Protocol for pull-down capture of ubiquitinated and NEDDylated liver proteins from transgenic biotinylated ubiquitin and NEDD8 mice

SUMMARY
Ubiquitination and NEDDylation post-translational modifications (PTMs) are
important regulatory mechanisms in liver disease. Here, we describe a protocol
for capturing ubiquitinated and NEDDylated proteins by pull-down assay in liver
samples from transgenic mouse models of whole-body biotinylated ubiquitin/
NEDD8. We describe steps for sample preparation samples, protein immobilization,
pull-down assay, and sample final elution. The identification of the hepatic
ubiquitome and NEDDylome allows a better understanding of the pathophysiological
mechanisms underlying liver disease