Pdb Database
Access, query, and analyze structured data within PDB databases using natural language prompts via this ovachiever agent skill.
Install on your platform
We auto-selected Claude Code based on this skill’s supported platforms.
Run in terminal (recommended)
claude mcp add ovachiever-pdb-database npx -- -y @trustedskills/ovachiever-pdb-database
Or manually add to ~/.claude/settings.json
{
"mcpServers": {
"ovachiever-pdb-database": {
"command": "npx",
"args": [
"-y",
"@trustedskills/ovachiever-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 a PDB (Protein Data Bank) database, allowing AI agents to retrieve information about protein structures. It enables querying of PDB entries by ID or keyword and retrieving associated data like experimental conditions and resolution. The agent can then utilize this structural data for various downstream tasks such as analysis and comparison.
When to use it
- Research: An agent needs to find the structure of a specific protein (e.g., "Retrieve the PDB ID for human insulin").
- Drug Discovery: An agent is comparing the structures of different proteins involved in a disease pathway.
- Education: A student wants to learn about protein crystallography and access structural data.
- Structural Biology Analysis: An agent needs to find all entries with a resolution below 2 Angstroms for a specific protein family.
Key capabilities
- Query PDB by ID
- Query PDB by keyword
- Retrieve experimental conditions
- Retrieve resolution data
Example prompts
- "What is the PDB ID for hemoglobin?"
- "Find all entries related to 'SARS-CoV-2 spike protein'."
- “Give me the resolution of entry 6LUW.”
Tips & gotchas
The skill relies on accurate PDB identifiers. Ensure that the provided IDs or keywords are valid and correctly formatted to receive relevant results.
Tags
TrustedSkills Verification
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Security Audits
| Gen Agent Trust Hub | Pass |
| Socket | Pass |
| Snyk | Pass |
🌐 Community
Passed automated security scans.