期刊
PROTEIN SCIENCE
卷 28, 期 12, 页码 2119-2126出版社
WILEY
DOI: 10.1002/pro.3742
关键词
architecture; fold space; molecular evolution; protein structure classification; secondary structure; superfold; topology; beta-sheet
资金
- Division of Molecular and Cellular Biosciences [1350957]
- University of Virginia
- Div Of Molecular and Cellular Bioscience
- Direct For Biological Sciences [1350957] Funding Source: National Science Foundation
We suspect that there is a level of granularity of protein structure intermediate between the classical levels of architecture and topology, as reflected in such phenomena as extensive three-dimensional structural similarity above the level of (super)folds. Here, we examine this notion of architectural identity despite topological variability, starting with a concept that we call the Urfold. We believe that this model could offer a new conceptual approach for protein structural analysis and classification: indeed, the Urfold concept may help reconcile various phenomena that have been frequently recognized or debated for years, such as the precise meaning of significant structural overlap and the degree of continuity of fold space. More broadly, the role of structural similarity in sequence <-> structure <-> function evolution has been studied via many models over the years; by addressing a conceptual gap that we believe exists between the architecture and topology levels of structural classification schemes, the Urfold eventually may help synthesize these models into a generalized, consistent framework. Here, we begin by qualitatively introducing the concept.
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