PDBe uses software and data from and refers to several other databases and resources in the EBI and elsewhere. These have contributed significantly to the quality of the PDBe database and its web applications. 

wwPDB

• Worldwide Protein Data Bank (wwPDB)
• RCSB PDB (US)
• Protein Data Bank Japan (PDBj)
• Biological Magnetic Resonance Data Bank (BMRB)

EBI-based resources

• UniProt
• PDBsum
• InterPro
• IntEnz (Integrated relational Enzyme database)
• Gene Ontology (GO) team
• Literature services team
• Pfam

External databases and resources

• SCOP: Structural Classification of Proteins
• CATH: Protein Structure Classification
• ExPASy Proteomics Server
• BRENDA
• NCBI Taxonomy
• PubMed
• The Uppsala Electron Density Server (EDS)
• Norine
• The DOI ^® System
• HIC-Up Hetero-compound Information Centre - Uppsala

External software

• Astex Viewer
• OpenAstexViewer Software for molecular visualisation.
• Jmol: an open-source Java viewer for chemical structures in 3D
• Highcharts JS: a charting library written in pure JavaScript
• PyMOL
• CORINA
• CACTVS
• ACD Labs
• OpenEye
• CCP4
• VEGA
• ChemAxon MolConvert