Table 3. Optimized SRM parameters used for the mass spectrometric examination of salivary proteins.
The Q1 and Q3 m/z values, the type of “y” ion used, the dwell time, declustering potential (DP) and collision energy (CE) is indicated in case of each studied peptide.
| Protein | Peptide | Q1 (m/z) | Q3 (m/z) | Ion | Dwell time (msec) | DP | CE |
|---|---|---|---|---|---|---|---|
| Catalase | LNVITVGPR | 484.798 | 642.393 | y6 | 20 | 63.0 | 23.4 |
| 484.798 | 529.309 | y5 | 20 | 63.0 | 23.4 | ||
| 484.798 | 428.261 | y4 | 20 | 63.0 | 23.4 | ||
| LNVITVGPR* | 489.802 | 652.401 | y6 | 20 | 63.0 | 23.4 | |
| 489.802 | 539.317 | y5 | 20 | 84.8 | 23.4 | ||
| 489.802 | 438.269 | y4 | 20 | 84.8 | 23.4 | ||
| CD44 antigen | NDVTGGR | 359.677 | 489.277 | y5 | 20 | 84.8 | 16.2 |
| 359.677 | 390.209 | y4 | 20 | 84.8 | 16.2 | ||
| NDVTGGR* | 364.681 | 499.286 | y5 | 20 | 84.8 | 16.2 | |
| 364.681 | 400.217 | y4 | 20 | 84.8 | 16.2 | ||
| TEAADLCK | 425.702 | 620.307 | y6 | 20 | 63.1 | 20.0 | |
| 425.702 | 549.270 | y5 | 20 | 63.1 | 20.0 | ||
| 425.702 | 478.232 | y4 | 20 | 63.1 | 20.0 | ||
| TEAADLCK* | 429.709 | 628.321 | y6 | 20 | 63.1 | 20.0 | |
| 429.709 | 557.284 | y5 | 20 | 66.6 | 20.0 | ||
| 429.709 | 486.247 | y4 | 20 | 66.6 | 20.0 | ||
| CD59 glycoprotein | AGLQVYNK | 446.747 | 651.346 | y5 | 20 | 66.6 | 21.2 |
| 446.747 | 523.287 | y4 | 20 | 66.6 | 21.2 | ||
| AGLQVYNK* | 450.755 | 659.360 | y5 | 20 | 66.6 | 21.2 | |
| 450.755 | 531.301 | y4 | 20 | 66.6 | 21.2 | ||
| Keratin-19 | APSIHGGSGGR | 498.254 | 627.295 | y7 | 20 | 79.9 | 24.1 |
| 498.254 | 490.236 | y6 | 20 | 79.9 | 24.1 | ||
| 498.254 | 433.215 | y5 | 20 | 79.9 | 24.1 | ||
| 498.254 | 376.193 | y4 | 20 | 79.9 | 24.1 | ||
| APSIHGGSGGR* | 503.258 | 637.304 | y7 | 20 | 64.3 | 24.1 | |
| 503.258 | 500.245 | y6 | 20 | 64.3 | 24.1 | ||
| 503.258 | 443.223 | y5 | 20 | 64.3 | 24.1 | ||
| 503.258 | 386.202 | y4 | 20 | 64.3 | 24.1 | ||
| Profilin-1 | TLVLLMGK | 437.775 | 660.411 | y6 | 20 | 60.6 | 20.7 |
| 437.775 | 561.342 | y5 | 20 | 60.6 | 20.7 | ||
| 437.775 | 448.258 | y4 | 20 | 60.6 | 20.7 | ||
| TLVLLMGK* | 441.782 | 668.425 | y6 | 20 | 60.6 | 20.7 | |
| 441.782 | 569.357 | y5 | 20 | 63.0 | 20.7 | ||
| 441.782 | 456.273 | y4 | 20 | 63.0 | 20.7 | ||
| SSFYVNGLTLGGQK | 735.882 | 887.494 | y9 | 20 | 63.0 | 37.7 | |
| 735.882 | 773.451 | y8 | 20 | 63.0 | 37.7 | ||
| 735.882 | 603.346 | y6 | 20 | 84.8 | 37.7 | ||
| SSFYVNGLTLGGQK* | 739.890 | 895.508 | y9 | 20 | 84.8 | 37.7 | |
| 739.890 | 781.465 | y8 | 20 | 84.8 | 37.7 | ||
| 739.890 | 611.360 | y6 | 20 | 84.8 | 37.7 | ||
| Protein S100A9 | DLQNFLK | 439.242 | 649.366 | y5 | 20 | 84.8 | 20.8 |
| 439.242 | 521.308 | y4 | 20 | 84.8 | 20.8 | ||
| DLQNFLK* | 443.249 | 657.380 | y5 | 20 | 63.1 | 20.8 | |
| 443.249 | 529.322 | y4 | 20 | 63.1 | 20.8 | ||
| LTWASHEK | 486.250 | 757.362 | y6 | 20 | 63.1 | 23.5 | |
| 486.250 | 571.283 | y5 | 20 | 63.1 | 23.5 | ||
| 486.250 | 500.246 | y4 | 20 | 66.6 | 23.5 | ||
| LTWASHEK* | 490.257 | 765.376 | y6 | 20 | 66.6 | 23.5 | |
| 490.257 | 579.297 | y5 | 20 | 66.6 | 23.5 | ||
| 490.257 | 508.260 | y4 | 20 | 66.6 | 23.5 | ||
| Thioredoxin | TAFQEALDAAGDK | 668.822 | 760.383 | y8 | 20 | 66.6 | 33.9 |
| 668.822 | 689.346 | y7 | 20 | 66.6 | 33.9 | ||
| TAFQEALDAAGDK* | 672.829 | 768.397 | y8 | 20 | 79.9 | 33.9 | |
| 672.829 | 697.360 | y7 | 20 | 79.9 | 33.9 | ||
| VGEFSGANK | 454.727 | 623.314 | y6 | 20 | 79.9 | 21.7 | |
| 454.727 | 476.246 | y5 | 20 | 79.9 | 21.7 | ||
| VGEFSGANK* | 458.734 | 631.328 | y6 | 20 | 64.3 | 21.7 | |
| 458.734 | 484.260 | y5 | 20 | 64.3 | 21.7 | ||
| Galectin-3-binding protein | LASAYGAR | 404.719 | 624.310 | y6 | 20 | 64.3 | 18.8 |
| 404.719 | 466.240 | y4 | 20 | 64.3 | 18.8 | ||
| LASAYGAR* | 409.723 | 634.318 | y6 | 20 | 60.6 | 18.8 | |
| 409.723 | 476.249 | y4 | 20 | 60.6 | 18.8 |
* indicates the stable isotope-labeled, heavy amino acid.