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API · /pdb-api

PDB API

healthy 4,496 Subscribers

The RCSB Protein Data Bank as an API — 3D macromolecular structures of proteins, nucleic acids and complexes, powered by the official RCSB PDB data and search services. Fetch a structure entry by its 4-character PDB id for its title, experimental method (X-ray, cryo-EM, NMR), resolution, keywords, deposit and release dates, authors, primary citation and entity & assembly counts; run full-text search across the whole archive returning matching PDB ids and the total hit count; read a polymer entity for its protein or nucleic-acid name, one-letter sequence, length, source organism, chains and linked UniProt ids; read a biological assembly for its oligomeric state, symmetry and chain & atom counts; list the ligands bound in a structure with their component ids and names; and look up any chemical component (ligand) by code for its formula, weight, SMILES and InChIKey. Ideal for structural-biology and drug-discovery tools, molecular viewers, bioinformatics pipelines, education apps and research dashboards.

#pdb #protein-structure #structural-biology #crystallography #cryo-em #bioinformatics #rcsb
api.oanor.com/pdb-api
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Machine-readable spec so AI agents can integrate this API.

/api/pdb-api/openapi.json
/api/pdb-api/llms.txt

Discovery: GET /api/index.json lists every API.

PDB API — live data on the oanor API marketplace

API health

healthy
Uptime
100.00%
Server probes · 24h
Avg latency
319 ms
Server probes · 24h
Subscribers
4,496
active
Total calls
133
last 7 days
status Full status page → · 21 probes/24h

Pricing

Pick a tier — billed monthly, cancel anytime.

Free

Free

  • 550 calls / month
  • 2 requests / second
  • Hard cap (429 above quota, no overage)
  • 550 calls/month
  • 2 req/sec
  • Structures, entities & ligands
  • No credit card
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Starter

€7.10 /month

  • 19,000 calls / month
  • 6 requests / second
  • Hard cap (429 above quota, no overage)
  • 19k calls/month
  • 6 req/sec
  • Full-text structure search
  • Email support
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Pro

€20.50 /month

  • 88,000 calls / month
  • 15 requests / second
  • Hard cap (429 above quota, no overage)
  • 88k calls/month
  • 15 req/sec
  • Assemblies & sequences
  • Priority support
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Mega

€57.00 /month

  • 340,000 calls / month
  • 40 requests / second
  • Hard cap (429 above quota, no overage)
  • 340k calls/month
  • 40 req/sec
  • High-throughput structural biology
  • Dedicated SLA
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Related APIs

Other APIs with overlapping tags.

AlphaFold API — oanor API marketplace

AlphaFold API

The AlphaFold Protein Structure Database as an API, powered by EMBL-EBI and Google DeepMind. AlphaFold predicts the three-dimensional structure of a protein from its amino-acid sequence with experimental-level accuracy, and the database now covers over 200 million proteins — nearly every sequence in UniProt. Look up the AlphaFold model for any protein by its UniProt accession and get its gene and protein description, organism and sequence length, model version and creation date, the global confidence metric, the full amino-acid sequence, and direct download links to the predicted structure as mmCIF, PDB and BinaryCIF together with the Predicted Aligned Error (PAE) plot image and data; and read a protein's structural coverage — the AlphaFold predicted model(s) and any linked structures with their provider, model category, method and the UniProt residue range covered. Ideal for structural biology, drug discovery and target assessment, protein engineering, molecular visualisation and teaching. Proteins are identified by UniProt accession (for example P00520 or P38398). Data from the AlphaFold DB (CC-BY 4.0). For experimentally-determined 3D structures see the PDB API, for protein sequences and functional annotation the UniProt API, and for families & domains InterPro.

api.oanor.com/alphafold-api

 EMDB API — oanor API marketplace

EMDB API

The Electron Microscopy Data Bank (EMDB) as an API, powered by EMBL-EBI — the public archive of three-dimensional electron-microscopy density maps of proteins, nucleic acids and large macromolecular complexes. EMDB is the electron-microscopy counterpart of the Protein Data Bank, holding maps solved by single-particle cryo-EM, electron tomography and electron crystallography, the technique behind the recent "resolution revolution" in structural biology. /v1/search?q=ribosome searches the archive and returns each matching entry's EMDB id (e.g. EMD-1010), title, electron-microscopy method and resolution in ångström. /v1/entry?id=EMD-1010 returns an entry's metadata — its title, the EM method (single particle, tomography, …), the aggregation state, the resolution, the biological sample studied, classification keywords, the deposition, map-release and last-update dates, and the depositing authors. EMDB ids look like EMD-1010, and you may pass just the number. Ideal for structural-biology and cryo-EM tools, structure-comparison and visualisation apps, and education. Data from EMBL-EBI EMDB (public domain). This is the archive of experimental electron-microscopy MAPS — distinct from atomic-coordinate structures (the PDB), predicted structures (AlphaFold) and protein-sequence databases (UniProt).

api.oanor.com/emdb-api

 Complex Portal API — oanor API marketplace

Complex Portal API

The Complex Portal as an API, powered by EMBL-EBI — a manually curated, encyclopaedic database of stable macromolecular complexes: assemblies of two or more proteins (and sometimes nucleic acids, ligands or small molecules) that work together as a single functional unit, such as ribosomes, proteasomes, RNA and DNA polymerases, the spliceosome, respiratory-chain complexes and thousands more across many species. Search the complexes by keyword and optionally by organism, getting each complex's Complex Portal accession (CPX-…), name, organism, description and whether it is computationally predicted; read a complex's full curated record including its recommended and systematic names, synonyms, species, biological function, the participating subunits each with its molecule identifier (for example a UniProt accession) and stoichiometry, any associated ligands and diseases, the evidence type and cross-references to UniProt, Gene Ontology, Reactome, Wikidata and more; and pull just the subunit composition of a complex. Ideal for structural and systems biology, pathway and network analysis, protein-function research and bioinformatics pipelines. Complex accessions look like CPX-6036. Data from EMBL-EBI Complex Portal (IMEx consortium, CC-BY). For protein–protein interaction networks see the STRING API, for protein sequences UniProt, for biological pathways Reactome and for families & domains InterPro.

api.oanor.com/complexes-api

 Bragg Diffraction API — oanor API marketplace

Bragg Diffraction API

X-ray crystallography maths as an API, computed locally and deterministically. The angle endpoint applies Bragg’s law, n·λ = 2·d·sinθ, to give the diffraction angle θ and the experimentally plotted 2θ from a crystal’s inter-planar spacing and the X-ray wavelength, defaulting to the common Cu Kα source at 0.15406 nm and reporting the highest observable order ⌊2d/λ⌋ — a 0.2 nm plane spacing diffracts Cu Kα to θ ≈ 22.65°, a 2θ peak near 45.3°. The spacing endpoint inverts the law, d = n·λ/(2·sinθ), reading the lattice spacing straight off a measured XRD peak — the everyday job of indexing a diffraction pattern, so a 2θ of 31.77° for table salt gives the 0.2814 nm (200) spacing. The wavelength endpoint solves λ = 2·d·sinθ/n to identify or calibrate the source. Lengths are entered in nanometres or ångström and angles in degrees, and any diffraction order n is supported. Everything is computed locally and deterministically, so it is instant and private. Ideal for materials-science, crystallography, mineralogy, XRD, semiconductor and solid-state-physics app developers, lattice-spacing and pattern-indexing tools, and laboratory software. Pure local computation — no key, no third-party service, instant. Live, nothing stored. 3 endpoints. This is reflection-geometry Bragg diffraction with the 2d factor; for optical double-slit and grating diffraction use a wave-optics diffraction API.

api.oanor.com/bragg-api

Frequently asked questions

Quick answers about pricing, quotas, and integration.

How do I get an API key for PDB API?
Sign up for free at oanor.com, generate an API key from the developer dashboard, and call PDB API with the x-oanor-key header. No credit card needed for the free tier.
What's the rate limit for PDB API?
Free tier allows 1 request per second. Paid plans scale up to 50 requests per second on the Mega tier. Hard limits return HTTP 429 above the quota — no surprise overage charges.
How much does PDB API cost?
PDB API has a free tier with 100 calls / month. Paid plans start at €7.10 / month with higher quotas and faster rate limits.
Can I cancel my subscription anytime?
Yes. Plans are billed monthly and you can cancel anytime from your billing dashboard. No long-term contracts and no cancellation fee.
Is PDB API GDPR-compliant?
All requests to PDB API go through our EU-based gateway. Your upstream API key never leaves our server and no personal data is shared with the upstream provider beyond the request you send.

Pick an endpoint from the list on the left to see its details and try it.

Code snippets

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curl https://api.oanor.com/pdb-api/SOME_PATH \
  -H "x-oanor-key: oanor_test_..."
const res = await fetch("https://api.oanor.com/pdb-api/SOME_PATH", {
  headers: { "x-oanor-key": "oanor_test_..." }
});
const data = await res.json();
$ch = curl_init("https://api.oanor.com/pdb-api/SOME_PATH");
curl_setopt($ch, CURLOPT_RETURNTRANSFER, true);
curl_setopt($ch, CURLOPT_HTTPHEADER, ["x-oanor-key: oanor_test_..."]);
$response = curl_exec($ch);
import requests
r = requests.get(
    "https://api.oanor.com/pdb-api/SOME_PATH",
    headers={"x-oanor-key": "oanor_test_..."},
)
print(r.json())

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