Molecular Insights into the Breast and Prostate Cancer Cells in Response to the Change of Extracellular Zinc

Table 1

Identified proteins in breast cancer cells (MCF-7) and normal breast epithelial cells (MCF10A) with or without exogenous zinc exposure.

Spot ID

Identified proteins

Gene ID

Protein accession

Theoretical MW (kDa)/pI

Observed MW (KDa)/pI

PLGS score

Matched peptides

Sequence coverage (%)

(Fold change/ value)

Molecular functions

MCF-7 T0/MCF10A T0

MCF-7 T120/MCF10A T120

MCF-7 T120/MCF-7 T0

MCF10A T120/MFC10A T0

1

14-3-3 protein σ

SFN

P31947

27.8/4.5

27.9/4.5

2586

24

44

(0.5/0.02) ↓

I

2

14-3-3 protein θ

YWHAQ

P27348

27.8/4.5

29.0/4.7

10806

14

43

(0.4/0.003) ↓

(0.3/0.0001) ↓

II

3

26S proteasome non-ATPase regulatory subunit 4

PSMD4

Q5VWC4

41.1/4.5

62.0/4.6

1085

22

23

(0.2/0.003) ↓

III

4

39S ribosomal protein L12 mitochondrial

MRPL12

P52815

21.3/9.2

17.7/5.3

4066

8

30

(0.7/0.03) ↓

IV

5

60S acidic ribosomal protein P0

RPLP0

A0A024RBS2

34.3/5.6

42.0/5.6

588

6

16

(0.3/0.002) ↓

V

6

α-Smooth muscle actin 2

ACTA2

D2JYH4

42.0/5.1

44.4/5.2

6831

22

28

(6.8/0.0003) ↑

(0.3/0.003) ↓

VI

7

Actin cytoplasmic 1

ACTB

P60709

41.7/5.1

59.6/5.3

17835

27

60

(0.3/0.0004) ↓

VII

8

Actinin α1 isoform CRA a

ACTN1

A0A024R694

103.0/5.1

156.6/5.5

35257

64

45

(1.9/0.02) ↑

VIII

9

Adenosylhomocysteinase

AHCY

A0A384MTQ3

47.7/5.9

50.1/6.0

911

24

19

(0.5/0.04) ↓

III

10

Annexin

ANXA8L1

A0A075B752

40.7/5.6

35.2/5.6

623

8

17

(0.1/0.04) ↓

VIII

11

Annexin A1

ANXA1

P04083

38.7/6.6

36.0/6.6

21563

27

62

(0.2/0.03) ↓

VIII

12

Annexin A5

ANXA5

P08758

35.9/4.7

29.0/5.0

3292

8

20

(0.5/0.03) ↓

(4.4/0.02) ↑

VIII

13

Calmodulin-1

CALM1

P0DP23

17.0/3.9

13.9/3.3

1613

6

41

(0.2/0.006) ↓

VIII, III

14

Cathepsin D

CTSD

A0A1B0GW44

43.7/6.1

30.2/5.4

1908

11

19

(8.4/0.0001) ↑

(3.3/0.007) ↑

III

15

Cytochrome b5 type B

CYB5B

O43169

16.3/4.7

18.2/3.7

867

3

17

(4.2/0.0003) ↑

VIII

16

D-3-Phosphoglycerate dehydrogenase

PHGDH

A0A286YF22

55.9/6.3

69.2/6.7

4302

8

16

(2.0/0.02) ↑

(0.8/0.04) ↓

(1.4/0.02) ↑

III

17

Dihydrolipoamide S-succinyltransferase (E2 component of 2-oxo-glutarate complex) isoform CRA a

DLST

A0A024R6C9

48.7/9.3

62.0/6.0

1601

4

10

(2.6/0.01) ↑

III

18

Dynactin 2 (P50) isoform CRA c

DCTN2

A0A384MDU9

44.2/4.9

59.2/5.2

6320

21

52

(0.4/0.03) ↓

(0.7/0.04) ↓

VII

19

Elongation factor 1 δ

EEF1D

A0A087X1X7

69.2/6.8

42.0/4.3

52531

21

25

(0.7/0.001) ↓

V

20

Elongation factor Tu

TUFM

A0A384ME17

49.8/7.4

50.1/7.0

2644

49

36

(5.2/0.01) ↑

(0.5/0.003) ↓

(0.5/0.01) ↓

(1.4/0.02) ↑

V

21

Exosome complex component MTR3

EXOSC6

Q5RKV6

28.2/6.0

32.4/5.9

350

4

17

(0.5/0.04) ↓

IV

22

F-Actin-capping protein subunit β

CAPZB

A0A384MR50

30.6/5.6

28.5/5.7

1812

10

26

(3.0/0.0003) ↑

(2.4/0.03) ↑

VI

23

ATP-dependent RNA helicase DDX1

DDX1

A0A087X2G1

73.9/7.6

136.2/8.1

298

19

12

(1.4/0.04) ↑

III

24

Adenylosuccinate lyase

ADSL

A0A1B0GTJ7

54.4/6.7

67.2/7.6

584

4

8

(0.3/0.002) ↓

(0.4/0.005) ↓

III

25

FUBP1

FUBP1

A0A1Z1G4M2

67.6/7.9

89.5/8.2

372

5

9

(2.1/0.02) ↑

II

26

Peptidyl-prolyl cis-trans isomerase FKBP4

FKBP4

Q02790

51.8/5.2

62.0/5.6

32827

47

65

(1.9/0.01) ↑

(2.5/0.003) ↑

IX

27

Glutathione S-transferase Mu 3

GSTM3

P21266

26.5/5.2

26.9/5.4

8436

20

54

(3.0/0.04) ↑

(5.0/0.005) ↑

III

28

Glutathione S-transferase P

GSTP1

P09211

23.3/5.3

24.6/5.6

12769

31

66

(0.2/0.002) ↓

III

29

Glutathione synthetase

GSS

P48637

52.4/5.6

62.0/5.6

11269

26

57

(1.5/0.04) ↑

III

30

Inorganic pyrophosphatase

PPA1

Q15181

32.6/5.4

37.8/5.5

957

4

11

(2.5/0.03) ↑

III

31

Heat shock protein 90 kDa alpha (cytosolic) class B member 1 isoform CRA a

HSP90AB1

A0A024RD80

83.2/4.8

143.0/5.4

5834

28

33

(0.5/0.0006) ↓

IX

32

Heat shock protein β 1

HSPB1

P04792

22.8/6.0

26.0/5.9

46679

22

78

(3.5/0.002) ↑

(0.2/0.002) ↓

IX

33

Pyruvate dehydrogenase E1 component subunit α

PDHA1

A0A024RBX9

43.3/8.0

50.1/6.5

373

3

6

(1.7/0.04) ↑

III

34

Heterogeneous nuclear ribonucleoproteins C1/C2

HNRNPC

B2R5W2

31.9/4.9

40.8/5.0

7292

24

43

(8.0/0.0002) ↑

(0.5/0.009) ↓

X, IV

35

High mobility group protein B1

HMGB1

A0A024RDR0

24.9/5.5

23.5/6.3

3179

8

26

(1.9/0.03) ↑

X

36

Histidine-tRNA ligase cytoplasmic

HARS1

P12081

57.4/5.6

62.0/5.8

3224

15

25

(1.5/0.04) ↑

III

37

Histone H4

HIST1H4J

B2R4R0

11.4/11.8

18.2/5.7

897

4

36

(2.5/0.007) ↑

(1.9/0.001) ↑

VII, X

38

Heat shock 70 kDa protein 1A

HSPA1A

A0A1U9X7W4

70.0/5.3

89.5/5.5

29565

38

49

(1.7/0.02) ↑

IX

39

Inosine-5′-monophosphate dehydrogenase

IMPDH

A0A384N6C2

55.8/6.5

69.2/7.0

3921

8

14

(0.6/0.04) ↓

(1.5/0.005) ↑

III

40

L-Lactate dehydrogenase B chain

LDHB

P07195

36.6/5.6

38.9/5.7

6282

11

28

(0.6/0.004) ↓

III

41

C-1-Tetrahydrofolate synthase, cytoplasmic

MTHFD1

A0A024R652

101.5/6.8

156.6/7.8

342

18

18

(0.5/0.04) ↓

XI, V

42

Myosin regulatory light chain 12A

MYL12A

J3QRS3

20.4/4.4

17.3/4.8

1142

5

29

(0.4/0.0003) ↓

VIII

43

NADH dehydrogenase (ubiquinone) iron-sulfur protein 3 mitochondrial

NDUFS3

O75489

30.2/7.4

29.0/5.7

1561

5

20

(2.5/0.0004) ↑

III

44

Nucleoside diphosphate kinase

NME

A0A384MTW7

17.1/5.8

19.1/5.8

3957

6

30

(2.8/0.01) ↑

(1.7/0.03) ↑

III

45

Perilipin

PLIN

A0A140VJN8

46.9/5.1

55.1/5.1

3760

11

32

(0.1/0.005) ↓

XII

46

Plastin 3

PLS3

P13797

70.8/5.3

92.2/5.6

4429

20

31

(1.8/0.04) ↑

VIII

47

Actin γ

ACTG2

P63267

41.9/5.2

47.1/5.1

11163

11

30

(5.2/0.001) ↑

VII

48

Proliferating cell nuclear antigen

PCNA

P12004

28.8/4.4

36.0/4.7

3412

13

44

(1.5/0.004) ↑

(0.6/0.02) ↓

X

49

Peroxiredoxin 6

PRDX6

A0A024R938

25.0/6.0

26.0/6.3

2521

26

34

(1.9/0.04) ↑

III

50

Proteasome subunit β type 6

PSMB6

P28072

25.3/4.6

21.4/4.9

1361

5

21

(1.4/0.04) ↑

(0.3/0.03) ↓

III

51

Protein S100A2

S100A2

P29034

11.0/4.5

12.0/4.5

2026

3

18

(0.04/0.004) ↓

(0.08/0.01) ↓

(0.4/0.02) ↓

VIII

52

Cytochrome c oxidase subunit 6B1

COX6B1

P14854

10.2/6.9

12.4/5.9

833

8

28

(1.9/0.02) ↑

(0.7/0.04) ↓

XII

53

Protein S100A13

S100A13

Q99584

11.5/5.8

13.1/5.7

9088

17

60

(4.1/0.001) ↑

(4.0/0.0002) ↑

VIII

54

Protein SET

SET

Q01105

33.5/4.0

50.1/4.4

8811

16

34

(0.2/0.0009) ↓

(0.2/0.0001) ↓

IX, X

55

Radixin

RDX

B0YJ88

68.5/6.0

110.1/6.3

5828

28

36

(1.3/0.02) ↑

(0.3/0.0004) ↓

(1.6/0.004) ↑

VI

56

Rho GDP-dissociation inhibitor 1

ARHGDIA

P52565

23.2/4.8

26.8/5.1

1996

8

28

(0.6/0.04) ↓

III

57

40S ribosomal protein SA

RPSA

A0A024R2L6

32.8/4.6

47.1/5.1

2510

8

16

(4.4/0.0005) ↑

VII

58

60S acidic ribosomal protein P2

RPLP2

A0A024RCA7

11.7/4.2

15.9/4.3

8497

11

77

(0.7/0.004) ↓

V

59

Serine/threonine-protein kinase PAK 2

PAK2

Q13177

58.0/5.6

73.4/5.8

2239

17

28

(0.5/0.03) ↓

III

60

Serpin B5

SERPINB5

A0A024R2B6

42.1/5.6

45.7/5.8

2466

15

38

(0.2/0.0007) ↓

III

61

START domain-containing 10 isoform CRA a

STARD10

A0A024R5L8

33.0/6.7

39.8/6.0

1134

5

20

(3.1/0.002) ↑

XIII

62

Stathmin

STMN1

P16949

17.3/5.7

16.5/5.7

8524

12

53

(0.4/0.002) ↓

VII

63

SUMO-1 activating enzyme subunit 1 isoform CRA b

SAE1

A0A024R0R4

38.4/5.0

42.0/5.4

3930

11

28

(0.1/0.03) ↓

III

64

T-Complex protein 1 subunit α

TCP1

P17987

60.3/5.7

75.5/5.8

4508

17

30

(0.4/0.008) ↓

IX

65

T-Complex protein 1 subunit γ

CCT3

B3KX11

57.9/6.5

89.5/6.1

1050

17

23

(0.8/0.02) ↓

IX

66

T-Complex protein 1 subunit θ

CCT8

P50990

59.6/5.3

73.4/5.6

1289

15

28

(0.2/0.03) ↓

IX

67

Thioredoxin

TXN

H9ZYJ2

11.7/4.6

14.5/5.1

1389

15

34

(1.4/0.0004) ↑

III

68

Torsin-1A-interacting protein 1

TOR1AIP1

A0A0A0MSK5

52.4/6.6

75.5/6.1

1086

9

21

(0.2/0.001) ↓

(2.3/0.0005) ↑

III

69

Transitional endoplasmic reticulum ATPase

VCP

P55072

89.3/5.0

132.3/5.4

2552

27

28

(0.6/0.01) ↓

V, III

70

Triosephosphate isomerase

TPI1

P60174

30.8/5.6

25.5/7.7

4224

8

32

(3.0/0.002) ↑

(3.8/0.03) ↑

III

71

Tubulin alpha-1C chain

TUBA1C

Q9BQE3

50.1/4.8

14.8/5.3

1665

4

12

(0.2/0.0001) ↓

(0.2/00) ↓

(3.1/0.03) ↑

VII

72

Tumour protein D53

TPD52L1

E9PNK6

18.7/5.5

19.1/5.6

1601

3

9

(4.8/0.0005) ↑

(13.6/0.001) ↑

II

73

Tumour protein D54

TPD52L2

A0A087WYR3

23.8/6.1

27.9/5.2

3042

11

38

(2.5/0.04) ↑

II

74

Vesicle amine transport protein 1

VAT1

A0A024R1Z6

41.9/5.9

57.5/6.0

5485

12

21

(0.7/0.04) ↓

III

Note. MW stands for molecular weight, kDa for kilo Dalton, pI for isoelectric point, PLGS for ProteinLynx Global Server, T₀ for 0 min or without zinc exposure (control), T₁₂₀ for 120 min, ↑ for upregulation, ↓ for downregulation, MCF-7 for breast cancer cells, and MCF10A for breast normal epithelial cells. The PLGS score, protein accession, theoretical MW/pI, matched peptides, and sequence coverage (%) were obtained using ProteinLynx Global Server (PLGS) software (version 3.0, Waters Corporation, USA) and the UniProt (Homo sapiens, human) database. Gene ID was derived from UniProt database. The observed MW and pI were calculated according to the protein standards. The fold changes and values were acquired from the quantitative analysis of the gel images (each group n = 3) by Delta2D software (version 4.0.8, DECODON Gmbh, Germany). MCF-7 T₀/MCF10A T₀ is the expression fold change of the proteins in MCF-7 cells compared to MCF10A cells without zinc exposure (T₀), MCF-7 T₁₂₀/MCF10A T₁₂₀ is the expression fold change of the proteins in MCF-7 cells compared to MCF10A cells following the zinc exposure for 120 min (T₁₂₀), MCF-7 T₁₂₀/MCF-7 T₀ is the expression fold change of the proteins in MCF-7 cells following zinc exposure for T₁₂₀ compared to T₀, and MCF10A T₁₂₀/MFC10A T₀ is the fold change of the proteins in MCF10A cells following zinc exposure for T₁₂₀ compared to T₀. Molecular functions: I, apoptosis; II, signalling; III, catalytic activity; IV, RNA binding; V, protein synthesis; VI, protein binding; VII, structural; VIII, metal ion binding; IX, molecular chaperone; X, DNA binding; XI, DNA synthesis; XII, metabolism; XIII, lipid binding.