The Protein Data Bank is the single worldwide archive of structural data of biological macromolecules.
pdb
Local identifiers in PDB Structure should match this
regular expression:
^[0-9][A-Za-z0-9]{3}$
Compact URIs (CURIEs) constructed from PDB Structure should match
this regular expression:
^pdb:[0-9][A-Za-z0-9]{3}$
The metaregistry provides mappings between the Bioregistry and other registries. There are
11 mappings to external registries for pdb
with
7 unique external prefixes.
Registry Name | Registry Metaprefix | External Prefix | Curate |
---|---|---|---|
BioContext | biocontext |
PDB
|
|
EDAM Ontology | edam |
1127
|
|
FAIRSharing
|
fairsharing |
FAIRsharing.rs2815
|
|
Gene Ontology Registry | go |
PDB
|
|
Identifiers.org
![]() |
miriam |
pdb
|
|
Name-to-Thing
![]() |
n2t |
pdb
|
|
National Center for Biotechnology Information Registry | ncbi |
PDB
|
|
Prefix Commons | prefixcommons |
pdbj
|
|
Registry of Research Data Repositories | re3data |
r3d100010910
|
|
UniProt Cross-ref database | uniprot |
DB-0172
|
|
Wikidata Property
|
wikidata |
P638
|
Providers are various services that resolve CURIEs to URLs. The example CURIE
pdb:2gc4
is used to demonstrate the provides available for
pdb
. Generation of OLS and BioPortal URLs requires additional programmatic
logic beyond string formatting.
Name | Metaprefix | URI |
---|---|---|
PDB Structure | pdb |
https://www.wwpdb.org/pdb?id=2gc4 |
Bioregistry | bioregistry |
https://bioregistry.io/pdb:2gc4 |
Identifiers.org | miriam |
https://identifiers.org/pdb:2gc4 |
Name-to-Thing | n2t |
https://n2t.net/pdb:2gc4 |
None | CURATOR_REVIEW |
http://proteopedia.org/wiki/index.php/2gc4 |
None | ebi |
https://www.ebi.ac.uk/pdbsum/2gc4 |
None | pdbe |
https://www.ebi.ac.uk/pdbe/entry/pdb/2gc4 |
None | pdbj |
https://pdbj.org/mine/summary/2gc4 |
None | rcsb |
https://www.rcsb.org/structure/2gc4 |
Additional providers curated in the Bioregistry are listed here.
Code | Name | URL |
---|---|---|
CURATOR_REVIEW |
Proteopedia | http://proteopedia.org/wiki/index.php/2gc4 |
ebi |
Protein Databank through PDBsum | https://www.ebi.ac.uk/pdbsum/2gc4 |
pdbe |
Protein Databank in Europe (PDBe) | https://www.ebi.ac.uk/pdbe/entry/pdb/2gc4 |
pdbj |
Protein Data Bank Japan (PDBj) | https://pdbj.org/mine/summary/2gc4 |
rcsb |
RCSB PDB | https://www.rcsb.org/structure/2gc4 |