Table 2 Database retrieval parameter

Database

SwissProt database (version 2018)

Enzyme name

Trypsin

Maximum missed cleavage

2

Static modification of cysteine

Carbamidomethylation (C)

Dynamic modifications

TMT 10-plex (N-term, K), Oxidation (M), Deamidated (N, Q), Glu- > pyro-Glu (N-term E), Gln- > pyro-Glu (N-term Q) and Acetyl (Protein N-Terminus)

Precursor mass tolerance

10 ppm

Fragmentation mass tolerance

0.02 Da

FDR and result display filtered

Protein, Peptide and PSM FDR < 1%, Master Proteins