Model Mathematics

Component: environment

Component: c

dd time c = L0 kr kf r + 2.0 ku kr c2 - c + 2.0 R0 kr kc c 2.0

Component: c2

dd time c2 = R0 kr kc c 2.0 + kc_minus kr c_star - ku kr c + kc_plus kr c2

Component: c_star

dd time c_star = kc_plus kr c2 + kr_1 kr A1_T R0 c_star_a1 + kr_12 kr A2_T R0 e0_star - kc_minus kr c_star + kf_1 A1_T kr c_star a1 + kf_12 A1_T kr c_star a1a2

Component: c_star_a1

dd time c_star_a1 = kf_1 R0 kr c_star a1 + kr_2 kr A2_T A1_T e0_star + kcat_x kr E4_T A1_T e0_star_e4_star - kr_1 kr c_star_a1 + kf_2 A2_T kr c_star_a1 a2

Component: e0_star

dd time e0_star = kf_2 A1_T kr c_star_a1 a2 + kf_12 A1_T kr c_star a1a2 + k1_minus + kcat_1 kr E1_T A2_T e1_e0_star + kx_minus kr E4_T A2_T e0_star_e4_star - kr_2 kr e0_star + kr_12 kr e0_star + k1_plus E1_T kr e0_star e1 + kx_plus E4_T kr e0_star e4_star

Component: a1a2

dd time a1a2 = kr_12 kr A2_T A1_T e0_star + kc_12 A2_T kr a1 a2 - kd_12 kr a1a2 + kf_12 R0 kr c_star a1a2

Component: r

r = 1.0 - c + 2.0 c2 + c_star + A1_T R0 c_star_a1 + A2_T R0 e0_star + E4_T R0 e0_star_e4_star + E1_T R0 e1_e0_star

Component: a1

a1 = 1.0 - c_star_a1 + a1a2 + A2_T A1_T e0_star + E4_T A1_T e0_star_e4_star + E1_T A1_T e1_e0_star

Component: a2

a2 = 1.0 - A1_T A2_T a1a2 + e0_star + E4_T A2_T e0_star_e4_star + E1_T A2_T e1_e0_star + a2_minus

Component: a2_minus

dd time a2_minus = kcat_x kr E4_T A2_T e0_star_e4_star

Component: e1_star_p1

dd time e1_star_p1 = kP1_plus E1_T kr e1_star p1 - kP1_minus kr + kcat_P1 kr e1_star_p1

Component: e2_star_p2

dd time e2_star_p2 = kP2_plus E2_T kr e2_star p2 - kP2_minus kr + kcat_P2 kr e2_star_p2

Component: e3_star_p3

dd time e3_star_p3 = kP3_plus E3_T kr e3_star p3 - kP3_minus kr + kcat_P3 kr e3_star_p3

Component: e4_star_p4

dd time e4_star_p4 = kP4_plus E4_T kr e4_star p4 - kP4_minus kr + kcat_P4 kr e4_star_p4

Component: e5_star_p5

dd time e5_star_p5 = kP5_plus E5_T kr e5_star p5 - kP5_minus kr + kcat_P5 kr e5_star_p5

Component: e1_e0_star

dd time e1_e0_star = k1_plus A2_T kr e1 e0_star - k1_minus kr + kcat_1 kr e1_e0_star

Component: e2_e1_star

dd time e2_e1_star = k2_plus E1_T kr e2 e1_star - k2_minus kr + kcat_2 kr e2_e1_star

Component: e3_e2_star

dd time e3_e2_star = k3_plus E2_T kr e3 e2_star - k3_minus kr + kcat_3 kr e3_e2_star

Component: e4_e3_star

dd time e4_e3_star = k4_plus E3_T kr e4 e3_star - k4_minus kr + kcat_4 kr e4_e3_star

Component: e5_e4_star

dd time e5_e4_star = k5_plus E4_T kr e5 e4_star - k5_minus kr + kcat_5 kr e5_e4_star

Component: e2_star_e4_star

dd time e2_star_e4_star = kz_plus E2_T kr e4_star e2_star - kz_minus kr + kcat_z kr e2_star_e4_star

Component: e0_star_e4_star

dd time e0_star_e4_star = kx_plus A2_T kr e4_star e0_star - kx_minus kr + kcat_x kr e0_star_e4_star

Component: e2_minus

dd time e2_minus = kcat_z kr E4_T E2_T e2_star_e4_star

Component: e1_star

dd time e1_star = kcat_1 kr e1_e0_star + k2_minus + kcat_2 kr E2_T E1_T e2_e1_star + kP1_minus kr P1_T E1_T e1_star_p1 - k2_plus E2_T kr e1_star e2 + kP1_plus P1_T kr e1_star p1

Component: e3_star

dd time e3_star = kcat_3 kr e3_e2_star + k4_minus + kcat_4 kr E4_T E3_T e4_e3_star + kP3_minus kr P3_T E3_T e3_star_p3 - k4_plus E4_T kr e3_star e4 + kP3_plus P3_T kr e3_star p3

Component: e5_star

dd time e5_star = kcat_5 kr e5_e4_star + kP5_minus kr P5_T E5_T e5_star_p5 - kP5_plus P5_T kr e5_star p5

Component: e2_star

dd time e2_star = kcat_2 kr e2_e1_star + k3_minus + kcat_3 kr E3_T E2_T e3_e2_star + kP2_minus kr P2_T E2_T e2_star_p2 + kz_minus kr E4_T E2_T e2_star_e4_star - k3_plus E3_T kr e2_star e3 + kP2_plus P2_T kr e2_star p2 + kz_plus E4_T kr e2_star e4_star

Component: e4_star

dd time e4_star = kcat_4 kr e4_e3_star + k5_minus + kcat_5 kr E5_T E4_T e5_e4_star + kP4_minus kr P4_T E4_T e4_star_p4 + kx_minus kr + kcat_x kr e0_star_e4_star + kz_minus kr + kcat_z kr e2_star_e4_star - k5_plus E5_T kr e4_star e5 + kP4_plus P4_T kr e4_star p4 + kx_plus A2_T kr e0_star e4_star + kz_plus E2_T kr e2_star e4_star

Component: p1

p1 = 1.0 - e1_star_p1

Component: p2

p2 = 1.0 - e2_star_p2

Component: p3

p3 = 1.0 - e3_star_p3

Component: p4

p4 = 1.0 - e4_star_p4

Component: p5

p5 = 1.0 - e5_star_p5

Component: e1

e1 = 1.0 - e1_e0_star + e1_star + E2_T E1_T e2_e1_star + P1_T E1_T e1_star_p1

Component: e3

e3 = 1.0 - e3_e2_star + e3_star + E4_T E3_T e4_e3_star + P3_T E3_T e3_star_p3

Component: e5

e5 = 1.0 - e5_e4_star + e5_star + P5_T E5_T e5_star_p5

Component: e2

e2 = 1.0 - e3_e2_star + e3_star + E3_T E2_T e3_e2_star + E4_T E2_T e2_star_e4_star + P2_T E2_T e2_star_p2

Component: e4

e4 = 1.0 - e4_e3_star + e4_star + E5_T E4_T e5_e4_star + P4_T E4_T e4_star_p4 + e0_star_e4_star + e2_star_e4_star

Component: model_parameters

L0 = kr kf kr_1 = kf_1 1E-7 kr_2 = kf_2 1E-7 kr_12 = kf_12 1E-7 kd_12 = kc_12 1E-7