Table I. Ubiquitin-proteasome substrates identified using a proteasome trapping proteomics work-flow. Proteins are ranked by lowest p-value. The selection was based on Student's t-test p value < 0.05 and fold change >1.5 comparing PRE8:GFP Δpdr5 to PRE8:GFP samples. Proteins with only one identified peptide are excluded.

Gene	Protein Name	Fold Change	# of Peptides Identified	p value	UniProt Accession
ECM29	Proteasome component ECM29	3.8	72	3.19E-09	P38737
	Uncharacterized RING finger protein YBR062C	9.0	6	1.83E-08	P38239
ERG25	Methylsterol monooxygenase	5.1	6	2.30E-08	P53045
BLM10	Proteasome activator BLM10	2.4	116	8.35E-08	P43583
HSP26	Heat shock protein 26	6.2	6	4.57E-07	P15992
PBA1	Proteasome chaperone 1	1.9	16	2.37E-05	Q05778
CDC48	Cell division control protein 48	1.8	23	2.62E-05	P25694
ADD66	Proteasome assembly chaperone 2	1.8	11	5.65E-05	P36040
RAD23	UV excision repair protein RAD23	1.7	12	1.27E-04	P32628
ZRT1	Zinc-regulated transporter 1	2.3	7	1.61E-04	P32804
STE6	Alpha-factor-transporting ATPase	2.3	18	1.85E-04	P12866
UBP6	Ubiquitin carboxyl-terminal hydrolase 6	1.6	37	8.28E-04	P43593
VPH1	V-type proton ATPase subunit a, vacuolar isoform	2.2	10	9.27E-04	P32563
ZPS1	Protein ZPS1	2.0	6	2.03E-03	Q12512
SSH1	Sec61 protein homolog	1.6	4	3.22E-03	P38353
SCS2	Vesicle-associated membrane protein-associated protein SCS2	1.6	9	3.35E-03	P40075
HSP82	ATP-dependent molecular chaperone HSP82	2.0	4	4.47E-03	P02829
DSK2	Ubiquitin domain-containing protein DSK2	1.9	3	6.44E-03	P48510
RPL23B RPL23A	60S ribosomal protein L23-B; 60S ribosomal protein L23-A	1.7	3	1.01E-02	P0CX42 P0CX41
RPL22A	60S ribosomal protein L22-A	1.5	2	1.35E-02	P05749
SSA2	Heat shock protein SSA2	1.6	31	1.89E-02	P10592 P09435
LYS20 LYS21	Homocitrate synthase, cytosolic isozyme; Homocitrate synthase, mitochondrial	2.0	4	2.02E-02	P48570 Q12122
PHO88	Inorganic phosphate transport protein PHO88	2.5	3	2.04E-02	P38264
SSA1	Heat shock protein SSA1	1.9	7	2.48E-02	P10591
SSE1	Heat shock protein homolog SSE1	1.6	10	3.68E-02	P32589 P32590
CHO2	Phosphatidylethanolamine N-methyltransferase	5.1	3	3.80E-02	P05374
URA3	Orotidine 5-phosphate decarboxylase	1.7	11	4.73E-02	P03962