EBI InterPro MCP Server for OpenAI Agents SDKGive OpenAI Agents SDK instant access to 16 tools to Get Cdd Entry, Get Clan, Get Entry, and more

Name: EBI InterPro
Price: 29 USD
Availability: InStock
Rating: 4.9 (1 reviews)
Author: Vinkius

GDPR Free for Subscribers

The OpenAI Agents SDK enables production-grade agent workflows in Python. Connect EBI InterPro through Vinkius and your agents gain typed, auto-discovered tools with built-in guardrails. no manual schema definitions required.

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The EBI InterPro MCP Server for OpenAI Agents SDK is a standout in the The Unthinkable category — giving your AI agent 16 tools to work with, ready to go from day one.

Built for AI Agents by Vinkius

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python

import asyncio
from agents import Agent, Runner
from agents.mcp import MCPServerStreamableHttp

async def main():
    # Your Vinkius token. get it at cloud.vinkius.com
    async with MCPServerStreamableHttp(
        url="https://edge.vinkius.com/[YOUR_TOKEN_HERE]/mcp"
    ) as mcp_server:

        agent = Agent(
            name="EBI InterPro Assistant",
            instructions=(
                "You help users interact with EBI InterPro. "
                "You have access to 16 tools."
            ),
            mcp_servers=[mcp_server],
        )

        result = await Runner.run(
            agent, "List all available tools from EBI InterPro"
        )
        print(result.final_output)

asyncio.run(main())

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About EBI InterPro MCP Server

Connect to the InterPro API and access the world's most comprehensive resource for protein family, domain, and functional site classification.

The OpenAI Agents SDK auto-discovers all 16 tools from EBI InterPro through native MCP integration. Build agents with built-in guardrails, tracing, and handoff patterns. chain multiple agents where one queries EBI InterPro, another analyzes results, and a third generates reports, all orchestrated through Vinkius.

What you can do

Domain Classification — Retrieve detailed InterPro entry information including family/domain descriptions, GO terms, and member database cross-references
Multi-Database Access — Query entries from Pfam, CDD, SMART, Prosite, PANTHER, Gene3D, HAMAP, and more through a unified interface
Protein Annotation — Find all InterPro domains, families, and sites annotated on any UniProt protein
Structure Mapping — Discover PDB structures containing proteins that match specific InterPro entries
Taxonomic Distribution — Explore which organisms contain proteins matching a domain or family — essential for evolutionary biology
Proteome Coverage — Assess domain annotation coverage for complete proteomes
Clan Analysis — Navigate Pfam clan hierarchies to understand super-family relationships

The EBI InterPro MCP Server exposes 16 tools through the Vinkius. Connect it to OpenAI Agents SDK in under two minutes — credentials fully managed, no infrastructure to provision, no vendor lock-in. Your configuration, your data, your control.

All 16 EBI InterPro tools available for OpenAI Agents SDK

When OpenAI Agents SDK connects to EBI InterPro through Vinkius, your AI agent gets direct access to every tool listed below — spanning interpro, pfam, protein-domains, and more. Every call runs in a secure, isolated environment with full audit visibility. Beyond a simple connection, you get real-time monitoring of agent activity, enterprise governance, and optimized token usage.

get

Get cdd entry on EBI InterPro

CDD provides curated models for protein domain families and includes additional alignment and structure data. Use accessions like cd00001. Get CDD (Conserved Domain Database) entry details

get

Get clan on EBI InterPro

Returns clan accession, name, description, and member counts. Use Pfam clan accessions like CL0001. Get Pfam clan (super-family grouping) details

get

Get entry on EBI InterPro

Returns name, type (family, domain, homologous superfamily, repeat, site), description, Gene Ontology terms, member database cross-references, and literature count. Use accessions like IPR000001, IPR036291. Get InterPro entry metadata for a family or domain

get

Get entry proteins on EBI InterPro

Returns protein accessions, names, lengths, and source organisms. Useful for finding all members of a protein family across the UniProt database. Get all proteins matching an InterPro entry

get

Get entry structures on EBI InterPro

Returns PDB IDs, names, experiment types, and resolutions. Useful for finding structural representatives of a protein family or domain. Get all PDB structures matching an InterPro entry

get

Get entry taxonomy on EBI InterPro

Returns taxonomy nodes with names, ranks, and protein counts. This answers the evolutionary biology question "which organisms have this domain/family?" and is essential for understanding protein evolution and conservation. Get taxonomic distribution of an InterPro entry

get

Get pfam entry on EBI InterPro

Pfam is the most widely used protein domain database. Use accessions like PF00069 (kinase domain), PF00076 (RRM domain). Get Pfam domain or family details

get

Get protein on EBI InterPro

Returns the protein name, length, source organism, evidence level, fragment status, and counters for how many InterPro entries, Pfam domains, structures, and taxa are associated with it. Get protein details with all domain and family assignments

get

Get protein entries on EBI InterPro

This is the key tool for understanding "what domains does my protein have?" — the fundamental question in protein characterization. Get all InterPro entries matching a specific protein

get

Get proteome on EBI InterPro

Returns proteome ID, organism name, strain, reference status, and counters for associated entries and proteins. Use UniProt proteome IDs like UP000005640 (human). Get proteome details with domain coverage statistics

get

Get structure on EBI InterPro

Use a 4-character PDB ID like 1cbs or 4hhb. Get a PDB structure with mapped InterPro annotations

get

Get taxonomy on EBI InterPro

Returns the organism name, rank, lineage, number of children taxa, and counters for associated InterPro entries and proteins. Use IDs like 9606 (human), 10090 (mouse), 562 (E. coli). Get taxonomic node with entry and protein counts

list

List entry databases on EBI InterPro

Shows the number of entries in each database. Useful for understanding the scope of available domain and family annotations. List all InterPro member databases and entry counts

Search entries on EBI InterPro

Optionally filter by entry type: family, domain, homologous_superfamily, repeat, or site. Returns accessions, names, types, and protein/structure counts. Use queries like "kinase", "zinc finger", "immunoglobulin". Search InterPro entries by keyword and type

Search proteins on EBI InterPro

Returns UniProt accessions, names, lengths, organisms, and annotation counts. Use queries like "insulin", "hemoglobin", "BRCA1". Search proteins in InterPro by name or keyword

Search taxonomy on EBI InterPro

Returns taxon IDs, names, ranks, and annotation counts. Use queries like "human", "drosophila", "arabidopsis", "saccharomyces". Search taxonomy by organism name

Connect EBI InterPro to OpenAI Agents SDK via MCP

Follow these steps to wire EBI InterPro into OpenAI Agents SDK. The entire setup takes under two minutes — your credentials stay safe behind Vinkius.

Install the SDK

Run pip install openai-agents in your Python environment

Replace the token

Replace [YOUR_TOKEN_HERE] with your Vinkius token from cloud.vinkius.com

Run the script

Save the code above and run it: python agent.py

Explore tools

The agent will automatically discover 16 tools from EBI InterPro

Why Use OpenAI Agents SDK with the EBI InterPro MCP Server

OpenAI Agents SDK provides unique advantages when paired with EBI InterPro through the Model Context Protocol.

Native MCP integration via `MCPServerSse`, pass the URL and the SDK auto-discovers all tools with full type safety

Built-in guardrails, tracing, and handoff patterns let you build production-grade agents without reinventing safety infrastructure

Lightweight and composable: chain multiple agents and MCP servers in a single pipeline with minimal boilerplate

First-party OpenAI support ensures optimal compatibility with GPT models for tool calling and structured output

EBI InterPro + OpenAI Agents SDK Use Cases

Practical scenarios where OpenAI Agents SDK combined with the EBI InterPro MCP Server delivers measurable value.

Automated workflows: build agents that query EBI InterPro, process the data, and trigger follow-up actions autonomously

Multi-agent orchestration: create specialist agents. one queries EBI InterPro, another analyzes results, a third generates reports

Data enrichment pipelines: stream data through EBI InterPro tools and transform it with OpenAI models in a single async loop

Customer support bots: agents query EBI InterPro to resolve tickets, look up records, and update statuses without human intervention

Example Prompts for EBI InterPro in OpenAI Agents SDK

Ready-to-use prompts you can give your OpenAI Agents SDK agent to start working with EBI InterPro immediately.

"What domains and families does the human TP53 protein belong to?"

"Show me all member databases in InterPro and how many entries each has."

"Which organisms have the kinase domain PF00069?"

Troubleshooting EBI InterPro MCP Server with OpenAI Agents SDK

Common issues when connecting EBI InterPro to OpenAI Agents SDK through Vinkius, and how to resolve them.

MCPServerStreamableHttp not found

Ensure you have the latest version: pip install --upgrade openai-agents

Agent not calling tools

Make sure your prompt explicitly references the task the tools can help with.

EBI InterPro + OpenAI Agents SDK FAQ

Common questions about integrating EBI InterPro MCP Server with OpenAI Agents SDK.

How does the OpenAI Agents SDK connect to MCP?

Use MCPServerSse(url=...) to create a server connection. The SDK auto-discovers all tools and makes them available to your agent with full type information.