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Connect Ebi Interpro to ChatGPT, Claude and Gemini

Set it up once and it works in ChatGPT, Claude, Cursor, and any other client you love. It all runs safely in the background, so you can relax and focus on what really matters. Turn your AI agent into a functional genomics expert.

Ask AI about this Connector

Developed, maintained, and hosted by Vinkius.

MCP VERIFIED · PRODUCTION READY · VINKIUS GUARANTEED

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Works with modern AI clients that support MCP, including ChatGPT, Claude, Cursor, and more.

ChatGPTClaudeCursorPerplexityGeminiMicrosoft CopilotRaycastMeta AI

Your AI does the work. We keep it safe and sound.

No other AI tool gives you this. Your workflow runs in the client you already love, your account stays protected, and you decide what the agent can and cannot do. It is the whole reason to make the switch.

Each Connector lives inside our infrastructure, the same place where your workflow runs. The three things below are already part of it, working quietly in the background so you never have to think about them. Nothing to add, nothing to set up, nothing to worry about.

A futuristic MCP client docking bay
V8 Isolate01

Each Connector runs inside its own sealed environment.

Each Connector runs inside its own sealed V8 runtime — no access to your files, your system, or other servers. A Connector never sees past its own request.

Kill Switch02

One switch stops every agent. Instantly.

One action deactivates every Connector, revokes every token, and ends every session at once. AI Governance keeps the record.

FinOps per User03

Spending limits that pause instead of surprise.

Every user keeps their own connections and credentials, isolated from everyone else. Anything that would cross your spending limit is held for your approval, not billed.

Three controls, built into the layer your AI connects through.

Curated set · 16 capabilities

We ship only the actions that matter.

Capability set01 / 04

01-04

4 capabilities in this set.

Part of 16 available through InterPro.

  1. 01

    Get cdd entry

    Accesses the Conserved Domain Database for specific entry details. It provides curated models, alignment data, and structural information using accessions like cd00001.

  2. 02

    Get clan

    Retrieves Pfam clan information. Use this to get descriptions and member counts for super-family groupings like CL0001.

  3. 03

    Get entry

    Fetches metadata for a specific InterPro family or domain. It returns descriptions, Gene Ontology terms, and literature counts for accessions like IPR000001.

  4. 04

    Get entry taxonomy

    Queries the taxonomic distribution of an InterPro entry. This tells you which organisms contain specific domains or families.

Capability set02 / 04

05-08

4 capabilities in this set.

Part of 16 available through InterPro.

  1. 05

    Get protein entries

    Identifies all InterPro domains and families associated with a specific protein. This is the primary capability for protein characterization.

  2. 06

    Get proteome

    Retrieves details for a specific proteome using UniProt IDs. It includes domain coverage statistics and organism information.

  3. 07

    List entry databases

    Lists all member databases within InterPro. Use this to see the entry counts and scope of the integrated databases.

  4. 08

    Search entries

    Searches the InterPro database using keywords. You can filter results by type, such as family, domain, or site.

Capability set03 / 04

09-12

4 capabilities in this set.

Part of 16 available through InterPro.

  1. 09

    Search proteins

    Finds proteins by name or keyword. It returns UniProt accessions, lengths, and organism data.

  2. 10

    Get entry proteins

    Lists all proteins that match a specific InterPro entry. This helps you find all members of a protein family across UniProt.

  3. 11

    Get entry structures

    Finds PDB structures that match a specific InterPro entry. Use this to locate structural representatives of a domain.

  4. 12

    Get pfam entry

    Accesses specific Pfam domain or family details. It works with Pfam accessions like PF00069.

Capability set04 / 04

13-16

4 capabilities in this set.

Part of 16 available through InterPro.

  1. 13

    Get protein

    Provides a complete profile for a single protein. It includes domain assignments, organism info, and evidence levels.

  2. 14

    Get structure

    Retrieves a specific PDB structure. It includes mapped InterPro annotations for the given 4-character PDB ID.

  3. 15

    Get taxonomy

    Fetches information for a specific taxonomic node. It returns the lineage, rank, and associated protein counts.

  4. 16

    Search taxonomy

    Searches for organisms by name. It returns taxon IDs, ranks, and annotation counts.

Real work

What teams actually run

01

Functional Prediction

Identify the likely function of a newly sequenced protein by finding its constituent domains.

02

Comparative Genomics

Compare how a specific protein family is distributed across different species or kingdoms.

03

Structural Biology Research

Locate specific PDB structures that represent a domain of interest for modeling.

04

Automated Annotation

Use your agent to batch-process protein lists and extract functional metadata.

Automate a task

Put InterPro to work on one thing.

Step-by-step automations your AI runs through this Connector: the workflow, the prompts to start with, and the exact capabilities behind each move.

One connector, every AI

InterPro works with the most popular AI clients.

These are the most popular clients, each with a step-by-step guide: one link, set up once, with governance and visibility built in. And because everything runs on the MCP standard, the same connection also works in any other compatible client — nothing to rebuild.

ClaudeClaudeChatGPTChatGPTGeminiGeminiPerplexityPerplexityGrokGrokMicrosoft CopilotMicrosoft CopilotCursorCursorVS CodeVS CodeWindsurfWindsurfJetBrainsJetBrainsClineClineLangChainLangChainVercel AI SDKVercel AI SDKLovableLovableZ.aiZ.aiRaycastRaycastQwen CodeQwen CodeKimi CodeKimi CodeLe ChatLe Chat

Building your own app? The connector is yours to use.

You don't need a client to put InterPro to work: the same hosted connection plugs into your own applications and agent code, with the same governance on every request. Build with it, chat with it — one connection for both.

Observed, not estimated

1019ms average. Fast in production.

InterPro is checked daily against the live service.

Daily averagePeak 1236ms
Oct 3Today
Fastest day
837ms
Slowest day
1236ms
14-day trend
Slowing+13%

Connect your client

One URL. Every client.

Activate the Connector, copy your link, and paste it into the client you already use. 16 capabilities arrive ready to run.

Preview access · not provider authentication

The vk_preview_* token belongs to Vinkius preview infrastructure. It lets Claude discover and display the capabilities of InterPro, so you can see the experience inside your AI.

It does not authenticate your account with InterPro. Actions requiring credentials or live account data may not run until you activate the Connector and authorize the service.

InterPro Connector

You're all set. Choose your MCP client and follow the setup instructions.

Connector linkhttps://edge.vinkius.com/vk_preview_cBrAY2Gy2NSFguudqzcAnkyhKLGxzkfF44ThKH5h/mcp

Claude Desktop

Follow the steps below to connect in seconds.

  1. 1In Claude Desktop, open Settings → Connectors.
  2. 2Click “Add custom connector” and paste the connector link above as the remote MCP server URL.
  3. 3Click Add and start a new chat — InterPro capabilities are ready to use.
Configuration · claude_desktop_config.jsonCopy
{
  "mcpServers": {
    "ebi-interpro-mcp": {
      "url": "https://edge.vinkius.com/vk_preview_cBrAY2Gy2NSFguudqzcAnkyhKLGxzkfF44ThKH5h/mcp"
    }
  }
}
  • Claude
  • ChatGPT
  • Cursor
  • VS Code
  • Windsurf
  • Claude Code
  • JetBrains
  • Cline

Step-by-step instructions for each client are in the guide. How to connect

Guided setup for Claude? Set up InterPro in Claude and other AIs

See all the AI clients this connector works with ↑

Who it's for

Built for the work InterPro owners hand off.

This MCP is built for researchers working in genomics, structural biology, and bioinformatics.

  • 01

    Molecular Biologists

    They use the agent to classify unknown proteins and predict functional domains.

  • 02

    Evolutionary Biologists

    They use the agent to study the taxonomic distribution of protein families.

  • 03

    Bioinformaticians

    They use the agent to automate protein annotation and data retrieval tasks.

FAQ

Questions InterPro owners ask.

  • 01

    Do I need an API key to use this MCP?

    No. The InterPro API is public, so no credentials are required to start querying.

  • 02

    Which AI clients can use this MCP?

    You can use this with any MCP-compatible client, including Claude, Cursor, and Windsurf.

  • 03

    Where does the protein data come from?

    All data is sourced directly from the official InterPro REST API maintained by EMBL-EBI.

  • 04

    Can I find PDB structures using this capability?

    Yes. You can use the get_entry_structures capability to find PDB IDs that match specific InterPro entries.

  • 05

    Does this include Pfam data?

    Yes. Pfam is one of the integrated member databases that this MCP accesses.

  • 06

    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.

  • 07

    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.

  • 08

    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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