Protein Structure Alignment
CommunityAlign protein structures via Cα superimposition.
AuthorMDhewei
Version1.0.0
Installs0
System Documentation
What problem does it solve?
Protein structure comparison often requires manual, time-consuming structural alignment to quantify similarity and identify divergent regions. This Skill automates alignment and analysis of two structures by Cα atom superimposition, producing RMSD metrics and visualizations.
Core Features & Use Cases
- Global and per-residue RMSD calculation after alignment.
- Automated retrieval of structures from PDB, AlphaFold, or local files.
- Interactive 3D viewer and publication-ready outputs for reports.
- Use Cases: compare wild-type vs mutant structures; apo vs holo conformations; assess structural conservation across homologs.
Quick Start
Run the alignment on two PDB structures by providing their IDs through the CLI, e.g., python scripts/protein_structure_alignment.py --pdb1 1AKE --pdb2 4AKE --outdir results/.
Dependency Matrix
Required Modules
biopythonmatplotlibnumpypandasrequestspy3Dmol
Components
scripts
💻 Claude Code Installation
Recommended: Let Claude install automatically. Simply copy and paste the text below to Claude Code.
Please help me install this Skill: Name: Protein Structure Alignment Download link: https://github.com/MDhewei/bioinfor-claw/archive/main.zip#protein-structure-alignment Please download this .zip file, extract it, and install it in the .claude/skills/ directory.
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