Individual skill

structure-analysis

Handles protein structure files and geometric criteria so that residue counts, contacts, hydrogen bonds and interfaces are reproducible, covering PDB versus mmCIF, author versus label chains and numbering, HETATM, water and ligand policy, alternate locations, insertion codes, biological assemblies versus the asymmetric unit, hydrogen-bond distance and angle cutoffs, interface definitions by distance or buried surface area, and the Biopython, MDAnalysis, gemmi, PyMOL and ChimeraX calls that implement them. Use whenever a task reads a structure file and reports anything derived from atom coordinates; use biopython for sequence work and molecular-docking or structure-prediction skills for generating structures.

backend/cli/skills/biology/structure-analysis/SKILL.md

Source commit a08e0ad0ad3d6448123039ee4659163eb2e35d99

What was checked

Matches the observed repository HEAD

Yes

Scanner rules are current

Yes

Repository scan complete

No

Skill scan complete

Yes

Observed behavior

Network or broad shell

Last checked

Nov 2, 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.