Is an API Key required for PubChem API?

No. PubChem is a free and open service provided by the NIH. This server works out of the box without any static credentials required.

CID stands for Compound Identifier. It is a unique numerical ID assigned to each chemical compound in the PubChem database.

Can the agent show molecular formulas?

Yes. The compound details retrieved by your agent include the molecular formula and IUPAC name metadata where available.

PubChem PUG REST API MCP Server for Google ADK 4 tools — connect in under 2 minutes

Name: PubChem PUG REST API
Availability: InStock
Author: Vinkius

google.github.io/adk-docs/tools/mcp-tools

Built by Vinkius GDPR 4 Tools SDK

Google Agent Development Kit (ADK) is Google's framework for building production AI agents. Add PubChem PUG REST API as an MCP tool provider through Vinkius and your ADK agents can call every tool with full schema introspection.

Get MCP Server for AI Agents

ASK AI ABOUT THIS MCP SERVER

Open in ChatGPT Open in Claude Open in Perplexity

Vinkius supports streamable HTTP and SSE.

python

from google.adk.agents import Agent
from google.adk.tools.mcp_tool import McpToolset
from google.adk.tools.mcp_tool.mcp_session_manager import (
    StreamableHTTPConnectionParams,
)

# Your Vinkius token. get it at cloud.vinkius.com
mcp_tools = McpToolset(
    connection_params=StreamableHTTPConnectionParams(
        url="https://edge.vinkius.com/[YOUR_TOKEN_HERE]/mcp",
    )
)

agent = Agent(
    model="gemini-2.5-pro",
    name="pubchem_pug_rest_api_agent",
    instruction=(
        "You help users interact with PubChem PUG REST API "
        "using 4 available tools."
    ),
    tools=[mcp_tools],
)

Fully ManagedVinkius Servers

60%Token savings

High SecurityEnterprise-grade

IAMAccess control

EU AI ActCompliant

DLPData protection

V8 IsolateSandboxed

Ed25519Audit chain

<40msKill switch

Stream every event to Splunk, Datadog, or your own webhook in real-time

* 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 PubChem PUG REST API MCP Server

Empower your AI agent to orchestrate your entire chemical research and compound auditing workflow with the PubChem PUG REST API, the authoritative source for molecular data from the National Library of Medicine. By connecting PubChem to your agent, you transform complex chemical searches into a natural conversation. Your agent can instantly retrieve compound details, audit molecular formulas, and query specific Compound Identifiers (CIDs) without you ever touching a scientific portal. Whether you are conducting pharmacological research or managing laboratory constraints, your agent acts as a real-time chemical consultant, ensuring your data is always verified and precise.

Google ADK natively supports PubChem PUG REST API as an MCP tool provider. declare Vinkius Edge URL and the framework handles discovery, validation, and execution automatically. Combine 4 tools with Gemini's long-context reasoning for complex multi-tool workflows, with production-ready session management and evaluation built in.

What you can do

Compound Auditing — Search for thousands of chemical compounds by name or keyword and retrieve detailed metadata, including IUPAC names and formulas.
CID Oversight — Audit specific Compound Identifiers (CIDs) to understand the technical reach of your chemical data instantly.
Formula Discovery — Query molecular formulas for specific compounds to assist in deep-dive archival classification.
Metadata Intelligence — Retrieve high-resolution technical properties for any chemical record to assist in scientific auditing.
Operational Monitoring — Check API status to ensure your chemical research workflow is always operational.

The PubChem PUG REST API MCP Server exposes 4 tools through the Vinkius. Connect it to Google ADK 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 PubChem PUG REST API to Google ADK via MCP

Follow these steps to integrate the PubChem PUG REST API MCP Server with Google ADK.

Install Google ADK

Run pip install google-adk

Replace the token

Replace [YOUR_TOKEN_HERE] with your Vinkius token

Create the agent

Save the code above and integrate into your ADK workflow

Explore tools

The agent will discover 4 tools from PubChem PUG REST API via MCP

Why Use Google ADK with the PubChem PUG REST API MCP Server

Google ADK provides unique advantages when paired with PubChem PUG REST API through the Model Context Protocol.

Google ADK natively supports MCP tool servers. declare a tool provider and the framework handles discovery, validation, and execution

Built on Gemini models, ADK provides long-context reasoning ideal for complex multi-tool workflows with PubChem PUG REST API

Production-ready features like session management, evaluation, and deployment come built-in. not bolted on

Seamless integration with Google Cloud services means you can combine PubChem PUG REST API tools with BigQuery, Vertex AI, and Cloud Functions

PubChem PUG REST API + Google ADK Use Cases

Practical scenarios where Google ADK combined with the PubChem PUG REST API MCP Server delivers measurable value.

Enterprise data agents: ADK agents query PubChem PUG REST API and cross-reference results with internal databases for comprehensive analysis

Multi-modal workflows: combine PubChem PUG REST API tool responses with Gemini's vision and language capabilities in a single agent

Automated compliance checks: schedule ADK agents to query PubChem PUG REST API regularly and flag policy violations or configuration drift

Internal tool platforms: build self-service agent platforms where teams connect their own MCP servers including PubChem PUG REST API

PubChem PUG REST API MCP Tools for Google ADK (4)

These 4 tools become available when you connect PubChem PUG REST API to Google ADK via MCP:

check_api_status

Check if the PubChem PUG REST service is operational

get_compound_by_cid

Get comprehensive details for a chemical compound by CID

get_compound_by_name

Get comprehensive details for a chemical compound by name

search_compound_cids

Search for compound CIDs matching a name or keyword

Example Prompts for PubChem PUG REST API in Google ADK

Ready-to-use prompts you can give your Google ADK agent to start working with PubChem PUG REST API immediately.

"Get details for compound 'Aspirin' using PubChem."

"What is the molecular formula for CID '2519'?"

"Search for compound CIDs matching 'glucose'."

Troubleshooting PubChem PUG REST API MCP Server with Google ADK

Common issues when connecting PubChem PUG REST API to Google ADK through the Vinkius, and how to resolve them.

McpToolset not found

Update: pip install --upgrade google-adk

PubChem PUG REST API + Google ADK FAQ

Common questions about integrating PubChem PUG REST API MCP Server with Google ADK.

How does Google ADK connect to MCP servers?

Import the MCP toolset class and pass the server URL. ADK discovers and registers all tools automatically, making them available to your agent's tool-use loop.

Can ADK agents use multiple MCP servers?

Yes. Declare multiple MCP tool providers in your agent configuration. ADK merges all tool schemas and the agent can call tools from any server in a single turn.

Which Gemini models work best with MCP tools?

Gemini 2.0 Flash and Pro models both support function calling required for MCP tools. Flash is recommended for latency-sensitive use cases, Pro for complex reasoning.