tooluniverse-protein-structural-annotation-pdb
Given a PDB structure, produce a per-residue annotation table: which residues sit at a binding interface (vs a partner chain), which line a ligand pocket, which are buried (core) vs solvent-exposed (surface), and optionally secondary structure. This is the structural track drawn under a DMS heatmap and the structural prior SAE feature drops are read against. Use when you need to anchor a variant-interpretation or DMS analysis to the protein's actual physical context.
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Low-risk findings worth noting
Low
Low-risk findings.
1 low severity finding. Worth noting, but not necessarily harmful.
W011: Third-party content exposure detected (indirect prompt injection risk).
What this means
The skill exposes the agent to untrusted, user-generated content from public third-party sources, creating a risk of indirect prompt injection. This includes browsing arbitrary URLs, reading social media posts or forum comments, and analyzing content from unknown websites.
Why it was flagged
SKILL.md describes runtime calls that fetch and read PDBe REST per-residue secondary-structure data (include_secondary_structure=True via `PDBe REST`) and also may use free-text RCSB advanced search to select structures (`RCSBAdvSearch_search_structures(query=...)`), both of which can ingest outsider-authored text from provider content at execution time.
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- mims-harvard/ToolUniverse
- Commit
089eb8e
- Audited
- Security analysis
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