InterPro Connector for AI agents.
16 live capabilities
Classify protein sequences and map functional domains across species.
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Why people use InterPro
EBI InterPro: Mapping Protein Functions for Molecular Biologists
With this Connector, you just give your agent the protein ID. It pulls the data from all those sources at once, giving you a unified view of functional domains, GO terms, and literature counts in one place. You go from a raw sequence to a functional profile in seconds.
What Vinkius changes
You get a protein domain expert inside your AI client with zero configuration.
Use it from Claude, ChatGPT, Cursor or another AI client you already have.
One account · 5,900+ Connectors
- Real-world use case 01
Identifying domains in a new protein
A molecular biologist wants to know what domains are in a new protein.
- Real-world use case 02
Mapping evolutionary conservation
An evolutionary biologist needs to see if a domain is universal.
- Real-world use case 03
Locating structural models
A structural biologist needs a 3D model of a kinase.
Complete set · 16capabilities
The complete InterPro capability set.
These are the exact actions your AI can choose when you ask it to work with InterPro.
01—04
4 capabilities in this set.
Part of 16 available through InterPro.
- 01 Capability
Get entry taxonomy
See which organisms contain a specific domain to understand its evolutionary conservation. Returns taxonomy nodes and counts.
- 02 Capability
Get cdd entry
Get curated models and alignment data for conserved domain families. Use this for detailed CDD entry information.
- 03 Capability
Get entry proteins
List all proteins in the UniProt database that match a specific InterPro entry. Useful for finding family members.
- 04 Capability
Get protein entries
Identify every InterPro domain and family associated with a specific protein. This is the core capability for protein characterization.
05—08
4 capabilities in this set.
Part of 16 available through InterPro.
- 05 Capability
Get clan
Pull accession details and member counts for Pfam super-family groupings. This helps understand clan hierarchies.
- 06 Capability
Get entry
Retrieve metadata like GO terms and literature counts for a specific family or domain. Use this for general entry info.
- 07 Capability
Get entry structures
Find all PDB structures that contain a specific protein family or domain. This helps locate structural representatives.
- 08 Capability
Get pfam entry
Fetch specific domain or family details from the Pfam database. Use this for the most widely used protein domain data.
09—12
4 capabilities in this set.
Part of 16 available through InterPro.
- 09 Capability
Get protein
Get a summary of a protein's name, length, and all its associated domain assignments. Provides a high-level protein overview.
- 10 Capability
Get proteome
Check domain coverage statistics and metadata for a specific UniProt proteome. Use this for large-scale proteome analysis.
- 11 Capability
Get structure
Pull a specific PDB structure with its mapped InterPro annotations. Use a 4-character PDB ID to get mapped data.
- 12 Capability
Get taxonomy
Get the lineage and protein counts for a specific taxonomic node. Use this to explore organism-specific protein counts.
13—16
4 capabilities in this set.
Part of 16 available through InterPro.
- 13 Capability
List entry databases
See a list of all member databases and their entry counts. Use this to understand the scope of the InterPro integration.
- 14 Capability
Search entries
Search for InterPro entries using keywords like kinase or zinc finger. Filter by entry type to find specific domains.
- 15 Capability
Search proteins
Find UniProt proteins by name or keyword to see their domain assignments. Great for finding specific proteins in the database.
- 16 Capability
Search taxonomy
Search for specific organisms by name to see their associated protein counts. Use this to find taxonomy IDs quickly.
Set up in minutes
One URL. Then ask InterPro to work.
Claude and ChatGPT only need the Connector URL. Copy it once, add it in settings, and use InterPro from the conversation.
Choose your client
Live previewAdvanced clients IDE · CLI
Claude · Web + desktop
Connector URL · ready to paste
Streamable HTTPhttps://edge.vinkius.com/vk_preview_cBrAY2Gy2NSFguudqzcAnkyhKLGxzkfF44ThKH5h/mcp - Step 01
Open Connectors
In Claude Web or Claude Desktop, open Settings and choose Connectors.
- Step 02
Add the URL
Choose Add custom connector, name it InterPro, and paste the URL above.
- Step 03
Turn it on in chat
Select +, open Connectors, and enable InterPro for the conversation.
ChatGPT · Web + desktop
Connector URL · ready to paste
Streamable HTTPhttps://edge.vinkius.com/vk_preview_cBrAY2Gy2NSFguudqzcAnkyhKLGxzkfF44ThKH5h/mcp - Step 01
Open MCP settings
On desktop, open Settings and MCP servers. On web, open your workspace app or connector settings.
- Step 02
Add the URL
Choose Add server with Streamable HTTP, or create a custom MCP app, then paste the InterPro URL.
- Step 03
Save and start
Save the connection and enable InterPro in your conversation. Desktop may ask you to restart once.
Cursor · IDE configuration
Advanced setup
{
"mcpServers": {
"ebi-interpro": {
"url": "https://edge.vinkius.com/vk_preview_cBrAY2Gy2NSFguudqzcAnkyhKLGxzkfF44ThKH5h/mcp"
}
}
}- Step 01
Open MCP Settings
Press Cmd+Shift+P (macOS) or Ctrl+Shift+P (Windows/Linux) → search "MCP Settings"
- Step 02
Add the server config
Paste the JSON configuration above into the mcp.json file that opens
- Step 03
Save the file
Cursor will automatically detect the new Connector
- Step 04
Start using InterPro
Open Agent mode in chat and ask: "Using InterPro, help me...". 16 tools available
VS Code Copilot · IDE configuration
Advanced setup
{
"mcpServers": {
"ebi-interpro": {
"url": "https://edge.vinkius.com/vk_preview_cBrAY2Gy2NSFguudqzcAnkyhKLGxzkfF44ThKH5h/mcp"
}
}
}- Step 01
Create MCP config
Create a .vscode/mcp.json file in your project root
- Step 02
Add the server config
Paste the JSON configuration above
- Step 03
Enable Agent mode
Open GitHub Copilot Chat and switch to Agent mode using the dropdown
- Step 04
Start using InterPro
Ask Copilot: "Using InterPro, help me...". 16 tools available
Windsurf · IDE configuration
Advanced setup
{
"mcpServers": {
"ebi-interpro": {
"url": "https://edge.vinkius.com/vk_preview_cBrAY2Gy2NSFguudqzcAnkyhKLGxzkfF44ThKH5h/mcp"
}
}
}- Step 01
Open MCP Settings
Go to Settings → MCP Configuration or press Cmd+Shift+P and search "MCP"
- Step 02
Add the server
Paste the JSON configuration above into mcp_config.json
- Step 03
Save and reload
Windsurf will detect the new server automatically
- Step 04
Start using InterPro
Open Cascade and ask: "Using InterPro, help me...". 16 tools available
Cline · IDE configuration
Advanced setup
{
"mcpServers": {
"ebi-interpro": {
"url": "https://edge.vinkius.com/vk_preview_cBrAY2Gy2NSFguudqzcAnkyhKLGxzkfF44ThKH5h/mcp"
}
}
}- Step 01
Open Cline MCP Settings
Click the Connectors icon in the Cline sidebar panel
- Step 02
Add remote server
Click "Add Connector" and paste the configuration above
- Step 03
Enable the server
Toggle the server switch to ON
- Step 04
Start using InterPro
Ask Cline: "Using InterPro, help me...". 16 tools available
Claude Code · Terminal command
Advanced setup
claude mcp add ebi-interpro --transport http "https://edge.vinkius.com/vk_preview_cBrAY2Gy2NSFguudqzcAnkyhKLGxzkfF44ThKH5h/mcp"- Step 01
Install Claude Code
Run npm install -g @anthropic-ai/claude-code if not already installed
- Step 02
Add the Connector
Run the command above in your terminal
- Step 03
Verify the connection
Run claude mcp to list connected servers, or type /mcp inside a session
- Step 04
Start using InterPro
Ask Claude: "Using InterPro, show me...". 16 tools are ready
Where the request belongs
Work InterPro can move forward.
This is for scientists who are tired of manually cross-referencing protein databases to find functional domains or structural data.
Molecular Biologist
Classifies unknown proteins into families and predicts functional domains during lab research.
Evolutionary Biologist
Explores taxonomic distributions of protein domains to study the tree of life.
Structural Biologist
Finds 3D structures containing specific domains for comparative analysis and modeling.
Bioinformatician
Integrates protein family classifications into automated annotation pipelines.
Build the capability set
Add more capabilities.
Each Connector adds new actions and data without changing how you work.
Browse ConnectorsUniProt
Search 250M+ protein sequences with functional annotations, gene names, subcellular locations, and amino acid data from the world's most comprehensive protein knowledge base.
EBI Proteins API
Query the UniProt knowledge base for protein sequences, annotations, and functional data across millions of characterized entries.
Ensembl
Access genomic data, gene trees, homologies, and cross-references from the Ensembl database directly from any AI agent.
EBI PDBe
Explore 3D protein structures, ligand interactions, and molecular assemblies from the Protein Data Bank in Europe.
GenBank/NCBI API
Access genomic data. audit sequences, proteins, and UIDs via IA.
KEGG
Access the Kyoto Encyclopedia of Genes and Genomes (KEGG) to query genomic, chemical, and systemic functional information directly from your AI agent.
Bring your own AI
Change the model, client or framework. Keep InterPro connected.
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Claude -
ChatGPT -
Gemini -
Cursor -
VS Code -
Windsurf -
ZCode -
Cline -
Zed -
Continue -
Kiro -
Roo Code -
Zencoder -
Goose -
Void -
Augment Code -
Amp -
Qodo -
Tabnine -
Pieces -
Sourcegraph Cody -
JetBrains -
Warp -
Amazon Q -
Antigravity -
BoltAI -
Raycast -
Jan -
LM Studio -
AnythingLLM -
Open WebUI -
Msty -
Cherry Studio -
LibreChat -
TypingMind -
Chorus -
5ire -
n8n -
LangChain -
LlamaIndex -
CrewAI -
Vercel AI SDK
Before you connect
Questions about InterPro.
The practical details behind the request, access and result.
Can the EBI InterPro MCP help me identify protein functions?
Yes, it lets you see the functional domains and families assigned to a protein. This helps you understand what a protein actually does in a cell.
Does this Connector work with Pfam and SMART?
Yes, it pulls data from over 13 databases including Pfam, SMART, and CDD. You get a unified view of all these resources.
Can I use EBI InterPro to find 3D structures?
You can use it to find PDB structures that contain specific protein domains. This is great for finding structural examples of a family.
How does EBI InterPro help with evolutionary biology?
It provides taxonomic distribution for protein domains. You can see which organisms have specific domains to study their evolution.
Do I need an API key for EBI InterPro?
No, the InterPro API is public, so you can start using this Connector immediately after connecting it to your agent.
Can I search for proteins by keyword?
Yes, you can search for proteins by name or keyword to see their domain assignments. It's a fast way to explore specific protein types.
Do I need an API key?
No. The InterPro API is completely public and requires no authentication. Enter any placeholder value in the API key field to activate the server immediately.
What databases does InterPro integrate?
InterPro integrates 13+ member databases including Pfam (protein families), CDD (conserved domains from NCBI), SMART (signalling domains), Prosite (patterns and profiles), PANTHER (evolutionary classification), Gene3D (structural domains from CATH), HAMAP (microbial families), PRINTS (fingerprints), PIRSF (classification system), SFLD (superfamilies), and NCBIfam. This gives you a unified view of protein domain and family annotations from the world's leading classification resources.
Can I find which organisms have a specific protein domain?
Yes. Use the get_entry_taxonomy capability with any InterPro accession to see the taxonomic distribution of that domain or family. This shows which organisms. from bacteria to humans. contain proteins with that specific domain. It is one of the most powerful capabilities for evolutionary biology, revealing how protein domains have been conserved or diversified across the tree of life.
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Give your agent a direct line to InterPro.
Connect InterPro once. Keep it beside 5,900+ managed Connectors when the next task needs more.
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