UniProt MCP Server for Mastra AI 3 tools — connect in under 2 minutes
Mastra AI is a TypeScript-native agent framework built for modern web stacks. Connect UniProt through Vinkius and Mastra agents discover all tools automatically. type-safe, streaming-ready, and deployable anywhere Node.js runs.
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Vinkius supports streamable HTTP and SSE.
import { Agent } from "@mastra/core/agent";
import { createMCPClient } from "@mastra/mcp";
import { openai } from "@ai-sdk/openai";
async function main() {
// Your Vinkius token. get it at cloud.vinkius.com
const mcpClient = await createMCPClient({
servers: {
"uniprot": {
url: "https://edge.vinkius.com/[YOUR_TOKEN_HERE]/mcp",
},
},
});
const tools = await mcpClient.getTools();
const agent = new Agent({
name: "UniProt Agent",
instructions:
"You help users interact with UniProt " +
"using 3 tools.",
model: openai("gpt-4o"),
tools,
});
const result = await agent.generate(
"What can I do with UniProt?"
);
console.log(result.text);
}
main();
* Every MCP server runs on Vinkius-managed infrastructure inside AWS - a purpose-built runtime with per-request V8 isolates, Ed25519 signed audit chains, and sub-40ms cold starts optimized for native MCP execution. See our infrastructure
About UniProt MCP Server
Connect your AI agent to UniProt — the Universal Protein Resource — the world's definitive knowledge base for protein sequence and functional information.
Mastra's agent abstraction provides a clean separation between LLM logic and UniProt tool infrastructure. Connect 3 tools through Vinkius and use Mastra's built-in workflow engine to chain tool calls with conditional logic, retries, and parallel execution. deployable to any Node.js host in one command.
What you can do
- Protein Search — Find proteins by name, gene symbol, function, or organism across 250M+ entries from both TrEMBL (auto-annotated) and Swiss-Prot (manually curated)
- Accession Lookup — Get complete protein data by UniProt accession number (e.g., P04637 for human p53) including function, subcellular location, and full amino acid sequence
- Gene Search — Find all proteins encoded by a specific gene name across multiple organisms to compare orthologs and paralogs
The UniProt MCP Server exposes 3 tools through the Vinkius. Connect it to Mastra AI in under two minutes — no API keys to rotate, no infrastructure to provision, no vendor lock-in. Your configuration, your data, your control.
How to Connect UniProt to Mastra AI via MCP
Follow these steps to integrate the UniProt MCP Server with Mastra AI.
Install dependencies
Run npm install @mastra/core @mastra/mcp @ai-sdk/openai
Replace the token
Replace [YOUR_TOKEN_HERE] with your Vinkius token
Run the agent
Save to agent.ts and run with npx tsx agent.ts
Explore tools
Mastra discovers 3 tools from UniProt via MCP
Why Use Mastra AI with the UniProt MCP Server
Mastra AI provides unique advantages when paired with UniProt through the Model Context Protocol.
Mastra's agent abstraction provides a clean separation between LLM logic and tool infrastructure. add UniProt without touching business code
Built-in workflow engine chains MCP tool calls with conditional logic, retries, and parallel execution for complex automation
TypeScript-native: full type inference for every UniProt tool response with IDE autocomplete and compile-time checks
One-command deployment to any Node.js host. Vercel, Railway, Fly.io, or your own infrastructure
UniProt + Mastra AI Use Cases
Practical scenarios where Mastra AI combined with the UniProt MCP Server delivers measurable value.
Automated workflows: build multi-step agents that query UniProt, process results, and trigger downstream actions in a typed pipeline
SaaS integrations: embed UniProt as a first-class tool in your product's AI features with Mastra's clean agent API
Background jobs: schedule Mastra agents to query UniProt on a cron and store results in your database automatically
Multi-agent systems: create specialist agents that collaborate using UniProt tools alongside other MCP servers
UniProt MCP Tools for Mastra AI (3)
These 3 tools become available when you connect UniProt to Mastra AI via MCP:
get_uniprot_protein
Get full protein details by UniProt accession ID
search_uniprot
Returns protein name, gene, organism, function, subcellular location, and sequence. Try: insulin, hemoglobin, p53, BRCA1, spike protein. Search UniProt for proteins by name, function, or keyword
search_uniprot_gene
Returns all protein isoforms and their functional annotations. Find proteins encoded by a specific gene
Example Prompts for UniProt in Mastra AI
Ready-to-use prompts you can give your Mastra AI agent to start working with UniProt immediately.
"Tell me about the p53 tumor suppressor protein and its function."
"Find all proteins encoded by the BRCA1 gene."
"Look up UniProt accession Q9BYF1 and show me its full details."
Troubleshooting UniProt MCP Server with Mastra AI
Common issues when connecting UniProt to Mastra AI through the Vinkius, and how to resolve them.
createMCPClient not exported
npm install @mastra/mcpUniProt + Mastra AI FAQ
Common questions about integrating UniProt MCP Server with Mastra AI.
How does Mastra AI connect to MCP servers?
MCPClient with the server URL and pass it to your agent. Mastra discovers all tools and makes them available with full TypeScript types.Can Mastra agents use tools from multiple servers?
Does Mastra support workflow orchestration?
Connect UniProt with your favorite client
Step-by-step setup guides for every MCP-compatible client and framework:
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Google's framework for building production AI agents.
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TypeScript toolkit for building AI-powered web applications.
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Python framework for orchestrating collaborative AI agent crews.
Leading Python framework for composable LLM applications.
Data-aware AI agent framework for structured and unstructured sources.
Microsoft's framework for multi-agent collaborative conversations.
Connect UniProt to Mastra AI
Get your token, paste the configuration, and start using 3 tools in under 2 minutes. No API key management needed.