// Created by libAntimony v2.8.0 model *Zi2007_TGFbeta_signaling() // Compartments and Species: compartment V_medium, V_nuc, V_cyt; species Smad2c in V_cyt, Smad2n in V_nuc, Smad4c in V_cyt, Smad4n in V_nuc; species T1R_Surf in V_cyt, T1R_Cave in V_cyt, T1R_EE in V_cyt, T2R_Surf in V_cyt; species T2R_Cave in V_cyt, T2R_EE in V_cyt, LRC_Surf in V_cyt, LRC_Cave in V_cyt; species LRC_EE in V_cyt, Smads_Complex_c in V_cyt, Smads_Complex_n in V_nuc; species TGF_beta in V_medium; // Assignment Rules: Total_Smad2n := Smad2n + Smads_Complex_n; Total_Smad2c := Smad2c + Smads_Complex_c; // Reactions: R1_Smad2_import: Smad2c => Smad2n; V_cyt*Kimp_Smad2c*Smad2c; R2_Smad2_export: Smad2n => Smad2c; V_nuc*Kexp_Smad2n*Smad2n; R3_Smad4_import: Smad4c => Smad4n; V_cyt*Kimp_Smad4c*Smad4c; R4_Smad4_export: Smad4n => Smad4c; V_nuc*Kexp_Smad4n*Smad4n; R5_T1R_production: => T1R_Surf; V_cyt*v_T1R; R6_T1R_Cave_formation: T1R_Surf => T1R_Cave; V_cyt*ki_Cave*T1R_Surf; R7_T1R_Cave_recycling: T1R_Cave => T1R_Surf; V_cyt*kr_Cave*T1R_Cave; R8_T1R_EE_formation: T1R_Surf => T1R_EE; V_cyt*ki_EE*T1R_Surf; R9_T1R_EE_recycling: T1R_EE => T1R_Surf; V_cyt*kr_EE*T1R_EE; R10_T1R_EE_degradation: T1R_EE => ; V_cyt*Kdeg_T1R_EE*T1R_EE; R11_T2R_production: => T2R_Surf; V_cyt*v_T2R; R12_T2R_Cave_formation: T2R_Surf => T2R_Cave; V_cyt*ki_Cave*T2R_Surf; R13_T2R_Cave_recycling: T2R_Cave => T2R_Surf; V_cyt*kr_Cave*T2R_Cave; R14_T2R_EE_formation: T2R_Surf => T2R_EE; V_cyt*ki_EE*T2R_Surf; R15_T2R_EE_recycling: T2R_EE => T2R_Surf + TGF_beta; V_cyt*kr_EE*T2R_EE; R16_T2R_EE_degradation: T2R_EE => ; V_cyt*Kdeg_T2R_EE*T2R_EE; R17_LRC_formation: TGF_beta + T2R_Surf + T1R_Surf => LRC_Surf; V_cyt*k_LRC*TGF_beta*T2R_Surf*T1R_Surf; R18_LRC_Cave_formation: LRC_Surf => LRC_Cave; V_cyt*ki_Cave*LRC_Surf; R19_LRC_Cave_recycling: LRC_Cave => T1R_Surf + TGF_beta + T2R_Surf; V_cyt*kr_Cave*LRC_Cave; R20_LRC_EE_formation: LRC_Surf => LRC_EE; V_cyt*ki_EE*LRC_Surf; R21_LRC_EE_recycling: LRC_EE => T1R_Surf + T2R_Surf + TGF_beta; V_cyt*kr_EE*LRC_EE; R22_LRC_EE_degradation: LRC_EE => ; V_cyt*Kcd*LRC_EE; R23_Smads_Complex_formation: Smad2c + Smad4c => Smads_Complex_c; V_cyt*k_Smads_Complex_c*Smad2c*Smad4c*LRC_EE; R24_Smads_Complex_import: Smads_Complex_c => Smads_Complex_n; V_cyt*Kimp_Smads_Complex_c*Smads_Complex_c; R25_Smads_Complex_Dissociation: Smads_Complex_n => Smad4n + Smad2n; V_nuc*Kdiss_Smads_Complex_n*Smads_Complex_n; R26_LRC_Cave_degradation: LRC_Cave => ; V_cyt*Klid*LRC_Cave*Smads_Complex_n; // Species initializations: Smad2c = 492.61; Smad2n = 236.45; Smad4c = 1149.4; Smad4n = 551.72; T1R_Surf = 0.237; T1R_Cave = 2.092; T1R_EE = 2.06; T2R_Surf = 0.202; T2R_Cave = 1.778; T2R_EE = 1.148; LRC_Surf = 0; LRC_Cave = 0; LRC_EE = 0; Smads_Complex_c = 0; Smads_Complex_n = 0; TGF_beta = 0.08; // Compartment initializations: V_medium = 1; V_nuc = 0.00035; V_cyt = 0.00105; // Variable initializations: v_T1R = 0.0103; v_T2R = 0.02869; ki_EE = 0.33; kr_EE = 0.033; ki_Cave = 0.33; kr_Cave = 0.03742; Kcd = 0.005; k_LRC = 2197; Klid = 0.02609; Kdeg_T1R_EE = 0.005; Kdeg_T2R_EE = 0.025; Kimp_Smad2c = 0.16; Kexp_Smad2n = 1; Kimp_Smad4c = 0.08; Kexp_Smad4n = 0.5; k_Smads_Complex_c = 6.85e-005; Kimp_Smads_Complex_c = 0.16; Kdiss_Smads_Complex_n = 0.1174; // Other declarations: var k_LRC, Total_Smad2n, Total_Smad2c; const V_medium, V_nuc, V_cyt, v_T1R, v_T2R, ki_EE, kr_EE, ki_Cave, kr_Cave; const Kcd, Klid, Kdeg_T1R_EE, Kdeg_T2R_EE, Kimp_Smad2c, Kexp_Smad2n, Kimp_Smad4c; const Kexp_Smad4n, k_Smads_Complex_c, Kimp_Smads_Complex_c, Kdiss_Smads_Complex_n; // Unit definitions: unit time_unit = 60 second; unit substance = 1e-9 mole; // Display Names: time_unit is "minute"; substance is "nano mole"; V_medium is "Medium"; V_nuc is "Nucleus"; V_cyt is "Cytoplasm"; end