GlyComb:一种新的糖合物数据存储库,可以将糖组学和蛋白质组学联系起来
Yushi Takahashi1, Masaaki Shiota2, Akihiro Fujita2
1Department of Bioinformatics, Graduate School of Engineering, Soka University, Tokyo, Japan.
The Journal of biological chemistry
|January 4, 2024
概括
糖化分析对于了解疾病至关重要. 我们开发了GlyComb,一个FAIR数据库,以标准化和共享糖合物数据,提高研究效率和糖功能洞察力.
科学领域:
- 葡萄糖化学品和生物信息学
- 分子生物学和疾病机制
- 数据科学和公平的数据原则
背景情况:
- 蛋白质和脂质的糖化与流感,癌症和肌肉发育不良等疾病有关.
- 准确了解蛋白质的功能和相互作用需要对翻译后的修改进行分析,包括糖化.
- 高效的大规模分析需要数据的积累,共享和重复使用,遵循FAIR (可查找性,可访问性,互操作性和可重复使用性) 原则.
研究的目的:
- 为了解决缺乏标准化的FAIR数据库,用于糖合物信息.
- 介绍GlyComb,一个新的标准化数据库,用于糖合物数据.
- 建立一个全面的数据提交和共享糖化信息的系统.
主要方法:
- 开发GlyComb,这是一个标准化数据库,用于糖合物数据.
- 将独特标识符分配给与序列或UniProt ID相关的糖化信息.
- 从现有的存储库中整合糖合物数据,并与GlyTouCan和GlycoPOST等网络资源进行协调.
主要成果:
- GlyComb提供了一个标准化的格式,用于存储和共享糖合物数据.
- 独特的标识符有助于对糖和糖蛋白进行数据组织和检索.
- 该系统能够整合多样化的葡萄糖合物数据,增强对葡萄糖化模式的理解.
结论:
- 格莱科姆 (GlyComb) 建立了标准化糖合物数据管理的基础.
- 该存储库促进数据共享和重复使用,加速糖科学研究.
- 该系统将有助于更深入地了解糖甘在健康和疾病中的功能.
相关概念视频
Protein Glycosylation
6.9K
Glycosylation, the most common post-translational modification for proteins, serves diverse functions. Adding sugars to proteins makes the proteins more resistant to proteolytic digestion. Glycosylated proteins can act as markers and receptors to promote cell-cell adhesion. Additionally, they have many essential quality control functions in the cell, such as correct protein folding and facilitating transport of misfolded proteins to the cytosol, which can be degraded.
Glycosylation occurs in...
Glycosylation occurs in...
6.9K
Oligosaccharide Assembly
2.9K
Protein glycosylation starts in the ER lumen and continues in the Golgi apparatus. Glycosyltransferases catalyze the addition of sugar molecules or glycosylation of proteins. Usually, these enzymes add sugars to the hydroxyl groups of selected serine or threonine residues to form O-linked glycans or the amino groups of asparagine residues to form N-linked glycans. Different positions on the same polypeptide chain can contain differently linked glycans.
Multiple sugar molecules that may or may...
Multiple sugar molecules that may or may...
2.9K
Conjugated Proteins
18.3K
Simple proteins and protein complexes contain only amino acids. In contrast, many other proteins, called conjugated proteins, covalently bond with non-protein moieties.
Nucleoproteins are protein complexes that contain nucleic acids, categorized as deoxyribonucleoproteins (DNPs) or ribonucleoproteins (RNPs) respectively. The nucleosome is a typical example of a DNP where nuclear DNA is associated with histone proteins. The major antigen for the Covid-19 virus SARS-CoV is an RNP that is critical...
Nucleoproteins are protein complexes that contain nucleic acids, categorized as deoxyribonucleoproteins (DNPs) or ribonucleoproteins (RNPs) respectively. The nucleosome is a typical example of a DNP where nuclear DNA is associated with histone proteins. The major antigen for the Covid-19 virus SARS-CoV is an RNP that is critical...
18.3K
Proteoglycans
3.9K
Glycans, a class of complex heterogeneous molecules, can be covalently attached to proteins to form glycosylated proteins that regulate various physiological and pathological processes. Glycosylated proteins or glycoproteins comprise N-linked and O-linked oligosaccharides. O-glycosylation is the most common type of protein glycosylation. Here, glycans attach to the oxygen atom of the hydroxyl groups of Serine or Threonine residues. O-linked glycosylation occurs later in protein processing,...
3.9K
Glycocalyx and its Functions
4.1K
The glycocalyx is a carbohydrate-rich, fuzzy-appearing layer on the outer surface of the cell membrane. It is highly hydrophilic, because of this it attracts large amounts of water to the cell's surface. This aids the cell's interaction with the watery environment and also helps it to obtain substances dissolved in the water. It is also important for cell identification, self/non-self determination, and embryonic development and is used in cell-to-cell attachments to form tissues.
4.1K


