Microbial genomes have over 72% structure assignment by the threading algorithm PROSOPECTOR-Q
Microbial genomes have over 72% structure assignment by the threading algorithm PROSOPECTOR-Q
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DOI：
10.1002/prot.20044
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发表时间：
2004-05-01
影响因子：
2.9
通讯作者：
Jeffrey, S
中科院分区：
文献类型：
--
作者：
Kihara, D;Jeffrey, S
使用我们最先进的线程算法PROSPEC-TOR_Q重新审视了五个完整微生物基因组的基因组规模线程。考虑到ORF的结构分配对于预测生化功能以及分析途径是有用的，评估基因组规模线程的现状是很重要的。我们可以以相当好的置信度为每个基因组序列分配蛋白质结构的ORF的比例超过72%，这比以前的研究要高得多。利用指定的结构，我们通过分析蛋白质折叠和功能之间的关系得到的“单功能”模板结构，预测了几个ORF的功能。文中还讨论了基因组的折叠分布和同源序列数目对结构归属的影响。(C)2004WRey-Liss，Inc.
The genome scale threading of five complete microbial genomes is revisited using our state-of-the-art threading algorithm, PROSPEC-TOR_Q. Considering that structure assignment to an ORF could be useful for predicting biochemical function as well as for analyzing pathways, it is important to assess the current status of genome scale threading. The fraction of ORFs to which we could assign protein structures with a reasonably good confidence level to each genome sequences is over 72%, which is significantly higher than earlier studies. Using the assigned structures, we have predicted the function of several ORFs through "single-function" template structures, obtained from an analysis of the relationship between protein fold and function. The fold distribution of the genomes and the effect of the number of homologous sequences on structure assignment are also discussed. (C)2004WRey-Liss, Inc.