新型蛋白质拓扑结构图库网络服务器。
The new protein topology graph library web server.
机构信息
Molecular Bioinformatics, Institute of Computer Science, Johann Wolfgang Goethe-University Frankfurt am Main, Robert-Mayer-Str. 11-15, 60325 Frankfurt am Main, Germany and.
Genome Analysis, Luxembourg Centre for Systems Biomedicine, University of Luxembourg, 7, avenue des Hauts-Fourneaux, L-4362 Esch-sur-Alzette, Luxembourg.
出版信息
Bioinformatics. 2016 Feb 1;32(3):474-6. doi: 10.1093/bioinformatics/btv574. Epub 2015 Oct 6.
SUMMARY
We present a new, extended version of the Protein Topology Graph Library web server. The Protein Topology Graph Library describes the protein topology on the super-secondary structure level. It allows to compute and visualize protein ligand graphs and search for protein structural motifs. The new server features additional information on ligand binding to secondary structure elements, increased usability and an application programming interface (API) to retrieve data, allowing for an automated analysis of protein topology.
AVAILABILITY AND IMPLEMENTATION
The Protein Topology Graph Library server is freely available on the web at http://ptgl.uni-frankfurt.de. The website is implemented in PHP, JavaScript, PostgreSQL and Apache. It is supported by all major browsers. The VPLG software that was used to compute the protein ligand graphs and all other data in the database is available under the GNU public license 2.0 from http://vplg.sourceforge.net.
CONTACT
tim.schaefer@bioinformatik.uni-frankfurt.de; ina.koch@bioinformatik.uni-frankfurt.de
SUPPLEMENTARY INFORMATION
Supplementary data are available at Bioinformatics online.
摘要
我们呈现了蛋白质拓扑图库网络服务器的一个新的扩展版本。蛋白质拓扑图库描述了超二级结构水平上的蛋白质拓扑。它允许计算和可视化蛋白质配体图，并搜索蛋白质结构基序。新服务器具有关于配体与二级结构元件结合的附加信息，提高了可用性，并提供了一个应用程序编程接口（API）来检索数据，从而可以实现蛋白质拓扑的自动化分析。
可用性和实现
蛋白质拓扑图库服务器可在 http://ptgl.uni-frankfurt.de 上免费访问。该网站使用 PHP、JavaScript、PostgreSQL 和 Apache 实现。它支持所有主流浏览器。用于计算蛋白质配体图和数据库中所有其他数据的 VPLG 软件可根据 GNU 公共许可证 2.0 从 http://vplg.sourceforge.net 获得。
联系方式
tim.schaefer@bioinformatik.uni-frankfurt.de；ina.koch@bioinformatik.uni-frankfurt.de
补充信息
补充数据可在 Bioinformatics 在线获得。
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