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Contents
 
Introduction
Help Videos
Reference Guide
Getting Started
Protein Structure
Molecular Graphics
Slides & ActiveICM
Sequences & Alignments
Protein Modeling
Cheminformatics
Learn and Predict
Docking
Virtual Screening
Molecular Dynamics
Run MD
 MD Restraints
 MD Membrane
 MD VLS
MolScreen
3D Ligand Editor
Tables and Plots
Local Databases
ICM-Scarab
KNIME
Tutorials
FAQs
 
Index
PrevICM User's Guide
15.2 Membrane		Next
To run an MD simulation in a Membrane.
  • Convert your protein to an ICM object.
  • MolMechanics/Run MD Simulation - Click on the Membrane tab.
  • Select a region of your protein around which you wish to center the membrane. It implements a basic membrane embedding using a pre-built lipid bilayer (~95x95Å POPE/POPC mix).
  • You can choose the option to perform embedding of the membrane before the simulation starts which will make sure all waters are all removed from the membrane before the main simulation begins.

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MD VLS

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