Table 3. Subunits composition of Proteasome complexes from WT vs lid mutants. Proteasome complexes from WT or various mutants were traced in gels by peptidase activity and subunit composition determined by trypsinization and MS/MS analysis. The number of unique peptides of each identified proteasome subunit is listed. Complexes are marked in Figures 2 and 3.

Strain:	WT	tetO2–RPN8	tetO2–RPN11	rpn11–m1	rpn8–1				rpn8–1
Complex:	Proteasome	Base-CP	Base-CP	Proteasome (α)	a	b	c	d	Proteasome in vivo	Proteasome ex vivo
Rpt1	9	13	9	17	8	12	21	7	20	22
Rpt2	4	6	4	12	3	6	9	5	10	17
Rpt3	4	3	2	10	8	14	12	6	13	17
Rpt4	3	7	3	10	8	11	16	4	17	18
Rpt5	5	8	2	20	6	11	17	3	18	23
Rpt6	4	6	3	15	4	9	13	7	17	24
Rpn1	11	11	7	19	14	22	28	4	31	27
Rpn2	25	15	9	18	16	25	29	9	36	49
Rpn13	2	2	1	–	1	3	5	–	2	3
Ubp6	2	3	1	–	6	9	4	1	11	19
Rpn10	2	–	–	–	2	–	17	–	–	1
Rpn3	12	–	–	–	5	7	13	–	8	8
Rpn5	4	–	–	2	4	6	11	–	8	8
Rpn6	6	–	–	9	6	4	10	–	8	5
Rpn7	3	–	–	–	4	4	9	–	4	4
Rpn8	6	–	–	2	2	3	6	–	4	3
Rpn9	12	–	–	7	9	6	11	–	13	4
Rpn11	5	–	–	2	6	5	11	–	5	10
Rpn12	2	–	–	–	4	2	9	–	1	1