EBI Proteins API MCP Server for Claude CodeGive Claude Code instant access to 16 tools to Get Antigen, Get Coordinates, Get Genecentric, and more

Connect to the EMBL-EBI Proteins API and access comprehensive protein biology data from one of the world's leading bioinformatics institutes.

Claude Code registers EBI Proteins API as an MCP server in a single terminal command. Once connected, Claude Code discovers all 16 tools at runtime and can call them headlessly. ideal for CI/CD pipelines, cron jobs, and automated workflows where EBI Proteins API data drives decisions without human intervention.

What you can do

• Protein Retrieval — Fetch complete protein entries by UniProt accession with names, organisms, gene information, sequences, and cross-references
• Sequence Features — Retrieve annotated domains, binding sites, active sites, signal peptides, transmembrane regions, and disulfide bonds for any protein
• Genetic Variants — Access curated variants from UniProtKB aggregated with large-scale studies including ClinVar, gnomAD, 1000 Genomes, COSMIC, and TOPMed
• Proteomics & PTMs — Query mass-spectrometry peptide evidence and post-translational modifications from PeptideAtlas, MaxQB, EPD, and ProteomicsDB
• Mutagenesis — Explore curated mutagenesis experiments with detailed phenotypic effect descriptions
• Proteomes & Taxonomy — Search reference proteomes and navigate the taxonomy tree by ID or organism name
• Genome Coordinates — Map proteins to genome positions on GRCh38/GRCh37 with Ensembl gene, transcript, and translation IDs

The EBI Proteins API MCP Server exposes 16 tools through the Vinkius. Connect it to Claude Code in under two minutes — credentials fully managed, no infrastructure to provision, no vendor lock-in. Your configuration, your data, your control.