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MPTherm: database for membrane protein thermodynamics for understanding folding and stability
Briefings in Bioinformatics ( IF 9.5 ) Pub Date : 2020-04-27 , DOI: 10.1093/bib/bbaa064
A Kulandaisamy 1 , R Sakthivel 2 , M Michael Gromiha 3
Affiliation  

The functions of membrane proteins (MPs) are attributed to their structure and stability. Factors influencing the stability of MPs differ from globular proteins due to the presence of membrane spanning regions. Thermodynamic data of MPs aid to understand the relationship among their structure, stability and function. Although a wealth of experimental data on thermodynamics of MPs are reported in the literature, there is no database available explicitly for MPs. In this work, we have developed a database for MP thermodynamics, MPTherm, which contains more than 7000 thermodynamic data from about 320 MPs. Each entry contains protein sequence and structural information, membrane topology, experimental conditions, thermodynamic parameters such as melting temperature, free energy, enthalpy etc. and literature information. MPTherm assists users to retrieve the data by using different search and display options. We have also provided the sequence and structure visualization as well as cross-links to UniProt and PDB databases. MPTherm database is freely available at http://www.iitm.ac.in/bioinfo/mptherm/. It is implemented in HTML, PHP, MySQL and JavaScript, and supports the latest versions of major browsers, such as Firefox, Chrome and Opera. MPTherm would serve as an effective resource for understanding the stability of MPs, development of prediction tools and identifying drug targets for diseases associated with MPs.

中文翻译:

MPTherm:用于理解折叠和稳定性的膜蛋白热力学数据库

膜蛋白 (MP) 的功能归因于它们的结构和稳定性。由于存在跨膜区域,影响 MP 稳定性的因素与球状蛋白不同。MP 的热力学数据有助于了解其结构、稳定性和功能之间的关系。尽管文献中报道了大量关于 MP 热力学的实验数据,但没有明确可用的 MP 数据库。在这项工作中,我们开发了一个 MP 热力学数据库 MPTherm,其中包含来自大约 320 个 MP 的 7000 多个热力学数据。每个条目都包含蛋白质序列和结构信息、膜拓扑结构、实验条件、热力学参数(如熔解温度、自由能、焓等)和文献信息。MPTherm 通过使用不同的搜索和显示选项帮助用户检索数据。我们还提供了序列和结构可视化以及 UniProt 和 PDB 数据库的交叉链接。MPTherm 数据库可在 http://www.iitm.ac.in/bioinfo/mptherm/ 免费获得。它以 HTML、PHP、MySQL 和 JavaScript 实现,并支持主要浏览器的最新版本,例如 Firefox、Chrome 和 Opera。MPTherm 将作为了解 MPs 稳定性、开发预测工具和确定 MPs 相关疾病的药物靶点的有效资源。它以 HTML、PHP、MySQL 和 JavaScript 实现,并支持主要浏览器的最新版本,例如 Firefox、Chrome 和 Opera。MPTherm 将作为了解 MPs 稳定性、开发预测工具和确定 MPs 相关疾病的药物靶点的有效资源。它以 HTML、PHP、MySQL 和 JavaScript 实现,并支持主要浏览器的最新版本,例如 Firefox、Chrome 和 Opera。MPTherm 将作为了解 MPs 稳定性、开发预测工具和确定 MPs 相关疾病的药物靶点的有效资源。
更新日期:2020-04-27
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