Quantitative analyses for effects of neddylation on CRL2VHL substrate ubiquitination and degradation

Through catalyzing the ubiquitination of key regulatory proteins, cullin-RING ubiquitin ligases (CRLs) play essential biological roles and their activities are controlled by multiple mechanisms including neddylation, the conjugation of NEDD8 to cullins. Upon neddylation, a CRL, such as the CUL1-based CRL1, undergoes conformational changes that accelerate substrate ubiquitination. Given the structural diversity across subfamilies of CRLs and their substrates, to what extent neddylation modulates the activity of individual CRLs remains to be evaluated. Here, through reconstituting the CRL2 ubiquitination reaction in vitro, we showed that neddylation promotes CRL2(VHL)-dependent degradation of both full-length HIF1 alpha and the degron peptide of HIF1 alpha, resulting in more than 10-fold increase in the rate of substrate ubiquitination. Consistently, pevonedistat (also known as MLN4924), an inhibitor of neddylation, inhibits the degradation of HIF1 alpha in RCC4 cells stably expressing VHL in cycloheximide chase assays. However, such inhibitory effect of pevonedistat on HIF1 alpha degradation was not observed in HEK293 cells, which was further found to be due to CRL2(VHL)-independent degradation that was active in HEK293 but not RCC4 cells. After truncating HIF1 alpha to its Carboxy-terminal Oxygen-Dependent Degradation (CODD) domain, we showed that pevonedistat inhibited the degradation of CODD and increased its half-life by six-fold in HEK293 cells. Our results demonstrate that neddylation plays a significant role in activating CRL2, and the cellular activity of CRL2(VHL) is better reflected by the degradation of CODD than that of HIF1 alpha, especially under conditions where CRL2-independent degradation of HIF1 alpha is active.

Automated summary

The study demonstrates that neddylation plays a significant role in activating CRL2, especially under conditions where CRL2-independent degradation of HIF1 alpha is active. In vitro experiments showed that neddylation promotes CRL2(VHL)-dependent substrate ubiquitination.