Skip to main content
Glama
PDBeurope

PDBe MCP Servers

Official
by PDBeurope

get_key_validation_stats_api_validation_key_validation_stats

Read-only

Retrieve key validation statistics for a PDB structure, including geometric and density-based metrics with outlier counts and percentages for categories like bonds, angles, and Ramachandran.

Instructions

Provides a validation summary listing key geometric and electron-density–based metrics. For each category (e.g., bonds, angles, RNA suite, Ramachandran, sidechains, RSRZ), the report includes: - number of residues/instances checked - number of outliers - percent outliers - and, where applicable, RMSZ values. Categories with no relevant residues return null percentages.

Input Schema

TableJSON Schema
NameRequiredDescriptionDefault
pdb_idYes4-character PDB id code. title: Pdb Id description: 4-character PDB id code.
Behavior4/5

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

Annotations already declare readOnlyHint=true and destructiveHint=false. The description adds value by detailing report structure (outliers, percentages, RMSZ) and handling of null categories, going beyond what annotations provide.

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 paragraph, efficiently structured with bullet-like enumeration. It front-loads the purpose and adds details without redundancy. Every sentence adds value.

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

Completeness5/5

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

Given no output schema, the description explains the report format (categories, metrics, null handling) comprehensively. With only one parameter, it sufficiently covers what the agent needs to know.

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?

Schema coverage is 100% with a single parameter pdb_id well-described in the schema. The description does not add additional meaning or format details beyond the schema, so baseline 3 is appropriate.

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 clearly states it provides a validation summary of geometric and electron-density metrics, listing specific categories and what each category includes. It distinguishes itself from sibling tools like get_outliers and get_summary_quality_scores by detailing the report content.

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 does not provide any guidance on when to use this tool versus alternatives. No prerequisites, exclusions, or comparisons to sibling tools are mentioned, leaving the agent without context for selection.

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

Install Server

Other Tools

Latest Blog Posts

MCP directory API

We provide all the information about MCP servers via our MCP API.

curl -X GET 'https://glama.ai/api/mcp/v1/servers/PDBeurope/PDBe-MCP-Servers'

If you have feedback or need assistance with the MCP directory API, please join our Discord server