Reaction Diagram
Physiology
Universal ID's | Text Annotations |
---|---|
|
|
Reaction |
Name
Structure
|
Kinetics | Depiction |
---|---|---|---|
GDIuuco_Rac1cgTpGDIuuco+Rac1cgTp |
R20
Cytoplasm
|
GeneralKinetics | GDIuuco_Rac1cgTpGDIuuco+Rac1cgTp |
|
|
reaction rate (J): ((koffT_3d_R1 * GDIuuco_Rac1cgTp) - (konT_3d_R1 * GDIuuco * Rac1cgTp))[uM.s-1]
|
|
Rac1cgDpRac1ggDp |
R14
Granules
|
GeneralKinetics | Rac1cgDpRac1ggDp |
|
|
reaction rate (J): (sbmlRateFactor * ((rateParam17 * Rac1cgDp) - (rateParam18 * Rac1ggDp * Rac1ggDp_ConcFactor)) / KMOLE)[molecules.um-2.s-1]
inward current density (I): 0.0[pA.um-2] net charge valence (netValence): 0.0[1] user defined (Rac1ggDp_ConcFactor): 1.6611295681063123E-6[1000] user defined (sbmlRateFactor): 9.999999999999999E14[1.0E-15] |
|
Rac1mgDpRac1mgTp |
R15
Membrane
|
GeneralKinetics | Rac1mgDpRac1mgTp |
|
|
reaction rate (J): (sbmlRateFactor * ((rateParam21 * Rac1mgDp * Rac1mgDp_ConcFactor) - (rateParam22 * Rac1mgTp * Rac1mgTp_ConcFactor)) / KMOLE)[molecules.um-2.s-1]
inward current density (I): 0.0[pA.um-2] net charge valence (netValence): 0.0[1] user defined (Rac1mgDp_ConcFactor): 1.6611295681063123E-6[1000] user defined (Rac1mgTp_ConcFactor): 1.6611295681063123E-6[1000] user defined (sbmlRateFactor): 9.999999999999999E14[1.0E-15] |
|
Rac1cgDpRac1mgDp |
R11
Membrane
|
GeneralKinetics | Rac1cgDpRac1mgDp |
|
|
reaction rate (J): (sbmlRateFactor * ((rateParam13 * Rac1cgDp) - (rateParam14 * Rac1mgDp * Rac1mgDp_ConcFactor)) / KMOLE)[molecules.um-2.s-1]
inward current density (I): 0.0[pA.um-2] net charge valence (netValence): 0.0[1] user defined (Rac1mgDp_ConcFactor): 1.6611295681063123E-6[1000] user defined (sbmlRateFactor): 9.999999999999999E14[1.0E-15] |
|
Rac1mgTpRac1cgTp |
R13
Membrane
|
GeneralKinetics | Rac1mgTpRac1cgTp |
|
|
reaction rate (J): (sbmlRateFactor * ((rateParam16 * Rac1mgTp * Rac1mgTp_ConcFactor) - (rateParam15 * Rac1cgTp)) / KMOLE)[molecules.um-2.s-1]
inward current density (I): 0.0[pA.um-2] net charge valence (netValence): 0.0[1] user defined (Rac1mgTp_ConcFactor): 1.6611295681063123E-6[1000] user defined (sbmlRateFactor): 9.999999999999999E14[1.0E-15] |
|
GDIpuco+Rac1cgDpGDIpuco_Rac1cgDp |
R21
Cytoplasm
|
GeneralKinetics | GDIpuco+Rac1cgDpGDIpuco_Rac1cgDp |
|
|
reaction rate (J): ((rateParam27 * GDIpuco * Rac1cgDp) - (koffD_3d_R1 * GDIpuco_Rac1cgDp))[uM.s-1]
|
|
Rac1ggDpRac1ggTp |
R31
Granules
|
GeneralKinetics | Rac1ggDpRac1ggTp |
|
|
reaction rate (J): (sbmlRateFactor * ((rateParam23 * Rac1ggDp * Rac1ggDp_ConcFactor) - (rateParam24 * Rac1ggTp * Rac1ggTp_ConcFactor)) / KMOLE)[molecules.um-2.s-1]
inward current density (I): 0.0[pA.um-2] net charge valence (netValence): 0.0[1] user defined (Rac1ggDp_ConcFactor): 1.6611295681063123E-6[1000] user defined (Rac1ggTp_ConcFactor): 1.6611295681063123E-6[1000] user defined (sbmlRateFactor): 9.999999999999999E14[1.0E-15] |
|
GDIpuco+Rac1cgTpGDIpuco_Rac1cgTp |
R35
Cytoplasm
|
GeneralKinetics | GDIpuco+Rac1cgTpGDIpuco_Rac1cgTp |
|
|
reaction rate (J): ((rateParam28 * GDIpuco * Rac1cgTp) - (koffT_3d_R1 * GDIpuco_Rac1cgTp))[uM.s-1]
|
|
Rac1cgDpRac1cgTp |
R17
Cytoplasm
|
GeneralKinetics | Rac1cgDpRac1cgTp |
|
|
reaction rate (J): ((gef_Cyt_R1 * Rac1cgDp) - (gap_Cyt_R1 * Rac1cgTp))[uM.s-1]
|
|
GDIuuco+Rac1cgDpGDIuuco_Rac1cgDp |
R18
Cytoplasm
|
GeneralKinetics | GDIuuco+Rac1cgDpGDIuuco_Rac1cgDp |
|
|
reaction rate (J): ((konD_3d_R1 * GDIuuco * Rac1cgDp) - (koffD_3d_R1 * GDIuuco_Rac1cgDp))[uM.s-1]
|
|
PLDmaTrashm |
R41
Membrane
|
GeneralKinetics | PLDmaTrashm |
|
|
reaction rate (J): (sbmlRateFactor * rateParam3 * PLDma * PLDma_ConcFactor / KMOLE)[molecules.um-2.s-1]
inward current density (I): 0.0[pA.um-2] net charge valence (netValence): 0.0[1] user defined (PLDma_ConcFactor): 1.6611295681063123E-6[1000] user defined (sbmlRateFactor): 9.999999999999999E14[1.0E-15] |
|
PLDgiPLDci |
R1
Granules
|
GeneralKinetics | PLDgiPLDci |
|
|
reaction rate (J): (sbmlRateFactor * rateParam1 * PLDgi * PLDgi_ConcFactor / KMOLE)[molecules.um-2.s-1]
inward current density (I): 0.0[pA.um-2] net charge valence (netValence): 0.0[1] user defined (PLDgi_ConcFactor): 1.6611295681063123E-6[1000] user defined (sbmlRateFactor): 9.999999999999999E14[1.0E-15] |
|
GDIuucoGDIuumo |
R2
Membrane
|
GeneralKinetics | GDIuucoGDIuumo |
|
|
reaction rate (J): (sbmlRateFactor * ((rateParam5 * GDIuuco) - (rateParam4 * GDIuumo * GDIuumo_ConcFactor)) / KMOLE)[molecules.um-2.s-1]
inward current density (I): 0.0[pA.um-2] net charge valence (netValence): 0.0[1] user defined (GDIuumo_ConcFactor): 1.6611295681063123E-6[1000] user defined (sbmlRateFactor): 9.999999999999999E14[1.0E-15] |
|
GDIuucoGDIuugo |
R4
Granules
|
GeneralKinetics | GDIuucoGDIuugo |
|
|
reaction rate (J): (sbmlRateFactor * ((rateParam9 * GDIuuco) - (rateParam8 * GDIuugo * GDIuugo_ConcFactor)) / KMOLE)[molecules.um-2.s-1]
inward current density (I): 0.0[pA.um-2] net charge valence (netValence): 0.0[1] user defined (GDIuugo_ConcFactor): 1.6611295681063123E-6[1000] user defined (sbmlRateFactor): 9.999999999999999E14[1.0E-15] |
|
GDIpucoGDIpugo |
R5
Granules
|
GeneralKinetics | GDIpucoGDIpugo |
|
|
reaction rate (J): (sbmlRateFactor * ((rateParam9 * GDIpuco) - (rateParam8 * GDIpugo * GDIpugo_ConcFactor)) / KMOLE)[molecules.um-2.s-1]
inward current density (I): 0.0[pA.um-2] net charge valence (netValence): 0.0[1] user defined (GDIpugo_ConcFactor): 1.6611295681063123E-6[1000] user defined (sbmlRateFactor): 9.999999999999999E14[1.0E-15] |
|
pakucpakpc |
R6
Cytoplasm
|
GeneralKinetics | pakucpakpc |
|
|
reaction rate (J): ((P_pak * pakuc) - (dP_pak * pakpc))[uM.s-1]
|
|
GDIuucoGDIpuco |
R7
Cytoplasm
|
GeneralKinetics | GDIuucoGDIpuco |
|
|
reaction rate (J): ((P_G_s * GDIuuco) - (dP_G_s * GDIpuco))[uM.s-1]
|
|
NonGlucLcGlucLc |
R9
Cytoplasm
|
GeneralKinetics | NonGlucLcGlucLc |
|
|
reaction rate (J): ((rateParam12 * NonGlucLc) - (koffGluc * GlucLc))[uM.s-1]
|
|
GDIpucoGDIpumo |
R3
Membrane
|
GeneralKinetics | GDIpucoGDIpumo |
|
|
reaction rate (J): (sbmlRateFactor * ((rateParam5 * GDIpuco) - (rateParam4 * GDIpumo * GDIpumo_ConcFactor)) / KMOLE)[molecules.um-2.s-1]
inward current density (I): 0.0[pA.um-2] net charge valence (netValence): 0.0[1] user defined (GDIpumo_ConcFactor): 1.6611295681063123E-6[1000] user defined (sbmlRateFactor): 9.999999999999999E14[1.0E-15] |
|
Rac1cgTpRac1ggTp |
R30
Granules
|
GeneralKinetics | Rac1cgTpRac1ggTp |
|
|
reaction rate (J): (sbmlRateFactor * ((rateParam19 * Rac1cgTp) - (rateParam20 * Rac1ggTp * Rac1ggTp_ConcFactor)) / KMOLE)[molecules.um-2.s-1]
inward current density (I): 0.0[pA.um-2] net charge valence (netValence): 0.0[1] user defined (Rac1ggTp_ConcFactor): 1.6611295681063123E-6[1000] user defined (sbmlRateFactor): 9.999999999999999E14[1.0E-15] |
|
PLDmiTrashm |
R36
Membrane
|
GeneralKinetics | PLDmiTrashm |
|
|
reaction rate (J): (sbmlRateFactor * rateParam3 * PLDmi * PLDmi_ConcFactor / KMOLE)[molecules.um-2.s-1]
inward current density (I): 0.0[pA.um-2] net charge valence (netValence): 0.0[1] user defined (PLDmi_ConcFactor): 1.6611295681063123E-6[1000] user defined (sbmlRateFactor): 9.999999999999999E14[1.0E-15] |
|
PLDciPLDmi |
R22
Membrane
|
GeneralKinetics | PLDciPLDmi |
|
|
reaction rate (J): (sbmlRateFactor * rateParam2 * PLDci / KMOLE)[molecules.um-2.s-1]
inward current density (I): 0.0[pA.um-2] net charge valence (netValence): 0.0[1] user defined (sbmlRateFactor): 9.999999999999999E14[1.0E-15] |
|
PLDmiPLDma |
R37
Membrane
|
GeneralKinetics | PLDmiPLDma |
|
|
reaction rate (J): (sbmlRateFactor * ((actPLD * PLDmi * PLDmi_ConcFactor) - (inacPLD * PLDma * PLDma_ConcFactor)) / KMOLE)[molecules.um-2.s-1]
inward current density (I): 0.0[pA.um-2] net charge valence (netValence): 0.0[1] user defined (PLDma_ConcFactor): 1.6611295681063123E-6[1000] user defined (PLDmi_ConcFactor): 1.6611295681063123E-6[1000] user defined (sbmlRateFactor): 9.999999999999999E14[1.0E-15] |
Name |
Type
Electrical (Membrane Polarity)
|
---|---|
Extracellular |
Compartment
(+) (-)
|
|
|
Cytoplasm |
Compartment
(+) (-)
|
|
|
inGranules |
Compartment
(+) (-)
|
|
|
Granules |
Membrane
N/A
|
|
|
Membrane |
Membrane
N/A
|
|
|
Name | Structure | BioNetGen Definition |
---|---|---|
GDIuuco_Rac1cgTp | Cytoplasm | |
|
|
|
GDIuumo_Rac1mgDp | Membrane | |
|
|
|
GDIuumo_Rac1mgTp | Membrane | |
|
|
|
Rac1mgDp | Membrane | |
|
|
|
Rac1mgTp | Membrane | |
|
|
|
pakuc | Cytoplasm | |
|
|
|
NonGlucLc | Cytoplasm | |
|
|
|
glucc | Cytoplasm | |
|
|
|
GlucLc | Cytoplasm | |
|
|
|
PLDgi | Granules | |
|
|
|
Trashm | Membrane | |
|
|
|
PLDci | Cytoplasm | |
|
|
|
GDIuumo | Membrane | |
|
|
|
GDIpumo | Membrane | |
|
|
|
GDIuugo | Granules | |
|
|
|
GDIpugo | Granules | |
|
|
|
pakpc | Cytoplasm | |
|
|
|
Rac1cgTp | Cytoplasm | |
|
|
|
Rac1ggDp | Granules | |
|
|
|
GDIpuco_Rac1cgDp | Cytoplasm | |
|
|
|
PLDmi | Membrane | |
|
|
|
Rac1ggTp | Granules | |
|
|
|
GDIpuco_Rac1cgTp | Cytoplasm | |
|
|
|
PLDma | Membrane | |
|
|
|
GDIuuco | Cytoplasm | |
|
|
|
GDIpuco | Cytoplasm | |
|
|
|
Rac1cgDp | Cytoplasm | |
|
|
|
GDIuuco_Rac1cgDp | Cytoplasm | |
|
|
Name | Text Annotations | BioNetGen Definition |
---|
Name |
Type
Count
|
BioNetGen Definition |
---|
Applications
Name | Math Type | Annotation |
---|---|---|
psGDIfactor_R1=0.1; find SS with no gluc | Deterministic (ODE) Compartmental | (copied from C:\Documents and Settings\cfalkenberg\.vcell\BioNetGen\vcell_bng_1222\vcell_bng_1222_Compartmental) |
psGDIfactor_R1=0.1+change konM+coefonGR; transient studies | Deterministic (ODE) Compartmental | (copied from psGDIfactor_R1=0.1; transient studies) (copied from psGDIfactor_R1=0; transient studies) (copied from C:\Documents and Settings\cfalkenberg\.vcell\BioNetGen\vcell_bng_1222\vcell_bng_1222_Compartmental) |
Application - psGDIfactor_R1=0.1; find SS with no gluc
Species | Initial Condition | Diffusion Constant | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
GDIuuco_Rac1cgTp | 0.0 [uM] | 0.0
[um2/s] pakuc |
0.5
[uM]
|
0.0
[um2/s] | NonGlucLc |
1.0
[uM]
|
0.0
[um2/s] | glucc |
0.0
[uM]
|
0.0
[um2/s] | GlucLc |
0.0
[uM]
|
0.0
[um2/s] | PLDci |
0.0
[uM]
|
0.0
[um2/s] | pakpc |
0.0
[uM]
|
0.0
[um2/s] | Rac1cgTp |
0.0
[uM]
|
0.0
[um2/s] | GDIpuco_Rac1cgDp |
0.0
[uM]
|
0.0
[um2/s] | GDIpuco_Rac1cgTp |
0.0
[uM]
|
0.0
[um2/s] | GDIuuco |
0.07
[uM]
|
0.0
[um2/s] | GDIpuco |
0.06
[uM]
|
0.0
[um2/s] | Rac1cgDp |
0.0427
[uM]
|
0.0
[um2/s] | GDIuuco_Rac1cgDp |
0.11
[uM]
|
0.0
[um2/s] | PLDgi |
2.7777777777777777
[uM]
|
0.0
[um2/s] | GDIuugo |
0.0
[uM]
|
0.0
[um2/s] | GDIpugo |
0.0
[uM]
|
0.0
[um2/s] | Rac1ggDp |
0.0
[uM]
|
0.0
[um2/s] | Rac1ggTp |
0.0
[uM]
|
0.0
[um2/s] | GDIuumo_Rac1mgDp |
0.0
[uM]
|
0.0
[um2/s] | GDIuumo_Rac1mgTp |
0.0
[uM]
|
0.0
[um2/s] | Rac1mgDp |
0.0
[uM]
|
0.0
[um2/s] | Rac1mgTp |
0.0
[uM]
|
0.0
[um2/s] | Trashm |
601999.9999999999
[uM]
|
0.0
[um2/s] | GDIuumo |
0.0
[uM]
|
0.0
[um2/s] | GDIpumo |
0.0
[uM]
|
0.0
[um2/s] | PLDmi |
0.0
[uM]
|
0.0
[um2/s] | PLDma |
0.0
[uM]
|
0.0
[um2/s]
|
|
Name | Reaction Mapping |
---|---|
R20 | included |
R14 | included |
R15 | included |
R11 | included |
R13 | included |
R21 | included |
R31 | included |
R35 | included |
R17 | included |
R18 | included |
R41 | included |
R1 | included |
R2 | included |
R4 | included |
R5 | included |
R6 | included |
R7 | included |
R9 | included |
R3 | included |
R30 | included |
R36 | included |
R22 | included |
R37 | included |
Name | End Time | Output Options |
---|---|---|
find SS | 5000.0 [s] |
KeepEvery 500 KeepAtMost 1000 |
Name | Trigger Type | Variable Assignment |
---|---|---|
event0 | on condition: (t > tgluc) | glucc --> 20000.0, actPak --> (0.116 + (0.116 * changePsGDI)), gef_R1 --> (gef0_R1 + (((gef0_R1 * coef_gef) - gef0_R1) * change_gef_only)) |
Dimension | Type | Subdomain | Adjacent Subvolumes | Size | Mapped Compartment |
---|---|---|---|---|---|
Compartmental | Compartment | Membrane |
Application - psGDIfactor_R1=0.1+change konM+coefonGR; transient studies
Species | Initial Condition | Diffusion Constant | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
GDIuuco_Rac1cgTp | 1.6563957705568633E-4 [uM] | 0.0
[um2/s] pakuc |
0.11240310077519382
[uM]
|
0.0
[um2/s] | NonGlucLc |
1.0
[uM]
|
0.0
[um2/s] | glucc |
0.0
[uM]
|
0.0
[um2/s] | GlucLc |
0.0
[uM]
|
0.0
[um2/s] | PLDci |
0.0
[uM]
|
0.0
[um2/s] | pakpc |
0.38759689922480617
[uM]
|
0.0
[um2/s] | Rac1cgTp |
3.622850570650371E-7
[uM]
|
0.0
[um2/s] | GDIpuco_Rac1cgDp |
0.011582451335819324
[uM]
|
0.0
[um2/s] | GDIpuco_Rac1cgTp |
1.9214186222063993E-5
[uM]
|
0.0
[um2/s] | GDIuuco |
0.05943702212607566
[uM]
|
0.0
[um2/s] | GDIpuco |
0.06894692985331065
[uM]
|
0.0
[um2/s] | Rac1cgDp |
2.183880698389099E-4
[uM]
|
0.0
[um2/s] | GDIuuco_Rac1cgDp |
0.09984874292151663
[uM]
|
0.0
[um2/s] | PLDgi |
2.7777777777777777
[uM]
|
0.0
[um2/s] | GDIuugo |
0.0
[uM]
|
0.0
[um2/s] | GDIpugo |
0.0
[uM]
|
0.0
[um2/s] | Rac1ggDp |
4.770672010383799
[uM]
|
0.0
[um2/s] | Rac1ggTp |
0.0031608535148760723
[uM]
|
0.0
[um2/s] | GDIuumo_Rac1mgDp |
0.0
[uM]
|
0.0
[um2/s] | GDIuumo_Rac1mgTp |
0.0
[uM]
|
0.0
[um2/s] | Rac1mgDp |
4.554384740079095
[uM]
|
0.0
[um2/s] | Rac1mgTp |
2.9446676851097253
[uM]
|
0.0
[um2/s] | Trashm |
601999.9999999999
[uM]
|
0.0
[um2/s] | GDIuumo |
0.0
[uM]
|
0.0
[um2/s] | GDIpumo |
0.0
[uM]
|
0.0
[um2/s] | PLDmi |
0.0
[uM]
|
0.0
[um2/s] | PLDma |
0.0
[uM]
|
0.0
[um2/s]
|
|
Name | Reaction Mapping |
---|---|
R20 | included |
R14 | included |
R15 | included |
R11 | included |
R13 | included |
R21 | included |
R31 | included |
R35 | included |
R17 | included |
R18 | included |
R41 | included |
R1 | included |
R2 | included |
R4 | included |
R5 | included |
R6 | included |
R7 | included |
R9 | included |
R3 | included |
R30 | included |
R36 | included |
R22 | included |
R37 | included |
Name | End Time | Output Options |
---|---|---|
effect of ps-gdi only | 4000.0 [s] |
KeepEvery 500 KeepAtMost 1000 |
effect of increase konM over t; coef on Gr=0; coef pld0=1.5 | 4000.0 [s] |
KeepEvery 500 KeepAtMost 1000 |
effect of increase konM and konGr: coef on Gr=1.5; coef pld0=[1,1.5,2] | 4000.0 [s] |
KeepEvery 500 KeepAtMost 1000 |
effect of increase konM and konGr: coef on Gr=2; coef pld0=[1,1.5,2] | 4000.0 [s] |
KeepEvery 500 KeepAtMost 1000 |
Name | Trigger Type | Variable Assignment |
---|---|---|
event0 | on condition: (t > tgluc) | glucc --> 20000.0, actPak --> (0.116 + (0.116 * changePsGDI)), gef_R1 --> (gef0_R1 + (((gef0_R1 * coef_gef) - gef0_R1) * change_gef_only)) |
Dimension | Type | Subdomain | Adjacent Subvolumes | Size | Mapped Compartment |
---|---|---|---|---|---|
Compartmental | Compartment | Membrane |
Global Parameters
Name | Expression |
---|---|
SfRAVolNIH3T3 | 0.524[tbd] |
|
|
SfRAVol | 0.587[tbd] |
|
|
toexport2 | 1.0E-12[tbd] |
|
|
FR | 1.0[tbd] |
|
|
fusRate | ((1.67E-5 * (t >= (600.0 + tgluc))) + (2.779166666666666E-7 * (t > (60.0 + tgluc)) * (t < (300.0 + tgluc)) * ( - (60.0 + tgluc) + t)) + ((t >= (300.0 + tgluc)) * (t < (600.0 + tgluc)) * (6.67E-5 - (1.6666666666666668E-7 * ( - (300.0 + tgluc) + t)))))[tbd] |
|
|
coef_on_Gr | 1.0[tbd] |
|
|
actPLD | 0.1[tbd] |
|
|
inacPLD | 0.1[tbd] |
|
|
actPak | 0.116[tbd] |
|
|
coefP_G_s | 0.02[tbd] |
|
|
changePsGDI | 0.0[tbd] |
|
|
gluc0 | glucc[tbd] |
|
|
KDM_G | 10.0[tbd] |
|
|
koffM_G | 1.0[tbd] |
|
|
KDMp_G | 0.1[tbd] |
|
|
koffMp_G | 0.1[tbd] |
|
|
KDGr_G | 10.0[tbd] |
|
|
koffGr_G | 1.0[tbd] |
|
|
KDGrp_G | 0.1[tbd] |
|
|
koffGrp_G | 0.1[tbd] |
|
|
kon_Pak_G | 1.0[tbd] |
|
|
koff_Pak_G | 1.0[tbd] |
|
|
alphaPak | 1.0[tbd] |
|
|
KD_pak_C2 | 2.9[tbd] |
|
|
KD_pak_R1 | 0.7[tbd] |
|
|
koffPak_C2 | 1.0[tbd] |
|
|
koffPak_R1 | 1.0[tbd] |
|
|
gtpm_C2 | 1.0[tbd] |
|
|
gtpm_R1 | 1.0[tbd] |
|
|
dP_pak | 0.1[tbd] |
|
|
P_R1 | 0.0[tbd] |
|
|
dP_R1 | 0.0[tbd] |
|
|
pld0 | (changekonM * PLDma / (0.1 + PLDma))[tbd] |
|
|
koffMD_R1 | 0.1496[tbd] |
|
|
koffMT_R1 | 0.011[tbd] |
|
|
koffGrD_R1 | 0.1496[tbd] |
|
|
koffGrT_R1 | 0.011[tbd] |
|
|
gef_R1 | gef0_R1[tbd] |
|
|
gef_Cyt_R1 | 0.0[tbd] |
|
|
gef_Gr_R1 | 0.01[tbd] |
|
|
KDD_2d_R1 | 1.0[tbd] |
|
|
KDT_2d_R1 | 1.0[tbd] |
|
|
koff1_2d_R1 | 0.0[tbd] |
|
|
phospFactor2_R1 | 1.0[tbd] |
|
|
koff1P_2d_R1 | 0.0[tbd] |
|
|
geomFac25_R1 | 1.0[tbd] |
|
|
koff1_25d_R1 | 0.0[tbd] |
|
|
phospFactor25_R1 | 1.0[tbd] |
|
|
koff1P_25d_R1 | 0.0[tbd] |
|
|
alpha_R1 | 1.0[tbd] |
|
|
koff1_3d_R1 | 0.044[tbd] |
|
|
phospFactor3_R1 | 1.0[tbd] |
|
|
koff1P_3d_R1 | 0.044[tbd] |
|
|
koffMD_gG_R1 | 0.1496[tbd] |
|
|
koffMT_gG_R1 | 0.1496[tbd] |
|
|
konM_gG_R1 | 0.0[tbd] |
|
|
konE_R1 | 0.1[tbd] |
|
|
koffE_R1 | 0.1[tbd] |
|
|
pGdifactor_R1 | 0.1[tbd] |
|
|
psGdifactor_R1 | 0.1[tbd] |
|
|
konGluc | 1.0E-7[tbd] |
|
|
koffGluc | 0.001[tbd] |
|
|
Vol2Sfc | (1.0 / SfRAVol)[tbd] |
|
|
SfcGr | 4.230317273795534[tbd] |
|
|
VolGr | 0.23501762632197415[tbd] |
|
|
VolCyt2SfcGr | (1.0 / SfcGr)[tbd] |
|
|
toexportM | 0.0019083969465648854[tbd] |
|
|
toexport1 | (0.001 * Vol2Sfc)[tbd] |
|
|
toexport1gr | (0.001 * VolCyt2SfcGr)[tbd] |
|
|
pmp | (toexportM * toexport2)[tbd] |
|
|
pmp0 | toexport2[tbd] |
|
|
pmpGr | (toexportM * toexport2)[tbd] |
|
|
P_G_s | (actPak * coefP_G_s)[tbd] |
|
|
dP_G_s | (0.1 * coefP_G_s)[tbd] |
|
|
konM_G | 0.0[tbd] |
|
|
konMp_G | 0.0[tbd] |
|
|
konGr_G | 0.0[tbd] |
|
|
konGrp_G | 0.0[tbd] |
|
|
konPak_C2 | (koffPak_C2 / KD_pak_C2)[tbd] |
|
|
konPak_R1 | (koffPak_R1 / KD_pak_R1)[tbd] |
|
|
P_pak | (alphaPak * gtpm_C2 / KD_pak_C2)[tbd] |
|
|
konM_R1 | (2.84 * (1.0 + (coef_pld0 * pld0)))[tbd] |
|
|
konGr_R1 | (2.84 * (1.0 + (coef_on_Gr * pld0)))[tbd] |
|
|
gap_R1 | (1.5455950540958268 * gef0_R1)[tbd] |
|
|
gap_Cyt_R1 | (4.0 * gap_R1)[tbd] |
|
|
gap_Gr_R1 | gap_R1[tbd] |
|
|
koffD_2d_R1 | koff1_2d_R1[tbd] |
|
|
koffT_2d_R1 | koff1_2d_R1[tbd] |
|
|
konD_2d_R1 | (koffD_2d_R1 / KDD_2d_R1)[tbd] |
|
|
konT_2d_R1 | (koffT_2d_R1 / KDT_2d_R1)[tbd] |
|
|
KDDP_2d_R1 | (KDD_2d_R1 / phospFactor2_R1)[tbd] |
|
|
KDTP_2d_R1 | (KDD_2d_R1 / phospFactor2_R1)[tbd] |
|
|
koffDP_2d_R1 | koff1P_2d_R1[tbd] |
|
|
koffTP_2d_R1 | koff1P_2d_R1[tbd] |
|
|
konDP_2d_R1 | (koffDP_2d_R1 / KDDP_2d_R1)[tbd] |
|
|
konTP_2d_R1 | (koffTP_2d_R1 / KDTP_2d_R1)[tbd] |
|
|
KDD_25d_R1 | (5.2E-4 / geomFac25_R1)[tbd] |
|
|
KDT_25d_R1 | (5.2E-4 / geomFac25_R1)[tbd] |
|
|
koffD_25d_R1 | koff1_25d_R1[tbd] |
|
|
koffT_25d_R1 | koff1_25d_R1[tbd] |
|
|
konD_25d_R1 | (koffD_25d_R1 / KDD_25d_R1)[tbd] |
|
|
konT_25d_R1 | (koffT_25d_R1 / KDT_25d_R1)[tbd] |
|
|
KDDP_25d_R1 | (KDD_25d_R1 / phospFactor25_R1)[tbd] |
|
|
KDTP_25d_R1 | (KDD_25d_R1 / phospFactor25_R1)[tbd] |
|
|
koffDP_25d_R1 | koff1P_25d_R1[tbd] |
|
|
koffTP_25d_R1 | koff1P_25d_R1[tbd] |
|
|
konDP_25d_R1 | (koffDP_25d_R1 / KDDP_25d_R1)[tbd] |
|
|
konTP_25d_R1 | (koffTP_25d_R1 / KDTP_25d_R1)[tbd] |
|
|
KDD_3d_R1 | (1.3E-4 * alpha_R1)[tbd] |
|
|
KDT_3d_R1 | (1.3E-4 * alpha_R1)[tbd] |
|
|
koffD_3d_R1 | koff1_3d_R1[tbd] |
|
|
koffT_3d_R1 | koff1_3d_R1[tbd] |
|
|
konD_3d_R1 | (koffD_3d_R1 / KDD_3d_R1)[tbd] |
|
|
konT_3d_R1 | (koffT_3d_R1 / KDT_3d_R1)[tbd] |
|
|
KDDP_3d_R1 | (KDD_3d_R1 / phospFactor3_R1)[tbd] |
|
|
KDTP_3d_R1 | (KDD_3d_R1 / phospFactor3_R1)[tbd] |
|
|
koffDP_3d_R1 | koff1P_3d_R1[tbd] |
|
|
koffTP_3d_R1 | koff1P_3d_R1[tbd] |
|
|
konDP_3d_R1 | (koffDP_3d_R1 / KDDP_3d_R1)[tbd] |
|
|
konTP_3d_R1 | (koffTP_3d_R1 / KDTP_3d_R1)[tbd] |
|
|
ppGdifactor_R1 | (pGdifactor_R1 * psGdifactor_R1)[tbd] |
|
|
InitialConc1 | 0.0[tbd] |
|
|
InitialConc2 | 0.0[tbd] |
|
|
InitialConc3 | 0.0[tbd] |
|
|
InitialConc4 | 0.0[tbd] |
|
|
InitialConc5 | (pmpGr / pmp0)[tbd] |
|
|
rateParam1 | (fusRate * pmp0)[tbd] |
|
|
rateParam2 | (1.0E10 * fusRate * pmpGr)[tbd] |
|
|
rateParam3 | (7.2 * fusRate * pmp0)[tbd] |
|
|
rateParam4 | (koffM_G * pmp0)[tbd] |
|
|
rateParam5 | (konM_G * pmp)[tbd] |
|
|
rateParam6 | (koffMp_G * pmp0)[tbd] |
|
|
rateParam7 | (konMp_G * pmp)[tbd] |
|
|
rateParam8 | (koffGr_G * pmp0)[tbd] |
|
|
rateParam9 | (konGr_G * pmp)[tbd] |
|
|
rateParam10 | (koffGrp_G * pmp0)[tbd] |
|
|
rateParam11 | (konGrp_G * pmp)[tbd] |
|
|
rateParam12 | (konGluc * gluc0)[tbd] |
|
|
rateParam13 | (konM_R1 * pmp)[tbd] |
|
|
rateParam14 | (koffMD_R1 * pmp0)[tbd] |
|
|
rateParam15 | (konM_R1 * pmp)[tbd] |
|
|
rateParam16 | (koffMT_R1 * pmp0)[tbd] |
|
|
rateParam17 | (konGr_R1 * pmpGr)[tbd] |
|
|
rateParam18 | (koffGrD_R1 * pmp0)[tbd] |
|
|
rateParam19 | (konGr_R1 * pmpGr)[tbd] |
|
|
rateParam20 | (koffGrT_R1 * pmp0)[tbd] |
|
|
rateParam21 | (gef_R1 * pmp0)[tbd] |
|
|
rateParam22 | (gap_R1 * pmp0)[tbd] |
|
|
rateParam23 | (gef_Gr_R1 * pmp0)[tbd] |
|
|
rateParam24 | (gap_Gr_R1 * pmp0)[tbd] |
|
|
rateParam25 | (pGdifactor_R1 * konD_3d_R1)[tbd] |
|
|
rateParam26 | (pGdifactor_R1 * konT_3d_R1)[tbd] |
|
|
rateParam27 | (psGdifactor_R1 * konD_3d_R1)[tbd] |
|
|
rateParam28 | (psGdifactor_R1 * konT_3d_R1)[tbd] |
|
|
Group_nonG | NonGlucLc[tbd] |
|
|
Group_glucL | GlucLc[tbd] |
|
|
VC_SpConcFactor_1000_0 | 1.6611295681063123E-6 [1000] |
|
|
Group_Rac1 | (Rac1cgDp + GDIuuco_Rac1cgDp + GDIuuco_Rac1cgTp + (GDIuumo_Rac1mgDp * VC_SpConcFactor_1000_0) + (GDIuumo_Rac1mgTp * VC_SpConcFactor_1000_0) + (Rac1mgDp * VC_SpConcFactor_1000_0) + (Rac1mgTp * VC_SpConcFactor_1000_0) + Rac1cgTp + (Rac1ggDp * VC_SpConcFactor_1000_0) + GDIpuco_Rac1cgDp + (Rac1ggTp * VC_SpConcFactor_1000_0) + GDIpuco_Rac1cgTp)[tbd] |
|
|
Group_GDI | (GDIuuco + GDIpuco + GDIuuco_Rac1cgDp + GDIuuco_Rac1cgTp + (GDIuumo_Rac1mgDp * VC_SpConcFactor_1000_0) + (GDIuumo_Rac1mgTp * VC_SpConcFactor_1000_0) + (GDIuumo * VC_SpConcFactor_1000_0) + (GDIpumo * VC_SpConcFactor_1000_0) + (GDIuugo * VC_SpConcFactor_1000_0) + (GDIpugo * VC_SpConcFactor_1000_0) + GDIpuco_Rac1cgDp + GDIpuco_Rac1cgTp)[tbd] |
|
|
Group_pak | (pakuc + pakpc)[tbd] |
|
|
Group_tot_Rac1_M | (((GDIuumo_Rac1mgDp * VC_SpConcFactor_1000_0) + (GDIuumo_Rac1mgTp * VC_SpConcFactor_1000_0) + (Rac1mgDp * VC_SpConcFactor_1000_0) + (Rac1mgTp * VC_SpConcFactor_1000_0)) / VC_SpConcFactor_1000_0)[tbd] |
|
|
Group_tot_Rac1_G | (((Rac1ggDp * VC_SpConcFactor_1000_0) + (Rac1ggTp * VC_SpConcFactor_1000_0)) / VC_SpConcFactor_1000_0)[tbd] |
|
|
Group_tot_Rac1_C | (Rac1cgDp + GDIuuco_Rac1cgDp + GDIuuco_Rac1cgTp + Rac1cgTp + GDIpuco_Rac1cgDp + GDIpuco_Rac1cgTp)[tbd] |
|
|
Group_Rac1_Mfree | (((Rac1mgDp * VC_SpConcFactor_1000_0) + (Rac1mgTp * VC_SpConcFactor_1000_0)) / VC_SpConcFactor_1000_0)[tbd] |
|
|
Group_Rac1_GDP_m | (((GDIuumo_Rac1mgDp * VC_SpConcFactor_1000_0) + (Rac1mgDp * VC_SpConcFactor_1000_0)) / VC_SpConcFactor_1000_0)[tbd] |
|
|
Group_Rac1_GTP_m | (((GDIuumo_Rac1mgTp * VC_SpConcFactor_1000_0) + (Rac1mgTp * VC_SpConcFactor_1000_0)) / VC_SpConcFactor_1000_0)[tbd] |
|
|
Group_Rac1_GDP_c | (Rac1cgDp + GDIuuco_Rac1cgDp + GDIpuco_Rac1cgDp)[tbd] |
|
|
Group_Rac1_GTP_c | (GDIuuco_Rac1cgTp + Rac1cgTp + GDIpuco_Rac1cgTp)[tbd] |
|
|
Group_Rac1_c_g | (GDIuuco_Rac1cgDp + GDIpuco_Rac1cgDp)[tbd] |
|
|
Group_GDI_c | (GDIuuco + GDIpuco + GDIuuco_Rac1cgDp + GDIuuco_Rac1cgTp + GDIpuco_Rac1cgDp + GDIpuco_Rac1cgTp)[tbd] |
|
|
Group_GDI_m | (((GDIuumo_Rac1mgDp * VC_SpConcFactor_1000_0) + (GDIuumo_Rac1mgTp * VC_SpConcFactor_1000_0) + (GDIuumo * VC_SpConcFactor_1000_0) + (GDIpumo * VC_SpConcFactor_1000_0)) / VC_SpConcFactor_1000_0)[tbd] |
|
|
Group_GDI_g | (((GDIuugo * VC_SpConcFactor_1000_0) + (GDIpugo * VC_SpConcFactor_1000_0)) / VC_SpConcFactor_1000_0)[tbd] |
|
|
Group_GDI_mb_g | (((GDIuumo_Rac1mgDp * VC_SpConcFactor_1000_0) + (GDIuumo_Rac1mgTp * VC_SpConcFactor_1000_0)) / VC_SpConcFactor_1000_0)[tbd] |
|
|
Group_GDI_mf | (((GDIuumo * VC_SpConcFactor_1000_0) + (GDIpumo * VC_SpConcFactor_1000_0)) / VC_SpConcFactor_1000_0)[tbd] |
|
|
Group_GDI_cb | (GDIuuco_Rac1cgDp + GDIuuco_Rac1cgTp + GDIpuco_Rac1cgDp + GDIpuco_Rac1cgTp)[tbd] |
|
|
Group_GDI_cf | (GDIuuco + GDIpuco)[tbd] |
|
|
Group_GDI_py_m | 0.0[tbd] |
|
|
Group_GDI_py_c | 0.0[tbd] |
|
|
Group_gdiSp_m | (GDIpumo * VC_SpConcFactor_1000_0 / VC_SpConcFactor_1000_0)[tbd] |
|
|
Group_gdiSp_c | (GDIpuco + GDIpuco_Rac1cgDp + GDIpuco_Rac1cgTp)[tbd] |
|
|
Group_pak_m | 0.0[tbd] |
|
|
Group_pak_Ac_m | 0.0[tbd] |
|
|
Group_pak_Ac_c | pakpc[tbd] |
|
|
g0 | 0.0[tbd] |
|
|
tgluc | 60.0[tbd] |
|
|
gef0_R1 | 10.0[tbd] |
|
|
changekonM | 0.0[tbd] |
|
|
coef_pld0 | 2.0[tbd] |
|
|
change_gef_only | 0.0[tbd] |
|
|
coef_gef | 5.0[tbd] |
|
|
KD4_sys | (koff_granule * koff_membrane * SfRAVolNIH3T3 / (1.0E-20 + (koff_membrane * konGr_R1 * SfcGr) + (koff_granule * konM_R1 * SfRAVol)))[tbd] |
|
|
koff_granule | (((koffGrD_R1 * Rac1ggDp) + (koffGrT_R1 * Rac1ggTp)) / (1.0E-20 + Rac1ggDp + Rac1ggTp))[tbd] |
|
|
koff_membrane | (((koffMD_R1 * Rac1mgDp) + (koffMT_R1 * Rac1mgTp)) / (1.0E-20 + Rac1mgDp + Rac1mgTp))[tbd] |
|
|
KD4_sys_c | ((Rac1cgDp + Rac1cgTp) / (0.0016611295681063123 * (((Rac1mgDp + Rac1mgTp) * SfRAVol) + ((Rac1ggDp + Rac1ggTp) * SfcGr))))[tbd] |
|
|