chemistry.pubchem.search
Search 100M+ chemical compounds by name, formula, or SMILES string. Returns CID, molecular formula, weight, IUPAC name, SMILES, InChI, XLogP, H-bond donors/acceptors, exact mass, and complexity. The largest public chemical database (PubChem / NCBI)
This record as markdown: /tools/io-github-whiteknightonhorse-apibase/chemistry.pubchem.search.md
What chemistry.pubchem.search does on Apibase
AI agents call chemistry.pubchem.search to retrieve information from Apibase without modifying anything. It is typically the context-gathering step in research, monitoring, and reporting workflows, before the agent takes action elsewhere.
| Parameter | Type | Required | Description |
|---|---|---|---|
name | string | Yes | Compound name, formula, or SMILES string (e.g. "aspirin", "C9H8O4", "CC(=O)OC1=CC=CC=C1C(=O)O") |
limit | integer | — | Maximum results to return (1-20, default 5) |
Parameters from the server's own tool schema.
Why chemistry.pubchem.search is rated Low
Tool retrieves chemical compound data from public database with no side effects or modifications.
From the tool's definition Search 100M+ chemical compounds by name, formula, returns CID, molecular formula, IUPAC name.
Attacks that exploit this kind of access
The rule that runs chemistry.pubchem.search safely
PolicyLayer is an MCP gateway: it sits between your AI agents and Apibase, and checks every tool call against a rule you set before the call runs. Nothing changes on the server itself. For chemistry.pubchem.search, this is the rule to start with:
chemistry.pubchem.search is read-only, so it stays allowed. Everything else on the server is denied unless you say otherwise.
The button opens the PolicyLayer dashboard: create your workspace, connect Apibase, apply this rule, and every chemistry.pubchem.search call is checked against it from then on.
Questions about chemistry.pubchem.search
Search 100M+ chemical compounds by name, formula, or SMILES string. Returns CID, molecular formula, weight, IUPAC name, SMILES, InChI, XLogP, H-bond donors/acceptors, exact mass, and complexity. The largest public chemical database (PubChem / NCBI). It is categorised as a Read tool in the Apibase MCP Server, which means it retrieves data without modifying state.
chemistry.pubchem.search accepts 2 parameters: name, limit. Required: name. The full parameter table on this page comes from the server's own tool schema.
Register the Apibase MCP server in PolicyLayer and add a rule for chemistry.pubchem.search: allow, deny, rate-limit, or require approval. Point your MCP client at the PolicyLayer proxy URL and the rule is enforced on every call, before it reaches Apibase. Nothing to install.
chemistry.pubchem.search is a Read tool with low risk. Read-only tools are generally safe to allow by default.
Yes. Add a rate_limit block to the chemistry.pubchem.search rule in your PolicyLayer policy. For example, setting max: 10 and window: 60 limits the tool to 10 calls per minute. Rate limits are tracked per agent session and reset automatically.
Set action: deny in the PolicyLayer policy for chemistry.pubchem.search. The AI agent will receive a policy violation error and cannot call the tool. You can also include a reason field to explain why the tool is blocked.
chemistry.pubchem.search is provided by the Apibase MCP server (apibase-mcp-client). PolicyLayer sits as a proxy in front of this server to enforce policies before tool calls reach the server.
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