Interpro MCP Server

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How to connect

Add it to any MCP client that supports remote servers.

{
  "mcpServers": {
    "interpro-mcp-server": {
      "type": "http",
      "url": "https://interpro.caseyjhand.com/mcp"
    }
  }
}

9 tools

• interpro_list_reference

  List supported InterPro database slugs, entry types, accession and PDB identifier patterns, common taxon IDs, or current release information.

• interpro_search_entries

  Search InterPro entries or member signatures by text or entry type. GO filters require sourceDatabase interpro; integratedInto selects member signatures for an InterPro accession. Results are cursor-paged; use interpro_get_entry for full metadata.

• interpro_get_entry

  Retrieve one InterPro or member-database entry with full metadata by default. Select optional sections while retaining core and unknown metadata, or supply overlapLimit to page whole overlap records in upstream order; offsets are not a snapshot across calls.

• interpro_get_clan

  Retrieve a Pfam, CDD, or PIRSF clan/set and a cursor page of member entries; optionally include its relationship graph, returned in slices that fit the response budget and paged with relationshipOffset.

• interpro_get_protein_domains

  Retrieve InterPro and member-signature matches on a canonical UniProt protein, preserving every location and discontinuous fragment. Optionally select records covering a residue, include extra predicted features, and include functional residue rules with provenance. Budgeted…

• interpro_find_proteins_by_domain

  Find UniProt proteins carrying an InterPro or member signature. Defaults to reviewed human proteins; reviewedOnly=false includes all review statuses in the chosen taxon. Optional isFragment filters fragment annotations; false does not prove sequence completeness. architectureId…

• interpro_get_structure_domains

  Retrieve InterPro and member-signature matches on one PDB entry's protein chains. Each chain record keeps match locations in chain numbering (1-based start/end beside author auth_start/auth_end, which can be null), in UniProt numbering, and the chain-to-UniProt residue map, with…

• interpro_scan_sequence

  Find InterPro domain, family, and site matches for one raw protein sequence that has no UniProt accession. Sequences already in UniParc return precalculated matches at once; any other sequence starts one InterProScan 6 job, which commonly runs about ten minutes, so the usual…

• interpro_get_scan_result

  Check an InterProScan job started by interpro_scan_sequence, waiting up to waitSeconds for it to finish. Returns the matches once finished, otherwise its queued or running status to check again later. Matches are InterProScan records verbatim, 1-based and inclusive, with the…

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