Best Alternatives to Interpro

Rosetta MCP Server

Runtime: uvx

Rosetta/PyRosetta protein modeling and Biotite translation for computational biology

Medplum MCP

Runtime: Remote (SSE)

Securely access and manage FHIR healthcare data stored in Medplum.

PDBe (Protein Data Bank in Europe, EBI) MCP.

Protein MCP Server

Runtime: bunx

Federated protein structure & function across experimental (PDB) and predicted (AlphaFold) models.

Chembl MCP Server

Runtime: bunx

Link compounds to protein targets, rank bioactivity, and look up drug mechanisms and indications.

Pubmed MCP Server

Runtime: bunx

Comprehensive PubMed MCP Server to search, retrieve, and analyze biomedical literature from NCBI.

Galaxy MCP

Runtime: uvx

MCP server for Galaxy bioinformatics platform - connect, execute tools, and manage workflows

Spiderbrain

Runtime: npx

Deterministic context layer for your codebase: change impact, blast radius, answers with receipts.

AlphaFold DB MCP — predicted protein structures.

Uniprot MCP Server

Runtime: bunx

Protein research over UniProtKB — search by function, fetch curated records, map IDs, proteomes.

Prism

Runtime: npx

Local-first repo intelligence for agents: DNA, health, blast radius, and Dispatch jobs.

Dieta.ai

Runtime: Remote (SSE)

Nutrition tracking by Dieta.ai. Read your food log with macros (calories, protein, carbs, fat, fiber