# Known modification file
# id, short name, long name, affected residues, molecule change, affected peptide location
# id is the name a user used to turn on/off the PTM in the program parameter file.
# Make sure that shortName and delta molecule are 1-1 mappped.
# It is also recommended that different modifications do not share any names (id, short, and long names mixed).

Acetyl (K), Acetyl, Acetyl, -r-, K, +C2H2O,
Acetyl (N-term), Acetyl, Acetyl, n--, *, +C2H2O,
Amidated (C-term), Amidated, Amidation, --c, *, -O+NH, -1
Carbamidomethyl (C), Cam, Carbamidomethyl, -r-, C, +H3C2NO,
Carbamyl (K), Carbamyl, Carbamylation, -r-, K, +HCNO, 43.005814
Carbamyl (N-term), Carbamyl, Carbamylation, n--, *, +HCNO, 43.005814
Oxidation (M), O, Oxidation, -r-, M, +O,
Oxidation (HW), O, Oxidation, -r-, HW, +O, +16
Phospho (ST), Phospho, Phosphorylation, -r-, ST, +HO3P, 79.96633
Phospho (Y), Phospho, Phosphorylation, -r-, Y, +HO3P, 79.96633
Pyro-carbamidomethyl (N-term C), PyroCam, Pyro-carbamidomethyl, nr-, C, +C2O,
Pyro-Glu (E), Pyro-Glu, Glu->pyro-Glu, nr-, E, -H2O,
Pyro-Glu (Q), Pyro-Glu, Gln->pyro-Glu, nr-, Q, -NH3,
