Download AlphaFold DB predicted structures and confidence files by UniProt accession.
Download PDB, CIF, and FASTA files from RCSB PDB by 4-character structure ID.
Download BindingDB binding record files by BindingDB monomer ID.
Download InterPro protein family and domain records as JSON by InterPro ID.
Download QuickGO Gene Ontology term records as JSON by GO ID.
Download UniProt protein sequence records as FASTA and JSON by accession.
PDBFixer is an OpenMM-based tool used for fixing problems in protein/DNA/RNA structure files, including adding missing atoms, adding missing residues, and fixing improper formatting.
Convert Protein Data Bank files to Crystallographic Information File format
Download ChEBI chemical entity records as JSON by ChEBI ID.
Download ChEMBL molecule records as JSON and SDF by ChEMBL compound ID.
Download AlphaFold DB predicted structures and confidence files by UniProt accession.
Download PDB, CIF, and FASTA files from RCSB PDB by 4-character structure ID.
Download BindingDB binding record files by BindingDB monomer ID.
Download InterPro protein family and domain records as JSON by InterPro ID.
Download QuickGO Gene Ontology term records as JSON by GO ID.
Download UniProt protein sequence records as FASTA and JSON by accession.
PDBFixer is an OpenMM-based tool used for fixing problems in protein/DNA/RNA structure files, including adding missing atoms, adding missing residues, and fixing improper formatting.
Convert Protein Data Bank files to Crystallographic Information File format
Download ChEBI chemical entity records as JSON by ChEBI ID.
Download ChEMBL molecule records as JSON and SDF by ChEMBL compound ID.
Configure inputs to begin
Set options on the left, then click “Fetch downloads” — or start from an example.
1IVO
1CRN
4HHB
PDBe Download fetches Protein Data Bank in Europe structure files by PDB ID. It returns PDB and CIF coordinate files in the results panel along with experimental method and resolution metadata when available.
Use this tool when you want PDBe-hosted coordinate files for visualization, structure conversion, or comparison with other structure sources.
| Input | Description |
|---|---|
Entry ID | Four-character PDB ID. Examples: 1IVO, 1CRN, 4HHB. |
| Setting | Description |
|---|---|
Database | Opens the selected database download tool. |
Output format | Return all files, PDB, or mmCIF. |
| File | Format | Use |
|---|---|---|
| PDB | .pdb | Coordinate file in PDB format. |
| CIF | .cif | Coordinate file in mmCIF format. |
The results panel lists available PDBe files as remote downloads. The Details tab records the database, entry ID, record title, file label, format, source type, filename, and URL.
Filenames follow the pattern:
pdbe-1IVO-pdb.pdb
pdbe-1IVO-cif.cifFor RCSB-hosted files and FASTA sequence downloads, use PDB Download. For extracting sequences from uploaded structures, use PDB to FASTA.
Both provide access to Protein Data Bank entries. PDBe is the European Protein Data Bank resource and offers its own APIs and entry pages.
Use CIF when possible for modern workflows. Use PDB when a downstream tool specifically requires the legacy PDB format.
The provider can search by UniProt accession in the database page, but this download tool is best used with a direct PDB ID.