Third minimization of with harmonic restraints on protein(+ligand?) (5 kcal/molA2)
 &cntrl
  nmropt = 0,

  imin = 1,

  ntr = 1,
  restraint_wt = 5,
  restraintmask = ':PROTEIN+LIGAND',

  maxcyc = 10000,
  ncyc = 5000,
 &end

