Viscosity-dependent control of protein synthesis and degradation

Yuping Chen (), Jo-Hsi Huang, Connie Phong and James E. Ferrell ()
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Yuping Chen: Stanford University School of Medicine
Jo-Hsi Huang: Stanford University School of Medicine
Connie Phong: Stanford University School of Medicine
James E. Ferrell: Stanford University School of Medicine

Nature Communications, 2024, vol. 15, issue 1, 1-11

Abstract: Abstract It has been proposed that the concentration of proteins in the cytoplasm maximizes the speed of important biochemical reactions. Here we have used Xenopus egg extracts, which can be diluted or concentrated to yield a range of cytoplasmic protein concentrations, to test the effect of cytoplasmic concentration on mRNA translation and protein degradation. We find that protein synthesis rates are maximal in ~1x cytoplasm, whereas protein degradation continues to rise to a higher optimal concentration of ~1.8x. We show that this difference in optima can be attributed to a greater sensitivity of translation to cytoplasmic viscosity. The different concentration optima could produce a negative feedback homeostatic system, where increasing the cytoplasmic protein concentration above the 1x physiological level increases the viscosity of the cytoplasm, which selectively inhibits translation and drives the system back toward the 1x set point.

Date: 2024
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DOI: 10.1038/s41467-024-46447-w

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