ViTO: tool for refinement of protein sequence-structure alignments
ViTO: tool for refinement of protein sequence-structure alignments
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DOI：
10.1093/bioinformatics/bth429
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发表时间：
2004-12-12
期刊：
影响因子：
5.8
通讯作者：
Labesse, G
中科院分区：
文献类型：
--
作者：
Catherinot, V;Labesse, G
ViTO是一个图形应用程序，包括多序列比对的编辑器和三维（3D）结构查看器。可以操纵包含数百个序列的比对，并显示十几个结构。ViTO可以处理所谓的“多部分”比对，以允许复杂结构（多链蛋白质和/或小分子和DNA）的可视化以及相应比对的编辑。3D查看器和比对编辑器连接在一起，通过利用所产生的插入/缺失的即时可视化和其结构背景中的严格保守性，允许快速细化序列-结构比对。更一般地，它允许以动态方式将关于从比对中提取的序列保守性的信息映射到3D结构上。ViTO还连接到两个比较建模程序，SCWRL和MODELLER。这些功能使ViTO成为表征蛋白质家族和优化比较建模比对的强大工具。
ViTO is a graphical application, including an editor, of multiple sequence alignment and a three-dimensional (3D) structure viewer. It is possible to manipulate alignments containing hundreds of sequences and to display a dozen structures. ViTO can handle so-called 'multiparts' alignments to allow the visualization of complex structures (multi-chain proteins and/or small molecules and DNA) and the editing of the corresponding alignment. The 3D viewer and the alignment editor are connected together allowing rapid refinement of sequence-structure alignment by taking advantage of the immediate visualization of resulting insertions/deletions and strict conservations in their structural context. More generally, it allows the mapping of informations about the sequence conservation extracted from the alignment onto the 3D structures in a dynamic way. ViTO is also connected to two comparative modelling programs, SCWRL and MODELLER.These features make ViTO a powerful tool to characterize protein families and to optimize the alignments for comparative modelling.