A strategy for precise and large scale identification of core fucosylated glycoproteins.
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Jia W, Lu Z, Fu Y, Wang HP, Wang LH, Chi H, Yuan ZF, Zheng ZB, Song LN, Han HH, Liang YM, Wang JL, Cai Y, Zhang YK, Deng YL, Ying WT, He SM, Qian XH
A strategy for precise and large scale identification of core fucosylated glycoproteins.
Mol Cell Proteomics. 2009 May;8(5):913-23. doi: 10.1074/mcp.M800504-MCP200. Epub 2009 Jan 12.
- PubMed ID
- 19139490 [ View in PubMed]
- Abstract
Core fucosylation (CF) patterns of some glycoproteins are more sensitive and specific than evaluation of their total respective protein levels for diagnosis of many diseases, such as cancers. Global profiling and quantitative characterization of CF glycoproteins may reveal potent biomarkers for clinical applications. However, current techniques are unable to reveal CF glycoproteins precisely on a large scale. Here we developed a robust strategy that integrates molecular weight cutoff, neutral loss-dependent MS(3), database-independent candidate spectrum filtering, and optimization to effectively identify CF glycoproteins. The rationale for spectrum treatment was innovatively based on computation of the mass distribution in spectra of CF glycopeptides. The efficacy of this strategy was demonstrated by implementation for plasma from healthy subjects and subjects with hepatocellular carcinoma. Over 100 CF glycoproteins and CF sites were identified, and over 10,000 mass spectra of CF glycopeptide were found. The scale of identification results indicates great progress for finding biomarkers with a particular and attractive prospect, and the candidate spectra will be a useful resource for the improvement of database searching methods for glycopeptides.
DrugBank Data that Cites this Article
- Polypeptides
Name UniProt ID Prothrombin P00734 Details Type-1 angiotensin II receptor P30556 Details Dopamine beta-hydroxylase P09172 Details Potassium voltage-gated channel subfamily H member 6 Q9H252 Details Serotransferrin P02787 Details Heparin cofactor 2 P05546 Details Glutaminase kidney isoform, mitochondrial O94925 Details Alpha-2-macroglobulin P01023 Details Alpha-1-antitrypsin P01009 Details Insulin-like growth factor-binding protein 3 P17936 Details Membrane primary amine oxidase Q16853 Details E3 ubiquitin-protein ligase Mdm2 Q00987 Details Kininogen-1 P01042 Details von Willebrand factor P04275 Details Vitronectin P04004 Details Intercellular adhesion molecule 1 P05362 Details Ceruloplasmin P00450 Details Fibronectin P02751 Details Fibrinogen gamma chain P02679 Details Prolow-density lipoprotein receptor-related protein 1 Q07954 Details Cholinesterase P06276 Details Plasma protease C1 inhibitor P05155 Details Ig gamma-1 chain C region P01857 Details Beta-2-glycoprotein 1 P02749 Details Zinc-alpha-2-glycoprotein P25311 Details Scavenger receptor cysteine-rich type 1 protein M130 Q86VB7 Details Cadherin-5 P33151 Details Cholesteryl ester transfer protein P11597 Details Ig gamma-2 chain C region P01859 Details Proteasome subunit beta type-4 P28070 Details Ig alpha-2 chain C region P01877 Details Complement C4-A P0C0L4 Details Apolipoprotein D P05090 Details Ig gamma-4 chain C region P01861 Details Ig alpha-1 chain C region P01876 Details Ig mu chain C region P01871 Details Selenoprotein P P49908 Details Afamin P43652 Details Alpha-2-HS-glycoprotein P02765 Details Complement component C9 P02748 Details Complement factor H P08603 Details Complement factor I P05156 Details Clusterin P10909 Details Leucine-rich alpha-2-glycoprotein P02750 Details Kallistatin P29622 Details Pigment epithelium-derived factor P36955 Details Ficolin-3 O75636 Details Inter-alpha-trypsin inhibitor heavy chain H1 P19827 Details Immunoglobulin J chain P01591 Details A disintegrin and metalloproteinase with thrombospondin motifs 13 Q76LX8 Details Phospholipid transfer protein P55058 Details Prostaglandin-H2 D-isomerase P41222 Details Hemopexin P02790 Details Haptoglobin P00738 Details Interleukin-6 receptor subunit beta P40189 Details Hyaluronidase-4 Q2M3T9 Details