Comparative proteome analysis of Saccharomyces cerevisiae: A global overview of in vivo targets of the yeast activator protein 1

Jun, He; Kieselbach, Thomas; Jönsson, Leif J

doi:10.1186/1471-2164-13-230

Table 1 Relative changes in protein expression on overexpression of Yap1p. ¹

From: Comparative proteome analysis of Saccharomyces cerevisiae: A global overview of in vivo targets of the yeast activator protein 1

Protein	Description	ORF	Normalized averaged spot quantity				Y/C	p-value	YBS
			Control		Yap1⁺
			Avol	SD	Avol	SD
Protein involved in carbon metabolism pathways
Glycolysis
Fba1p^#	Fructose-bisphosphate aldolase	YKL060C	3134	89	5986	1035	1.91	0.009	+
Pgi1p^#	Glucose-6-phosphate isomerase	YBR196C	540	120	950	205	1.76	0.040	-
Hxk2p	Hexokinase-2	YGL253W	167	10	374	92	2.24	0.018	-
Tdh1p	Glyceraldehyde-3-phosphate dehydrogenase 1	YJL052W	709	148	1390	256	1.96	0.018	+
Tdh2p	Glyceraldehyde-3-phosphate dehydrogenase 2	YJR009C	1769	118	2516	539	1.42	0.079	-
Tdh3p	Glyceraldehyde-3-phosphate dehydrogenase 3	YGR192C	6899	401	9620	195	1.39	<0.001	+
Pgk1p^#	Phosphoglycerate kinase	YCR012W	3970	506	5204	931	1.31	0.045	+
Gpm1p	Phosphoglycerate mutase 1	YKL152C	2960	508	4727	284	1.60	0.006	+
Eno2p^#	Enolase 2	YHR174W	11810	323	15053	2147	1.27	0.041	+
Cdc19p^#	Pyruvate kinase 1	YAL038W	1460	44	3155	568	2.16	0.007	+
Pyruvate branchpoint
Pdc1p^#	Pyruvate decarboxylase isozyme 1	YLR044C	7914	380	7443	1520	1.55	0.043	-
Adh1p	Alcohol dehydrogenase 1	YOL086C	4200	665	5158	743	1.31	0.041	+
Ald6p	Aldehyde dehydrogenase	YPL061W	161	33	329	40	2.04	0.005	+
Dld3p	D-lactate dehydrogenase 3	YEL071W	290	20	501	79	1.73	0.011	-
Pentose phosphate pathway
Tkl1p^#	Transketolase 1	YPR074C	284	10	619	165	2.18	0.025	+
Gnd1p	6-phosphogluconate dehydrogenase 1	YHR183W	633	124	876	116	1.37	0.075	-
Protein involved in pathways other than carbon metabolism
Amino-acid and nucleotide metabolism
Sah1p	Adenosylhomocysteinase	YER043C	631	143	1310	304	2.08	0.025	-
Shm2p	Serine hydroxymethyltransferase	YLR058C	486	26	944	176	1.94	0.011	-
Aro9p	Aromatic amino acid aminotransferase 2	YHR137W	116	19	164	13	1.41	0.022	-
Lys9p	Saccharopine dehydrogenase	YNR050C	147	13	364	123	2.48	0.039	+
Protein biosynthesis
Eft1p^#	Elongation factor 2	YOR133W	136	58	456	174	3.35	0.039	+
Yef3p	Elongation factor 3A	YLR249W	221	37	378	41	1.71	0.008	+
Gus1p	Glutamyl-tRNA synthetase	YGL245W	100	17	254	29	2.54	0.001	+
Tef4p	Elongation factor 1-gamma 2	YKL081W	846	20	1059	11	1.25	0.004	+
Sgt2p	Small glutamine-rich tetratricopeptide repeat-containing protein 2	YOR007C	588	67	855	101	1.45	0.019	+
Rps7ap	40 S ribosomal protein S7-A	YOR096W	1377	459	2742	136	1.99	0.008	+
Grs1p	Glycyl-tRNA synthetase 1	YBR121C	254	37	361	50	1.42	0.042	+
Kar2p	78 kDa glucose-regulated protein	YJL034W	97	17	303	100	3.13	0.024	-
Pdi1p^#	Protein disulfide-isomerase	YCL043C	85	24	354	88	4.17	0.007	-
Rpl5p	60 S ribosomal protein L5	YPL131W	364	137	1298	329	3.56	0.066	-
Rpp0p	60 S acidic ribosomal protein P0	YLR340W	752	88	1153	161	1.53	0.019	-
Rps3p	40 S ribosomal protein S3	YNL178W	342	25	801	214	2.34	0.095	+
Pab1p^#	Polyadenylate-binding protein	YER165W	301	52	484	63	1.61	0.018	+
Heat-shock and chaperone proteins
Ssa1p	Heat shock protein	YAL005C	282	83	792	247	2.81	0.027	+
Ssa2p^#	Heat shock protein	YLL024C	1279	211	2021	405	1.58	0.048	-
Ssb1p^#	Heat shock protein	YDL229W	258	64	558	141	2.16	0.028	+
Ssb2p	Heat shock protein	YNL209W	295	72	578	130	1.96	0.031	+
Hsp82p	ATP-dependent molecular chaperone	YPL240C	77	17	253	55	3.30	0.006	+
Hsc82p^#	ATP-dependent molecular chaperone	YMR186W	209	44	487	161	2.32	0.045	-
Sse1p	Heat shock protein homolog	YPL106C	73	16	194	68	2.66	0.041	+
Antioxidants
Tsa1p	Peroxiredoxin TSA1	YML028W	656	99	909	90	1.39	0.031	+
Respiration
Oye2p^#	NADPH dehydrogenase 2	YHR179W	2129	174	6677	1357	3.14	0.005	+
Atp2p	ATP synthase subunit beta	YJR121W	158	13	313	35	1.98	0.002	+
Cell cycle and growth regulation
Bfr1p	Nuclear segregation protein	YOR198C	228	79	558	227	2.53	0.066	+
Stm1p	Suppressor protein	YLR150W	2101	245	3565	444	1.70	0.007	+
Cdc48p^#	Cell division control protein 48	YDL126C	121	8	319	110	2.65	0.036	+
Vma1p	V-type proton ATPase subunit A	YDL185W	220	49	318	26	1.44	0.039	-
Vma2p	V-type proton ATPase subunit B	YBR127C	233	99	412	85	1.77	0.076	-
Sis1p	Protein SIS1	YNL007C	314	186	702	79	2.24	0.029	+
Rnr4p	Ribonucleoside-diphosphate reductase small chain 2	YGR180C	623	19	1293	317	2.08	0.022	-
Bgl2p	Endo-beta-1,3-glucanase	YGR282C	580	45	3453	328	5.95	0.007	+
Bmh1p	Protein BMH1	YER177W	1119	141	1564	30	1.40	0.049	+
Srp1p	Importin subunit alpha	YNL189W	185	24	354	88	1.91	0.006	+
Others
Ola1p	Uncharacterized GTP-binding protein	YBR025C	281	20	449	79	1.59	0.024	+
Ynn4p	Uncharacterized protein YNL134C	YNL134C	438	176	1171	354	2.67	0.033	+

¹The normalized volume of spots from three replicate 2-D gels was averaged and the standard deviation was calculated for each yeast transformant. A Student’s t-test was performed to determine if the relative change was statistically significant. If proteins were identified and quantified in more than one spot on the 2-D gels, the total spot volume was calculated (indicated with “^#”). YBS, nucleotide sequence with (+) or without (−) predicted Yap1p-binding site; Avol, averaged value from three spot volumes; Y/C, the relative change (Yap1p-overexpression versus control).

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ISSN: 1471-2164

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