PubChem Finder MCP Server
Search PubChem by structure: a local similarity/substructure index, live PubChem data, RDKit tools
PubChem Finder scores 68 (Good), licensed MIT and written in Python. It installs as a local process. It does not declare tools yet. Filed under Knowledge. GitHub shows 6 stars. Install configs are generated for 10 clients. Being listed in the registry is not the same as being vendor-official.
Good trust
68 of 100 from six public signals. Nobody can buy a point.
- Listed in the official MCP registry.
- OSI-style license: mit.
License, quality and maintenance
Where the 68 comes from
22 + 20 + 3 + 10 + 10 + 3 = 68. Each factor is capped, so no single signal can carry a listing.
Active in the official MCP registry, plus a known vendor namespace.
Registry: 22 of 30 points.How recently the repository saw a commit or release.
Maintenance: 20 of 20 points.GitHub stars and weekly downloads, on a log scale.
Popularity: 3 of 20 points.A clear, OSI-style open-source license.
License: 10 of 10 points.Not archived, a secure install path, a pinned version.
Security: 10 of 10 points.A real summary, a README with depth, listed tools.
Docs: 3 of 10 points.Install
Pick your client, copy the config, paste it in.
Needs Cursor or VS Code installed on this device. The button opens the app and asks you to confirm before it adds the server.
{ "mcpServers": { "mysterionrise-pubchem-finder": { "command": "uvx", "args": [ "pubchem-finder" ], "env": { "PUBCHEM_FINDER_HOME": "" } } }}
Environment variables
| Name | Required | Notes |
|---|---|---|
PUBCHEM_FINDER_HOME | Optional | Data directory for the local index and the PubChem response cache (default: the platform's user data directory) |
Tools
All capabilitiesTools show up when the registry metadata or the repository README lists them. Public READMEs are read directly. A GitHub token is used only when one is already configured.
About
Search PubChem by structure: a local similarity/substructure index, live PubChem data, RDKit tools
Frequently asked questions
What is PubChem Finder MCP Server?
Search PubChem by structure: a local similarity/substructure index, live PubChem data, RDKit tools
How do I install PubChem Finder MCP Server in Claude Desktop, Cursor, or VS Code?
Pick your client in the Install section on this page and copy the generated config into the client's config file. Step-by-step guides: Claude Desktop, Cursor, and VS Code. PubChem Finder MCP Server runs locally from the PyPI package pubchem-finder with the command uvx pubchem-finder.
Is PubChem Finder MCP Server free and open source?
Yes. PubChem Finder MCP Server is released under the MIT license, an OSI-approved open-source license, so you can use, modify, and self-host it under those terms.
Does PubChem Finder MCP Server support remote (HTTP) connections?
No remote endpoint is listed for PubChem Finder MCP Server. It runs locally on your machine over stdio, started by your MCP client.
How is PubChem Finder MCP Server's trust score calculated?
PubChem Finder MCP Server scores 68 out of 100 (Good). The score adds six capped public signals: registry status, maintenance, popularity, license, documentation, and security. Nobody can pay for points. Read the methodology for the full formula.
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Paste either snippet into the repository README. The image links to this listing.
