Molecular dynamics (MD) is a simulation method used in many fields to help understand the movement of atoms and molecules. This method is based on Newton's equations of motion. Each atom or molecule i...Molecular dynamics (MD) is a simulation method used in many fields to help understand the movement of atoms and molecules. This method is based on Newton's equations of motion. Each atom or molecule in the simulation is defined by a force field and mass, and is allowed to interact for a given time period. Biomembrane systems have various parameters that for MD simulations that can change the way the system evolves such as charged lipids, explicit vs implicit solvents, and membrane proteins.