# Chloride-hydroxide exchanger, based on 6 state transporter by Crampin and Smith 2006 # Return kinetic parameters, constraints, and vector of volumes in each # compartment (pL) (1 if gating variable, or in element corresponding to # kappa) import numpy as np def kinetic_parameters(M, include_type2_reactions, dims, V): # Set the kinetic rate constants num_cols = dims['num_cols'] num_rows = dims['num_rows'] fkc = 1e6 # dissociation constants for A+B>C where Kd = k-/k+ # K_H is given as pK_H. K_H = 10^(-pK_H) pK_OH = 14 - 7.95 K_OH = pow(10, -pK_OH) K_Cl = 18e3 # [=] mM kp = [4.29, 68.1] # [=] 1/s km = [250, 1.17] # [=] 1/s kf =[kp[0], fkc*K_OH, fkc, kp[1], fkc*K_Cl, fkc] kr =[km[0], fkc, fkc*K_Cl, km[1], fkc, fkc*K_OH] # detailed bal? They said they did it already kr[5] = np.product(kf)/(np.product(kr[0:4])) k_kinetic = kf + kr # CONSTRAINTS N_cT = [] K_C = [] # volume vector # W = list(np.append([1] * num_cols, [V['V_myo']] * num_rows)) W = [1] * num_cols + [V['V_myo'], V['V_o']]*2 + [1]*len(kf) return (k_kinetic, N_cT, K_C, W)