********** MODEL NAME OPO-CroF58WF58W-Bgal ********** MODEL NOTES MMmbpHD:Users:mmossing:Documents:MATLAB:work:opobgalsimparams060713.xls Reaction Object Array 1 DNA -> DNA + mRNA k1 1.000 2 mRNA -> mRNA + CroF58W k2 2.000 3 mRNA -> mRNA + bgal k2a 2.000 4 CroF58W + CroF58W <-> CroF58W2 k3 0.004 k3r 29.297 5 DNA + CroF58W2 <-> DNACroF58W2 k4 56.832 k4r 4.385 6 mRNA -> null k5 0.130 7 CroF58W -> null k7 0.026 8 bgal -> null k7a 0.011 ********** MODEL STATES d/dt(mRNA) = R1-R6 %trx - deg d/dt(CroF58W) = R2-R3-R7+R4 %trlCroF58W - dim - deg + dis d/dt(Bgal) = R2a-R8 %trlBgal - deg d/dt(CroF58W2) = R3-R4-R5+R9 %dim - dis - DNAbind + DNAdis d/dt(OPO) = R9-R5 %DNAdis - DNAbind d/dt(OPOCroF58W2) = R5-R9 %DNAbind - DNAdis mRNA(0) = 0 CroF58W(0) = 0 Bgal(0) = 0 CroF58W2(0) = 0 OPO(0) = 1 OPOCroF58W2(0) = 0 ********** MODEL PARAMETERS k1 = 1 %trx k2 = 2 %trlCroF58W k2a = 2 %trlBgal k3 = 0.00142 %dim 0.38* wt rate Jia et al 2006 k3r = 1.719 %dis 17fold slower - Jia et al 2006 k4 = 56.79 %DNAbind k4r = 4.379 %DNAdis k6 = 0.130 %deg mRNA k7 = 0.02589 %deg CroF58W k8 = 0.0108 %deg Bgal ********** MODEL VARIABLES ********** MODEL REACTIONS R1 = k1*OPO %trx R2 = k2*mRNA %trl CroF58W R2a = k2a*mRNA %trl Bgal R3 = k3*CroF58W*CroF58W %dim R4 = k3r*CroF58W2 %dis R5 = k4*CroF58W2*OPO %DNAbind R6 = k6*mRNA %deg R7 = k7*CroF58W %deg R8 = k8*Bgal %deg R9 = k4r*OPOCroF58W2 ********** MODEL FUNCTIONS ********** MODEL EVENTS ********** MODEL MATLAB FUNCTIONS