Back to search
100
MCP live v0.1.8 streamable-http

io.github.cyanheads/pubchem-mcp-server

io.github.cyanheads/pubchem-mcp-server

Search PubChem compounds, properties, safety data, bioactivity, and cross-references.

Uptime
13.6%
22 probes
Response
543ms
last probe
Tools
8
callable
Primary URL
https://pubchem.caseyjhand.com/mcp

Tools · 8

pubchem_search_compounds

Search PubChem for chemical compounds by identifier (name, SMILES, or InChIKey, batched up to 25), molecular formula in Hill notation, substructure or superstructure containment, or 2D Tanimoto simila…

pubchem_get_compound_details

Get detailed compound information by CID. Returns physicochemical properties (molecular weight, SMILES, InChIKey, XLogP, TPSA, etc.), optionally with a textual description (pharmacology, mechanism, th…

pubchem_get_compound_image

Fetch a 2D structure diagram (PNG image) for a compound by CID.

pubchem_get_compound_xrefs

Get external database cross-references for a compound: PubMed citations, patent IDs, gene/protein associations, registry numbers, and taxonomy IDs. Results are capped per type with total counts report…

pubchem_get_compound_safety

Get GHS (Globally Harmonized System) hazard classification and safety data for a compound. Returns signal word, pictograms, hazard statements (H-codes), and precautionary statements (P-codes). Data so…

pubchem_get_bioactivity

Get a compound's bioactivity profile: which assays tested it, activity outcomes (Active/Inactive/Inconclusive), target identifiers (NCBI Gene ID, UniProt/GenBank accession), and quantitative values (I…

pubchem_search_assays

Find PubChem bioassays associated with a biological target. Search by gene symbol (e.g. "EGFR"), protein name, NCBI Gene ID, or UniProt accession. Returns assay IDs (AIDs) which can be explored furthe…

pubchem_get_summary

Get descriptive summaries for PubChem entities by ID. Supports assays (AID), genes (Gene ID), proteins (UniProt accession), and taxonomy (Tax ID). Up to 10 per call.

How to use

Add to your Claude Desktop / Cursor / Cline MCP config:

{
  "mcpServers": {
    "io.github.cyanheads/pubchem-mcp-server": {
      "url": "https://pubchem.caseyjhand.com/mcp",
      "transport": "streamable-http"
    }
  }
}