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bio-uniprot-access

Maintainer FreedomIntelligence · Last updated April 1, 2026

Query UniProt for protein sequences, annotations, and cross-references.

OpenClawNanoClawAnalysisReproductionbio-uniprot-access🧠 bioos extended suitebioos extended bioinformatics suitequery

Original source

FreedomIntelligence/OpenClaw-Medical-Skills

https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills/tree/main/skills/bio-uniprot-access

Maintainer: FreedomIntelligence
License: MIT
Last updated: April 1, 2026

Skill Snapshot

Key Details From SKILL.md

2 min

Key Notes

Query UniProt for protein sequences, functional annotations, and cross-references.
query = 'organism_id:9606 AND keyword:kinase AND database:pdb AND reviewed:true' results = search_uniprot(query, size=100).

Source Doc

Excerpt From SKILL.md

Query Syntax

Query	Description
`gene:TP53`	Gene name
`organism_id:9606`	Human (NCBI taxonomy)
`reviewed:true`	Swiss-Prot only
`length:[100 TO 500]`	Sequence length range
`go:0006915`	GO term (apoptosis)
`keyword:kinase`	Keyword
`ec:2.7.1.1`	Enzyme classification
`database:pdb`	Has PDB structure

Stream Large Results

def search_all(query, format='tsv', fields=None):
    '''Stream all results for large queries'''
    url = 'https://rest.uniprot.org/uniprotkb/stream'
    params = {'query': query, 'format': format}
    if fields:
        params['fields'] = ','.join(fields)
    response = requests.get(url, params=params, stream=True)
    return response.text

## Get all human proteins as TSV

all_human = search_all('organism_id:9606 AND reviewed:true',
                       fields=['accession', 'gene_names', 'protein_name'])