• TAXONOMY
  • CONSERVATION
  • PROTEIN LIST
  • HUMAN

How to map protein family distribution with your AI

Connect EBI InterPro to your AI client to pull domain data and taxonomic presence across the tree of life.

Ask AI about this page

Short answer

How can I map protein family distribution with my AI?

Your AI uses EBI InterPro to identify specific protein domains and then checks which organisms contain them. You get a clear view of how these families are distributed across different taxonomic groups.

The analysis results

Where your data lands

Once you run these queries, your AI organizes the data into these specific views.

TAXONOMY

Taxonomic presence

The AI identifies which branches of the tree of life host your target domain. You see exactly where a protein family is present or absent.

CONSERVATION

Evolutionary patterns

By comparing domain presence across species, your AI highlights conserved regions. This shows you which protein features are essential across diverse organisms.

PROTEIN LIST

Specific protein hits

The AI pulls a list of individual proteins associated with a specific entry. You get the raw protein data tied to the domain you are studying.

HUMAN

Manual validation

You review the AI's taxonomic groupings to ensure the evolutionary context makes sense. The AI handles the data retrieval, but you make the biological calls.

The workflow

What your AI does when the request arrives.

The AI moves from a single domain entry to a full taxonomic map.

  1. Identify the domain

    The AI starts by looking up the specific protein domain or family entry you want to study.

    get_entry_taxonomy

  2. Find associated proteins

    It pulls the specific protein sequences or identifiers linked to that domain entry.

    get_entry_proteins

  3. Map the organisms

    The AI uses the taxonomy data to see which species carry these proteins.

    get_entry_taxonomy

  4. Filter by species

    If you need to narrow the scope, the AI searches for specific taxonomic groups to refine the distribution map.

    search_taxonomy

Try it

Copy these to start.

Use these prompts to kick off your analysis.

Starting points

Replace the bracketed text with your specific InterPro IDs or taxonomic names.

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"
    }
  }
}
Copy into chat04

  • Find the taxonomic distribution for InterPro entry [ID].

  • List all proteins associated with the [Domain Name] family.

  • Check if the [Domain Name] domain is present in the [Taxon Name] lineage.

  • Compare the protein distribution of [ID] against the [Taxon Name] taxonomy.

  • Claude
  • ChatGPT
  • Cursor
  • VS Code
  • Windsurf
  • Claude Code
  • JetBrains
  • Cline

Start here

Connect EBI InterPro once, then ask.

One connection gives your AI access to the full InterPro database. Follow the link to set it up in your preferred client.

Connect EBI InterPro to your AI

FAQ

How this task behaves

  • 01

    Can the AI download the full protein sequences?

    No. The AI can retrieve the list of proteins associated with an entry, but it does not download raw sequence files.

  • 02

    Can I use this to edit InterPro entries?

    No. The AI can only read data from EBI InterPro. It cannot modify or add new entries to the database.

  • 03

    Does the AI perform phylogenetic tree construction?

    No. The AI can identify taxonomic presence and distribution, but it does not build or render phylogenetic trees.

  • 04

    How does the AI know which organisms have a domain?

    It uses the taxonomy data linked to the specific protein entry to identify the organisms.

  • 05

    Can I search for specific species by name?

    Yes, the AI can search through the taxonomy to find specific organisms or groups.

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