A fresh look at the Ramachandran plot and the occurrence of standard structures in proteins.
A fresh look at the Ramachandran plot and the occurrence of standard structures in proteins.
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DOI：
10.1515/bmc.2010.022
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发表时间：
2010-10
影响因子：
--
通讯作者：
Karplus PA
中科院分区：
文献类型：
--
作者：
Hollingsworth SA;Karplus PA
拉马钱德兰图是结构生物学中最核心的概念之一，在出版物和教科书中都可以看到。然而，随着已知蛋白质结构数量的增加和超高分辨率蛋白质结构的更高精度，我们仍然在了解更多关于蛋白质结构的基本原理。在这里，我们使用高保真的构象信息，探索新的方式，如地理风格和包装Ramachandran图，传达一些基本方面的Ramachandran图和蛋白质构象。我们指出迫切需要一个标准的命名肽构象，并提出这样的命名。最后，我们总结了一些最近的概念进展有关的蛋白质结构的积木。线性组的结果意味着需要对如何处理蛋白质结构的基础进行实质性的修改。
The Ramachandran plot is among the most central concepts in structural biology, seen in publications and textbooks alike. However, with the increasing numbers of known protein-structures and greater accuracy of ultra-high resolution protein structures, we are still learning more about the basic principles of protein structure. Here we use high fidelity conformational information to explore novel ways, such a geo-style and wrapped Ramachandran plots, to convey some of the basic aspects of the Ramachandran plot and of protein conformation. We point out the pressing need for a standard nomenclature for peptide conformation and propose such a nomenclature. Finally, we summarize some recent conceptual advances related to the building blocks of protein structure. The results for linear groups imply the need for substantive revisions in how the basics of protein structure are handled.