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The TIM Barrel Architecture Facilitated the Early Evolution of Protein-Mediated Metabolism

Author(s): Goldman, Aaron David; Beatty, Joshua T; Landweber, Laura F

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Abstract: The triosephosphate isomerase (TIM) barrel protein fold is a structurally repetitive architecture that is present in approximately 10 % of all enzymes. It is generally assumed that this ubiquity in modern proteomes reflects an essential historical role in early protein-mediated metabolism. Here, we provide quantitative and comparative analyses to support several hypotheses about the early importance of the TIM barrel architecture. An information theoretical analysis of protein structures supports the hypothesis that the TIM barrel architecture could arise more easily by duplication and recombination compared to other mixed a/b structures. We show that TIM barrel enzymes corresponding to the most taxonomically broad superfamilies also have the broadest range of functions, often aided by metal and nucleotide-derived cofactors that are thought to reflect an earlier stage of metabolic evolution. By comparison to other putatively ancient protein architectures, we find that the functional diversity of TIM barrel proteins cannot be explained simply by their antiquity. Instead, the breadth of TIM barrel functions can be explained, in part, by the incorporation of a broad range of cofactors, a trend that does not appear to be shared by proteins in general. These results support the hypothesis that the simple and functionally general TIM barrel architecture may have arisen early in the evolution of protein biosynthesis and provided an ideal scaffold to facilitate the metabolic transition from ribozymes, peptides, and geochemical catalysts to modern protein enzymes.
Publication Date: 2016
Electronic Publication Date: 5-Jan-2016
Citation: Goldman, Aaron David, Beatty, Joshua T, Landweber, Laura F. (2016). The TIM Barrel Architecture Facilitated the Early Evolution of Protein-Mediated Metabolism. Journal of Molecular Evolution, 82 (1), 17 - 26. doi:10.1007/s00239-015-9722-8
DOI: doi:10.1007/s00239-015-9722-8
ISSN: 0022-2844
EISSN: 1432-1432
Pages: 17 - 26
Type of Material: Journal Article
Journal/Proceeding Title: Journal of Molecular Evolution
Version: Final published version. This is an open access article.

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