Mechanisms of secondary structure breakers in soluble proteins.
Mechanisms of secondary structure breakers in soluble proteins.
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DOI：
10.2142/biophysics.1.55
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发表时间：
2005
期刊：
影响因子：
--
通讯作者：
Mitaku S
中科院分区：
文献类型：
--
作者：
Imai K;Mitaku S
二级结构的断裂信号对蛋白质的三级结构有很强的限制。除了已知的脯氨酸和甘氨酸簇外，两亲性残基簇是一种新型的二级结构破坏者。这些二级结构破坏者被发现依赖于特定的环境因素。这些条件包括平均疏水性、螺旋周期性、丝氨酸和苏氨酸残基的密度以及色氨酸和酪氨酸簇的存在。通过环境因子的主成分分析，确定了二级构造破碎区的候选破碎点。预测的破碎点位于破碎区，准确率为72%。考虑到回路核心，几乎90%的预测断路器位于回路段。当考虑断点的迁移效应时，具有预测断路器的环段占所有环段的三分之二。本文讨论了基于二级结构破碎机进行二级结构预测的可能性。当前方法的系统可在URL: http://bp.nuap.nagoya-u.ac.jp/sosui/sosuibreaker/sosuibreaker_submit.html上获得。
Breaking signals of secondary structure put strong limitations on the tertiary structures of proteins. In addition to proline and glycine clusters, which are well-known secondary structure breakers, clusters of amphiphilic residues were found to be a novel type of secondary structure breaker. These secondary structure breakers were found to depend on specific environmental factors. Such conditions included the average hydrophobicity, the helical periodicity, the density of serine and threonine residues, and the presence of tryptophan and tyrosine clusters. Principal component analysis of environmental factors was conducted in order to identify candidate breakers in the secondary structure breaking regions. Predicted breakers were located in breaking regions with an accuracy of 72%. Taking the loop core into consideration, almost 90% of the predicted breakers were located in the loop segments. When the migration effect of the breaking point was taken into account, the loop segments with the predicted breakers covered two thirds of all loop segments. Herein, the possibility of secondary structure prediction based on secondary structure breakers is discussed. The system of the present method is available at the URL: http://bp.nuap.nagoya-u.ac.jp/sosui/sosuibreaker/sosuibreaker_submit.html.