 parameters stored in the STING database, it is possible to create easily readable and highly informative XY-plots, where X-axis contains the amino acid position in the multiple structural alignment, and Yaxis contains the descriptor?s numerical values for each aligned structure. To illustrate one of possible MSSP contributions to the investigation of changes in physicochemical and structural properties of mutants, comparing them to the cognate wild type structure, the oncogenic mutation of M918T in RET Kinase is presented. The comparative analysis of wild type and mutant structures shows great changes in their electrostatic potential. These variati... Mostrar Tudo |
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Palavras-Chave: |
Amino acid residues; Bioinformática. |
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Thesaurus NAL: |
Bioinformatics. |
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Categoria do assunto: |
-- |
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Marc: |
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001 2127278
005 2020-11-30
008 2016 bl uuuu u00u1 u #d
024 7 $ahttps://doi.org/10.1093/bioinformatics/btw082$2DOI
100 1 $aSALIM, J. A.
245 $aMultiple Structures Single Parameter (MSSP)$banalysis of a single protein nano environment descriptor characterizing a shared loci on structurally aligned proteins.$h[electronic resource]
260 $c2016
520 $aMotivation: A graphical representation of physicochemical and structural descriptors attributed to amino acid residues occupying the same topological position in different, structurally aligned proteins can provide a more intuitive way to associate possible functional implications to identified variations in structural characteristics. This could be achieved by observing selected characteristics of amino acids and of their corresponding nano environments, described by the numerical value of matching descriptor. For this purpose, a webbased tool called Multiple Structures Single Parameter (MSSP) was developed and here presented. Results: MSSP produces a 2D plot of a single protein descriptor for a number of structurally aligned protein chains. From a total of 150 protein descriptors available in MSSP, selected out of more than 1500 parameters stored in the STING database, it is possible to create easily readable and highly informative XY-plots, where X-axis contains the amino acid position in the multiple structural alignment, and Yaxis contains the descriptor?s numerical values for each aligned structure. To illustrate one of possible MSSP contributions to the investigation of changes in physicochemical and structural properties of mutants, comparing them to the cognate wild type structure, the oncogenic mutation of M918T in RET Kinase is presented. The comparative analysis of wild type and mutant structures shows great changes in their electrostatic potential. These variations are easily depicted at the MSSP generated XY plot.
650 $aBioinformatics
653 $aAmino acid residues
653 $aBioinformática
700 1 $aBORRO, L.
700 1 $aMAZONI, I.
700 1 $aJARDINE, J. G.
700 1 $aNESHICH, G.
773 $tBioinformatics Advance$gv. 32, n. 12, p. 1885-1887, June 2016.
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