# mcp-pdbe

> mcp-pdbe — pipeworx-io-mcp-pdbe. Use this tool when you need to manage and analyze protein structure data from the Protein Data Bank in Europe (PDBe) using git version control, solving problems related to bioinformatics and structural biology research. It provides an interface to access and manipulate protein data, taking input from PDBe databases and outputting structured data for further analysis. Ideal for researchers and scientists working with protein structures, it streamlines data management and collaboration through git integration.

Canonical page: https://skillsregistry.net/skills/pipeworx-io-mcp-pdbe  
JSON: https://api.skillsregistry.net/v1/skills/pipeworx-io-mcp-pdbe

## Description

PDBe (Protein Data Bank in Europe, EBI) MCP.

## Trust

- **Trust score (0–1):** 0.99
- **Verification tier:** verified
- **Last scanned:** 2026-09-28

## Facts

- **Version:** 1.0.0
- **Skill type:** atomic
- **Execution layer:** container
- **Runtime environment:** vm
- **License:** MIT
- **Updated:** 2026-09-28

## Source

- **Source listing:** [GitHub](https://github.com/pipeworx-io/mcp-pdbe)

## Use it

Resolve this record through the SkillsRegistry MCP server (no auth, read-only):

```
claude mcp add --transport http --scope user skillsregistry https://api.skillsregistry.net/mcp
```

```json
{
  "jsonrpc": "2.0",
  "id": 1,
  "method": "tools/call",
  "params": {
    "name": "get_skill",
    "arguments": {
      "slug": "pipeworx-io-mcp-pdbe"
    }
  }
}
```

REST: `GET https://api.skillsregistry.net/v1/skills/pipeworx-io-mcp-pdbe` · pull for local use: `GET https://api.skillsregistry.net/v1/skills/pipeworx-io-mcp-pdbe/pull`

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SkillsRegistry indexes agent skills from public registries and GitHub. Skills we have analysed are scanned with Circle-IR and scored on six dimensions; each listing states its scan coverage. More: https://skillsregistry.net/llms.txt