Pdb Database
Access and query amino acid sequence data, structural information, and related details from a comprehensive Protein Data Bank (PDB) database.
Install on your platform
We auto-selected Claude Code based on this skill’s supported platforms.
Run in terminal (recommended)
claude mcp add aminoanalytica-pdb-database npx -- -y @trustedskills/aminoanalytica-pdb-database
Or manually add to ~/.claude/settings.json
{
"mcpServers": {
"aminoanalytica-pdb-database": {
"command": "npx",
"args": [
"-y",
"@trustedskills/aminoanalytica-pdb-database"
]
}
}
}Requires Claude Code (claude CLI). Run claude --version to verify your install.
About This Skill
What it does
This skill provides access to and querying capabilities of the Protein Data Bank (PDB) database. It allows users to retrieve information about protein structures, including atomic coordinates, experimental details, and related publications. The skill facilitates analysis and understanding of 3D molecular structures for research or educational purposes.
When to use it
- Researching a specific protein: Find detailed structural data for proteins involved in biological processes.
- Educational exploration: Visualize and learn about the 3D structure of various biomolecules.
- Analyzing experimental results: Compare your findings with existing PDB entries.
- Drug discovery: Identify potential binding sites on target proteins based on their structures.
Key capabilities
- PDB database access
- Structure retrieval
- Atomic coordinate data
- Experimental details
- Related publication information
Example prompts
- "Get the structure of hemoglobin from the PDB."
- "What are the experimental conditions for PDB ID 1AKE?"
- "Find all proteins with a resolution better than 2 Angstroms in the PDB."
Tips & gotchas
The skill requires familiarity with PDB identifiers (e.g., 1AKE, 4HHB) to effectively retrieve data. Results are dependent on the completeness and accuracy of the information available within the Protein Data Bank itself.
Tags
TrustedSkills Verification
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Security Audits
| Gen Agent Trust Hub | Pass |
| Socket | Pass |
| Snyk | Pass |
🌐 Community
Passed automated security scans.