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Name - fX_thrombus_binding

BioModel ID - 98139292

Reaction Diagram

reactionDiagram

Physiology

Universal ID's	Text Annotations

Reactions See in Dashboard
Reaction	Name Structure	Kinetics	Depiction
fXb+fXbfX2	dimerisation Membrane0	MassAction	fXb+fXbfX2
		reaction rate (J): (((Kf * fXb) * fXb) - (Kr * fX2))[molecules.um-2.s-1] inward current density (I): 0.0[pA.um-2] net charge valence (netValence): 1.0[1] forward rate constant (Kf): 0.27[um2.s-1.molecules-1] reverse rate constant (Kr): 100.0[s-1]
fXb+fX2fX3	trimerisation Membrane0	MassAction	fXb+fX2fX3
		reaction rate (J): (((Kf * fXb) * fX2) - (Kr * fX3))[molecules.um-2.s-1] inward current density (I): 0.0[pA.um-2] net charge valence (netValence): 1.0[1] forward rate constant (Kf): 3.66E-4[um2.s-1.molecules-1] reverse rate constant (Kr): 1.0E-4[s-1]
s+fXfXb	Binding Membrane0	MassAction	s+fXfXb
		reaction rate (J): (((Kf * s) * fX) - (Kr * fXb))[molecules.um-2.s-1] inward current density (I): 0.0[pA.um-2] net charge valence (netValence): 1.0[1] forward rate constant (Kf): 1.0[s-1.uM-1] reverse rate constant (Kr): 0.14[s-1]

Structures See in Dashboard
Name	Type Electrical (Membrane Polarity)
c1	Compartment (+) (-)

c0	Compartment (+) (-)

Membrane0	Membrane N/A

Species See in Dashboard
Name	Structure	BioNetGen Definition
s	Membrane0

fXb	Membrane0

fX	c0

fX2	Membrane0

fX3	Membrane0

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
Application1	Deterministic (ODE) Spatial (2D)

Application - Application1

Specifications(Species) - Application1 See in Dashboard
Species	Initial Condition	Diffusion Constant
fX	0.015 [uM]	100.0 [um2/s]
s	198.0 [uM]	0.0 [um2/s]
fXb	0.0 [uM]	0.0 [um2/s]
fX2	0.0 [uM]	0.0 [um2/s]
fX3	0.0 [uM]	0.0 [um2/s]

Specifications(Reaction) - Application1 See in Dashboard
Name	Reaction Mapping
dimerisation	included
trimerisation	included
Binding	included

Simulations - Application1 See in Dashboard
Name	End Time	Output Options
Simulation1	500.0 [s]	OutputTimeStep 3.0

Geometry Geometry5 See in Dashboard
(Origin: -5.0, -10.0, 0.0; Extent: 10.0, 100.0, 10.0[um])
Dimension	Type	Subdomain	Adjacent Subvolumes	Size	Mapped Compartment
Volume	Analytical	subdomain1		4.7 [um2]	c1
Volume	Analytical	subdomain0		929.5000000000001 [um2]	c0
Surface		subdomain0_subdomain1_membrane	subdomain0 \| subdomain1	8.207720179183681 [um]	Membrane0

Global Parameters

Global Parameters See in Dashboard
Name	Expression