// Created by libAntimony v2.8.0 model *Moriya2011_CellCycle_FissionYeast() // Compartments and Species: compartment default; species $s4 in default, $s9 in default, $s46 in default, s47 in default; species s48 in default, s49 in default, s50 in default, $s51 in default; species $s52 in default, $s55 in default, s56 in default, $s57 in default; species s60 in default, $s61 in default, s63 in default, s64 in default; species $s65 in default, $s66 in default, s67 in default, s71 in default; species s72 in default, $s73 in default, $s74 in default, s75 in default; species $s76 in default, $s77 in default, $s78 in default, $s79 in default; species s80 in default, s81 in default, $s82 in default, s83 in default; species s84 in default, $s85 in default, $s88 in default, $s89 in default; species s90 in default, s91 in default, $s92 in default, $s93 in default; species $s94 in default, s130 in default, s137 in default, s149 in default; species s153 in default, $s157 in default, s161 in default, s166 in default; substanceOnly species $s70 in default; // Assignment Rules: BB := oriT + s84 + (ko18r + Vdc18)/ko18; Vdc18 := kdc18 + kdc18c13*s56 + kdc18cig*s67 + kdc18cig_dash*s63; chrom := (2*oriT*s84)/(BB + sqrt(BB^2 - 4*oriT*s84)); UDNA := Rad3*(k*s84 + (k_dash*s90*Cdc18)/((ko18r + Vdc18)/ko18 + Cdc18)); Cdc18 := s84 - chrom; Vdrum := kdrum + kdrumpuc*Puc1 + kdrumci1*s75 + kdrumcig*s67 + kdrumcig_dash*s63 + kdrumc13*s56 + kdrumc13_dash*s60; Vdcyc := kdcyc + kdcycsrw*s47 + kdcycsrw_dash*Srw1T + kdcycslp*s48 + kdcycslp_dash*Slp1T; k25 := k25_dash*Cdc25T + (k25_dash2 - k25_dash)*s83; preRC := ((oriT - s90 - s91)*Cdc18)/((ko18r + Vdc18)/ko18 + Cdc18); kwee := kwee_dash*Wee1T + (kwee_dash2 - kwee_dash)*s80; // Reactions: re3: $s65 => s47; ((kasrw + kasrw_dash*s48)*(Srw1T - s47))/(Jasrw + (Srw1T - s47)); re4: s47 => $s65; ((kisrw + kisrw_dash*s67 + kisrw_dash2*s56 + kisrw_dash3*Puc1 + kisrw_dash4*s75)*s47)/(Jisrw + s47); re5: $s51 => s50; ((kaie*s56 + kaie_dash*s75)*(1 - s50))/(Jaie + (1 - s50)); re6: s50 => $s51; (kiie*s50)/(Jiie + s50); re7: $s66 => s48; (kaslp*s50*(Slp1T - s48))/(Jaslp + (Slp1T - s48)); re8: s48 => $s66; (kislp*s48)/(Jislp + s48); re12: $s57 => s56; kscyc; re14: s137 => s60 + $s61; Vdrum*s137; re15: s161 => s166 + $s46; Vdcyc*s161; re16: s161 => s56 + $s61; Vdrum*s161; re17: s137 => s166 + $s46; Vdcyc*s137; re18: s137 => s161; (kpyp2 + k25)*s137; re19: $s55 => s67; kscig*Cdc10T + kscig_dash*s71; re20: s67 => s63; kmik_dash2*s72*s67; re21: s63 => s67; k25*k255*s63 + (kpyp*s63)/(1 + beta*UDNA); re22: s166 + s67 -> s149; lcp*s67*s166 - lcm*s149; re23: s149 => s166 + $s94; (kdcig + kdcig_dash*s48)*s149; re24: s166 + s63 -> s153; lcp*s63*s166 - lcm*s153; re25: s153 => s166 + $s94; (kdcig + kdcig_dash*s48)*s153; re27: s153 => s149; k25*k255*s153 + (kpyp*s153)/(1 + beta*UDNA); re28: s67 => $s94; (kdcig + kdcig_dash*s48)*s67; re29: s153 => s63; Vdrum*s153; re30: s149 => s67 + $s61; Vdrum*s149; re31: s63 => $s94; (kdcig + kdcig_dash*s48)*s63; re32: s71 => $s70; ((kic10 + kic10_dash*s67)*s71)/(Jic10 + s71); re33: $s70 => s71; (kac10*(Cdc10T - s71))/(Jac10 + (Cdc10T - s71)); re34: $s73 => s72; Vamik*Cdc10T + Vamik_dash*s71; re35: s72 => $s74; (Vimik + Vimik_dash*s67 + Vimik_dash2*s56 + Vimik_dash3*s60)*s72; re36: $s76 => s75; ksci1; re37: s75 => $s77; (kdci1 + kdci1_dash*s48 + kdci1_dash2*s47)*s75; re38: $s78 => s81; ksflp + ksflp_dash*s48; re39: $s79 => s80; ((Vawee_dash + Vawee_dash2*s81)*(Wee1T - s80))/(Jawee + (Wee1T - s80)); re40: s80 => $s79; ((Viwee_dash + Viwee_dash2*s56)*s80)/(Jiwee + s80); re41: s60 => $s46; Vdcyc*s60; re42: s56 => $s46; Vdcyc*s56; re43: s161 => s137; (kmik_dash*s72 + kwee)*s161; re44: s149 => s153; kmik_dash2*s72*s149; re45: $s82 => s83; (Va25_dash2*s56*(Cdc25T - s83))/(Ja25 + (Cdc25T - s83)); re46: s83 => $s82; ((Vi25_dash + Vi25_dash2*s81 + Vi25*UDNA)*s83)/(Ji25 + s83); re47: $s85 => s84; ksc18*(Cdc10T - s71 + s71) + ksc18_dash*s71; re48: s84 => $s88; Vdc18*s84; re53: s81 => $s93; kdflp*s81; re54: s56 + s166 -> s161; lp*s56*s166 - lm*s161; re56: s60 => s56; (kpyp2 + k25)*s60; re57: s56 => s60; (kmik_dash*s72 + kwee)*s56; re58: s166 + s60 -> s137; lp*s60*s166 - lm*s137; re60: s166 => $s61; Vdrum*s166; re62: $s52 => s166; ksrum; re66: $s89 => s90; (kini_dash*s56 + kini_dash2*s67 + kini_dash3*s63)*preRC; re67: s91 => $s92; kori/(1 + ((kipre*s56 + kipre_dash*s67)/Jipre)^n)*s91; re68: s90 => s91; krepl*s90; // Species initializations: s4 = 0; s9 = 0; s46 = 0; s47 = 0.00239076/default; s48 = 6.33821e-005/default; s49 = 0; s50 = 0.00127807/default; s51 = 0; s52 = 0; s55 = 0; s56 = 0.0439902/default; s57 = 0; s60 = 0.1147007/default; s61 = 0; s63 = 0; s64 = 0; s65 = 0; s66 = 0; s67 = 0; s70 = 0; s71 = 0; s72 = 0; s73 = 0; s74 = 0; s75 = 0; s76 = 0; s77 = 0; s78 = 0; s79 = 0; s80 = 0; s81 = 0; s82 = 0; s83 = 0; s84 = 0; s85 = 0; s88 = 0; s89 = 0; s90 = 0; s91 = 0; s92 = 0; s93 = 0; s94 = 0; s130 = 0; s137 = 0.0432273/default; s149 = 0; s153 = 0; s157 = 0; s161 = 0.0165018/default; s166 = 0; // Compartment initializations: default = 1; default has volume; // Variable initializations: ksc18_dash = 0.075; ksc18 = 0.005; kdc18 = 0.001; kdc18c13 = 0.45; kdc18cig = 1; kdc18cig_dash = 0; krepl = 2; kini_dash = 10; kini_dash2 = 10; kini_dash3 = 0; ko18 = 100; ko18r = 1; kori = 125; kipre = 1; kipre_dash = 1; Jipre = 0.01; n = 4; k = 0.1; k_dash = 10; kscyc = 0.03; kdcyc = 0.018; kdcycsrw = 1; kdcycsrw_dash = 0.0001; kdcycslp = 1; kdcycslp_dash = 0.0003; kasrw = 1.25; kasrw_dash = 30; kisrw = 1.5; kisrw_dash = 40; kisrw_dash2 = 1; kisrw_dash3 = 4; kisrw_dash4 = 4; Jasrw = 0.01; Jisrw = 0.01; kaslp = 1; kislp = 0.2; Jaslp = 0.01; Jislp = 0.01; kaie = 0.0975; kiie = 0.04; Jaie = 0.01; Jiie = 0.01; ksrum = 1; kdrum = 0.4; kdrumpuc = 0.1; kdrumci1 = 1; kdrumcig = 15; kdrumcig_dash = 10; kdrumc13 = 50; kdrumc13_dash = 5; lp = 500; lm = 100; kscig_dash = 0.04; kdcig = 0.02; kdcig_dash = 1; kac10 = 0.125; kic10 = 0.01; kic10_dash = 3; Jac10 = 0.01; Jic10 = 0.01; kwee_dash = 0.01; kwee_dash2 = 0.5; Vawee_dash = 0.24; Vawee_dash2 = 1; Viwee_dash = 0; Viwee_dash2 = 1; Jawee = 0.04; Jiwee = 0.03; k25_dash = 0.01; k25_dash2 = 1; Va25_dash2 = 1; Vi25_dash2 = 1; Vi25_dash = 0.24; Vi25 = 0.3; Ja25 = 0.03; Ji25 = 0.03; lcp = 3; lcm = 1; kmik_dash = 0.01; kmik_dash2 = 4; Vamik = 0.25; Vimik = 0.75; Vimik_dash = 10; Vimik_dash2 = 10; Vimik_dash3 = 0.25; kpyp = 0.6; ksflp = 0.0015; ksflp_dash = 0.015; kdflp = 0.1; ksci1 = 0.0015; kdci1 = 0.1; kdci1_dash = 5; kdci1_dash2 = 0.2; k255 = 0.1; kpyp2 = 0.01; kscig = 0.002; oriT = 1; Rad3 = 1; kmik = 0; Puc1 = 1; Srw1T = 1; Slp1T = 1; Cdc25T = 1; Vamik_dash = 0.75; beta = 10; Cdc10T = 1; Wee1T = 1; kaie_dash = 0.05; // Other declarations: var BB, Vdc18, chrom, UDNA, Cdc18, kmik, Vdrum, Vdcyc, k25, preRC, kwee; const default, ksc18_dash, ksc18, kdc18, kdc18c13, kdc18cig, kdc18cig_dash; const krepl, kini_dash, kini_dash2, kini_dash3, ko18, ko18r, kori, kipre; const kipre_dash, Jipre, n, k, k_dash, kscyc, kdcyc, kdcycsrw, kdcycsrw_dash; const kdcycslp, kdcycslp_dash, kasrw, kasrw_dash, kisrw, kisrw_dash, kisrw_dash2; const kisrw_dash3, kisrw_dash4, Jasrw, Jisrw, kaslp, kislp, Jaslp, Jislp; const kaie, kiie, Jaie, Jiie, ksrum, kdrum, kdrumpuc, kdrumci1, kdrumcig; const kdrumcig_dash, kdrumc13, kdrumc13_dash, lp, lm, kscig_dash, kdcig; const kdcig_dash, kac10, kic10, kic10_dash, Jac10, Jic10, kwee_dash, kwee_dash2; const Vawee_dash, Vawee_dash2, Viwee_dash, Viwee_dash2, Jawee, Jiwee, k25_dash; const k25_dash2, Va25_dash2, Vi25_dash2, Vi25_dash, Vi25, Ja25, Ji25, lcp; const lcm, kmik_dash, kmik_dash2, Vamik, Vimik, Vimik_dash, Vimik_dash2; const Vimik_dash3, kpyp, ksflp, ksflp_dash, kdflp, ksci1, kdci1, kdci1_dash; const kdci1_dash2, k255, kpyp2, kscig, oriT, Rad3, Puc1, Srw1T, Slp1T, Cdc25T; const Vamik_dash, beta, Cdc10T, Wee1T, kaie_dash; // Unit definitions: unit substance = mole; unit volume = litre; unit area = metre^2; unit length = metre; unit time_unit = second; // Display Names: time_unit is "time"; s4 is "Vdrum"; s9 is "Vdcyc"; s46 is "sa4_degraded"; s47 is "Srw1"; s48 is "Slp1A"; s49 is "Puc1"; s50 is "IE"; s51 is "iIE"; s52 is "rum1+"; s55 is "cig2+"; s56 is "Cdc13"; s57 is "cdc13+"; s60 is "pCdc13"; s61 is "sa161_degraded"; s63 is "Cig2p"; s64 is "Pyp3"; s65 is "iSrw1"; s66 is "iSlp1"; s67 is "Cig2"; s70 is "iCdc10"; s71 is "Cdc10"; s72 is "Mik1"; s73 is "mik1+"; s74 is "sa347_degraded"; s75 is "Cig1"; s76 is "cig1+"; s77 is "sa353_degraded"; s78 is "Clp1+"; s79 is "iWee1"; s80 is "Wee1"; s81 is "Clp1"; s82 is "iCdc25"; s83 is "Cdc25"; s84 is "Cdc18T"; s85 is "cdc18+"; s88 is "sa386_degraded"; s89 is "preRC"; s90 is "postRC"; s91 is "repldna"; s92 is "irepldna"; s93 is "sa370_degraded"; s94 is "sa44_degraded"; s130 is "Vdc18"; s137 is "Cdc13p-Rum1"; s149 is "Cig2-Rum1"; s153 is "Cig2p-Rum1"; s157 is "UDNA"; s161 is "Cdc13-Rum1"; s166 is "Rum1"; ksc18_dash is "ksc18'"; kdc18cig_dash is "kdc18cig'"; kini_dash2 is "kini''"; kini_dash3 is "kini'''"; kipre_dash is "kipre'"; k_dash is "k'"; kdcycsrw_dash is "kdcycsrw'"; kdcycslp_dash is "kdcycslp'"; kasrw_dash is "kasrw'"; kisrw_dash is "kisrw'"; kisrw_dash2 is "kisrw''"; kisrw_dash3 is "kisrw'''"; kisrw_dash4 is "kisrw''''"; kdrumc13_dash is "kdrumc13'"; kscig_dash is "kscig'"; kdcig_dash is "kdcig'"; kic10_dash is "kic10'"; kwee_dash is "kwee'"; kwee_dash2 is "kwee''"; Vawee_dash is "Vawee'"; Vawee_dash2 is "Vawee''"; Viwee_dash is "Viwee'"; Viwee_dash2 is "Viwee''"; k25_dash is "k25'"; k25_dash2 is "k25''"; Va25_dash2 is "Va25''"; Vi25_dash2 is "Vi25''"; Vi25_dash is "Vi25'"; kmik_dash is "kmik'"; kmik_dash2 is "kmik''"; Vimik_dash is "Vimik'"; Vimik_dash2 is "Vimik''"; Vimik_dash3 is "Vimik'''"; ksflp_dash is "ksflp'"; kdci1_dash is "kdci1'"; kdci1_dash2 is "kdci1''"; Vamik_dash is "Vamik'"; kaie_dash is "kaie'"; re12 is "Cdc13_Synthesis"; re14 is "Trim_Dissociation_Rum1degradation"; re16 is "Trim_Dissociation_Rum1degradation"; re18 is "Cdc13_Dephosphorylation"; re19 is "Cdc13_Synthesis"; re20 is "Cdc13_Phosphorylation"; re21 is "Cdc13_Dephosphorylation"; re22 is "Rum1+Cdc13_association"; re24 is "Rum1+Cdc13_association"; re27 is "Cdc13_Dephosphorylation"; end