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基于氨基酸特性的蛋白质序列系统发育重建。

Phylogeny reconstruction for protein sequences based on amino acid properties.

作者信息

Schmidt W

机构信息

Max-Delbrück-Center for Molecular Medicine, Department of Bioinformatics, Berlin-Buch, Germany.

出版信息

J Mol Evol. 1995 Oct;41(4):522-30. doi: 10.1007/BF00160324.

DOI:10.1007/BF00160324
PMID:7563140
Abstract

This paper presents an essentially new method used to construct phylogenetic trees from related amino acid sequences. The method is based on a new distance measure which describes sequence relationships by means of typical steric and physicochemical properties of the amino acids and is advantageous in some essential points. The method was applied to different sets of protein sequences and the results were compared with other well-established methods.

摘要

本文提出了一种从相关氨基酸序列构建系统发育树的全新方法。该方法基于一种新的距离度量,该距离度量通过氨基酸的典型空间和物理化学性质来描述序列关系,并且在一些关键方面具有优势。该方法被应用于不同的蛋白质序列集,并将结果与其他成熟的方法进行了比较。

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Phylogeny reconstruction for protein sequences based on amino acid properties.基于氨基酸特性的蛋白质序列系统发育重建。
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2
Progressive sequence alignment as a prerequisite to correct phylogenetic trees.渐进序列比对是构建正确系统发育树的前提条件。
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本文引用的文献

1
Recovering evolutionary trees under a more realistic model of sequence evolution.在更现实的序列进化模型下恢复进化树。
Mol Biol Evol. 1994 Jul;11(4):605-12. doi: 10.1093/oxfordjournals.molbev.a040136.
2
A practical method for calculating evolutionary trees from sequence data.一种从序列数据计算进化树的实用方法。
J Theor Biol. 1981 Jul 21;91(2):261-72. doi: 10.1016/0022-5193(81)90233-2.
3
A strategy for sequence phylogeny research.一种序列系统发育研究策略。
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Nucleic Acids Res. 1982 Jan 11;10(1):421-31. doi: 10.1093/nar/10.1.421.
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Construction of phylogenetic trees.系统发育树的构建。
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5
An iterative approach from the standpoint of the additive hypothesis to the dendrogram problem posed by molecular data sets.从加性假设的角度对分子数据集提出的树状图问题采用迭代方法。
J Theor Biol. 1973 Mar;38(3):423-57. doi: 10.1016/0022-5193(73)90251-8.
6
Prediction of protein secondary structure and active sites using the alignment of homologous sequences.利用同源序列比对预测蛋白质二级结构和活性位点。
J Mol Biol. 1987 Jun 20;195(4):957-61. doi: 10.1016/0022-2836(87)90501-8.
7
Progressive sequence alignment as a prerequisite to correct phylogenetic trees.渐进序列比对是构建正确系统发育树的前提条件。
J Mol Evol. 1987;25(4):351-60. doi: 10.1007/BF02603120.
8
Identification of protein sequence homology by consensus template alignment.通过共有模板比对鉴定蛋白质序列同源性。
J Mol Biol. 1986 Mar 20;188(2):233-58. doi: 10.1016/0022-2836(86)90308-6.
9
Estimating the reliability of evolutionary trees.估计进化树的可靠性。
Mol Biol Evol. 1986 Sep;3(5):403-17. doi: 10.1093/oxfordjournals.molbev.a040407.
10
Recognition of different nucleotide-binding sites in primary structures using a property-pattern approach.
Eur J Biochem. 1990 Jul 31;191(2):347-58. doi: 10.1111/j.1432-1033.1990.tb19129.x.