Maps of protein structure space reveal a fundamental relationship between protein structure and function.

ABSTRACT: To study the protein structure-function relationship, we propose a method to efficiently create three-dimensional maps of structure space using a very large dataset of > 30,000 Structural Classification of Proteins (SCOP) domains. In our maps, each domain is represented by a point, and the distance between any two points approximates the structural distance between their corresponding domains. We use these maps to study the spatial distributions of properties of proteins, and in particular those of local vicinities in structure space such as structural density and functional diversity. These maps provide a unique broad view of protein space and thus reveal previously undescribed fundamental properties thereof. At the same time, the maps are consistent with previous knowledge (e.g., domains

SUBMITTER: Osadchy M 

PROVIDER: S-EPMC3145735 | biostudies-literature | 2011 Jul

REPOSITORIES: biostudies-literature