Protein structure prediction and analysis using the Robetta server
Protein structure prediction and analysis using the Robetta server
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DOI：
10.1093/nar/gkh468
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发表时间：
2004-07-01
影响因子：
14.9
通讯作者：
Baker, D
中科院分区：
文献类型：
--
作者：
Kim, DE;Chivian, D;Baker, D
罗贝塔服务器(http://robetta.bakerlab.org))为蛋白质结构预测和分析提供自动化工具。对于结构预测，提交给服务器的序列被解析成假定的域，并且使用比较建模或从头结构预测方法来生成结构模型。如果使用BLAST、PSI-BLAST、FFAS03或3D-JARY找到与已知结构的蛋白质的确信匹配，则将其用作比较建模的模板。如果没有发现匹配，则使用从头插入Rosetta片段的方法进行结构预测。实验核磁共振(核磁共振)约束数据也可以与用于RosettaNMR从头结构确定的查询序列一起提交。目前的其他能力包括使用计算界面丙氨酸扫描预测突变对蛋白质-蛋白质相互作用的影响。Rosetta蛋白质设计和蛋白质-蛋白质对接方法很快也将通过服务器提供。
The Robetta server (http://robetta.bakerlab.org) provides automated tools for protein structure prediction and analysis. For structure prediction, sequences submitted to the server are parsed into putative domains and structural models are generated using either comparative modeling or de novo structure prediction methods. If a confident match to a protein of known structure is found using BLAST, PSI-BLAST, FFAS03 or 3D-Jury, it is used as a template for comparative modeling. If no match is found, structure predictions are made using the de novo Rosetta fragment insertion method. Experimental nuclear magnetic resonance (NMR) constraints data can also be submitted with a query sequence for RosettaNMR de novo structure determination. Other current capabilities include the prediction of the effects of mutations on protein-protein interactions using computational interface alanine scanning. The Rosetta protein design and protein-protein docking methodologies will soon be available through the server as well.