// Created by libAntimony v2.8.0 model *Novak1993_M_phase_control() // Compartments and Species: compartment cytoplasm; species cyclin in cytoplasm, dimer in cytoplasm, dimer_p in cytoplasm, p_dimer in cytoplasm; species p_dimer_p in cytoplasm, cdc25_p in cytoplasm, wee1_p in cytoplasm; species IE_p in cytoplasm, UbE_star in cytoplasm, $cdc2 in cytoplasm, $cdc25 in cytoplasm; species $wee1 in cytoplasm, $IE in cytoplasm, $UbE in cytoplasm; // Assignment Rules: cdc2 := total_cdc2 - (dimer + p_dimer + p_dimer_p + dimer_p); cdc25 := total_cdc25 - cdc25_p; wee1 := total_wee1 - wee1_p; IE := total_IE - IE_p; UbE := total_UbE - UbE_star; k25 := V25_prime*(total_cdc25 - cdc25_p) + V25_double_prime*cdc25_p; kwee := Vwee_prime*wee1_p + Vwee_double_prime*(total_wee1 - wee1_p); k2 := V2_prime*(total_UbE - UbE_star) + V2_double_prime*UbE_star; total_cyclin := cyclin + dimer + dimer_p + p_dimer + p_dimer_p; Y15P := p_dimer + p_dimer_p; // Reactions: R1: => cyclin; k1AA; R2: cyclin => ; k2*cyclin; R3: cyclin => dimer; k3*cyclin*cdc2; R4: dimer_p => dimer; kinh*dimer_p; R5: dimer => p_dimer; kwee*dimer; R6: dimer => dimer_p; kcak*dimer; R7: dimer => ; k2*dimer; R8: p_dimer => dimer; k25*p_dimer; R9: p_dimer => p_dimer_p; kcak*p_dimer; R10: p_dimer => ; k2*p_dimer; R11: p_dimer_p => p_dimer; kinh*p_dimer_p; R12: dimer_p => p_dimer_p; kwee*dimer_p; R13: p_dimer_p => dimer_p; k25*p_dimer_p; R14: p_dimer_p => ; k2*p_dimer_p; R15: dimer_p => ; k2*dimer_p; R17: => cdc25_p; (ka*dimer_p*(total_cdc25 - cdc25_p))/((K_a + total_cdc25) - cdc25_p); R18: cdc25_p => ; (kbPPase*cdc25_p)/(K_b + cdc25_p); R19: => wee1_p; (ke*dimer_p*(total_wee1 - wee1_p))/((K_e + total_wee1) - wee1_p); R20: wee1_p => ; (kfPPase*wee1_p)/(K_f + wee1_p); R21: => IE_p; (kg*dimer_p*(total_IE - IE_p))/((K_g + total_IE) - IE_p); R22: IE_p => ; (khPPAse*IE_p)/(K_h + IE_p); R23: => UbE_star; (kc*IE_p*(total_UbE - UbE_star))/((K_c + total_UbE) - UbE_star); R24: UbE_star => ; (kd_anti_IE*UbE_star)/(K_d + UbE_star); // Species initializations: cyclin = 100; dimer = 0; dimer_p = 0; p_dimer = 0; p_dimer_p = 0; cdc25_p = 0; wee1_p = 0; IE_p = 0; UbE_star = 0; // Compartment initializations: cytoplasm = 1; // Variable initializations: total_cdc2 = 100; total_cdc25 = 1; total_wee1 = 1; total_IE = 1; total_UbE = 1; V25_prime = 0.1; V25_double_prime = 2; Vwee_prime = 0.1; Vwee_double_prime = 1; V2_prime = 0.015; V2_double_prime = 1; k1AA = 1; k3 = 0.01; kinh = 0.025; kcak = 0.25; ka = 0.01; K_a = 0.1; kbPPase = 0.125; K_b = 0.1; ke = 0.0133; K_e = 0.3; kfPPase = 0.1; K_f = 0.3; kg = 0.0065; K_g = 0.01; khPPAse = 0.087; K_h = 0.01; kc = 0.1; K_c = 0.01; kd_anti_IE = 0.095; K_d = 0.01; // Other declarations: var k25, kwee, k2, total_cyclin, Y15P; const cytoplasm, total_cdc2, total_cdc25, total_wee1, total_IE, total_UbE; const V25_prime, V25_double_prime, Vwee_prime, Vwee_double_prime, V2_prime; const V2_double_prime, k1AA, k3, kinh, kcak, ka, K_a, kbPPase, K_b, ke; const K_e, kfPPase, K_f, kg, K_g, khPPAse, K_h, kc, K_c, kd_anti_IE, K_d; // Unit definitions: unit substance = 1e-9 mole; unit time_unit = 60 second; // Display Names: substance is "nanomole"; time_unit is "minutes"; dimer is "cyclin-cdc2 dimer"; dimer_p is "Thr161 phosphorylated dimer(active MPF)"; p_dimer is "Tyr15 phosphorylated dimer"; p_dimer_p is "Thr161-Tyr15 phosphorylated dimer"; cdc25_p is "phosphorylated cdc25"; wee1_p is "phosphorylated wee1"; IE_p is "phosphorylated intermediary enzyme"; UbE_star is "ubiquitin conjugating enzyme"; IE is "intermediary enzyme"; UbE is "ubiquitin conjugating enzyme"; R1 is "cyclin synthesis"; R2 is "cyclin degradation"; R3 is "cyclin-cdc2 dimer formation"; R4 is "Thr161 dephosphorylation"; R5 is "Tyr15 phosphorylation"; R6 is "Thr161 phosphorylation"; R7 is "cyclin degradation"; R8 is "Tyr15 dephosphorylation"; R9 is "Thr161 phosphorylation"; R10 is "cyclin degradation"; R11 is "Thr161 dephosphorylation"; R12 is "Tyr15 phosphorylation"; R13 is "Tyr15 dephosphorylation"; R14 is "cyclin degradation"; R15 is "cyclin degradation"; R17 is "cdc25 activation"; R18 is "cdc25 deactivation"; R19 is "wee1 deactivation"; R20 is "wee1 activation"; R21 is "intermediary enzyme activation"; R22 is "intermediary enzyme deactivation"; R23 is "ubiquitin conjugating enzyme activation"; R24 is "ubiquitin conjugating enzyme deactivation"; end