Coming July 29: Improved Carbohydrate Data at the PDB

Improved Carbohydrate Data at the PDB
08 July 2020

PDB data will incorporate a new data representation for carbohydrates in PDB entries and reference data that improves the Findability and Interoperability of these molecules in macromolecular structures.

In order to remediate and improve the representation of carbohydrates across the archive, the wwPDB has:

  • standardized Chemical Component Dictionary nomenclature following IUPAC-IUBMB recommendations
  • provided uniform representation for oligosaccharides
  • adopted Glycoscience-community commonly used linear descriptors using community tools
  • annotated glycosylation sites in PDB structures

Starting July 29, 2020, users will be able to access the improved data via FTP or wwPDB partner websites. Developers of software packages that produce, access, or visualize PDB data are encouraged to review this information and adapt their software as soon as possible, as originally highlighted in the February 2020 announcement. Detailed information about this project is available at the wwPDB website; lists of impacted entries and chemical components will be published after data release.

For more information, please visit the wwPDB news page.