OGP: A Repository of Experimentally Characterized O-glycoproteins to Facilitate Studies on O-glycosylation

Jiangming Huang; Mengxi Wu; Yang Zhang; Siyuan Kong; Mingqi Liu; Biyun Jiang; Pengyuan Yang; Weiqian Cao

doi:10.1016/j.gpb.2020.05.003

OGP: A Repository of Experimentally Characterized O-glycoproteins to Facilitate Studies on O-glycosylation

Genomics Proteomics Bioinformatics. 2021 Aug;19(4):611-618. doi: 10.1016/j.gpb.2020.05.003. Epub 2021 Feb 10.

Authors

Jiangming Huang¹, Mengxi Wu¹, Yang Zhang¹, Siyuan Kong², Mingqi Liu², Biyun Jiang¹, Pengyuan Yang³, Weiqian Cao⁴

Affiliations

¹ Department of Chemistry and Institutes of Biomedical Sciences, Fudan University, Shanghai 200032, China; The Fifth People's Hospital, Fudan University, and the Shanghai Key Laboratory of Medical Epigenetics, the International Co-laboratory of Medical Epigenetics and Metabolism, Ministry of Science and Technology, Fudan University, Shanghai 200032, China.
² Department of Chemistry and Institutes of Biomedical Sciences, Fudan University, Shanghai 200032, China.
³ Department of Chemistry and Institutes of Biomedical Sciences, Fudan University, Shanghai 200032, China; The Fifth People's Hospital, Fudan University, and the Shanghai Key Laboratory of Medical Epigenetics, the International Co-laboratory of Medical Epigenetics and Metabolism, Ministry of Science and Technology, Fudan University, Shanghai 200032, China; NHC Key Laboratory of Glycoconjugates Research (Fudan University), Shanghai 200032, China. Electronic address: pyyang@fudan.edu.cn.
⁴ Department of Chemistry and Institutes of Biomedical Sciences, Fudan University, Shanghai 200032, China; The Fifth People's Hospital, Fudan University, and the Shanghai Key Laboratory of Medical Epigenetics, the International Co-laboratory of Medical Epigenetics and Metabolism, Ministry of Science and Technology, Fudan University, Shanghai 200032, China; NHC Key Laboratory of Glycoconjugates Research (Fudan University), Shanghai 200032, China. Electronic address: wqcao@fudan.edu.cn.

Abstract

Numerous studies on cancers, biopharmaceuticals, and clinical trials have necessitated comprehensive and precise analysis of protein O-glycosylation. However, the lack of updated and convenient databases deters the storage of and reference to emerging O-glycoprotein data. To resolve this issue, an O-glycoprotein repository named OGP was established in this work. It was constructed with a collection of O-glycoprotein data from different sources. OGP contains 9354 O-glycosylation sites and 11,633 site-specific O-glycans mapping to 2133 O-glycoproteins, and it is the largest O-glycoprotein repository thus far. Based on the recorded O-glycosylation sites, an O-glycosylation site prediction tool was developed. Moreover, an OGP-based website is already available (https://www.oglyp.org/). The website comprises four specially designed and user-friendly modules: statistical analysis, database search, site prediction, and data submission. The first version of OGP repository and the website allow users to obtain various O-glycoprotein-related information, such as protein accession Nos., O-glycosylation sites, O-glycopeptide sequences, site-specific O-glycan structures, experimental methods, and potential O-glycosylation sites. O-glycosylation data mining can be performed efficiently on this website, which will greatly facilitate related studies. In addition, the database is accessible from OGP website (https://www.oglyp.org/download.php).

Keywords: Data mining; O-glycoprotein related website; O-glycoprotein repository; O-glycosylation; Site prediction.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Databases, Protein
Glycoproteins* / chemistry
Glycoproteins* / metabolism
Glycosylation

Substances

Glycoproteins