structural-biology
Structure retrieval, confidence-aware AlphaFold DB usage, coordinate download, PAE and pLDDT interpretation, and structure-guided biological annotation.
npx skills add BioTender-max/awesome-bio-agent-skills --skill structural-biology --agent claude-code
Same command for any agent — swap --agent for codex, cursor, copilot.
Weekly change comes from our own snapshots, not the repository page — it measures attention, not adoption.
# Structural Biology ## Version Compatibility Reference examples assume: - `biopython` 1.84+ - AlphaFold DB public API current format - optional visualization stack such as `py3Dmol` or PyMOL Verify before use: - Python: `python -c "import Bio; print(Bio.__version__)"` ## Overview Use this skill when the task is: - retrieving AlphaFold-predicted structures by UniProt accession - downloading coordinate and confidence files - reading pLDDT or PAE to judge confidence - mapping sequence findings onto structure ## When To Use This Skill - a UniProt accession or known protein target exists - experimental structure is absent or incomplete - the user needs confidence-aware structural interpretation ## Quick Route - known UniProt accession: query AlphaFold DB first - novel designed sequence without AlphaFold DB entry: use a separate prediction workflow such as ColabFold - structure interpretation request: always inspect pLDDT and PAE before making mechanistic claims ## Progressive Disclosure - Read [technical_reference.md](technical_reference.md) for confidence interpretation and source-selection rules. - Read [commands_and_thresholds.md](commands_and_thresholds.md) for AlphaFold DB retriev
- Version Compatibility
- Overview
- When To Use This Skill
- Quick Route
- Progressive Disclosure
- Expected Inputs
- Expected Outputs
- Starter Pattern
- Confidence Thresholds
- pLDDT
- PAE
- Workflow
- 1. Choose the structure source
- 2. Retrieve coordinates and confidence files
What does the structural-biology skill do?
Structure retrieval, confidence-aware AlphaFold DB usage, coordinate download, PAE and pLDDT interpretation, and structure-guided biological annotation.
How do I install it?
Run `npx skills add BioTender-max/awesome-bio-agent-skills --skill structural-biology --agent claude-code` — it drops the skill into your project so the agent can pick it up. Swap the --agent value for codex, cursor or copilot if you use one of those.
Where does this skill come from?
From BioTender-max/awesome-bio-agent-skills, a repository with 135 stars. We read it straight from the repository tree rather than a submitted listing, so what you see here is what is actually published.
Is a popular skill a good skill?
Not necessarily. Stars measure attention, not adoption — a repository can trend for a week and be abandoned. That is why we show the weekly change from our own snapshots next to the total, instead of a single flattering number.