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The paper describes the preparation and characterization of a new HILIC material for the enrichment of N-linked glycopeptides. The material was prepared using 2-acrylamido-2-methyl-1-propanesulfonic acid as the monomer and ethylene glycol dimethacrylate as the cross-linker. The material was developed by a Box-Behnken experimental design, taking into consideration the amount of monomer-to-crosslinker ratio, the composition, and the amount of porogen mixture. By this approach, the property of the resulting polymer could be fine-tuned to modulate the hydrophilicity and porosity. As HILIC enrichment is mostly dependent on hydrophilic interactions, including H-bonding, the amount of swelling was expected to have an important function, therefore the optimization considered a monomer percent in the range of 20-80%, which implied very different water swelling capacities. After assessing the potential of this new polymer family on fetuin digests, the 17 materials resulting from the Box-Behnken experimental design were used for the enrichment of glycopeptides from serum protein digests. The materials displayed a superior performance over cotton HILIC enrichment, both in terms of the number of enriched N-linked glycopeptides and selectivity, providing up to 762 N-linked glycopeptides with 77% selectivity. The optimization indicated that a high amount of monomer significantly affected the number of enriched glycopeptides, which is also closely connected with the hydrogel nature of the resulting polymers. The results not only provide one additional HILIC material for the enrichment of glycopeptides but also pave the way for the use and development of hydrogel materials for the enrichment of N-linked glycopeptides.
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http://dx.doi.org/10.1016/j.aca.2023.340862 | DOI Listing |
J Biol Chem
August 2025
Institute of Plant Biotechnology and Cell Biology, Department of Biotechnology and Food Sciences, BOKU University; Vienna, Austria. Electronic address:
N-glycosylation is essential for protein folding in the endoplasmic reticulum (ER). Glycan attachment facilitates the binding of newly synthesised polypeptides to calnexin and calreticulin, two ER-resident lectins that act as chaperones and promote folding. The regulatory mechanism underlying this process is dictated by the glycan composition, and this study has elucidated the function of mannose trimming in the release of misfolded glycoprotein from ER quality control and subsequent transfer to ER-associated degradation (ERAD) in plants.
View Article and Find Full Text PDFMethods Mol Biol
August 2025
Department of Organic Chemistry, Arrhenius Laboratory, Stockholm University, Stockholm, Sweden.
In posttranslational modifications of proteins and peptides by glycosylation, the two major classes are N-linked and O-linked glycans. The sugar residue proximal to the peptide chain is in N-glycans linked to L-asparagine, and in O-linked glycans, it is linked to either L-serine, L-threonine, or L-tyrosine, although other amino acids may be glycosylated. Identifying and assigning the H and C nuclear magnetic resonance (NMR) chemical shifts of these glycoconjugates are a prerequisite for structural characterization as well as for subsequent conformational and interaction studies thereof.
View Article and Find Full Text PDFTalanta
July 2025
State Key Laboratory of Medical Proteomics, National Chromatographic R. & A. Center, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, Dalian, 116023, China; University of Chinese Academy of Sciences, Beijing, 100049, China. Electronic address:
Protein glycosylation is a critical post-translational modification, and knowledge of site-specific glycoforms is essential for developing biomarkers and therapeutic drugs. Although LC-MS/MS-based glycoproteomics strategies enable the identification of site-specific glycoforms at proteomics scale, their coverage is still low largely because of the poor glycopeptide enrichment performance. HILIC is thought to allow "unbiased" enrichment of intact glycopeptides, and it is broadly used to analyze the site-specific glycoforms at proteomics scale.
View Article and Find Full Text PDFJ Proteome Res
August 2025
Protein Metrics LLC, Boston, Massachusetts 02110, United States.
Mass spectrometry is widely used for studying proteins and glycoproteins. For glycoproteins, successful data interpretation using database search requires a complete glycan database─a condition that is often not satisfied. We present here software that builds improved glycan databases by constructing a sample-specific glycan database based on the mass spectrometry data itself, rather than relying solely on existing glycan databases.
View Article and Find Full Text PDFAnal Chem
July 2025
Sciex, 71 Four Valley Dr., Concord, Ontario L4K 4 V8, Canada.
In previously reported electron capture dissociation (ECD) mass spectrometry of linked glycopeptides, ECD did not provide efficient backbone fragmentation between the two glycans in a single peptide, which did not allow the assignment of a correct sugar composition in each glycan. In this study, we found hydrogen bonds and proton-bound interactions between two -glycans, so the backbone fragments between the two -glycans were not observed, although the backbone was cleaved. Such behavior is typical for precursor ions produced by conventional electrospray ionization.
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