How to Use the UniProt MCP in CrewAI

Q: How do I search UniProt using the UniProt and CrewAI framework?

You define an agent whose job is to run searchuniprot. This tool takes a keyword (like 'p53') and returns key identifiers like gene, function, and sequence data for your team.

Q: Can the UniProt and CrewAI framework handle multiple types of queries?

Yep. You can run searchuniprot for broad searches or use searchuniprotgene to pinpoint all isoforms linked to a specific gene, giving your crew options.

Q: How do I get full details on a single UniProt record with CrewAI?

The getuniprotprotein tool is designed for this. Pass in the accession ID, and your autonomous crew member will pull all available data points into memory.

Q: If I need to check protein sequences, does UniProt work with CrewAI?

Yes. Both searchuniprot and getuniprotprotein return the amino acid sequence alongside other metadata, allowing your agents to compare or analyze them.

Run autonomous UniProt research teams with the CrewAI framework and MCP Server.

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Connect UniProt MCP to CrewAI

Create your Vinkius account to connect UniProt to CrewAI and route execution through our secure gateway. The platform manages server hosting, runtime updates, and security layers. Configuration requires no manual server provisioning.

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Setup UniProt with CrewAI

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Research single proteins using UniProt via MCP Server

The `get_uniprot_protein` tool lets your crew member retrieve every detail on a protein using just its accession ID. It’s like having a specialized researcher who pulls the full dossier. Since CrewAI runs multiple agents, one agent can be assigned this task—getting the data—and then pass that result to another agent for analysis without human intervention.

Search UniProt and build multi-agent teams with CrewAI

Need a broad search? Use `search_uniprot` to find proteins by name, function, or keyword. The output includes gene, organism, location, and sequence data for the whole team to review. You don't have to do this step-by-step. A dedicated 'Researcher' agent can run `search_uniprot`, passing the list of results to a 'Reviewer' agent who specializes in analyzing that biological context.

Find all isoforms with UniProt and CrewAI

The `search_uniprot_gene` tool maps out every possible protein isoform for a specific gene name, alongside functional annotations. This gives your team deep genetic insight. This is perfect for setting up an autonomous operation: one agent finds the gene, another processes the resulting isoforms list, and a third summarizes it all.

Setup guide

Set up UniProt MCP in CrewAI

Prerequisites

Python 3.10+ installed
crewai package (pip install crewai)
Active Vinkius subscription with a valid endpoint token

1

Install CrewAI
Run pip install crewai to install the framework. MCP support is built-in via the mcps parameter.
2

Add the MCP URL to your agent
Pass your Vinkius endpoint directly to the mcps list. Replace [YOUR_TOKEN_HERE] with your token from cloud.vinkius.com. CrewAI handles tool discovery and caching automatically.
3

Kick off your crew
Create a Crew with your agent and tasks. Call crew.kickoff() — the agent will automatically invoke UniProt tools as needed.

crew.py

from crewai import Agent, Task, Crew

agent = Agent(
    role="UniProt Analyst",
    goal="Access and analyze UniProt data via MCP.",
    backstory="Expert analyst with direct UniProt access.",
    mcps=[
        "https://edge.vinkius.com/[YOUR_TOKEN_HERE]/mcp"
    ],
)

task = Task(
    description="List recent UniProt transactions",
    agent=agent,
    expected_output="A summary of recent activity",
)

crew = Crew(agents=[agent], tasks=[task])
result = crew.kickoff()
print(result)

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Prerequisites

Python 3.10+ installed
crewai + crewai-tools packages
Active Vinkius subscription with a valid endpoint token

1

Install dependencies
Run pip install crewai crewai-tools. The MCPServerAdapter handles lifecycle management and tool conversion.
2

Connect with MCPServerAdapter
Use MCPServerAdapter as a context manager with SseServerParameters pointing to your Vinkius endpoint. The adapter automatically manages connection lifecycle.
3

Assign tools and run
Pass the returned mcp_tools to your agent's tools parameter. The adapter converts MCP tools to native BaseTool objects compatible with all CrewAI agents.

crew.py

from crewai import Agent, Task, Crew
from crewai_tools import MCPServerAdapter
from mcp import SseServerParameters

server_params = SseServerParameters(
    url="https://edge.vinkius.com/[YOUR_TOKEN_HERE]/mcp"
)

with MCPServerAdapter(server_params) as mcp_tools:
    agent = Agent(
        role="UniProt Analyst",
        goal="Access and analyze UniProt data via MCP.",
        backstory="Expert analyst with direct UniProt access.",
        tools=mcp_tools,
    )

    task = Task(
        description="List recent UniProt transactions",
        agent=agent,
        expected_output="A summary of recent activity",
    )

    crew = Crew(agents=[agent], tasks=[task])
    result = crew.kickoff()
    print(result)

Get your connection token →

Independent Platform Disclaimer: Vinkius is an independent platform and is not affiliated with, endorsed by, sponsored by, verified by, or otherwise authorized by UniProt. All third-party trademarks, logos, and brand names are the property of their respective owners. Their use on this website is strictly for informational purposes to identify service compatibility and interoperability.

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Common questions about UniProt MCP in CrewAI

You define an agent whose job is to run `search_uniprot`. This tool takes a keyword (like 'p53') and returns key identifiers like gene, function, and sequence data for your team.

Yep. You can run `search_uniprot` for broad searches or use `search_uniprot_gene` to pinpoint all isoforms linked to a specific gene, giving your crew options.

This MCP Server only touches public biological reference data. Specifically, it handles protein sequences and functional annotations from the world's largest knowledge base.

The `get_uniprot_protein` tool is designed for this. Pass in the accession ID, and your autonomous crew member will pull all available data points into memory.

Yes. Both `search_uniprot` and `get_uniprot_protein` return the amino acid sequence alongside other metadata, allowing your agents to compare or analyze them.

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