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API · /emdb-api

EMDB API

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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).

#emdb #cryo-em #electron-microscopy #structural-biology #embl-ebi #density-maps #bioinformatics
api.oanor.com/emdb-api
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Machine-readable spec so AI agents can integrate this API.

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

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

API health

healthy
Uptime
100.00%
Server probes · 24h
Avg latency
202 ms
Server probes · 24h
Subscribers
3,751
active
Total calls
6
last 7 days
status Full status page → · 9 probes/24h

Pricing

Pick a tier — billed monthly, cancel anytime.

Free

Free

  • 2,300 calls / month
  • 2 requests / second
  • Hard cap (429 above quota, no overage)
  • 2300 calls/month
  • 2 req/sec
  • Search & entry metadata
  • No credit card
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Starter

€7.00 /month

  • 49,000 calls / month
  • 5 requests / second
  • Hard cap (429 above quota, no overage)
  • 49k calls/month
  • 5 req/sec
  • Method & resolution
  • Email support
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Pro

€21.00 /month

  • 215,000 calls / month
  • 12 requests / second
  • Hard cap (429 above quota, no overage)
  • 215k calls/month
  • 12 req/sec
  • Structure tools & viewers
  • Priority support
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Mega

€58.00 /month

  • 790,000 calls / month
  • 35 requests / second
  • Hard cap (429 above quota, no overage)
  • 790k calls/month
  • 35 req/sec
  • High-throughput structural biology
  • Dedicated SLA
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Related APIs

Other APIs with overlapping tags.

PDB API

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.

api.oanor.com/pdb-api

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

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

BioSamples API

BioSamples as an API, powered by EMBL-EBI — the database that stores and links the metadata of biological samples, the physical specimens behind biological experiments. A sample in BioSamples carries a stable accession (such as SAMEA3231268) and a rich set of characteristics — organism, tissue or organism part, cell type, sex, disease, developmental stage, strain and any submitter-provided attributes — and is referenced by other EBI archives including the European Nucleotide Archive (ENA), ArrayExpress and PRIDE. /v1/search?q=liver searches samples by free text and returns each match's accession, name, organism and release date. /v1/sample?id=SAMEA3231268 returns a sample's metadata — its accession, name, NCBI taxon id, organism, release and update dates, the number of relationships to other samples, and its characteristics flattened to a clean key→value map. Accessions look like SAMEA…, SAMN… or SAMD…; get one from the search endpoint. Ideal for life-science data integration, sample tracking, metadata harmonisation and linking sequencing or expression data back to its source specimen. Data from EMBL-EBI BioSamples (public). This is a biological-sample metadata registry — distinct from study (BioStudies), sequence (ENA), variant (ClinVar) and structure databases.

api.oanor.com/biosamples-api

Frequently asked questions

Quick answers about pricing, quotas, and integration.

How do I get an API key for EMDB API?
Sign up for free at oanor.com, generate an API key from the developer dashboard, and call EMDB API with the x-oanor-key header. No credit card needed for the free tier.
What's the rate limit for EMDB 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 EMDB API cost?
EMDB API has a free tier with 100 calls / month. Paid plans start at €7.00 / 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 EMDB API GDPR-compliant?
All requests to EMDB 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

Sign up to get an API key, then call any path under your slug.

curl https://api.oanor.com/emdb-api/SOME_PATH \
  -H "x-oanor-key: oanor_test_..."
const res = await fetch("https://api.oanor.com/emdb-api/SOME_PATH", {
  headers: { "x-oanor-key": "oanor_test_..." }
});
const data = await res.json();
$ch = curl_init("https://api.oanor.com/emdb-api/SOME_PATH");
curl_setopt($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/emdb-api/SOME_PATH",
    headers={"x-oanor-key": "oanor_test_..."},
)
print(r.json())

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