uniprot-database
Direct REST API access to UniProt. Protein searches, FASTA retrieval, ID mapping, Swiss-Prot/TrEMBL. For Python workflows with multiple databases, prefer bioservices (unified interface to 40+ services). Use this for direct HTTP/REST work or UniProt-specific control.
npx skills add BioTender-max/awesome-bio-agent-skills --skill uniprot-database --agent claude-code
Same command for any agent — swap --agent for codex, cursor, copilot.
Weekly change comes from our own snapshots, not the repository page — it measures attention, not adoption.
# UniProt Database ## Overview UniProt is the world's leading comprehensive protein sequence and functional information resource. Search proteins by name, gene, or accession, retrieve sequences in FASTA format, perform ID mapping across databases, access Swiss-Prot/TrEMBL annotations via REST API for protein analysis. ## When to Use This Skill This skill should be used when: - Searching for protein entries by name, gene symbol, accession, or organism - Retrieving protein sequences in FASTA or other formats - Mapping identifiers between UniProt and external databases (Ensembl, RefSeq, PDB, etc.) - Accessing protein annotations including GO terms, domains, and functional descriptions - Batch retrieving multiple protein entries efficiently - Querying reviewed (Swiss-Prot) vs. unreviewed (TrEMBL) protein data - Streaming large protein datasets - Building custom queries with field-specific search syntax ## Core Capabilities ### 1. Searching for Proteins Search UniProt using natural language queries or structured search syntax. **Common search patterns:** ```python # Search by protein name query = "insulin AND organism_name:\"Homo sapiens\"" # Search by gene name query = "gene:BRCA1 AND
- Overview
- When to Use This Skill
- Core Capabilities
- 1. Searching for Proteins
- 2. Retrieving Individual Protein Entries
- 3. Batch Retrieval and ID Mapping
- 4. Streaming Large Result Sets
- 5. Customizing Retrieved Fields
- Python Implementation
- Query Syntax Examples
- Best Practices
- Resources
- scripts/
- references/
What does the uniprot-database skill do?
Direct REST API access to UniProt. Protein searches, FASTA retrieval, ID mapping, Swiss-Prot/TrEMBL. For Python workflows with multiple databases, prefer bioservices (unified interface to 40+ services). Use this for direct HTTP/REST work or UniProt-specific control.
How do I install it?
Run `npx skills add BioTender-max/awesome-bio-agent-skills --skill uniprot-database --agent claude-code` — it drops the skill into your project so the agent can pick it up. Swap the --agent value for codex, cursor or copilot if you use one of those.
Where does this skill come from?
From BioTender-max/awesome-bio-agent-skills, a repository with 135 stars. We read it straight from the repository tree rather than a submitted listing, so what you see here is what is actually published.
Is a popular skill a good skill?
Not necessarily. Stars measure attention, not adoption — a repository can trend for a week and be abandoned. That is why we show the weekly change from our own snapshots next to the total, instead of a single flattering number.