Impact of the antiproliferative agent ciclopirox olamine treatment on stem cells proteome

Table 1 Non-redundant proteins

Protein name	Gene name	Swiss-prot	Nominal mass	CPI	PMF-score	PMF sequence coverage	MS/MS-score	MS/MS-sequence coverage
Low molecular weight phosphotyrosine protein phosphatase	Acp1	PPAC_MOUSE	18 636	6.4	96	65	80	24
Actin, cytoplasmic 1	Actb	ACTB_MOUSE	42 052	5.2	170	70	312	15
Aminoacylase-1	Acy1	ACY1_MOUSE	45 980	5.9	167	56	44	5
Aldose reductase	Akr1b1	ALDR_MOUSE	36 052	6.9	128	43	136	10
Aldehyde dehydrogenase, mitochondrial	Aldh2	ALDH2_MOUSE	57 015	8.6	221	54	131	7
Annexin A3	Anxa3	ANXA3_MOUSE	36 520	5.2	84	47	111	14
Adenine phosphoribosyltransferase	Aprt	APT_MOUSE	19 883	6.4	88	67	216	27
Rho GDP-dissociation inhibitor 1	Arhgdia	GDIR1_MOUSE	23 450	5	123	54	66	11
ATP synthase subunit α, mitochondrial	Atp5a1	ATPA_MOUSE	59 830	9.7	100	28	53	4
ATP synthase subunit β, mitochondrial	Atp5b	ATPB_MOUSE	56 265	5.1	90	30	167	10
ATP synthase subunit d, mitochondrial	Atp5h	ATP5H_MOUSE	18 795	5.4	122	70	169	36
F-actin-capping protein subunit α-2	Capza2	CAZA2_MOUSE	33 118	5.5	148	69	19	9
F-actin-capping protein subunit β	Capzb	CAPZB_MOUSE	31 611	5.4	117	61	129	8
Chromobox protein homolog 3	Cbx3	CBX3_MOUSE	21 013	5	38	36	67	6
T-complex protein 1 subunit β	Cct2	TCPB_MOUSE	57 783	6	248	61	75	9
T-complex protein 1 subunit epsilon	Cct5	TCPE_MOUSE	60 042	5.7	186	60	138	6
Cofilin-1	Cfl1	COF1_MOUSE	18 776	9.1	95	45	87	13
UMP-CMP kinase	Cmpk1	KCY_MOUSE	22 379	5.6	74	52	29	10
Coactosin-like protein	Cotl1	COTL1_MOUSE	16 048	5.1	86	60	116	14
Cathepsin D	Ctsd	CATD_MOUSE	45 381	6.9	160	41	95	4
Dihydrolipoyl dehydrogenase, mitochondrial	Dld	DLDH_MOUSE	54 751	9	112	48	81	2
Elongation factor 1-α1	Eef1a1	EF1A1_MOUSE	50 424	9.7	68	34	115	8
Elongation factor 1-δ	Eef1d	EF1D_MOUSE	31 388	4.8	86	54	79	9
Elongation factor 2	Eef2	EF2_MOUSE	96 222	6.4	52	26	29	1
Eukaryotic translation initiation factor 3 subunit F	Eif3f	EIF3F_MOUSE	38 090	5.2	109	45	106	14
Eukaryotic translation initiation factor 3 subunit G	Eif3g	EIF3G_MOUSE	35 901	5.6	54	35	23	7
Eukaryotic translation initiation factor 3 subunit I	Eif3i	EIF3I_MOUSE	36 837	5.3	228	78	89	16
Eukaryotic translation initiation factor 4H	Eif4h	IF4H_MOUSE	27 381	7.5	83	51	65	8
Eukaryotic translation initiation factor 5A-1	Eif5a	IF5A1_MOUSE	17 049	4.9	115	58	170	22
α-enolase	Eno1	ENOA_MOUSE	47 453	6.4	183	64	170	13
Electron transfer flavoprotein subunit α, mitochondrial	Etfa	ETFA_MOUSE	35 330	9.5	138	59	100	9
Fatty acid-binding protein, heart	Fabp3	FABPH_MOUSE	14 810	6.1	86	77	212	39
Peptidyl-prolyl cis-trans isomerase FKBP4	Fkbp4	FKBP4_MOUSE	51 939	5.4	122	38	168	9
Fascin	Fscn1	FSCN1_MOUSE	55 215	6.5	129	45	26	6
Glyceraldehyde-3-phosphate dehydrogenase	Gapdh	G3P_MOUSE	36 072	9.2	62	38	40	8
Lactoylglutathione lyase	Glo1	LGUL_MOUSE	20 967	5.1	134	66	114	20
Glyoxalase domain-containing protein 4	Glod4	GLOD4_MOUSE	33 581	5.2	167	69	115	13
Glutamate dehydrogenase 1, mitochondrial	Glud1	DHE3_MOUSE	61 640	8.8	70	37	60	5
Guanine nucleotide-binding protein subunit β-2-like 1	Gnb2l1	GBLP_MOUSE	35 511	8.9	116	55	20	5
Growth factor receptor-bound protein 2	Grb2	GRB2_MOUSE	25 336	5.9	73	54	36	17
Histone H2B type 1-B	Hist1h2bb	H2B1B_MOUSE	13 944	10.8	52	41	93	19
Histone H2A type 2-C	Hist2h2ac	H2A2C_MOUSE	13 980	11.4	50	55	67	12
Heterogeneous nuclear ribonucleoprotein A/B	Hnrnpab	ROAA_MOUSE	30 926	8.7	83	30	107	5
Heterogeneous nuclear ribonucleoproteins C1/C2	Hnrnpc	HNRPC_MOUSE	34 421	4.8	57	32	57	6
Heterogeneous nuclear ribonucleoprotein F	Hnrnpf	HNRPF_MOUSE	46 043	5.2	163	56	207	12
Heterogeneous nuclear ribonucleoprotein H	Hnrnph1	HNRH1_MOUSE	49 454	5.9	166	61	134	15
Heterogeneous nuclear ribonucleoprotein K	Hnrnpk	HNRPK_MOUSE	51 230	5.3	144	46	251	11
Heat shock protein HSP 90-α	Hsp90aa1	HS90A_MOUSE	85 134	4.8	131	31	130	5
Heat shock protein HSP 90-β	Hsp90ab1	HS90B_MOUSE	83 615	4.8	62	25	78	6
Heat shock 70 kDa protein 4	Hspa4	HSP74_MOUSE	94 872	5	242	54	102	3
78 kDa glucose-regulated protein	Hspa5	GRP78_MOUSE	72 492	4.9	78	25	122	5
Heat shock cognate 71 kDa protein	Hspa8	HSP7C_MOUSE	71 055	5.2	234	58	154	4
Stress-70 protein, mitochondrial	Hspa9	GRP75_MOUSE	73 768	5.8	219	50	272	7
Heat shock protein β-1	Hspb1	HSPB1_MOUSE	23 057	6.1	144	55	344	24
60 kDa heat shock protein, mitochondrial	Hspd1	CH60_MOUSE	61 088	5.8	334	69	232	10
Isocitrate dehydrogenase (NAD) subunit α, mitochondrial	Idh3a	IDH3A_MOUSE	40 069	6.3	70	31	158	12
Inosine-5'-monophosphate dehydrogenase 2	Impdh2	IMDH2_MOUSE	56 179	7	173	50	107	7
Inosine triphosphate pyrophosphatase	Itpa	ITPA_MOUSE	22 225	5.5	84	72	128	15
Keratin, type I cytoskeletal 18	Krt18	K1C18_MOUSE	47 509	5.1	199	65	58	9
Keratin, type II cytoskeletal 7	Krt7	K2C7_MOUSE	50 678	5.6	137	52	55	4
Keratin, type II cytoskeletal 8	Krt8	K2C8_MOUSE	54 531	5.6	245	55	237	9
Cytosol aminopeptidase	Lap3	AMPL_MOUSE	56 505	8.7	126	47	58	5
L-lactate dehydrogenase B chain	Ldhb	LDHB_MOUSE	36 834	5.6	84	46	30	6
Galectin-1	Lgals1	LEG1_MOUSE	15 198	5.2	109	70	172	25
Galectin-2	Lgals2	LEG2_MOUSE	14 984	7.9	120	88	60	14
Lamin-B1	Lmnb1	LMNB1_MOUSE	66 973	5	265	60	134	5
α-2-macroglobulin receptor-associated protein	Lrpap1	AMRP_MOUSE	42 189	7.9	139	49	177	14
S-adenosylmethionine synthase isoform type-2	Mat2a	METK2_MOUSE	44 003	6	73	41	59	3
28S ribosomal protein S22, mitochondrial	Mrps22	RT22_MOUSE	41 281	9.2	112	45	97	9
Myosin-9	Myh9	MYH9_MOUSE	227 429	5.4	73	15	103	2
Nucleolin	Ncl	NUCL_MOUSE	76 734	4.5	113	26	179	7
Omega-amidase NIT2	Nit2	NIT2_MOUSE	30 825	6.5	112	59	75	9
Nucleoside diphosphate kinase A	Nme1	NDKA_MOUSE	17 311	7.7	125	72	223	30
Nucleoside diphosphate kinase B	Nme2	NDKB_MOUSE	17 466	7.8	160	84	287	30
Nucleophosmin	Npm1	NPM_MOUSE	32 711	4.5	53	33	136	10
Nuclear pore complex protein Nup54	Nup54	NUP54_MOUSE	55 812	6.6	55	21	23	3
Nuclear pore glycoprotein p62	Nup62	NUP62_MOUSE	53 336	5.1		13	43	5
Ornithine aminotransferase, mitochondrial	Oat	OAT_MOUSE	48 723	6.2	174	64	125	9
Poly(rC)-binding protein 1	Pcbp1	PCBP1_MOUSE	37 987	6.8	175	69	115	12
Protein disulfide-isomerase A3	Pdia3	PDIA3_MOUSE	57 099	5.8	254	55	90	5
Protein disulfide-isomerase A6	Pdia6	PDIA6_MOUSE	48 469	4.9	75	40	47	2
PDZ and LIM domain protein 1	Pdlim1	PDLI1_MOUSE	36 208	6.4	200	73	56	7
Phosphatidylethanolamine-binding protein 1	Pebp1	PEBP1_MOUSE	20 988	5.1	130	79	107	11
Phosphoglycerate mutase 1	Pgam1	PGAM1_MOUSE	28 928	6.8	157	66	192	21
Phosphoglycerate kinase 1	Pgk1	PGK1_MOUSE	44 921	9	136	52	128	7
6-phosphogluconolactonase	Pgls	6PGL_MOUSE	27 465	5.5	102	49	148	17
Pyruvate kinase isozymes M1/M2	Pkm2	KPYM_MOUSE	58 378	7.9	178	49	106	9
Purine nucleoside phosphorylase	Pnp	PNPH_MOUSE	32 541	5.8	119	67	138	13
Inorganic pyrophosphatase	Ppa1	IPYR_MOUSE	33 102	5.3	126	66	26	7
Peroxiredoxin-2	Prdx2	PRDX2_MOUSE	21 936	5.1	103	62	285	22
Peroxiredoxin-6	Prdx6	PRDX6_MOUSE	24 969	5.6	156	67	101	17
Proteasome subunit α type-1	Psma1	PSA1_MOUSE	29 813	6	71	52	140	17
Proteasome subunit α type-6	Psma6	PSA6_MOUSE	27 811	6.4	72	38	108	10
Proteasome subunit β type-3	Psmb3	PSB3_MOUSE	23 235	6.2	110	51	187	30
Proteasome subunit β type-4	Psmb4	PSB4_MOUSE	29 211	5.3	60	42	109	10
26S protease regulatory subunit 7	Psmc2	PRS7_MOUSE	49 016	5.6	166	60	72	8
26S protease regulatory subunit 6B	Psmc4	PRS6B_MOUSE	47 366	5	144	55	109	9
GTP-binding nuclear protein Ran	Ran	RAN_MOUSE	24 579	7.8	124	51	139	11
40S ribosomal protein S12	Rps12	RS12_MOUSE	14 858	7.7	77	62	95	11
RuvB-like 1	Ruvbl1	RUVB1_MOUSE	50 524	6	61	35	106	10
Protein S100-A11	S100a11	S10AB_MOUSE	11 247	5.1		36	147	27
Splicing factor, arginine/serine-rich 1	Sfrs1	SFRS1_MOUSE	27 842	10.8	80	43	156	18
Splicing factor, arginine/serine-rich 3	Sfrs3	SFRS3_MOUSE	19 546	12.3			87	14
Serine hydroxymethyltransferase, cytosolic	Shmt1	GLYC_MOUSE	53 065	6.5	98	43	19	2
Superoxide dismutase [Cu-Zn]	Sod1	SODC_MOUSE	16 104	6	83	45	126	31
Spermidine synthase	Srm	SPEE_MOUSE	34 543	5.2	141	73	129	15
Stress-induced-phosphoprotein 1	Stip1	STIP1_MOUSE	63 170	6.4	184	55	89	4
Stathmin	Stmn1	STMN1_MOUSE	17 264	5.7	28	24	69	8
Stomatin-like protein 2	Stoml2	STML2_MOUSE	38 475	9.5	144	61	165	15
TAR DNA-binding protein 43	Tardbp	TADBP_MOUSE	44 918	6.3	68	30	107	7
T-complex protein 1 subunit α	Tcp1	TCPA_MOUSE	60 867	5.8	61	27	28	4
Transcription intermediary factor 1-β	Trim28	TIF1B_MOUSE	90 558	5.4		10	139	4
Tubulin α-1B chain	Tuba1b	TBA1B_MOUSE	50 804	4.8	128	39	152	9
Tubulin α-1C chain	Tuba1c	TBA1C_MOUSE	50 562	4.8	53	24	52	6
Tubulin β-2A chain	Tubb2a	TBB2A_MOUSE	50 274	4.6	126	55	111	11
Tubulin β-2C chain	Tubb2c	TBB2C_MOUSE	50 255	4.6	150	56	49	8
Tubulin β-5 chain	Tubb5	TBB5_MOUSE	50 095	4.6	169	57	237	9
Thioredoxin	Txn	THIO_MOUSE	12 010	4.6	63	67	92	22
Thioredoxin-like protein 1	Txnl1	TXNL1_MOUSE	32 616	4.7	144	78	39	2
Ubiquitin-conjugating enzyme E2 N	Ube2n	UBE2N_MOUSE	17 184	6.2	119	71	20	6
Ubiquitin carboxyl-terminal hydrolase isozyme L1	Uchl1	UCHL1_MOUSE	25 165	5	77	64	16	8
Cytochrome b-c1 complex subunit 1, mitochondrial	Uqcrc1	QCR1_MOUSE	53 420	5.7	95	40	46	6
Transitional endoplasmic reticulum ATPase	Vcp	TERA_MOUSE	89 950	5	310	61	40	5
Voltage-dependent anion-selective channel protein 1	Vdac1	VDAC1_MOUSE	32 502	9.2	159	57	80	24
Vimentin	Vim	VIME_MOUSE	53 712	4.9	218	64	47	8

CPI: Calculated isoelectric point; PMF: Peptide mass fingerprint; MS/MS: Tandem mass spectrometry.