InterMap3D: predicting and visualizing co-evolving protein residues
InterMap3D: predicting and visualizing co-evolving protein residues
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DOI：
10.1093/bioinformatics/btp335
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发表时间：
2009-08-01
期刊：
影响因子：
5.8
通讯作者：
Pedersen, Anders G.
中科院分区：
文献类型：
--
作者：
Gouveia-Oliveira, Rodrigo;Roque, Francisco S.;Pedersen, Anders G.
InterMap 3D预测共同进化的蛋白质残基，并将其绘制在3D蛋白质结构上。从单个蛋白质序列开始，InterMap 3D自动找到一组同源序列，生成比对，并从蛋白质数据库（PDB）中获取最相似的3D结构。它还可以接受用户生成的对齐。基于比对，然后使用三种不同的方法预测共同进化的残基：互信息的行和列加权、互信息/熵和依赖性。最后，InterMap 3D生成高质量的蛋白质图像，突出显示预测的共同进化残基。
InterMap3D predicts co-evolving protein residues and plots them on the 3D protein structure. Starting with a single protein sequence, InterMap3D automatically finds a set of homologous sequences, generates an alignment and fetches the most similar 3D structure from the Protein Data Bank (PDB). It can also accept a user-generated alignment. Based on the alignment, co-evolving residues are then predicted using three different methods: Row and Column Weighing of Mutual Information, Mutual Information/Entropy and Dependency. Finally, InterMap3D generates high-quality images of the protein with the predicted co-evolving residues highlighted.