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Name - Wittek_et_al_JIntegrPlantBiol_2017_Phloem Fungus

BioModel ID - 116930032

Reaction Diagram

reactionDiagram

Physiology

Universal ID's	Text Annotations

Reactions See in Dashboard
Reaction	Name Structure	Kinetics	Depiction
Suc_f+H_fSuc_apo+H_apo	UmSRT1 fungus membrane	GeneralKinetics	Suc_f+H_fSuc_apo+H_apo
		reaction rate (J): (I_HSf * (Voltage_fungus_membrane - (25.0 * log((H_apo * Suc_apo / (H_f * Suc_f))))))[molecules.um-2.s-1] inward current density (I): ((netValence * _F_ * J) * unitFactor)[pA.um-2] net charge valence (netValence): -1.0[1] electrical unit factor (unitFactor): (1.0 / 6.02214179E11)[pA.s.mol.molecules-1.C-1] user defined (I_HSf): (D * number_transporters)[molecules.um-2.s-1.mV-1] user defined (D): 1.0[1]
Suc_P+H_PH_apo+Suc_apo	ZmSUT1 Plant_Membrane	GeneralKinetics	Suc_P+H_PH_apo+Suc_apo
		reaction rate (J): (I_HSP * (Voltage_Plant_Membrane - (25.0 * log((H_apo * Suc_apo / (H_P * Suc_P))))))[molecules.um-2.s-1] inward current density (I): ((netValence * _F_ * J) * unitFactor)[pA.um-2] net charge valence (netValence): -1.0[1] electrical unit factor (unitFactor): (1.0 / 6.02214179E11)[pA.s.mol.molecules-1.C-1] user defined (I_HSP): (A * number_transporters)[molecules.um-2.s-1.mV-1] user defined (A): 1.0[1]

Structures See in Dashboard
Name	Type Electrical (Membrane Polarity)
fungus	Compartment (+) (-)

plant	Compartment (+) (-)

apoplast	Compartment (+) (-)

fungus membrane	Membrane N/A

Plant_Membrane	Membrane N/A

Species See in Dashboard
Name	Structure	BioNetGen Definition
H_apo	apoplast

Suc_apo	apoplast

Suc_f	fungus

H_f	fungus

H_P	plant

Suc_P	plant

ion_f	fungus

ion_apo	apoplast

ion_P	plant

Molecules See in Dashboard
Name	Text Annotations	BioNetGen Definition

Observables See in Dashboard
Name	Type Count	BioNetGen Definition

Applications

Applications See in Dashboard
Name	Math Type	Annotation
Application0	Deterministic (ODE) Compartmental

Application - Application0

Specifications(Species) - Application0 See in Dashboard
Species	Initial Condition	Diffusion Constant
Suc_f	2000.0 [uM]	0.0 [um2/s]
H_f	0.1 [uM]	0.0 [um2/s]
ion_f	100000.0 [uM]	0.0 [um2/s]
H_P	0.1 [uM]	0.0 [um2/s]
Suc_P	1000000.0 [uM]	0.0 [um2/s]
ion_P	100000.0 [uM]	0.0 [um2/s]
H_apo	10.0 [uM]	0.0 [um2/s]
Suc_apo	2000.0 [uM]	0.0 [um2/s]
ion_apo	2000.0 [uM]	0.0 [um2/s]

Specifications(Reaction) - Application0 See in Dashboard
Name	Reaction Mapping
UmSRT1	included
ZmSUT1	included
Background_fungus	included
Background_Plant	included

Simulations - Application0 See in Dashboard
Name	End Time	Output Options
standard condition	5.0 [s]	KeepEvery 1 KeepAtMost 1000
A, slope_ZmSUT1	20.0 [s]	KeepEvery 1 KeepAtMost 1000
D, slope_UmSRT1	20.0 [s]	KeepEvery 1 KeepAtMost 1000
G, slope_BG_p	20.0 [s]	KeepEvery 1 KeepAtMost 1000
K, slope_BG_f	20.0 [s]	KeepEvery 1 KeepAtMost 1000
V0_p, Vrev_BG_p	20.0 [s]	KeepEvery 1 KeepAtMost 1000
V0_f, Vrev_BG_f	20.0 [s]	KeepEvery 1 KeepAtMost 1000
H_apo	20.0 [s]	KeepEvery 1 KeepAtMost 1000

Geometry non-spatial103398121 See in Dashboard
(Origin: 0.0, 0.0, 0.0; Extent: 10.0, 10.0, 10.0[um])
Dimension	Type	Subdomain	Adjacent Subvolumes	Size	Mapped Compartment
	Compartmental	Compartment			Plant_Membrane

Global Parameters

Global Parameters See in Dashboard
Name	Expression
number_transporters	(625.0 * 2.0)[molecules.um-2.s-1.mV-1]