Developing macromolecular structure resources and tools for life science.
- Founding partner of the wwPDB.
- Manage the community-led PDBe-KB resource and the AlphaFold Protein Structure Database, a collaboration with Google DeepMind.
- Part of EMBL-EBI
Protein Data Bank in Europe (PDBe)
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🚀 The PDBe Graph Server is built for power users.
Explore the PDBe-KB Neo4j schema with AI-assisted Cypher generation - including nodes, and edges.
🔗 Graph DB:
ftp.ebi.ac.uk/pub/databases/msd/graphdb/
#Neo4j #KnowledgeGraph #PDBe #AI #Cypher
🧬 Claude isn't the only AI that can query PDBe.
PDBe MCP Servers work with other AI clients too, such as Google Antigravity.
You only need one protocol for any MCP-compatible AI.
🎥 Watch the install walkthrough 👇
📦 github.com/PDBeurope/PDBe-MCP-Servers
#PDBe #MCP #GoogleAntigravity #AI
🧬 New tutorial video drop from @EMBL_EBI!
"Similarity Metrics & Confidence Scores in Protein Structure Prediction" by Dr. Yonathan Goldtzvik- Essential for anyone using #AlphaFold 🎯
🎥 youtu.be/dVFHr0ZV4-0
#StructuralBiology #Bioinformatics #ProteinStructure #pLDDT
We told you it wouldn’t be a long wait. 👀 Even more predicted protein structures have been added to the #AlphaFold Database.
This time, the database has expanded to include heterodimers – protein complexes made up of two different proteins.
alphafold.ebi.ac.uk
Connect Claude to PDBe in 3 steps:
1️⃣ Install uv
2️⃣ Run:
uvx pdbe-mcp-server --server-type pdbe_api_server
3️⃣ Add config to Claude Desktop
Now ask:
“Find X-ray structures for UniProt P12345”
📦 github.com/PDBeurope/PDBe-MCP-Servers
#PDBe #MCP #ClaudeAI #Bioinformatics
What’s inside the PDBe MCP package?
⚡ API Server
Live structural biology data via REST-powered MCP tools
🔍 Search Server
Schema-aware Solr search across PDBe
🌐 Graph Server
Neo4j schema exploration + Cypher generation
One install.
Three servers.
Unlimited workflows.
#PDBe #MCP #Bioinformatics
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YouTube video by Protein Data Bank in Europe - PDBe
