Whole genome protein domain analysis using a new method for domain clustering
Whole genome protein domain analysis using a new method for domain clustering
复制标题
DOI：
10.1016/s0097-8485(99)00011-x
复制
发表时间：
1999-01-01
期刊：
影响因子：
--
通讯作者：
Kahn, D
中科院分区：
文献类型：
--
作者：
Gouzy, J;Corpet, F;Kahn, D
我们提出了一个系统的分析结果的蛋白质结构域改组在17个完整的微生物基因组。该分析已使用MKDOM第2版进行，这是基于PSI-BLAST递归同源搜索的域聚类程序MKDOM的全新版本。它允许描绘最常见的蛋白质结构域构建块，哪些结构域在细菌，酵母或酵母中特别发现，哪些结构域在两个或所有三个生命结构域之间共享。后者是作为所有形式细胞生命基础的基本蛋白质构建块的良好候选者。多结构域蛋白的统计表明，一些生物体如枯草芽孢杆菌或结核分枝杆菌含有异常高数量的大的多结构域蛋白。我们还提供了高度改组或循环排列的结构域的例子。http://www.toulouse.inra.fr/prodomCG.html提供了一个万维网图形界面，可以交互式浏览所有17个基因组中蛋白质的结构域排列。(C)1999 Elsevier Science Ltd.保留所有权利。
We present the outcome of a systematic analysis of protein domain shuffling in 17 completed microbial genomes. This analysis has been performed using MKDOM Version 2, a completely new version of the domain clustering program MKDOM based on PSI-BLAST recursive homology searches. It allows to delineate the most frequent protein domain building blocks, which domains are found specifically in Bacteria, Archaea or yeast, and which domains are shared between two or all three domains of life. The latter are good candidates as the basic protein building blocks underlying all forms of cellular life. Statistics of multi-domain proteins indicate that some organisms such as Bacillus subtilis or Mycobacterium tuberculosis contain an abnormally high number of large multi-domain proteins. We also provide examples of highly shuffled or circularly permutated domains. A WWW graphical interface has been made available to interactively browse domain arrangements of proteins in all 17 genomes, at http://www.toulouse.inra.fr/prodomCG.html. (C) 1999 Elsevier Science Ltd. All rights reserved.