Protein Mcp Server

Connect Remote server

claude mcp add --transport http protein-mcp-server https://protein.caseyjhand.com/mcp

{
  "mcpServers": {
    "protein-mcp-server": {
      "url": "https://protein.caseyjhand.com/mcp"
    }
  }
}

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

Settings > Connectors > Add custom connector
URL: https://protein.caseyjhand.com/mcp

Tools 7 found in our last check

• protein_search_structures

  Search experimental (PDB) and predicted (computed-model) protein structures by free text, protein sequence (triggers an mmseqs2 similarity search), and/or organism, method, resolution, and bound-ligand filters. Returns ranked hits; the experimental page is enriched with title, m…

• protein_get_structure

  Fetch structures with metadata and coordinate-file URLs. source "experimental" takes PDB entry IDs, and also resolves the computed-model IDs protein_search_structures returns (AF_*/MA_*), which come back marked source "predicted" with their modelling provider; "predicted" takes…

• protein_find_similar

  Find structurally or evolutionarily related proteins. by:"sequence" runs an RCSB mmseqs2 sequence-similarity search (synchronous; experimental PDB entries only — protein_search_structures with a sequence also reaches computed models) over a sequence — supplied directly, taken fr…

• protein_track_ligands

  Ligand discovery and binding-site analysis across the PDB. mode "find_ligand" resolves a name or formula to chemical component IDs with metadata (formula, weight, SMILES), ranked by deposition frequency — most-deposited component first, so the top hit is the most common match fo…

• protein_compare_structures

  Structurally align multiple structures (up to the configured batch cap; structures past it are returned in ignored) via the RCSB Structural Comparison service (TM-align / jFATCAT). reference:"first" aligns every structure to the first; reference:"all_pairs" computes the full pai…

• protein_analyze_collection

  Profile the PDB into distributions and trends over an optional scoping query: counts by method, organism, or polymer composition; resolution and molecular-weight histograms; release-year timelines; and multidimensional cross-tabs (e.g. method × release_year). Aggregation runs at…

• protein_get_annotations

  Sequence and functional annotation for a protein: UniProt positional features (domains, binding and active sites, PTMs including cross-links and lipidation, topology, DNA binding, processing products such as chains and signal peptides, mutagenesis), natural variants, and InterPr…

Details

More ai and media servers See all

• bv7x strategy agents

  Find bv7x prediction agents on Robinhood Chain by market; quote their sealed calls, sold via x402.

• Chronary

  Calendar API for AI agents: events, availability, Google/Microsoft setup, scheduling, and iCal.

• Mastering

  Audio mastering for AI agents: LUFS analysis, Suno artifact cleanup, free daily master.

• Modulos AI Governance Platform

  Evaluate Modulos (EU AI Act, ISO 42001, NIST AI RMF): capabilities, trust, comparisons. Book a demo.

• naulon

  Check citations and retractions by DOI, and see the x402 price an AI agent pays to cite a source.

• NextConstraint

  Your SaaS funnel's costliest leak, its fix, watchdog alerts and verdicts, from NextConstraint.