# Running MD simulations

Once you have a built system (`structure.prmtop` + `structure.pdb` from any of the {doc}`system-building tutorials <../system-prep/index>`), you need to actually run molecular dynamics on it. This section covers driving simulations with **[ACEMD](https://software.acellera.com/acemd/)**, the GPU-resident MD engine HTMD ships alongside.

```{toctree}
:maxdepth: 1

01-acemd-md
02-membrane-cellular-restraints
```