| General Parameters | fully tryptic digestion with up to 2 missed cleavages |
| 25 ppm precursor ion tolerance | |
| 1.0 Da fragment ion tolerance | |
| Static Modifications | +57.02146 Da on cysteine, carboxyamidomethylation |
| +28.03130 Da on lysine and the peptide N-terminus, light dimethylation label | |
| Dynamic Modifications | +15.99491 Da on methionine, oxidation |
| +6.03766 Da on lysine and the peptide N-terminus, heavy dimethylation label |
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