Monitoring carbohydrate 3D structure quality with the Privateer database

Submitting author affiliation:
University of York, York, United Kingdom

Beilstein Arch. 2024, 20246. https://doi.org/10.3762/bxiv.2024.6.v1

Published 31 Jan 2024

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This preprint has not been peer-reviewed. When a peer-reviewed version is available, this information will be updated.

Abstract

The remediation of the carbohydrate data of the Protein Data Bank (PDB) has brought numerous enhancements to the findability and interpretability of deposited glycan structures, yet crucial quality indicators are either missing or hard to find on the PDB pages. Without a way to access wider glyco-chemical context, problematic structures may be taken as fact by keen but inexperienced scientists. The Privateer software is a validation and analysis tool that provides access to a number of metrics and links to external experimental resources, allowing users to evaluate structures using carbohydrate-specific methods. Here we present the Privateer database, a free resource that aims to complement the growing glycan content of the PDB.

Keywords: database, validation, polysaccharides, carbohydrates, N-glycosylation, N-glycans, website

How to Cite

When a peer-reviewed version of this preprint is available, this information will be updated in the information box above. If no peer-reviewed version is available, please cite this preprint using the following information:

Dialpuri, J. S.; Bagdonas, H.; Schofield, L. C.; Pham, P. T.; Holland, L.; Agirre, J. Beilstein Arch. 2024, 20246. doi:10.3762/bxiv.2024.6.v1

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