Site-specific ubiquitination affects protein energetics and proteasomal degradation

• Published in: Nature chemical biology Vol. 16; no. 8; pp. 866 - 875
• Main Authors: Carroll, Emma C, Greene, Eric R, Martin, Andreas, Marqusee, Susan
• Format: Journal Article
• Language: English
• Published: United States Nature Publishing Group 01.08.2020
• Subjects: Animals; Bacterial Proteins - metabolism; Energy; Environmental degradation; Humans; Mice; Polyubiquitin - metabolism; Proteasome 26S; Proteasome Endopeptidase Complex - chemistry; Proteasome Endopeptidase Complex - genetics; Proteasome Endopeptidase Complex - metabolism; Proteasomes; Protein Binding - physiology; Proteins; Proteolysis; Regulatory mechanisms (biology); Ribonucleases - metabolism; Substrates; Ubiquitin; Ubiquitin - chemistry; Ubiquitin - metabolism; Ubiquitination; Ubiquitination - genetics; Ubiquitination - physiology
• ISSN: 1552-4450; 1552-4469
• DOI: 10.1038/s41589-020-0556-3

Changes in the cellular environment modulate protein energy landscapes to drive important biology, with consequences for signaling, allostery and other vital processes. The effects of ubiquitination are particularly important because of their potential influence on degradation by the 26S proteasome. Moreover, proteasomal engagement requires unstructured initiation regions that many known proteasome substrates lack. To assess the energetic effects of ubiquitination and how these manifest at the proteasome, we developed a generalizable strategy to produce isopeptide-linked ubiquitin within structured regions of a protein. The effects on the energy landscape vary from negligible to dramatic, depending on the protein and site of ubiquitination. Ubiquitination at sensitive sites destabilizes the native structure and increases the rate of proteasomal degradation. In well-folded proteins, ubiquitination can even induce the requisite unstructured regions needed for proteasomal engagement. Our results indicate a biophysical role of site-specific ubiquitination as a potential regulatory mechanism for energy-dependent substrate degradation.