// Created by libAntimony v2.8.0 function function_3(Vs, B, n, K) (Vs*B^n)/(K^n + B^n); end function function_2(V, substrate, Km) (V*substrate)/(Km + substrate); end function function_1(k, mRNA) k*mRNA; end function function_0(vsb, K, m, Bn) (vsb*K^m)/(K^m + Bn^m); end model *Model_1() // Compartments and Species: compartment compartment_0; species species_0 in compartment_0, species_1 in compartment_0, species_2 in compartment_0; species species_3 in compartment_0, species_4 in compartment_0, species_5 in compartment_0; species species_6 in compartment_0, species_7 in compartment_0, species_8 in compartment_0; species species_9 in compartment_0, species_10 in compartment_0, species_11 in compartment_0; species species_12 in compartment_0, species_13 in compartment_0, species_14 in compartment_0; species species_15 in compartment_0, species_16 in compartment_0, species_17 in compartment_0; species species_18 in compartment_0; // Reactions: reaction_0: => species_0; compartment_0*function_0(reaction_0_vsb, reaction_0_K, reaction_0_m, species_18); reaction_1: => species_1; compartment_0*function_1(reaction_1_k, species_0); reaction_2: species_0 => ; compartment_0*reaction_2_k1*species_0; reaction_3: species_1 => species_2; compartment_0*function_2(reaction_3_V, species_1, reaction_3_Km); reaction_4: species_1 -> species_3; compartment_0*(reaction_4_k1*species_1 - reaction_4_k2*species_3); reaction_5: => species_4; compartment_0*function_1(reaction_5_k, species_5); reaction_6: species_5 => ; compartment_0*reaction_6_k1*species_5; reaction_7: species_4 => species_6; compartment_0*function_2(reaction_7_V, species_4, reaction_7_Km); reaction_8: species_6 => ; compartment_0*function_2(reaction_8_V, species_6, reaction_8_Km); reaction_9: => species_7; compartment_0*function_3(reaction_9_Vs, species_3, reaction_9_n, reaction_9_K); reaction_10: => species_8; compartment_0*function_1(reaction_10_k, species_7); reaction_11: species_9 => ; compartment_0*function_2(reaction_11_V, species_9, reaction_11_Km); reaction_12: species_8 => species_9; compartment_0*function_2(reaction_12_V, species_8, reaction_12_Km); reaction_13: species_4 + species_8 -> species_10; compartment_0*(reaction_13_k1*species_4*species_8 - reaction_13_k2*species_10); reaction_14: species_10 => species_11; compartment_0*function_2(reaction_14_V, species_10, reaction_14_Km); reaction_15: species_11 => ; compartment_0*function_2(reaction_15_V, species_11, reaction_15_Km); reaction_16: species_10 -> species_12; compartment_0*(reaction_16_k1*species_10 - reaction_16_k2*species_12); reaction_17: species_14 => ; compartment_0*reaction_17_k1*species_14; reaction_18: species_2 => ; compartment_0*reaction_18_k1*species_2; reaction_19: species_13 => ; compartment_0*reaction_19_k1*species_13; reaction_20: => species_5; compartment_0*function_3(reaction_20_Vs, species_3, reaction_20_n, reaction_20_K); reaction_21: species_12 => species_14; compartment_0*function_2(reaction_21_V, species_12, reaction_21_Km); reaction_22: species_7 => ; compartment_0*reaction_22_k1*species_7; reaction_23: species_12 + species_3 -> species_15; compartment_0*(reaction_23_k1*species_12*species_3 - reaction_23_k2*species_15); reaction_24: species_0 => ; compartment_0*function_2(reaction_24_V, species_0, reaction_24_Km); reaction_25: species_5 => ; compartment_0*function_2(reaction_25_V, species_5, reaction_25_Km); reaction_26: species_7 => ; compartment_0*function_2(reaction_26_V, species_7, reaction_26_Km); reaction_27: species_8 => ; compartment_0*reaction_27_k1*species_8; reaction_28: species_4 => ; compartment_0*reaction_28_k1*species_4; reaction_29: species_9 => ; compartment_0*reaction_29_k1*species_9; reaction_30: species_6 => ; compartment_0*reaction_30_k1*species_6; reaction_31: species_11 => ; compartment_0*reaction_31_k1*species_11; reaction_32: species_10 => ; compartment_0*reaction_32_k1*species_10; reaction_33: species_14 => ; compartment_0*function_2(reaction_33_V, species_14, reaction_33_Km); reaction_34: species_1 => ; compartment_0*reaction_34_k1*species_1; reaction_35: species_2 => ; compartment_0*function_2(reaction_35_V, species_2, reaction_35_Km); reaction_36: species_3 => species_13; compartment_0*function_2(reaction_36_V, species_3, reaction_36_Km); reaction_37: species_13 => ; compartment_0*function_2(reaction_37_V, species_13, reaction_37_Km); reaction_38: species_15 => ; compartment_0*reaction_38_k1*species_15; reaction_39: species_15 => ; compartment_0*function_2(reaction_39_V, species_15, reaction_39_Km); reaction_40: species_3 => ; compartment_0*reaction_40_k1*species_3; reaction_41: species_2 => species_1; compartment_0*function_2(reaction_41_V, species_2, reaction_41_Km); reaction_42: species_13 => species_3; compartment_0*function_2(reaction_42_V, species_13, reaction_42_Km); reaction_43: species_6 => species_4; compartment_0*function_2(reaction_43_V, species_6, reaction_43_Km); reaction_44: species_9 => species_8; compartment_0*function_2(reaction_44_V, species_9, reaction_44_Km); reaction_45: species_14 => species_12; compartment_0*function_2(reaction_45_V, species_14, reaction_45_Km); reaction_46: species_12 => ; compartment_0*reaction_46_k1*species_12; reaction_47: species_11 => species_10; compartment_0*function_2(reaction_47_V, species_11, reaction_47_Km); reaction_48: => species_16; compartment_0*function_3(reaction_48_Vs, species_3, reaction_48_n, reaction_48_K); reaction_49: species_16 => ; compartment_0*reaction_49_k1*species_16; reaction_50: species_16 => ; compartment_0*function_2(reaction_50_V, species_16, reaction_50_Km); reaction_51: => species_17; compartment_0*function_1(reaction_51_k, species_16); reaction_52: species_17 -> species_18; compartment_0*(reaction_52_k1*species_17 - reaction_52_k2*species_18); reaction_53: species_17 => ; compartment_0*function_2(reaction_53_V, species_17, reaction_53_Km); reaction_54: species_17 => ; compartment_0*reaction_54_k1*species_17; reaction_55: species_18 => ; compartment_0*function_2(reaction_55_V, species_18, reaction_55_Km); reaction_56: species_18 => ; compartment_0*reaction_56_k1*species_18; // Species initializations: species_0 = 0; species_1 = 0; species_2 = 0; species_3 = 0; species_4 = 0; species_5 = 0; species_6 = 0; species_7 = 0; species_8 = 0; species_9 = 0; species_10 = 0; species_11 = 0; species_12 = 0; species_13 = 0; species_14 = 0; species_15 = 0; species_16 = 0; species_17 = 0; species_18 = 0; // Compartment initializations: compartment_0 = 1; // Variable initializations: reaction_0_vsb = 1.8; reaction_0_K = 1; reaction_0_m = 2; reaction_1_k = 0.32; reaction_2_k1 = 0.02; reaction_3_V = 1.4; reaction_3_Km = 1.006; reaction_4_k1 = 0.8; reaction_4_k2 = 0.4; reaction_5_k = 3.2; reaction_6_k1 = 0.02; reaction_7_V = 1.2; reaction_7_Km = 1.006; reaction_8_V = 1.4; reaction_8_Km = 0.3; reaction_9_Vs = 2.4; reaction_9_n = 2; reaction_9_K = 0.6; reaction_10_k = 1.2; reaction_11_V = 3.4; reaction_11_Km = 0.3; reaction_12_V = 9.6; reaction_12_Km = 1.006; reaction_13_k1 = 0.8; reaction_13_k2 = 0.4; reaction_14_V = 2.4; reaction_14_Km = 1.006; reaction_15_V = 1.4; reaction_15_Km = 0.3; reaction_16_k1 = 0.8; reaction_16_k2 = 0.4; reaction_17_k1 = 0.02; reaction_18_k1 = 0.02; reaction_19_k1 = 0.02; reaction_20_Vs = 2.2; reaction_20_n = 2; reaction_20_K = 0.6; reaction_21_V = 2.4; reaction_21_Km = 1.006; reaction_22_k1 = 0.02; reaction_23_k1 = 1; reaction_23_k2 = 0.2; reaction_24_V = 1.3; reaction_24_Km = 0.4; reaction_25_V = 2; reaction_25_Km = 0.4; reaction_26_V = 2.2; reaction_26_Km = 0.3; reaction_27_k1 = 0.02; reaction_28_k1 = 0.02; reaction_29_k1 = 0.02; reaction_30_k1 = 0.02; reaction_31_k1 = 0.02; reaction_32_k1 = 0.02; reaction_33_V = 1.4; reaction_33_Km = 0.3; reaction_34_k1 = 0.02; reaction_35_V = 3; reaction_35_Km = 0.3; reaction_36_V = 1.4; reaction_36_Km = 1.006; reaction_37_V = 3; reaction_37_Km = 0.3; reaction_38_k1 = 0.02; reaction_39_V = 1.6; reaction_39_Km = 0.3; reaction_40_k1 = 0.02; reaction_41_V = 0.2; reaction_41_Km = 0.1; reaction_42_V = 0.4; reaction_42_Km = 0.1; reaction_43_V = 0.2; reaction_43_Km = 0.1; reaction_44_V = 0.6; reaction_44_Km = 0.1; reaction_45_V = 0.2; reaction_45_Km = 0.1; reaction_46_k1 = 0.02; reaction_47_V = 0.2; reaction_47_Km = 0.1; reaction_48_Vs = 1.6; reaction_48_n = 2; reaction_48_K = 0.6; reaction_49_k1 = 0.02; reaction_50_V = 1.6; reaction_50_Km = 0.4; reaction_51_k = 1.7; reaction_52_k1 = 0.8; reaction_52_k2 = 0.4; reaction_53_V = 4.4; reaction_53_Km = 0.3; reaction_54_k1 = 0.02; reaction_55_V = 0.8; reaction_55_Km = 0.3; reaction_56_k1 = 0.02; // Other declarations: const compartment_0; // Unit definitions: unit time_unit = 3600 second; unit substance = 1e-9 mole; // Display Names: compartment_0 is "cell"; species_0 is "Mb"; species_1 is "Bc"; species_2 is "Bcp"; species_3 is "Bn"; species_4 is "Cc"; species_5 is "Mc"; species_6 is "Ccp"; species_7 is "Mp"; species_8 is "Pc"; species_9 is "Pcp"; species_10 is "PCc"; species_11 is "PCcp"; species_12 is "PCn"; species_13 is "Bnp"; species_14 is "PCnp"; species_15 is "In"; species_16 is "Mr"; species_17 is "Rc"; species_18 is "Rn"; reaction_0 is "Mb synthesized"; reaction_1 is "Mb translated into protein"; reaction_2 is "Mb nonspecific degradation"; reaction_3 is "Bc phosphorylation"; reaction_4 is "Bc transfered from cytosolic to nuclear"; reaction_5 is "Mc translated into protein"; reaction_6 is "Mc nonspecific degradation"; reaction_7 is "Cc phosphorylation"; reaction_8 is "Ccp specific degradation"; reaction_9 is "Mp synthesis"; reaction_10 is "Mp translated into protein"; reaction_11 is "Pcp specific degradation"; reaction_12 is "Pc phospholation"; reaction_13 is "Cc and Pc produce PCc"; reaction_14 is "PCc phospholation"; reaction_15 is "PCcp specific degradation"; reaction_16 is "PCc transfered into nuclear"; reaction_17 is "PCnp nonspecific degradation"; reaction_18 is "Bcp nonspecific degradation"; reaction_19 is "Bnp nonspecific degradation"; reaction_20 is "Mc synthesis"; reaction_21 is "PCn phospholation"; reaction_22 is "Mp nonspecific degradation"; reaction_23 is "Per_Cry and Clock_Bmal form inactive complex"; reaction_24 is "Mb specific degradation"; reaction_25 is "Mc specific degradation"; reaction_26 is "Mp specific degradation"; reaction_27 is "Pc nonspecific degradation"; reaction_28 is "Cc nonspecific degradation"; reaction_29 is "Pcp nonspecific degradation"; reaction_30 is "Ccp nonspecific degradation"; reaction_31 is "PCcp nonspecific degradation"; reaction_32 is "PCc nonspecific degradation"; reaction_33 is "PCnp specific degradation"; reaction_34 is "Bc nonspecific degradation"; reaction_35 is "Bcp specific degradation"; reaction_36 is "Bn phospholation"; reaction_37 is "Bnp specific degradation"; reaction_38 is "In nonspecific degration"; reaction_39 is "In specific degradation"; reaction_40 is "Bn nonspecific degradation"; reaction_41 is "Bcp dephospholation"; reaction_42 is "Bnp dephospholation"; reaction_43 is "Ccp dephospholation"; reaction_44 is "Pcp dephospholation"; reaction_45 is "PCnp dephospholation"; reaction_46 is "PCn nonspecific degradation"; reaction_47 is "PCcp dephospholation"; reaction_48 is "Mr synthesized"; reaction_49 is "Mr nonspecific degradation"; reaction_50 is "Mr specific degradation"; reaction_51 is "Mr translated into protein"; reaction_52 is "Rc transfered into nuclear"; reaction_53 is "Rc specific degradation"; reaction_54 is "Rc nonspecific degradation"; reaction_55 is "Rn specific degradation"; reaction_56 is "Rn nonspecific degradation"; end