ChEMBL-MCP-Server and PubChem-MCP-Server
About ChEMBL-MCP-Server
Augmented-Nature/ChEMBL-MCP-Server
A comprehensive Model Context Protocol (MCP) server providing advanced access to the ChEMBL chemical database.
Exposes 22 specialized tools for drug discovery workflows including compound similarity search, bioactivity/assay data retrieval, ADMET analysis, and substructure matching—all querying ChEMBL's REST API. Communicates via stdio transport as an MCP server, integrating directly with Claude Desktop and other MCP clients through JSON configuration. Supports batch processing and resource URI templates for seamless cross-database lookups (PubChem, DrugBank, PDB).
About PubChem-MCP-Server
Augmented-Nature/PubChem-MCP-Server
A comprehensive Model Context Protocol (MCP) server for accessing the PubChem chemical database. This server provides access to over 110 million chemical compounds with extensive molecular properties, bioassay data, and chemical informatics tools.
The server exposes 30+ tools across chemical search, structure analysis, molecular descriptors, bioassay data, and safety/toxicity information—accessible via MCP's standard protocol with URI-based resource templates like `pubchem://similarity/{smiles}`. Built in TypeScript with Axios, it implements PubChem's public REST API with built-in rate-limiting compliance (5 req/sec) and batch processing for up to 200 compounds, integrating seamlessly into drug discovery workflows alongside UniProt, ChEMBL, and AlphaFold MCP servers.
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