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Lucas-Servi

kegg-mcp-server

by Lucas-Servi

convert_identifiers

Read-onlyIdempotent

Convert KEGG identifiers to or from external database IDs like NCBI Gene or UniProt. Specify source and target databases for mapping.

Instructions

Convert KEGG IDs to/from external database identifiers.

Args: source_db: Source database (e.g. 'hsa', 'ncbi-geneid', 'uniprot', 'chebi', 'pubchem'). target_db: Target database (e.g. 'kegg', 'ncbi-geneid', 'uniprot'). entry_ids: Optional list of specific IDs to convert (max 10). If None, converts the full source database.

Input Schema

TableJSON Schema
NameRequiredDescriptionDefault
entry_idsNo
source_dbYes
target_dbYes

Output Schema

TableJSON Schema
NameRequiredDescriptionDefault
resultYes
Behavior4/5

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

Annotations already declare the tool as read-only, open-world, idempotent, and non-destructive. The description adds behavioral context beyond annotations, such as the entry_ids limit and the full database conversion behavior, which helps the agent understand constraints.

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 concise and well-structured, using a clear Arg list format. Every sentence contributes value, and the information is front-loaded with the main purpose.

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

Completeness4/5

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

Given that an output schema exists, the description does not need to detail return values. It covers the conversion task and all parameters adequately. Minor improvement could include mentioning supported database pairs or error handling, but current completeness is sufficient.

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

Parameters5/5

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

With 0% schema description coverage, the description fully compensates by explaining all three parameters: source_db and target_db with example values, and entry_ids with its optionality, maximum size, and default behavior. This adds essential meaning beyond the raw schema.

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

Purpose5/5

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

The description begins with a specific verb and resource: 'Convert KEGG IDs to/from external database identifiers.' This clearly states the tool's function and distinguishes it from sibling tools, which focus on searching or retrieving information rather than conversion.

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

Usage Guidelines4/5

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

The description provides clear usage context by listing parameters with examples (source_db, target_db) and explaining the optional entry_ids parameter, including the max 10 constraint and full database behavior. However, it does not explicitly state when not to use this tool or mention alternatives.

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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