JavaProtein Dossier: a novel web-based data visualization tool for comprehensive analysis of protein structure
| Autor: | Goran Neshich, A. L. Mancini, Roberto C. Togawa, Ivan P. Pinto, Savio Souza, Paula R. Kuser, Arnaldo J. Montagner, Renato Fileto, Renato Torres, Walter Rocchia, João N. Krauchenco, R. H. Higa, Juliana F. Palandrani, Michel Eduardo Beleza Yamagishi, Christian Baudet |
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| Rok vydání: | 2004 |
| Předmět: |
Java
Protein Conformation Molecular Sequence Data Stability (learning theory) Color Biology Bioinformatics computer.software_genre Computer graphics User-Computer Interface Data visualization Software Computer Graphics Genetics Web application Databases Protein computer.programming_language Structure (mathematical logic) Internet business.industry Computational Biology Proteins Articles Visualization Structural Homology Protein Proprotein Convertases Data mining business computer |
| Zdroj: | Nucleic Acids Research. 32:W595-W601 |
| ISSN: | 1362-4962 0305-1048 |
| DOI: | 10.1093/nar/gkh480 |
| Popis: | JavaProtein Dossier ((J)PD) is a new concept, database and visualization tool providing one of the largest collections of the physicochemical parameters describing proteins' structure, stability, function and interaction with other macromolecules. By collecting as many descriptors/parameters as possible within a single database, we can achieve a better use of the available data and information. Furthermore, data grouping allows us to generate different parameters with the potential to provide new insights into the sequence-structure-function relationship. In (J)PD, residue selection can be performed according to multiple criteria. (J)PD can simultaneously display and analyze all the physicochemical parameters of any pair of structures, using precalculated structural alignments, allowing direct parameter comparison at corresponding amino acid positions among homologous structures. In order to focus on the physicochemical (and consequently pharmacological) profile of proteins, visualization tools (showing the structure and structural parameters) also had to be optimized. Our response to this challenge was the use of Java technology with its exceptional level of interactivity. (J)PD is freely accessible (within the Gold Sting Suite) at http://sms.cbi.cnptia.embrapa.br, http://mirrors.rcsb.org/SMS, http://trantor.bioc.columbia.edu/SMS and http://www.es.embnet.org/SMS/ (Option: (Java)Protein Dossier). |
| Databáze: | OpenAIRE |
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