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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.