Dashboard

Name - Energy-production-pathway-reduced-model-01132021

BioModel ID - 201022999

Reaction Diagram

reactionDiagram

Physiology

Universal ID's Text Annotations

Applications

Applications See in Dashboard
Name Math Type Annotation
Tubular Deterministic (ODE) Spatial (3D) (copied from Model3-sizes-3D-3-reactions-diffusion-coeff-ADP0.002) (copied from Model2-sizes-3D-3-reactions-diffusion-coeff) (copied from Model1-sizes-3D-3-reactions-diffusion-coeff) (copied from 3-reactions-Model1-sizes)
No Cristae Deterministic (ODE) Spatial (3D) (copied from Model6-sizes-3D-3-reactions-diffusion-coeff-ADP0.002-psi172) (copied from Model5-sizes-3D-3-reactions-diffusion-coeff-ADP0.002) (copied from Model4-sizes-3D-3-reactions-diffusion-coeff-ADP0.002) (copied from Model3-sizes-3D-3-reactions-diffusion-coeff-ADP0.002) (copied from Model2-sizes-3D-3-reactions-diffusion-coeff) (copied from Model1-sizes-3D-3-reactions-diffusion-coeff) (copied from 3-reactions-Model1-sizes)
Lamellar Deterministic (ODE) Spatial (3D) (copied from Model1-sizes-3D-3-reactions-diffusion-coeff-Resting-psi172) (copied from Model1-sizes-3D-3-reactions-diffusion-coeff-ADP0.002-psi172) (copied from 3-reactions-Model1-sizes)
2D_15_Cristae Deterministic (ODE) Spatial (2D) (copied from 2D-Nom3-wide-3-reactions-diff-coeff-Resting-psi172-ADP0.1) (copied from 2D-Nom3-wide-3-reactions-diff-coeff-Resting-psi172-ADP0.01) (copied from 2D-Nom3-wide-3-reactions-diff-coeff-Resting-psi172-ADP0.0037) (copied from 2D-Nom3-wide-3-reactions-diff-coeff-Resting-psi172) (copied from 2D-Nom3-wide-3-reactions-diff-coeff-ADP0.002) (copied from 2D-Nom3-wide-3-reactions-diff-coeff-ADP0.05) (copied from 2D-Nom2-wide-3-reactions-diff-coeff-ADP0.05) (copied from 2D-Nom2-wide-3-reactions-diff-coeff-ADP0.002) (copied from 2D-Nom1-wide-3-reactions-diff-coeff-ADP0.002) (copied from 2D-Nom3-Narrow-3-reactions-diff-coeff) (copied from Copy of 2D-3-reactions-Nom3) (copied from 2D-3-reactions-Nom3) (copied from 2D-3-reactions) (copied from 3-reactions)
2D_5_Cristae Deterministic (ODE) Spatial (2D) (copied from 2D_15_Cristae) (copied from 2D-Nom3-wide-3-reactions-diff-coeff-Resting-psi172-ADP0.1) (copied from 2D-Nom3-wide-3-reactions-diff-coeff-Resting-psi172-ADP0.01) (copied from 2D-Nom3-wide-3-reactions-diff-coeff-Resting-psi172-ADP0.0037) (copied from 2D-Nom3-wide-3-reactions-diff-coeff-Resting-psi172) (copied from 2D-Nom3-wide-3-reactions-diff-coeff-ADP0.002) (copied from 2D-Nom3-wide-3-reactions-diff-coeff-ADP0.05) (copied from 2D-Nom2-wide-3-reactions-diff-coeff-ADP0.05) (copied from 2D-Nom2-wide-3-reactions-diff-coeff-ADP0.002) (copied from 2D-Nom1-wide-3-reactions-diff-coeff-ADP0.002) (copied from 2D-Nom3-Narrow-3-reactions-diff-coeff) (copied from Copy of 2D-3-reactions-Nom3) (copied from 2D-3-reactions-Nom3) (copied from 2D-3-reactions) (copied from 3-reactions)

Application - Tubular

Specifications(Species) - Tubular See in Dashboard
Species Initial Condition Diffusion Constant
ADP_MIM 0.05 [mM] 0.145 [um2/ms]
ATP_MIM 0.56 [mM] 0.145 [um2/ms]
Pi_MIM 2.78 [mM] 0.01 [um2/ms]
ATP_Matrix 0.44 [mM] 0.1 [um2/ms]
ADP_Matrix 0.72 [mM] 0.1 [um2/ms]
Pi_Matrix 2.2 [mM] 0.01 [um2/ms]
Ca_Matrix 1.35E-4 [mM] 0.01 [um2/ms]
Specifications(Reaction) - Tubular See in Dashboard
Name Reaction Mapping
ANT included
F1F0ATPase included
ATP-deg included
Simulations - Tubular See in Dashboard
Name End Time Output Options
Simulation24 200.0 [ms]

OutputTimeStep 1.0

Geometry geom_20190115_151208 See in Dashboard
(Origin: 0.0, 0.0, 0.0; Extent: 0.22, 0.21, 0.22[um])
Dimension Type Subdomain Adjacent Subvolumes Size Mapped Compartment
Volume Image MIM 0.0051292384000000005 [um3] MIM
Volume Image Matrix 0.005034761600000001 [um3] Matrix
Surface MIM_Matrix_membrane MIM | Matrix 0.3710654836488362 [um2] Memb

Application - No Cristae

Specifications(Species) - No Cristae See in Dashboard
Species Initial Condition Diffusion Constant
ADP_MIM 0.037 [mM] 0.145 [um2/ms]
ATP_MIM 4.0 [mM] 0.145 [um2/ms]
Pi_MIM 2.78 [mM] 0.01 [um2/ms]
ATP_Matrix 0.44 [mM] 0.1 [um2/ms]
ADP_Matrix 0.72 [mM] 0.1 [um2/ms]
Pi_Matrix 2.2 [mM] 0.01 [um2/ms]
Ca_Matrix 1.35E-4 [mM] 0.01 [um2/ms]
Specifications(Reaction) - No Cristae See in Dashboard
Name Reaction Mapping
ANT included
F1F0ATPase included
ATP-deg included
Simulations - No Cristae See in Dashboard
Name End Time Output Options
Simulation86 200.0 [ms]

OutputTimeStep 1.0

Simulation87 500.0 [ms]

OutputTimeStep 1.0

Geometry geom_20190123_205615 See in Dashboard
(Origin: 0.0, 0.0, 0.0; Extent: 0.22, 0.21, 0.22[um])
Dimension Type Subdomain Adjacent Subvolumes Size Mapped Compartment
Volume Image MIM 0.004022257800000001 [um3] MIM
Volume Image Matrix 0.0061417422000000004 [um3] Matrix
Surface MIM_Matrix_membrane MIM | Matrix 0.19664892983634283 [um2] Memb

Application - Lamellar

Specifications(Species) - Lamellar See in Dashboard
Species Initial Condition Diffusion Constant
ADP_MIM 0.002 [mM] 0.145 [um2/ms]
ATP_MIM 4.0 [mM] 0.145 [um2/ms]
Pi_MIM 2.78 [mM] 0.01 [um2/ms]
ATP_Matrix 0.44 [mM] 0.1 [um2/ms]
ADP_Matrix 0.72 [mM] 0.1 [um2/ms]
Pi_Matrix 2.2 [mM] 0.01 [um2/ms]
Ca_Matrix 1.35E-4 [mM] 0.01 [um2/ms]
Specifications(Reaction) - Lamellar See in Dashboard
Name Reaction Mapping
ANT included
F1F0ATPase included
ATP-deg included
Simulations - Lamellar See in Dashboard
Name End Time Output Options
Simulation166 200.0 [ms]

OutputTimeStep 1.0

Copy of Simulation166 500.0 [ms]

OutputTimeStep 1.0

Geometry geom_20190115_115613 See in Dashboard
(Origin: 0.0, 0.0, 0.0; Extent: 0.22, 0.21, 0.22[um])
Dimension Type Subdomain Adjacent Subvolumes Size Mapped Compartment
Volume Image MIM 0.005717661400000001 [um3] MIM
Volume Image Matrix 0.0044463386 [um3] Matrix
Surface MIM_Matrix_membrane MIM | Matrix 0.39676044817813544 [um2] Memb

Application - 2D_15_Cristae

Specifications(Species) - 2D_15_Cristae See in Dashboard
Species Initial Condition Diffusion Constant
ADP_MIM 0.1 [mM] 0.145 [um2/ms]
ATP_MIM 4.0 [mM] 0.145 [um2/ms]
Pi_MIM 2.78 [mM] 0.01 [um2/ms]
ATP_Matrix 0.44 [mM] 0.1 [um2/ms]
ADP_Matrix 0.72 [mM] 0.1 [um2/ms]
Pi_Matrix 2.2 [mM] 0.01 [um2/ms]
Ca_Matrix 1.35E-4 [mM] 0.01 [um2/ms]
Specifications(Reaction) - 2D_15_Cristae See in Dashboard
Name Reaction Mapping
ANT included
F1F0ATPase included
ATP-deg included
Simulations - 2D_15_Cristae See in Dashboard
Name End Time Output Options
Simulation233 200.0 [ms]

OutputTimeStep 1.0

Simulation234 500.0 [ms]

OutputTimeStep 1.0

Geometry geom_20190130_105820 See in Dashboard
(Origin: 0.0, 0.0, 0.0; Extent: 0.7, 0.72, 9.0E-7[um])
Dimension Type Subdomain Adjacent Subvolumes Size Mapped Compartment
Volume Image MIM 0.2934127130175598 [um2] MIM
Volume Image Matrix 0.21058728698244022 [um2] Matrix
Surface MIM_Matrix_membrane MIM | Matrix 21.074730492752657 [um] Memb

Application - 2D_5_Cristae

Specifications(Species) - 2D_5_Cristae See in Dashboard
Species Initial Condition Diffusion Constant
ADP_MIM 0.1 [mM] 0.145 [um2/ms]
ATP_MIM 4.0 [mM] 0.145 [um2/ms]
Pi_MIM 2.78 [mM] 0.01 [um2/ms]
ATP_Matrix 0.44 [mM] 0.1 [um2/ms]
ADP_Matrix 0.72 [mM] 0.1 [um2/ms]
Pi_Matrix 2.2 [mM] 0.01 [um2/ms]
Ca_Matrix 1.35E-4 [mM] 0.01 [um2/ms]
Specifications(Reaction) - 2D_5_Cristae See in Dashboard
Name Reaction Mapping
ANT included
F1F0ATPase included
ATP-deg included
Simulations - 2D_5_Cristae See in Dashboard
Name End Time Output Options
Simulation233_1 200.0 [ms]

OutputTimeStep 1.0

Simulation234_1 500.0 [ms]

OutputTimeStep 1.0

Geometry geom_20180130_155013 See in Dashboard
(Origin: 0.0, 0.0, 0.0; Extent: 0.3, 0.42, 9.0E-7[um])
Dimension Type Subdomain Adjacent Subvolumes Size Mapped Compartment
Volume Image MIM 0.08323334546778305 [um2] MIM
Volume Image Matrix 0.042766654532216966 [um2] Matrix
Surface MIM_Matrix_membrane MIM | Matrix 4.314972474467289 [um] Memb

Global Parameters

Global Parameters See in Dashboard
Name Expression
coeff (602000.0 / 2.2)[1]
Temp 310.0[K]