Fig. 2: Assessment of the completeness of the enzymatic reaction using Endo F3.
a Abundance ratio of each time point to 24 h for the core-fucosylated peptides (total n = 186 CF peptides; 0 min, NA; 2 min, n = 161; 5 min, n = 165; 15 min, n = 171, 30 min, n = 170; 1 h, n = 173; 2 h, n = 166; 4 h, n = 165). For each boxplot, the outline of the box denotes IQR with 25th and 75th percentiles, the solid line in the box indicates the median abundance ratio (center), and the whiskers outside of the box extend to the minimum and maximum abundance ratio. b The number of deglycosylated peptides containing residual HexNAc(1)dHex(1) that were identified at each time point. c The peak area of the CF biantennary glycopeptide (TEPPLnATAGDQEEK-N4H3F1, Uniprot ID: G3I973) from hypoxia upregulated protein 1 at different time points. d The peak area of the CF biantennary glycopeptide (DSYPDGnITWYR-N4H5F1S1, Uniprot ID: G3HRF8) from activated leukocyte cell adhesion molecule at different time points. e The peak area of the CF biantennary glycopeptide (nATYGHYEPGEEFHDVEDAETYKK-N3H3F1, Uniprot ID: G3ILN5) from reticulocalbin-3 at different time points. f The peak area of the non-CF glycopeptide (TEPPLnATAGDQEEK-N2H6, Uniprot ID: G3I973) from hypoxia upregulated protein 1 at different time points. g The peak area of the non-CF glycopeptide (VPFIFNINPSTTnFTGScHPQTAQLR-N4H5; Uniprot ID: G3HYW4) from lysosome-associated membrane glycoprotein 2 at different time points. h The peak area of the non-CF glycopeptide (TEPPLnATAGDQEEK-N6H3; Uniprot ID: G3I973) from hypoxia upregulated protein 1 at different time points. Core fucosylation was evidenced by the ion consisting of the peptide and the glycan moiety (HexNAc(1)dHex(1)). c carbomidomethylation of cysteine, n glycosylated site, N HexNAc, H Hex, F fucose, S sialic acid. Source data are provided as a Source Data file.
