biostudies-literaturePDBe-KB consortiumThe Ministry of Education, Youth and SportsAIRCEuropean Molecular Biology LaboratoryEuropean CommissionEuropean Union's Horizon 2020 ProgrammeNorwegian Research CouncilELIXIREuropean Bioinformatics InstituteSpanish Ministry of Science and InnovationFunPDBeHorizon 2020Fondazione Cassa di Risparmio di FirenzeResearch Foundation FlandersWellcome TrustBiotechnology and Biological Sciences Research CouncilNIGMS NIH HHSD534-D542https://www.ebi.ac.uk/biostudies/studies/S-EPMC8728252biostudies-literatureUnknown50(D1)The Protein Data Bank in Europe - Knowledge Base (PDBe-KB, https://pdbe-kb.org) is an open collaboration between world-leading specialist data resources contributing functional and biophysical annotations derived from or relevant to the Protein Data Bank (PDB). The goal of PDBe-KB is to place macromolecular structure data in their biological context by developing standardised data exchange formats and integrating functional annotations from the contributing partner resources into a knowledge graph that can provide valuable biological insights. Since we described PDBe-KB in 2019, there have been significant improvements in the variety of available annotation data sets and user functionality. Here, we provide an overview of the consortium, highlighting the addition of annotations such as preNucleic acids researchPDBe-KB: collaboratively defining the biological context of structural data.PMC8728252BB/T01959X/1098565/Z/12/Z101017567819318G028821N288008G042518N823839104955/Z/14/Z24316ELIXIR-CZ LM2018131PID2019-110167RB-I00BB/P024351/1G032816NBB/P023959/1IG 23539BB/K020013/1R35 GM122517INBIO CZ.02.1.01/0.0/0.0/16_026/0008451218242/Z/19/ZBednar DRadusky LGSorzano COSXue DGibson TNadzirin NKrivak RKumar MArmstrong DModi VSingh GRodriguez LADunbrack RHoksza DTosatto SCEDamborsky JThornton JTanweer ATichshenko NMcGowan SADavid ASvobodova RAnyango SPrilusky JRubach PCarazo JMPutignano VChoudhary PMacias JRSulkowska JIPepe GSrivatsan MMSternberg MSerrano LAl-Lazikani BZaidman DBarton GJAndreini CMartens LVaradi MDey SHelmer-Citterich MVelankar SRollins NJLevy EDStourac JMarks DSJakubec DRamasamy PPravda LBrock KPBerka KPiovesan DPDBe-KB consortiumMcGreig JEReuter NSkoda PRecio JFRausch AOVranken WNair SSOrengo CBerrisford JLondon NBlundell TParra RGKannan NRosato AWass MNDeshpande MHopf TFraternali FfalsePDBe-KB: collaboratively defining the biological context of structural data.The Protein Data Bank in Europe - Knowledge Base (PDBe-KB, https://pdbe-kb.org) is an open collaboration between world-leading specialist data resources contributing functional and biophysical annotations derived from or relevant to the Protein Data Bank (PDB). The goal of PDBe-KB is to place macromolecular structure data in their biological context by developing standardised data exchange formats and integrating functional annotations from the contributing partner resources into a knowledge graph that can provide valuable biological insights. Since we described PDBe-KB in 2019, there have been significant improvements in the variety of available annotation data sets and user functionality. Here, we provide an overview of the consortium, highlighting the addition of annotations such as pre2022-01-01T00:00:00Z2022 Jan2025-06-01T12:33:07.381Z2022-02-11T14:53:51.217ZS-EPMC87282523475586710.1093/nar/gkab988