# This model illustrates how to make a basic small-mol/molecule # interaction, in this case between Receptor and Ligand. graphics opengl_good dim 3 max_species 10 max_mol 10000 species Receptor Ligand BoundReceptor difc Receptor 0 difc Ligand 10 difc BoundReceptor 0 color Receptor 0 1 0 # green color Ligand 1 0 0 # red color BoundReceptor 0 0 1 # blue display_size all 2 time_start 0 time_stop 100 time_step 0.1 boundaries 0 0 100 r boundaries 1 0 100 r boundaries 2 0 100 r start_rules ===== Molecules ====================== Receptor(ligand_site), mass = 10000.0; Ligand, mass = 100.0; ===== Association-Reactions ========= Receptor(ligand_site) + Ligand -> Receptor(ligand_site!1).Ligand(!1), kon = 1000, koff = 1; ===== Explicit-Species ================ Receptor(ligand_site!1).Ligand(!1), name=BoundReceptor; end_rules mol 50 Receptor 0 u u mol 300 Ligand u u u end_file