2023 AMBER tutorial 2 with PDBID 3WZE

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Contents

1 Introduction
2 Directory Setup
3 3WZE Structures
- 3.1 "Receptor"
- 3.2 "Ligand"
4 Amber Simulation Parameters
5 "Tleap"
6 "Equilibration"
7 "Production"
8 "MD Analysis"

Introduction

Directory Setup

3WZE Structures

"Receptor"

"Ligand"

Amber Simulation Parameters

"Tleap"

"Equilibration"

"Production"

"MD Analysis"

"RMSD"

"Hydrogen Bonding"

"MM-GBSA"

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