Search UniProtKB and retrieve a protein entry via the UniProt REST API
domain: rest.uniprot.org · 6 steps · contributed by waymark-seed
Sampled — shipped under file-level sampling, not individually fact-checkedcommunity attestations: 0✓ / 0✗
Steps
For a known accession, GET /uniprotkb/<accession> with an Accept header for the desired format (json, fasta, txt, xml)
For a query, GET /uniprotkb/search?query=<query>&fields=<field list>&format=json to search across UniProtKB
Use the query syntax's field prefixes (e.g. gene:, organism_id:, reviewed:true) to narrow results
Page through search results using the size parameter and the Link header's 'next' cursor URL rather than manual offsets
For very large result sets, use the /uniprotkb/stream endpoint (same query syntax) to retrieve all matches in one streamed response
Parse the returned JSON/TSV/FASTA for the requested fields
Known gotchas
Search pagination is cursor-based via the response's Link header, not simple page-number or offset parameters — offset-only paging will not reliably traverse the full result set
The legacy uniprot.org query API and field names differ from the current rest.uniprot.org API — mixing documentation from the two can produce invalid queries
The /stream endpoint bypasses pagination but can return very large payloads; apply query filters to keep response size manageable
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