• RAW DATA
  • ANNOTATIONS
  • IDENTIFICATION
  • HUMAN REVIEW

How to retrieve protein sequences and functions with your AI

Connect UniProt to your AI client to pull biological data. Once connected, you can query specific proteins using their accession IDs.

Ask AI about this page

Short answer

How can I get protein sequences and functions using my AI?

Give your AI a UniProt accession ID to fetch the exact amino acid sequence and functional details. You'll get direct access to UniProt's database without manual searching. Here is what you get.

Data outcomes

What you get from UniProt

The specific data points your agent pulls from the database.

RAW DATA

Amino acid sequences

The AI pulls the primary structure of the protein. You get the exact sequence for your research.

ANNOTATIONS

Functional details

Your agent retrieves biological functions and known roles. This provides the context for the protein's activity.

IDENTIFICATION

Accession mapping

The AI links specific IDs to their biological context. It ensures the data matches your target protein.

HUMAN REVIEW

Manual validation

You must verify the biological significance of the data. The AI provides the facts, but you interpret the science.

The workflow

What your AI does when the accession ID arrives.

The AI handles the database communication so you don't have to browse the web.

  1. Identify target

    Your agent parses your request to find the specific UniProt accession ID you want to look up.

    get_uniprot_protein

  2. Fetch sequence

    The AI uses the ID to pull the complete amino acid sequence from the UniProt database.

    get_uniprot_protein

  3. Extract functions

    The tool retrieves functional annotations and biological descriptions associated with that protein.

    get_uniprot_protein

  4. Format output

    Your agent organizes the sequence and the functional data into a readable format for your chat.

    get_uniprot_protein

Try it

Copy these to start.

Use these prompts to trigger the UniProt Connector.

Starting points

Replace the bracketed text with your actual UniProt accession IDs.

UniProt Connector

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

Connector linkhttps://edge.vinkius.com/vk_preview_jPSrejZI835eE2T6bJttqT3k3CdFHVP7joPQheuT/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 — UniProt capabilities are ready to use.
Configuration · claude_desktop_config.jsonCopy
{
  "mcpServers": {
    "uniprot-mcp": {
      "url": "https://edge.vinkius.com/vk_preview_jPSrejZI835eE2T6bJttqT3k3CdFHVP7joPQheuT/mcp"
    }
  }
}
Copy into chat04

  • Get the amino acid sequence for UniProt ID P12345.

  • What are the functional annotations for P67890?

  • Retrieve the full sequence and function for accession P04637.

  • Find the protein function for UniProt ID Q00987.

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

Start here

Connect UniProt once, then ask.

One click connects the UniProt MCP to your client. Your credentials stay encrypted, and you can immediately start querying proteins.

Connect UniProt to your AI

FAQ

How this task behaves

  • 01

    Can the AI edit UniProt database entries?

    No. The AI can only read data from UniProt using the available tools.

  • 02

    Do I need to provide the accession ID every time?

    Yes, the AI needs a specific ID to know which protein to pull from the database.

  • 03

    Can the AI download files directly to my computer?

    No. The AI retrieves the text data and presents it in your chat interface.

  • 04

    Does this work with any protein name?

    It works best with UniProt accession IDs, though the AI can attempt to find the ID from a name first.

  • 05

    Can the AI perform protein folding simulations?

    No. This connector is for retrieving existing sequence and functional data, not for running computational simulations.

  • More questions about UniProt? See everything the UniProt Connector can do

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