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Table 1 Phosphorylated peptides identified from membrane fractions shaved by protease.

From: Functional phosphoproteomic profiling of phosphorylation sites in membrane fractions of salt-stressed Arabidopsis thaliana

Protein name

GO annotation

ATG number

TMD

Label-free ratio (spectrum)

Label-free ratio (chromatogram)

D/H ratio (spectrum)

D/H ratio (chromatogram)

Phosphopeptide sequence and phosphorylation site

Membrane protein

        

   ATPase 1, plasma membrane-type

ATPase

At2g18960

10

5.62 + 3.01

6.92 + 3.83

  

GLDIDTAGHHYpTV

   Sugar transport protein 1

Transporter

At1g11260

 

4.36

7.95

  

GVDDVpSQEF

DDLVAASK

   Patellin-2

Transporter

At1g22530

 

2.91 + 0.24

8.37 + 4.03

  

EILQSEpSFKEEGY

LASELQEAEK

   Aquaporin PIP2;1, PIP2;2; PIP2;3

Water channel

At3g53420

6

0.33 + 0.10

0.35 + 0.13

0.46

0.49

SLGpSFRpSAANV

  

At2g37170

      
  

At2g37180

      

   Probable aquaporin PIP2;4

Water channel

At5g60660

6

1.22 + 0.05

1.24 + 0.55

  

ALGSFGpSFGSFR

   Probable aquaporin PIP2;4

Water channel

At5g60660

6

1.22 + 0.05

1.24 + 0.55

  

ALGSFGSFGpSFR

   Probable aquaporin PIP2;4

Water channel

At5g60660

6

3.37 + 1.22

2.38 + 0.15

0.52

0.61

ALGSFGpSFGpSFR

   Probable inactive receptor kinase

kinase

At3g02880

2

2.07 + 0.31

3.99 + 1.94

1.68

1.61

LIEEVSHSS

GSPNPVpSD

   Probable purine permease 18

Transporter

At1g57990

10

7.84 + 0.47

5.31 + 1.03

  

QTTAEGSANP

EPDQILpSPR

Non-membrane protein

        

   Mitogen-activated protein kinase kinase 2

Kinase

At4g29810

 

1.08

0.61

  

IISQLEPEVLpSPIKPA

DDQLSLSDLDMVK

   Uncharacterized TPR repeat-containing protein

Unknown

At1g05150

 

2.82

4.28

  

DNDVPVpSY

SGSGGPTK

   FAM10 family protein

Binding

At4g22670

 

0.45 + 0.37

0.63 + 0.36

0.54

0.56

VEEEEEEDEIVEpS DVEL

EGDTVEPDNDPPQK

   FAM10 family protein

Binding

At4g22670

 

0.20

0.17

  

SFVVEEpSDDD

MDETEEVKPK

   60S ribosomal protein L13-1

Translation

At3g49010

 

1.61 + 0.53

1.28 + 0.41

  

AGDSpTPEELANA

TQVQGDYLPIVR

   60S acidic ribosomal protein P1-1, P1-2, P1-3

Translation

At1g01100

 

0.14 + 0.02

0.24 + 0.02

0.29

0.11

KKDEPAEEpS

DGDLGFGLFD

  

At5g47700

      
  

At4g00810

      

   60S acidic ribosomal protein P2-1, P2-2, P2-4

Translation

At3g44590

 

0.26 + 0.05

0.24 + 0.02

  

KEEKEEpSD

DDMGFSLFE

  

At2g27710

      
  

At2g27720

      

   60S acidic ribosomal protein P3-1, P3-2

Translation

At5g57290

 

0.44 + 0.14

0.68 + 0.27

0.29

0.37

KEEpSEEEE

GDFGFDLFG

  

At4g25890

      

   60S acidic ribosomal protein P0-3

Translation

At3g11250

 

0.12 + 0.04

0.13 + 0.05

0.21

0.27

VEEKKEEpSDEED

YEGGFGLFDEE

  1. 1. AGI code: the accession number refers to Arabidopsis Gene Idenfier code.
  2. 2. TMD: predicted transmembrane domain number.
  3. 3. Label-free ratio represents fold difference of peptide level between 200 mM-sample versus control.
  4. 4. FDR is calculated 0 based on decoy database search.
  5. 5. D/H ratio represents fold difference of peptide level between 200 mM-sample versus control. D: 200 mM; H: control.
  6. 6. Each peptide was corroborated by Scaffold using 95% confidence interval as the cut-off.
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