- Author:
- Michael Pan <mpan92@gmail.com>
- Date:
- 2020-08-27 08:39:13+10:00
- Desc:
- Fixed units
- Permanent Source URI:
- https://models.physiomeproject.org/workspace/4ce/rawfile/6baaa1d0bfa1a0772c316ab59631b619df2601f4/Code/MATLAB/code/Terkildsen_NaK_original.m
function v_cyc_nak = Terkildsen_NaK_original(struct_input)
% Calculate the cycling velocity of the Na/K ATPase using parameters and
% expressions from the original model.
F = 96485;
R = 8.314;
T = struct_input.T;
Vm = struct_input.V; % Unit V
MgATP = struct_input.MgATP;
Pi_total = struct_input.Pi_total;
Nai = struct_input.Nai;
Nae = struct_input.Nae;
Ke = struct_input.Ke;
Ki = struct_input.Ki;
H_conc = struct_input.H_conc;
MgADP = struct_input.MgADP;
K0d_nak_nai= 0.1209868E-07; %K0d_nak_nai (mM)
K0d_nak_nae= 141.271240234375000; %K0d_nak_nae (mM)
Kd_nak_nai2= 154.389923095703125; %Kd_nak_nai2 (mM)
Kd_nak_nae2= 356.009094238281250 ; %Kd_nak_nae2 (mM)
Kd_nak_ki= 255.130677771665574 ; %Kd_nak_ki (mM)
Kd_nak_ke= 6.80234527587890625 ; %Kd_nak_ke (mM)
Kd_nak_MgATP= 2.92630076408386230 ; %K_nak_mgatp (mM)
factor_nak_del= -0.179529249668121338; %factor_nak_del
rate_f_nak_1= 1664.12402343750000; %rate_f_1 (s-1)
rate_f_nak_2= 110.425056457519531 ; %rate_f_2 (s-1)
rate_f_nak_3= 2314.25756835937500 ; %rate_f_3 (s-1)
rate_f_nak_4= 462.377563476562500 ; %rate_f_4 (s-1)
rate_r_nak_1= 264.146662389765481 ; %rate_r_1 (s-1 mM-1)
rate_r_nak_2= 14.0371952056884766 ; %rate_r_2 (s-1 mM-1)
rate_r_nak_3= 7599999.50000000000 ; %rate_r_3 (s-1)
rate_r_nak_4= 1702.52624511718750 ; %rate_r_4 (s-1)
pKd_nak_hpi = 6.77d0; %pKd_nak_hpi
Kd_nak_kpi = 292.0d0; %Kd_nak_kpi (mM)
Kd_nak_napi = 224.0d0; %Kd_nak_napi (mM)
Kd_nak_nae1 = K0d_nak_nae*exp((1.0d0 ...
+factor_nak_del)*F*Vm/(R*T));
Kd_nak_nai1 = K0d_nak_nai*exp(factor_nak_del*...
F*Vm/(R*T));
Nae_bound1 = Nae/Kd_nak_nae1;
Nai_bound1 = Nai/Kd_nak_nai1;
Nae_bound2 = Nae/Kd_nak_nae2;
Nai_bound2 = Nai/Kd_nak_nai2;
Ke_bound = Ke/Kd_nak_ke;
Ki_bound = Ki/Kd_nak_ki;
MgATP_bound = MgATP/Kd_nak_MgATP;
Pi = Pi_total/(1.0d0+(Ki/Kd_nak_kpi)+ ...
(H_conc/(10^(3.0-pKd_nak_hpi)))+(Nai/...
Kd_nak_napi));
%Forward rate constants
alpha_f_nak_1 = rate_f_nak_1*Nai_bound1*...
(Nai_bound2^2.0d0)/(((1.0d0+Nai_bound1)*...
(1.0d0+Nai_bound2)^2.0d0)+...
((1.0d0+Ki_bound)^2.0d0)-1.0d0);
alpha_f_nak_2 = rate_f_nak_2;
alpha_f_nak_3 = rate_f_nak_3*(Ke_bound^2.0d0)/...
(((1.0d0+Nae_bound1)*(1.0d0+Nae_bound2)^2.0d0)+...
((1.0d0+Ke_bound)^2.0d0)-1.0d0);
alpha_f_nak_4 = rate_f_nak_4*MgATP_bound/...
(1.0d0+MgATP_bound);
%Reverse rate constants
alpha_r_nak_1 = rate_r_nak_1*MgADP;
alpha_r_nak_2 = rate_r_nak_2*Nae_bound1*...
((Nae_bound2)^2.0d0)/...
(((1.0d0+Nae_bound1)*(1.0d0+Nae_bound2)^2.0d0)+...
((1.0d0+Ke_bound)^2.0d0)-1.0d0);
alpha_r_nak_3 = rate_r_nak_3*Pi*H_conc/...
(1.0d0+MgATP_bound);
alpha_r_nak_4 = rate_r_nak_4*(Ki_bound^2.0d0)/...
(((1.0d0+Nai_bound1)*(1.0d0+Nai_bound2)^2.0d0)+...
((1.0d0+Ki_bound)^2.0d0)-1.0d0);
sig_nak = alpha_r_nak_1*alpha_r_nak_2*alpha_r_nak_3 + ...
alpha_r_nak_1*alpha_r_nak_2*alpha_f_nak_4 + ...
alpha_r_nak_1*alpha_f_nak_3*alpha_f_nak_4 + ...
alpha_f_nak_2*alpha_f_nak_3*alpha_f_nak_4 + ...
alpha_r_nak_2*alpha_r_nak_3*alpha_r_nak_4 + ...
alpha_f_nak_1*alpha_r_nak_2*alpha_r_nak_3 + ...
alpha_f_nak_1*alpha_r_nak_2*alpha_f_nak_4 + ...
alpha_f_nak_1*alpha_f_nak_3*alpha_f_nak_4 + ...
alpha_r_nak_1*alpha_r_nak_3*alpha_r_nak_4 + ...
alpha_f_nak_2*alpha_r_nak_3*alpha_r_nak_4 + ...
alpha_f_nak_1*alpha_f_nak_2*alpha_r_nak_3 + ...
alpha_f_nak_1*alpha_f_nak_2*alpha_f_nak_4 + ...
alpha_r_nak_1*alpha_r_nak_2*alpha_r_nak_4 + ...
alpha_r_nak_1*alpha_f_nak_3*alpha_r_nak_4 + ...
alpha_f_nak_2*alpha_f_nak_3*alpha_r_nak_4 + ...
alpha_f_nak_1*alpha_f_nak_2*alpha_f_nak_3;
v_cyc_nak = (alpha_f_nak_1*alpha_f_nak_2*alpha_f_nak_3*...
alpha_f_nak_4-alpha_r_nak_1*alpha_r_nak_2*...
alpha_r_nak_3*alpha_r_nak_4)/sig_nak;
end
