MPlot--a server to analyze and visualize tertiary structure contacts and geometrical features of helical membrane proteins.
MPlot--a server to analyze and visualize tertiary structure contacts and geometrical features of helical membrane proteins.
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DOI：
10.1093/nar/gkq401
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发表时间：
2010-07
影响因子：
14.9
通讯作者：
Hildebrand PW
中科院分区：
文献类型：
--
作者：
Rose A;Goede A;Hildebrand PW
MPlot是一个网络服务器，为结构生物学家提供了一种快速简便的方法来分析，可视化和绘制螺旋膜蛋白的三级结构接触。作为输入，需要PDB格式的实验确定或计算建模的蛋白质结构。自动分析将内部工具与第三方工具连接，以计算跨膜螺旋的截止依赖性货车德瓦尔斯接触或交叉角，以计算主链或侧链氢键或膜平面。此外，MPlot允许定期添加新功能和工具。为此，MPlot被嵌入到一个框架中，该框架便于高级用户从现有工具中组成新的工作流，或者用他们自己的工具的结果替换中间结果。输出可以在基于Jmol的蛋白质查看器中在线查看，或者通过PyMOL中自动生成的脚本查看。为了进一步说明，结果可以下载为2D图，代表跨膜螺旋的空间排列真实的比例。对于分析和统计，所有结果都可以作为文本文件下载，这些文本文件可以作为输入或作为标准数据，以验证基于知识的三级结构预测工具的输出。网址：http://proteinformatics.charite.de/mplot/。
MPlot is a webserver that provides a quick and easy way for structural biologists to analyze, visualize and plot tertiary structure contacts of helical membrane proteins. As input, experimentally determined or computationally modeled protein structures in PDB format are required. The automatic analysis concatenates in house tools to calculate cut-off dependent van der Waals contacts or crossing angles of transmembrane helices with third party tools to compute main chain or side chain hydrogen bonds or membrane planes. Moreover, MPlot allows new features and tools to be added on a regular basis. For that purpose, MPlot was embedded in a framework that facilitates advanced users to compose new workflows from existing tools, or to substitute intermediate results with results from their (own) tools. The outputs can be viewed online in a Jmol based protein viewer, or via automatically generated scripts in PyMOL. For further illustration, the results can be downloaded as a 2D graph, representing the spatial arrangement of transmembrane helices true to scale. For analysis and statistics, all results can be downloaded as text files that may serve as inputs for or as standard data to validate the output of knowledge based tertiary structure prediction tools. URL: http://proteinformatics.charite.de/mplot/.
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影响因子：
3
作者：
Moreland JL;Gramada A;Buzko OV;Zhang Q;Bourne PE
通讯作者：
Bourne PE
影响因子：
5.7
作者：
Harrington, Susan E.;Ben-Tal, Nir
通讯作者：
Ben-Tal, Nir
DOI：
10.1073/pnas.97.11.5796
发表时间：
2000-05-23
影响因子：
11.1
作者：
Eilers, M;Shekar, SC;Fleming, PJ
通讯作者：
Fleming, PJ
影响因子：
3
作者：
Pettersen, EF;Goddard, TD;Ferrin, TE
通讯作者：
Ferrin, TE
影响因子：
4.8
作者：
Prive, Gilbert G.
通讯作者：
Prive, Gilbert G.