Pubchem Mcp Server
Connect your agent to PubChem for compound search, properties, safety sheets, bioactivity, and cross-references while building chemistry-aware software.
Overview
PubChem MCP Server is a Build-phase MCP server that lets agents search PubChem for compounds, properties, safety data, bioactivity, and cross-references.
What is this MCP server?
- Searches PubChem compounds with properties, safety, and bioactivity fields
- Returns cross-references useful for linking compounds to other biomedical IDs
- npm @cyanheads/pubchem-mcp-server v0.2.2 with stdio and streamable-http
- Hosted remote https://pubchem.caseyjhand.com/mcp for agents without local Bun
- MCP_LOG_LEVEL tuning for development sessions
- Package version 0.2.2
- npm identifier @cyanheads/pubchem-mcp-server
- Hosted remote: https://pubchem.caseyjhand.com/mcp
Community signal: 9 GitHub stars.
What problem does it solve?
Agents invent compound IDs and safety facts when you are building chemistry features and need real PubChem records.
Who is it for?
Indie devs shipping cheminformatics demos, research assistants, or internal tools that need fast PubChem lookups during coding.
Skip if: Regulated chemical compliance programs that require audited SDS distribution without human validation.
What do I get? / Deliverables
Your agent returns PubChem-backed compound and property answers inside MCP tool calls so your app logic and prompts stay tied to NIH data.
- MCP tools for PubChem search, properties, safety, bioactivity, and cross-refs
- Agent config using stdio, local HTTP, or caseyjhand hosted endpoint
Recommended MCP Servers
Journey fit
PubChem access is wired when you implement product or agent features that need live compound intelligence, which is squarely in Build. Integrations fits because the server is an MCP façade over NIH PubChem web services, not a standalone cheminformatics UI.
How it compares
Live PubChem MCP connector, not a desktop chemdraw clone or a proprietary compound database.
Common Questions / FAQ
Who is io.github.cyanheads/pubchem-mcp-server for?
Builders and researchers who use AI agents to write code or analyses that must cite real PubChem compound and safety data.
When should I use io.github.cyanheads/pubchem-mcp-server?
Use it in Build when implementing features that search compounds, pull properties, read bioactivity summaries, or follow PubChem cross-references.
How do I add io.github.cyanheads/pubchem-mcp-server to my agent?
Configure @cyanheads/pubchem-mcp-server with Bun (start:stdio or local HTTP) or register remote URL https://pubchem.caseyjhand.com/mcp in your MCP client.