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Augmented-Nature

PubChem MCP Server

search_patents

Find chemical patents and intellectual property details using a CID or custom query. Access comprehensive patent data for millions of compounds through PubChem's chemical database.

Instructions

Search for chemical patents and intellectual property information

Input Schema

TableJSON Schema
NameRequiredDescriptionDefault
cidNoPubChem Compound ID (CID)
queryNoPatent search query (alternative to CID)

Implementation Reference

  • The handler function that executes the 'search_patents' tool logic. Currently a placeholder implementation returning a not-implemented message.
    private async handleSearchPatents(args: any) {
      return { content: [{ type: 'text', text: JSON.stringify({ message: 'Patent search not yet implemented', args }, null, 2) }] };
    }
  • Input schema definition for the 'search_patents' tool, specifying optional cid or query parameters.
    inputSchema: {
      type: 'object',
      properties: {
        cid: { type: ['number', 'string'], description: 'PubChem Compound ID (CID)' },
        query: { type: 'string', description: 'Patent search query (alternative to CID)' },
      },
      required: [],
    },
  • src/index.ts:696-707 (registration)
    Registration of the 'search_patents' tool in the ListTools response, including name, description, and schema.
    {
      name: 'search_patents',
      description: 'Search for chemical patents and intellectual property information',
      inputSchema: {
        type: 'object',
        properties: {
          cid: { type: ['number', 'string'], description: 'PubChem Compound ID (CID)' },
          query: { type: 'string', description: 'Patent search query (alternative to CID)' },
        },
        required: [],
      },
    },
  • src/index.ts:804-805 (registration)
    Dispatch/registration case in the CallToolRequestSchema handler that routes to the search_patents handler method.
    case 'search_patents':
      return await this.handleSearchPatents(args);
Behavior2/5

Does the description disclose side effects, auth requirements, rate limits, or destructive behavior?

No annotations are provided, so the description carries the full burden of behavioral disclosure. It only states the action ('Search') without detailing behavioral traits like whether it's read-only, requires authentication, has rate limits, returns paginated results, or what the output format might be. This leaves significant gaps for a tool with no annotations.

Agents need to know what a tool does to the world before calling it. Descriptions should go beyond structured annotations to explain consequences.

Conciseness5/5

Is the description appropriately sized, front-loaded, and free of redundancy?

The description is a single, efficient sentence with no wasted words. It's appropriately sized and front-loaded, directly stating the tool's purpose without unnecessary elaboration, making it easy to understand at a glance.

Shorter descriptions cost fewer tokens and are easier for agents to parse. Every sentence should earn its place.

Completeness2/5

Given the tool's complexity, does the description cover enough for an agent to succeed on first attempt?

Given the complexity of a search tool with no annotations and no output schema, the description is incomplete. It lacks information on behavioral aspects, output format, and usage context, which are crucial for an AI agent to effectively invoke the tool. The description does not compensate for the absence of structured data.

Complex tools with many parameters or behaviors need more documentation. Simple tools need less. This dimension scales expectations accordingly.

Parameters3/5

Does the description clarify parameter syntax, constraints, interactions, or defaults beyond what the schema provides?

The input schema has 100% description coverage, with clear documentation for 'cid' and 'query' parameters. The description adds no additional meaning beyond the schema, such as explaining the relationship between CID and query or providing usage examples. With high schema coverage, the baseline score of 3 is appropriate as the schema does the heavy lifting.

Input schemas describe structure but not intent. Descriptions should explain non-obvious parameter relationships and valid value ranges.

Purpose4/5

Does the description clearly state what the tool does and how it differs from similar tools?

The description clearly states the tool's purpose as 'Search for chemical patents and intellectual property information', which includes a specific verb ('Search') and resource ('chemical patents and intellectual property information'). However, it doesn't explicitly differentiate from sibling tools like 'search_by_target' or 'search_compounds', which might also involve searching but for different resources.

Agents choose between tools based on descriptions. A clear purpose with a specific verb and resource helps agents select the right tool.

Usage Guidelines2/5

Does the description explain when to use this tool, when not to, or what alternatives exist?

The description provides no guidance on when to use this tool versus alternatives. It doesn't mention any context, prerequisites, or exclusions, such as whether to use CID or query parameters, or how it differs from other search tools in the sibling list like 'search_by_cas_number' or 'search_similar_compounds'.

Agents often have multiple tools that could apply. Explicit usage guidance like "use X instead of Y when Z" prevents misuse.

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