Summary
In order to understand glycoprotein functionality, information on the structure of both the core proteins and the glycan moieties is necessary. From a practical viewpoint, glycopeptides rather than whole glycoproteins are the general targets for structural analysis, which is primarily carried out by employing mass spectrometry (MS). Using the “glycoproteomics” concept, several techniques have recently been developed to allow the preparation of a series of reference glycopeptides. In this chapter, we describe two selective capturing methods for glycopeptides, i.e., lectin-affinity chromatography and polysaccharide hydrophilic affinity physicochemical chromatography. The combined use of these methods effectively removes non-glycosylated peptides, the inclusion of which substantially interferes with glycopeptide ionization in MS analysis.
Access this chapter
Tax calculation will be finalised at checkout
Purchases are for personal use only
References
Apweiler, R., Hermjakob, H., and Sharon, N. (1999) On the frequency of protein glycosylation, as deduced from analysis of the SWISS-PROT database. Biochim. Biophys. Acta 1473, 4–8.
Yamaguchi, Y., Kato, K., Shindo, M., Aoki, S., Furusho, K., Koga, K., Takahashi, N., Arata, Y., and Shimada, I. (1998) Dynamics of the carbohydrate chains attached to the Fc portion of immunoglobulin G as studied by NMR spectroscopy assisted by selective 13C labeling of the glycans. J. Biomol. NMR 12, 385–394.
Deisenhofer, J. (1981) Crystallographic refinement and atomic models of a human Fc fragment and its complex with fragment B of protein A from Staphylococcus aureus at 2.9- and 2.8-A resolution. Biochemistry 20, 2361–2370.
Nakamura, S., Yagi, F., Totani, K., Ito, Y., and Hirabayashi, J. (2005) Comparative analysis of carbohydrate-binding properties of two tandem repeat-type Jacalin-related lectins, Castanea crenata agglutinin and Cycas revolute leaf lectin. FEBS J. 272, 2784–2799.
Hirabayashi, J., Hashidate, T., Arata, Y., Nishi, N., Nakamura, T., Hirashima, M., Urashima, T., Oka, T., Futai, M., Muller, E.W., Yagi, F., and Kasai, K. (2002) Oligosaccharide specificity of galectin: a search by frontal affinity chromatography. Biochim. Biophys. Acta 1572, 232–254.
Natsuka, S., and Hase, S. (1998) Analysis of N and O-glycans by pyridylamination. Methods Mol. Biol. 76, 101–113.
Sei, K., Nakano, M., Kinoshita, M., Masuko, T., and Kakehi, K. (2002) Collection of a1-acid glycoprotein molecular species by capillary electrophoresis and the analysis of their molecular masses and carbohydrate chains: basic studies on the analysis of glycoprotein glycoforms. J. Chromatogr. A 958, 273–281.
Kakehi, K., Kinoshita, M., Kawakami, D., Tanaka, J., Sei, K., Endo, K., Oda, Y., Iwaki, M., and Masuko, T. (2001) Capillary electrophoresis of sialic acid-containing glycoprotein: effect of the heterogeneity of carbohydrate chains on glycoform separation using an a1-acid glycoprotein as a model. Anal. Chem. 73, 2640–2647.
Hirabayashi, J. (2004) Lectin-based structural glycomics: glycoproteomics and glycan profiling. Glycoconj. J. 21, 35–40.
Huddleston, M.J., Bean, M.F., and Carr, S.A. (1993) Collisional fragmentation of glycopeptides by electrospray ionization LC/MS and LC/MS/MS: Methods for selective detection of glycopeptides in protein digests. Anal. Chem. 65, 877–884.
Carr, S.A., Huddleston, M.J., and Bean, M.F. (1993) Selective identification and differentiation of N- and O-linked oligosaccharides in glycoproteins by liquid chromatography-mass spectrometry. Protein Sci. 2, 183–196.
Harazono, A., Kawasaki, N., Itoh, N., Hashii, N., Ishii-Watabe, A., Kawanishi, T., and Hayakawa, T. (2006) Site-specific N-glycosylation analysis of human plasma ceruloplasmin using liquid chromatography with electrospray ionization tandem mass spectrometry. Anal. Biochem. 348, 259–268.
Koizumi, K. (1996) High-performance liquid chromatographic separation of carbohydrates on graphitized carbon columns. J. Chromatogr. A 720, 119–126.
Larsen, R.M., Hojrup, P., and Roepstorff, P. (2005) Characterization of gel-separated glycoproteins using two-step proteolytic digestion combined with sequential microcolumns and mass spectrometry. Mol. Cell Proteomics 4, 107–119.
Davis, M.J., Smith, K.D., Carruthers, R.A., Chai, W., Lawson, A.M., and Hounsell, E.F. (1993) Use of a porous graphitised carbon column for the high-performance liquid chromatography of oligosaccharides, alditols and glycopeptides with subsequent mass spectrometry analysis. J. Chromatogr. 646, 317–326.
Qiu, R., and Regnier, F.E. (2005) Comparative glycoproteomics of N-linked complex-type glycoforms containing sialic acid in human serum. Anal. Chem. 77, 7225–7231.
Kaji, H., Saito, H., Yamauchi, Y., Shinkawa, T., Taoka, M., Hirabayashi, J., Kasai, K., Takahashi, N., and Isobe, T. (2003) Lectin affinity capture, isotope-coded tagging and mass spectrometry to identify N-linked glycoproteins. Nat. Biotech. 21, 667–672.
Tajiri, M., Yoshida, S., and Wada, Y. (2005) Differential analysis of site-specific glycans on plasma and cellular fibronectins: application of a hydrophilic affinity method for glycopeptide enrichment. Glycobiology 15, 1332–1340.
Wada, Y., Tajiri, M., and Yoshida, S. (2004) Hydrophilic affinity isolation and MALDI multiple-stage tandem mass spectrometry of glycopeptides for glycoproteomics. Anal. Chem. 76, 6560–6565.
Shimizu, Y., Nakata, M., Kuroda, Y., Tsutsumi, F., Kojima, N., and Mizuochi, T. (2001) Rapid and simple preparation of N-linked oligosaccharides by cellulose-column chromatography. Carbohydr. Res. 332, 381–388.
Acknowledgments
This work was supported in part by New Energy and Industrial Technology Development Organization (NEDO) in Japan.
Author information
Authors and Affiliations
Corresponding author
Editor information
Editors and Affiliations
Rights and permissions
Copyright information
© 2009 Humana Press, a part of Springer Science+Business Media, LLC
About this protocol
Cite this protocol
Ito, S., Hayama, K., Hirabayashi, J. (2009). Enrichment Strategies for Glycopeptides. In: Packer, N.H., Karlsson, N.G. (eds) Glycomics. Methods in Molecular Biology™, vol 534. Humana Press, Totowa, NJ. https://doi.org/10.1007/978-1-59745-022-5_14
Download citation
DOI: https://doi.org/10.1007/978-1-59745-022-5_14
Published:
Publisher Name: Humana Press, Totowa, NJ
Print ISBN: 978-1-58829-774-7
Online ISBN: 978-1-59745-022-5
eBook Packages: Springer Protocols