Menu

Individual skill

tooluniverse-protein-structure-retrieval

0upvotes

Protein structure retrieval from RCSB PDB, PDBe, AlphaFold, SWISS-MODEL, 3D-Beacons (cross-provider structure aggregator), and PDB-REDO (re-refined X-ray structures), with disambiguation, quality assessment (resolution, R-factor, pLDDT, coverage), and metadata. Distinguishes high-quality experimental (X-ray under 2 Angstrom) vs predicted vs homology-model vs medium-quality structures. Use for fetching protein structures, structure-quality comparison, batch model-availability checks across a gene list, checking every structure provider at once, and selecting structures for drug design or modeling.

plugin/skills/tooluniverse-protein-structure-retrieval/SKILL.md

Read pinned source

Source commit 5598a9fc97e32964fe9b703818e7d0747142f179

What was checked

Matches the observed repository HEAD
Yes
Scanner rules are current
Yes
Repository scan complete
No
Skill scan complete
No
Observed behavior
Network or broad shell
Last checked
Nov 9, 2026

These are observations at the recorded commit, not a guarantee of safety. Review the source before running it.

Install this skill

Choose an agent in your Stack or copy a command below. Commands fetch the pinned commit and copy only this skill directory. Existing destinations are refused. Copying a command does not install anything.

An install command is unavailable: current rules, complete repository and skill scans, an eligible behavior level and a permitted license are required.

Repository context

Repository stars (not skill ratings)
1,779
Repository last updated
Nov 8, 2026
License
Apache-2.0

Observed agent integration: No specific integration evidence. Standard SKILL.md installation does not imply verified compatibility.

Files and excerpt

File metadata and permitted, redacted excerpts come from the recorded scan. Source links are pinned to that commit.

Browse files
Read excerpt

# Protein Structure Data Retrieval

Retrieve protein structures with disambiguation, quality assessment, and comprehensive metadata.

**IMPORTANT**: Always use English terms in tool calls. Respond in the user's language.

**LOOK UP DON'T GUESS**: Never assume PDB IDs, resolution, or availability. Always query RCSB/PDBe and AlphaFold to confirm.

## Domain Reasoning

Not all structures are equal. X-ray <2 A is high-quality for drug design. Cryo-EM 3-4 A is good for fold but not side chains. AlphaFold is excellent for well-folded domains but unreliable for disordered regions. Always check pLDDT (AlphaFold) or resolution (experimental) before drawing conclusions.

## Workflow
Back to top