Close this search box.

Leveraging glycomics data in glycoprotein 3D structure validation


Haroldas Bagdonas, Daniel Ungar, Jon Agirre


Beilstein Journal of Organic Chemistry 2020, 16, 2523-2533

The heterogeneity, mobility and complexity of glycans in glycoproteins have been, and currently remain, significant challenges in structural biology.
These aspects present unique problems to the two most prolific techniques: X-ray crystallography and cryo-electron microscopy. At the same time, advances in mass spectrometry have made it possible to get deeper insights on precisely the information that is most difficult to recover by structure solution methods: the full-length glycan composition, including linkage details for the glycosidic bonds. The developments have given rise to glycomics. Thankfully, several large scale glycomics initiatives have stored results in publicly available databases, some of which can be accessed through API interfaces. In the present work, we will describe how the Privateer carbohydrate structure validation software has been extended to harness results from glycomics projects, and its use to greatly improve the validation of 3D glycoprotein structures.

Latest news

In biological systems, vascular networks play a pivotal role in regulating the chemical compositions of...

Amylose, a linear polymer comprised of α-1,4-linked glucopyranose units, is renowned for its propensity to...

Algae play an important ecological role as oxygen producers and carbon sequesters and are the...

Streptococcus gordonii is a Gram-positive bacterial species that typically colonizes the human oral cavity, but...