Using evolutionary trees in protein secondary structure prediction and other comparative sequence analyses
Using evolutionary trees in protein secondary structure prediction and other comparative sequence analyses
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DOI：
10.1006/jmbi.1996.0569
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发表时间：
1996-10-25
影响因子：
5.6
通讯作者：
Jones, DT
中科院分区：
文献类型：
--
作者：
Goldman, N;Thorne, JL;Jones, DT
以前提出的从多个序列比对预测蛋白质二级结构的方法不能有效地提取这些比对所包含的进化信息。这些方法的预测不够准确，因为它们未能明确考虑与比对的蛋白质序列相关的系统发育树。作为另一种选择，我们提出了一种隐马尔可夫模型方法来预测二级结构，该方法更充分地利用了蛋白质序列比对中包含的进化信息，给出了一个具有代表性的例子，并进行了三个实验来说明适当的进化相关性表示如何改善推理。我们解释了为什么在其他二级结构预测方法以及任何比较序列分析方法中可以预期类似的改进，(C)1996学术出版社有限公司
Previously proposed methods for protein secondary structure prediction from multiple sequence alignments do not efficiently extract the evolutionary information that these alignments contain. The predictions of these methods are less accurate than they could be, because of their failure to consider explicitly the phylogenetic tree that relates aligned protein sequences. As an alternative, we present a hidden Markov model approach to secondary structure prediction that more fully uses the evolutionary information contained in protein sequence alignments, A representative example is presented, and three experiments are performed that illustrate how the appropriate representation of evolutionary relatedness can improve inferences. We explain why similar improvement can be expected in other secondary structure prediction methods and indeed any comparative sequence analysis method, (C) 1996 Academic Press Limited