# 5.integration Design a Binding Site

> Design a Binding Site (Module 5: The Explorer). Key concept: Integration exercise. Survey a target ligand and identify the chemical features a pocket must complement.

Design a Binding Site (Module 5: The Explorer). Key concept: Integration exercise. Survey a target ligand and identify the chemical features a pocket must complement.

- Survey a target ligand and identify the chemical features a pocket must complement
- Carve a pocket by replacing surface residues with smaller ones
- Line the pocket with residues that complement the ligand chemically
- Assess the result through a simplified docking evaluation
- Combine everything from 5.1 to 5.5 into one design workflow

## Links

- [Module 5: The Explorer](https://proteindesign.academy/module/5)
- [5.1 Molecules 101: What Proteins Bind](https://proteindesign.academy/module/5/1)
- [5.2 Surface Topography and Pocket Detection](https://proteindesign.academy/module/5/2)
- [5.3 Electrostatic Surfaces](https://proteindesign.academy/module/5/3)
- [5.4 Shape Complementarity](https://proteindesign.academy/module/5/4)
- [5.5 Enzyme Catalysis: The Catalytic Triad](https://proteindesign.academy/module/5/5)
- [Target Acquisition](https://proteindesign.academy/module/5/capstone)