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Table 1 Plasma membrane associated proteins identified in the lipid rafts of neonatal mouse brain

From: Quantifying raft proteins in neonatal mouse brain by 'tube-gel' protein digestion label-free shotgun proteomics

Acc. No.

Protein name

Pep a

% cov b

MW (KDa)

PTM c

Spectral count d

SD e

P12960

Contactin-1 (Neural cell surface protein F3)

26

35.03

113.4

GPI

174.0

4.0

Q91XV3

Neuronal axonal membrane protein NAP-22

8

66.52

22.1

Lipid anchor

125.0

0.6

P59216

G-protein G(o), alpha subunit 1

7

25.28

40.1

Lipid anchor

101.0

2.0

P14824

Annexin A6

21

41.43

75.8

 

99.0

22.0

Q8BLK3

Limbic system-associated membrane protein

5

17.94

38.0

GPI

66.0

1.0

Q80Z24

Neuronal growth regulator 1 (Neurotractin)

4

14.99

37.9

GPI

56.5

2.5

Q61330

Contactin-2

13

20.69

113.2

GPI

44.5

5.5

P38401

G-protein G(i), alpha-1 subunit

5

19.03

40.4

Lipid anchor

42.5

10.5

O08917

Flotillin-1

8

29.04

47.5

 

40.0

0.0

Q8BFZ9

SPFH domain-containing protein 2

3

11.30

38.9

 

38.0

1.2

Q9Z2S9

Flotillin-2 (Reggie-1) (REG-1)

6

22.22

41.7

 

36.5

1.5

P13595

Neural cell adhesion molecule 1, 180 kDa isoform

6

9.43

119.4

 

32.5

10.5

P38402

G-protein G(i), alpha-2 subunit

2

8.78

40.5

Lipid anchor

30.0

4.0

Q9Z1G4

Vacuolar proton pump subunit 1

7

9.43

96.5

 

28.5

0.5

Q62188

Dihydropyrimidinase-related protein 3 (DRP-3)

7

20.39

61.9

 

21.5

0.5

P27600

G-protein alpha-12 subunit (G alpha-12)

2

8.49

44.0

Lipid anchor

20.5

5.5

O70443

G-protein G(z), alpha subunit (G(x) alpha chain)

4

17.85

40.9

 

19.5

1.5

Q99PJ0

Neurotrimin

3

11.95

38.0

GPI

17.0

1.0

Q9WTR5

Cadherin-13

4

9.26

78.3

GPI

17.0

2.0

P21278

G-protein alpha-11 subunit

3

9.78

42.0

 

15.0

0.6

P51150

Ras-related protein Rab-7

3

19.90

23.5

Lipid anchor

14.5

0.5

Q8VDN2

Sodium/potassium-transporting ATPase alpha-1 chain

5

8.61

113.0

 

13.5

0.5

P32736

Opioid-binding protein/cell adhesion molecule

3

13.08

38.1

GPI

13.0

2.0

P21279

G-protein G(q), alpha subunit

3

13.64

41.5

Lipid anchor

13.0

0.0

P01831

Thy-1 membrane glycoprotein precursor (Thy-1)

3

26.71

18.1

GPI

12.5

0.5

P59729

Ras and Rab interactor 3

2

3.14

107.3

 

12.0

2.0

Q6TMK6

G-protein G(I)/G(S)/G(T) beta subunit

2

8.81

37.4

 

12.0

4.0

P06837

Neuromodulin (Axonal membrane protein GAP-43

2

18.14

23.6

Lipid anchor

11.5

0.5

Q6PIE5

Sodium/potassium-transporting ATPase alpha-2 chain

3

10.71

112.2

 

11.0

1.0

P62821

Ras-related protein Rab-1A

2

16.26

22.7

Lipid anchor

11.0

1.0

P53994

Ras-related protein Rab-2A

3

20.38

23.5

Lipid anchor

10.5

0.5

P38403

G-protein G(k), alpha subunit

3

13.64

40.6

Lipid anchor

10.0

2.0

Q8BKV1

Glypican-2 precursor

2

5.88

63.3

GPI

10.0

2.0

Q68FD5

Clathrin heavy chain

5

4.06

191.6

 

10.0

3.0

Q91X78

SPFH domain-containing protein 1

6

24.48

38.9

 

9.5

2.5

P39688

Proto-oncogene tyrosine-protein kinase Fyn

2

3.57

59.9

Lipid anchor

9.5

1.5

Q61735

Integrin-associated protein (IAP)

2

4.64

33.1

 

9.5

0.5

P97792

Coxsackievirus and adenovirus receptor homolog

2

6.04

39.9

Lipid anchor

9.5

1.5

Q9WUC3

Lymphocyte antigen Ly-6H precursor

2

12.32

14.67

GPI

9.5

1.5

Q6PIC6

Sodium/potassium-transporting ATPase alpha-3 chain

3

4.45

111.7

 

9.0

1.0

Q8BMT4

Leucine-rich repeat-containing protein 33

2

2.75

77.1

 

9.0

1.0

P48036

Annexin A5

5

21.07

35.8

 

9.0

1.0

P17182

Alpha-enolase

3

11.57

47.1

 

9.0

0.6

O08532

L-type calcium channel subunit delta

2

2.75

124.6

 

8.5

2.5

P63044

Vesicle-associated membrane protein 2 (VAMP-2)

3

35.09

12.7

 

8.0

0.0

P54227

Stathmin (Phosphoprotein p19)

2

14.97

17.3

 

8.0

1.0

P61027

Ras-related protein Rab-10

3

16.58

22.5

Lipid anchor

8.0

1.0

Q9QZF2

Glypican-1 precursor

3

8.99

61.4

GPI

8.0

2.0

Q3U1F9

Transmembrane phosphoprotein Cbp

2

7.48

46.5

Lipid anchor

7.0

0.6

Q69Z26

Contactin-4

3

2.15

117.5

GPI

7.0

1.0

Q9R0N7

Synaptotagmin-7 (Synaptotagmin VII) (SytVII)

2

7.71

45.5

 

6.5

0.5

Q9Z0P4

Paralemmin

3

10.73

41.6

Lipid anchor

6.5

1.5

O35454

Chloride channel protein 6 (ClC-6)

4

6.56

97.0

 

6.5

1.5

P51863

Vacuolar ATP synthase subunit d

2

6.86

40.3

 

6.0

0.6

P62814

Vacuolar ATP synthase subunit B, brain isoform

3

8.04

56.6

 

6.0

1.0

Q9ER00

Syntaxin-12

2

11.72

31.19

 

6.0

2.0

Q7SIG6

Development and differentiation-enhancing factor 2

2

2.84

106.8

 

6.0

1.0

Q6PHN9

Ras-related protein Rab-35

2

5.50

23.0

Lipid anchor

5.5

0.5

P63213

G-protein G(I)/G(S)/G(O) gamma-2 subunit

2

8.78

37.4

 

5.5

0.5

P14094

Sodium/potassium-transporting ATPase beta-1 chain

2

8.25

35.2

 

5.0

2.0

Q6PCX7

Repulsive guidance molecule A

2

6.62

50.0

GPI

5.0

2.0

P70296

Phosphatidylethanolamine-binding protein (PEBP)

3

28.65

20.7

 

5.0

3.0

P59108

Copine-2 (Copine II)

3

6.76

61.0

 

5.0

1.7

Q9WV55

VAMP-associated protein A

2

4.98

27.3

 

4.5

0.5

P46096

Synaptotagmin-1

2

5.71

47.4

Lipid anchor

4.5

1.5

Q9D1G1

Ras-related protein Rab-1B

2

16.50

22.2

Lipid anchor

4.5

0.5

P07356

Annexin A2 (Annexin II)

3

13.95

38.5

 

4.5

1.5

Q99KR6

RING finger protein 34

2

4.53

42.0

 

4.0

1.0

Q91V41

Ras-related protein Rab-14

2

12.62

23.9

Lipid anchor

4.0

1.2

P10852

4F2 cell-surface antigen heavy chain

2

5.14

58.3

 

4.0

0.6

P35279

Ras-related protein Rab-6A (Rab-6)

2

5.34

23.6

Lipid anchor

3.5

1.5

Q9CQD1

Ras-related protein Rab-5A

2

10.28

23.6

Lipid anchor

3.5

0.5

O35963

Ras-related protein Rab-33B

2

4.82

25.8

Lipid anchor

3.5

0.5

Q8K386

Ras-related protein Rab-15

2

5.21

24.3

Lipid anchor

3.5

1.5

P60764

Ras-related C3 botulinum toxin substrate 3

2

7.33

21.4

Lipid anchor

3.5

0.5

Q9QXL2

Kinesin family member 21A

2

1.14

186.53

 

3.5

0.5

Q8R4A8

G-protein G(s), alpha subunit

3

13.64

45.7

Lipid anchor

3.5

1.5

Q9JMB8

Contactin-6

3

3.21

113.8

GPI

3.5

2.5

Q65CL1

Alpha-3 catenin (Alpha T-catenin)

1

1.79

99.8

 

3.5

1.5

Q60547

Synaptonemal complex protein 3

3

6.01

27.1

 

3.0

0.6

Q9DAS9

G-protein G(I)/G(S)/G(O) gamma-12 subunit

4

22.86

78.7

Lipid anchor

3.0

1.0

P97449

Aminopeptidase N (Membrane protein p161)

1

1.87

109.7

 

3.0

1.0

Q9JHS3

Late endosomal/lysosomal Mp1-interacting protein

2

14.52

13.48

 

3.0

1.0

P31324

Prkar2b

1

4.11

46.04

 

3.0

1.5

P61264

Syntaxin-1B2 (Syntaxin 1B)

2

8.01

33.3

 

2.5

1.5

P35278

Ras-related protein Rab-5C

2

6.51

23.4

Lipid anchor

2.5

0.5

P63011

Ras-related protein Rab-3A

2

8.68

25.0

Lipid anchor

2.5

0.5

P97855

Ras-GTPase-activating protein binding protein 1

1

3.02

51.8

 

2.5

0.5

Q9CYH2

Protein C10orf58 homolog

2

5.99

24.4

 

2.5

0.5

P11505

Plasma membrane calcium-transporting ATPase 1

1

1.43

138.7

 

2.5

0.5

P05480

Neuronal proto-oncogene tyrosine-protein kinase Src

2

5.38

60.6

Lipid anchor

2.5

0.5

Q07310

Neurexin-3-alpha

1

4.11

174.0

 

2.5

0.5

O35136

Neural cell adhesion molecule 2

1

1.56

93.2

GPI

2.5

1.5

O89051

Integral membrane protein 2B

2

6.04

30.3

 

2.5

0.5

O08842

GDNF family receptor alpha-2

1

3.68

51.6

GPI

2.5

0.5

O08545

Ephrin-A3 precursor

2

8.60

21.2

GPI

2.5

0.5

Q9R1T7

Inducible T-cell co-stimulator (CD278 antigen)

2

8.54

225.30

 

2.5

0.5

P60879

Synaptosomal-associated protein 25

2

6.83

23.3

Lipid anchor

2.0

1.0

P80236

Ras-related C3 botulinum toxin substrate 1

3

18.42

8.8

 

2.0

1.0

P68404

Protein kinase C beta type

1

2.38

76.9

 

2.0

0.6

Q04690

Neurofibromin

2

3.81

319.6

 

2.0

0.6

Q60437

Insulin receptor substrate p53

2

6.15

57.64

 

2.0

0.6

Q61411

GTPase HRas

2

12.77

21.3

Lipid anchor

2.0

0.6

P51655

Glypican-4 precursor (K-glypican)

2

4.86

62.6

GPI

2.0

1.0

P23818

Glutamate receptor 1 (GluR-1)

1

2.21

101.57

 

2.0

0.6

Q8VBX4

C-type lectin domain family 4 member K

1

4.24

37.6

 

2.0

0.6

Q8JZW4

Copine-5 (Copine V)

1

2.53

65.6

 

2.0

1.0

Q8BLR2

Copine-4 (Copine IV)

1

2.70

62.4

 

2.0

0.6

Q02013

Aquaporin-1

1

7.49

28.66

 

2.0

1.2

Q07076

Annexin A7

1

3.46

49.9

 

2.0

1.7

P97429

Annexin A4 (Annexin IV)

3

10.09

35.9

 

2.0

0.6

Q9DBE8

Alpha-1,3-mannosyltransferase ALG2

1

3.86

47.4

 

2.0

1.0

P84078

ADP-ribosylation factor 1

2

6.15

20.6

 

2.0

1.0

Q6QIY3

Sensory neuron sodium channel

1

3.09

220.6

 

2.0

0.6

P49817

Caveolin-1

1

7.91

20.54

 

2.0

0.6

P18708

Vesicle-fusing ATPase

2

2.69

82.54

 

1.5

0.5

O70439

Syntaxin-7

2

5.41

29.8

 

1.5

0.5

P16546

Spectrin alpha chain, brain

1

1.24

274.7

 

1.5

0.5

Q9QZB0

Regulator of G-protein signaling 17

1

6.22

24.3

 

1.5

0.5

Q9JIR4

Regulating synaptic membrane exocytosis protein 1

2

6.07

179.7

 

1.5

0.5

Q05909

Receptor-type tyrosine-protein phosphatase gamma

2

9.72

161.2

 

1.5

0.5

P46638

Ras-related protein Rab-11B

2

9.72

24.5

Lipid anchor

1.5

0.5

P05696

Protein kinase C alpha type(PKC-alpha)

1

2.09

76.8

 

1.5

0.5

O35764

Neuronal pentraxin receptor

1

2.84

52.37

 

1.5

0.5

Q8CGK7

G-protein G(olf), alpha subunit

6

20.74

44.3

 

1.5

0.5

P50153

G-protein G(I)/G(S)/G(O) gamma-4 subunit

2

9.35

84.1

Lipid anchor

1.5

0.5

Q99KJ8

Dynactin subunit 2

1

4.75

44.0

 

1.5

0.5

  1. aPep: peptide counts; b% cov: protein coverage%; cPTM: posttranslational lipid modification, GPI and lipid anchor: myristoylation, pamitolyation, geranylgeranylation, farnesylation, and prenylation; dSpectral count: total MS/MS spectral counts. Number represents mean value of 4 replicates; cstandard deviation of spectral counts in 4 replicates.