Linking UniProtKB proteins to structures via PDBe-KB

Uniprot entry links to PDBe-KB protein pages
21 October 2019

The PDBe and Protein Function teams at EMBL-EBI are pleased to announce that UniProtKB entry pages now have direct links to PDBe-KB’s aggregated views for proteins.

The protein-centric aggregated views pages at PDBe-KB allow you to easily see all the PDB structures which are available for each UniProtKB entry. These pages show all the interactions of this protein observed in PDB structures, with ligands and other macromolecules, including DNA and RNA. Visitors to UniprotKB entry pages can now link directly to these PDBe-KB pages, from the 'Structure' section of the UniprotKB entry, and discover the related protein structure information available for this protein.

For example, the CREB-binding protein (CREBBP) is a 2426 amino acid long, multi-domain protein, and the various segments of the full-length protein are available in 91 PDB entries. The PDBe-KB aggregated view for CREBBP makes it clear which segments are covered by which PDB entries, highlights the observed ligand binding sites and macromolecular interaction interfaces, and shows additional functional annotations contributed by PDBe-KB partners. You can try it out yourself by visiting the PDBe-KB proteins page and providing either a PDB or UniprotKB accession.

See the whole story behind PDBe-KB in the newly released publication in the 2020 Database Issue of Nucleic Acids Research, or watch our PDBe-KB webinar on YouTube.