I am trying to run a molecular dynamics simulation with AMBER forcefield. However, it's the first time I use is, and while I know the form of the various intra- and intermolecular energy terms, some details are not clear to me. So, for the AMBER forcefield:
What pairs are excluded in the summation of intramolecular Lennard-Jones interactions? Typical choices are “excluding bonded atoms”, “excluding 1-2 and 1-3 pairs”, “excluding 1-2 and 1-3, applying a factor 1/2 to 1-4 pairs”, and “excluding 1-2, 1-3 and 1-4 pairs”.
For torsion potentials, is the potential scaled by the number of such torsions? (as is done in the DREIDING forcefield, to ensure a constant torsional barrier for the central bond)