PubChem
Enables AI agents and scientific tools to interact with PubChem's vast chemical information database via the Model Context Protocol.
About
The PubChem MCP Server acts as a crucial bridge, allowing applications that understand the Model Context Protocol (MCP) – such as advanced AI assistants (LLMs), IDE extensions, or custom research tools – to seamlessly and efficiently interact with PubChem's extensive chemical database. It abstracts the complexities of the PubChem PUG REST API, providing a standardized, secure, and rate-limited interface. This empowers AI agents to automate chemical research, retrieve detailed compound properties, find similar structures, analyze bioassay results programmatically, and integrate chemical insights into AI-driven scientific discovery workflows.
Key Features
- Comprehensive PubChem PUG REST API integration with rate limiting
- 0 GitHub stars
- Advanced chemical search capabilities (identifier, structure, similarity, formula)
- Retrieval of full compound properties, substance, and bioassay details
- Generation of 2D compound structural images directly from CIDs
- Robust error handling, logging, and input validation via Zod schemas
Use Cases
- Automating chemical research and data retrieval for AI agents and LLMs
- Integrating PubChem's database into AI-driven scientific discovery platforms
- Enabling programmatic analysis of structure-activity relationships and bioassay data