The Ramachandran Number [electronic resource] : An Order Parameter for Protein Geometry

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Tác giả:

Ngôn ngữ: eng

Ký hiệu phân loại: 574.5 [Unassigned]

Thông tin xuất bản: Washington, D.C. : Oak Ridge, Tenn. : United States. Dept. of Energy. Office of Science ; Distributed by the Office of Scientific and Technical Information, U.S. Dept. of Energy, 2016

Mô tả vật lý: Size: Article No. e0160023 : , digital, PDF file.

Bộ sưu tập: Metadata

ID: 260778

Three-dimensional protein structures usually contain regions of local order, called secondary structure, such as ?-helices and ?-sheets. Secondary structure is characterized by the local rotational state of the protein backbone, quantified by two dihedral angles called �and ?. Particular types of secondary structure can generally be described by a single (diffuse) location on a two-dimensional plot drawn in the space of the angles � and?, called a Ramachandran plot. By contrast, a recently-discovered nanomaterial made from peptoids, structural isomers of peptides, displays a secondary-structure motif corresponding to two regions on the Ramachandran plot [Mannige et al., Nature 526, 415 (2015)]. In order to describe such 'higher-order' secondary structure in a compact way we introduce here a means of describing regions on the Ramachandran plot in terms of a single Ramachandran number, R, which is a structurally meaningful combination of � and?. We show that the potential applications of R are numerous: it can be used to describe the geometric content of protein structures, and can be used to draw diagrams that reveal, at a glance, the frequency of occurrence of regular secondary structures and disordered regions in large protein datasets. We propose that R might be used as an order parameter for protein geometry for a wide range of applications.
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