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Table 4 Peptide masses of in-silico digested Ig kappa chain C region, GI 157838230, either found in the software packages Peptrix, Sieve™, msInspect, Progenesis™ and the Mascot™ Daemon

From: Label-free peptide profiling of Orbitrap™ full mass spectra

   

Peptrix

Sieve™

msInspect

Progenesis™

Mascot Daemon

   

Peak intensity (× 103)

Peak intensity (× 103)

Peak intensity (× 103)

Peak intensity (× 103)

(GI: gene identifier)

Mass MH+

#

Sequence

1

2

3

§

1

2

3

§

1

2

3

§

1

2

3

§

1

2

3

§

888.49378

1

EAKVQWK

70

68

60

2

40

37

33

0

17

18

0

4

29

27

26

0

0

0

0

 

1502.75844

0

K.DSTYSLSSTLTLSK.A

23172

22659

18733

0

15343

14428

12549

1

10100

9391

8288

3

16869

15721

13663

1

157838230

157838230

157838230

0

1740.87377

0

SGTASVVCLLNNFYPR

55

58

45

1

396

366

320

4

19

21

19

3

118

113

83

1

157838230

157838230

157838230

0

1818.90547

0

VYACEVTHQGLSSPVTK

663

588

465

2

177

182

175

0

155

162

142

0

239

218

193

2

157838230

157838230

157838230

0

1946.02696

0

TVAAPSVFIFPPSDEQLK

29952

10994

24525

2

25191

23771

21825

1

3585

3517

5738

2

83933

78466

73157

2

157838230

157838230

157838230

0

2069.04844

1

SGTASVVCLLNNFYPREAK

17

17

13

0

43

36

28

3

30

0

0

3

6

6

4

1

0

0

0

 

2084.05934

1

HKVYACEVTHQGLSSPVTK

2

3

4

0

0

0

0

 

5

0

0

1

(5

4

4) &

0

157838230

1*

157838230

0

2109.02339

1

DSTYSLSSTLTLSKADYEK

593

576

499

1

201

191

163

0

250

247

221

5

280

265

238

0

157838230

157838230

157838230

0

2135.96873

0

VDNALQSGNSQESVTEQDSK

65032

65514

62998

1

20162

19137

18511

1

33000

3100

0

3

43683

35245

41405

1

157838230

157838230

157838230

0

2323.14995

1

VYACEVTHQGLSSPVTKSFNR

3

7

6

3

13

12

13

4

50

52

36

7

10

11

11

8

0

1*

1*

7

2553.22833

1

DIEMTQSPSSLSASVGDRVTITCR

0

0

0

 

63

60

52

2

0

0

0

 

0

0

0

 

0

0

0

 

2677.27

1

VQWKVDNALQSGNSQESVTEQDSK

422

381

329

0

142

134

115

2

279

259

6

7

369

341

304

2

157838230

157838230

157838230

3

3619.70933

1

VDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSK

17

15

13

5

0

0

0

 

31

34

25

4

68

60

50

1

0

0

0

 
  1. # missed cleavage, § mass accuracy in ppm, * MS triggered but no protein matches, & charge 4+ (charge 4+ not included in Peptrix). The spectral intensities of the triplicate measurements of each peptide mass are presented in the columns, except for Mascot™ Daemon. The corresponding GI numbers of the identified proteins by Mascot™ Daemon are presented in the Mascot™ Daemon columns.