# Structure Contact Analysis

> Identify peptide–protein contact hotspots from a PDB structure (local file or fetched from RCSB) and emit binding hotspot positions.

- Skill: `lamm-mit/structure-contact-analysis` (Agent Skill, multi-file: 3 files)
- Install (CLI): `npx skillmds@latest add lamm-mit/structure-contact-analysis`
- Raw SKILL.md: https://api.skillmd.com/api/skills/lamm-mit/structure-contact-analysis/raw
- Safety review: pending
- Works with: Claude Code, Claude.ai, OpenAI Codex
- Category: Coding & Dev Tools
- Author: lamm-mit (https://skillmd.com/u/lamm-mit)
- Updated: 2026-09-17
- Page: https://skillmd.com/skills/lamm-mit/structure-contact-analysis

---


# Structure Contact Analysis

Given a PDB ID (or a local PDB file), compute residue-level contacts between a short peptide chain and a protein chain.

Outputs include:
- inferred peptide chain + sequence
- contact counts per peptide residue
- top hotspot positions suitable for protecting during mutation generation

## CLI

```bash
python3 scripts/run.py --pdb-id 7T10
python3 scripts/run.py --query "SSTR2 octreotide receptor"
python3 scripts/run.py --pdb-path tests/fixtures/mini_complex.pdb
```