# Michaelis-Menten reaction
# units: 100 nm and second

graphics none
graphic_iter 100

dim 3
species E S ES P
max_mol 500000
molperbox 4
accuracy 10

difc E 1
difc S 1
difc ES 1
difc P 1

color E 1 0 0
color S 0 1 0
color ES 1 1 0
color P 0 0 1

time_start 0
time_stop 10
time_step 0.001

boundaries 0 0 1 p
boundaries 1 0 1 p
boundaries 2 0 1 p

/*
molecule_lists onlylist
mol_list all onlylist
*/

molecule_lists Elist Slist ESlist Plist
mol_list E Elist
mol_list S Slist
mol_list ES ESlist
mol_list P Plist


#output_files systemsizeout.txt
#cmd i 0 100 0.01 molcount systemsizeout.txt

# density: 10 E/vol and 100 S/vol
mol 10 E u u u
mol 100 S u u u

reaction fwd E + S -> ES 0.1
reaction back ES -> E + S 1
reaction prod ES -> E + P 1
product_placement back pgemmax 0.2

end_file