panteleev1

The SBML for this model was obtained from the BioModels database (BioModels ID: BIOMD0000000359) Biomodels notes: Reproduction of figure 3a of the article. Model integrated using PySCeS and plotted with Matplotlib. JWS Online curation: This model was curated by reproducing the figures as described in the BioModels Notes. No additional changes were made.

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Tissue factor pathway inhibitor: a possible mechanism of action.

  • Mikhail A Panteleev
  • Veronica I Zarnitsina
  • Fazoil I Ataullakhanov
Eur. J. Biochem. 2002; 269 (8): 2016-2031
Abstract
We have analyzed several mathematical models that describe inhibition of the factor VIIa-tissue factor complex (VIIa-TF) by tissue factor pathway inhibitor (TFPI). At the core of these models is a common mechanism of TFPI action suggesting that only the Xa-TFPI complex is the inhibitor of the extrinsic tenase activity. However, the model based on this hypothesis could not explain well all the available experimental data. Here, we show that a good quantitative description of all experimental data could be achieved in a model that contains two more assumptions. The first assumption is based on the hypothesis originally proposed by Baugh et al. [Baugh, R.J., Broze, G.J. Jr & Krishnaswamy, S. (1998) J. Biol. Chem. 273, 4378-4386], which suggests that TFPI could inhibit the enzyme-product complex Xa-VIIa-TF. The second assumption proposes an interaction between the X-VIIa-TF complex and the factor Xa-TFPI complex. Experiments to test these hypotheses are suggested.

Unit definitions have no effect on the numerical analysis of the model. It remains the responsibility of the modeler to ensure the internal numerical consistency of the model. If units are provided, however, the consistency of the model units will be checked.

Name Definition
60.0 second
1e-09 mole
Id Name Spatial dimensions Size
compartment compartment 3.0 1.0
Id Name Initial quantity Compartment Fixed
TFPI TFPI 2.4 compartment (compartment)
VIIa_TF VIIa_TF 1.0 compartment (compartment)
VIIa_TF_X VIIa_TF_X 0.0 compartment (compartment)
VIIa_TF_Xa VIIa_TF_Xa 0.0 compartment (compartment)
VIIa_TF_Xa_TFPI VIIa_TF_Xa_TFPI 0.0 compartment (compartment)
X X 170.0 compartment (compartment)
Xa Xa 0.0 compartment (compartment)
Xa_TFPI Xa_TFPI 0.0 compartment (compartment)
Xa_TFPI_VIIa_TF Xa_TFPI_VIIa_TF 0.0 compartment (compartment)

Initial assignments are expressions that are evaluated at time=0. It is not recommended to create initial assignments for all model entities. Restrict the use of initial assignments to cases where a value is expressed in terms of values or sizes of other model entities. Note that it is not permitted to have both an initial assignment and an assignment rule for a single model entity.

Definition
Id Name Objective coefficient Reaction Equation and Kinetic Law Flux bounds
reaction_1 reaction_1 X + VIIa_TF = VIIa_TF_X

compartment * (k1 * X * VIIa_TF - k2 * VIIa_TF_X)
reaction_2 reaction_2 VIIa_TF_X > VIIa_TF_Xa

compartment * k1 * VIIa_TF_X
reaction_3 reaction_3 VIIa_TF_Xa = Xa + VIIa_TF

compartment * (k1 * VIIa_TF_Xa - k2 * Xa * VIIa_TF)
reaction_4 reaction_4 Xa + TFPI = Xa_TFPI

compartment * (k1 * Xa * TFPI - k2 * Xa_TFPI)
reaction_5 reaction_5 VIIa_TF + Xa_TFPI = Xa_TFPI_VIIa_TF

compartment * (k1 * VIIa_TF * Xa_TFPI - k2 * Xa_TFPI_VIIa_TF)
reaction_6 reaction_6 VIIa_TF_Xa + TFPI = VIIa_TF_Xa_TFPI

compartment * (k1 * VIIa_TF_Xa * TFPI - k2 * VIIa_TF_Xa_TFPI)
reaction_8 reaction_9 VIIa_TF_X + Xa_TFPI = X + VIIa_TF_Xa_TFPI

compartment * (k1 * VIIa_TF_X * Xa_TFPI - k2 * X * VIIa_TF_Xa_TFPI)
reaction_9 reaction_8 VIIa_TF_Xa_TFPI = Xa_TFPI_VIIa_TF

compartment * (k1 * VIIa_TF_Xa_TFPI - k2 * Xa_TFPI_VIIa_TF)

Global parameters

Id Value

Local parameters

Id Value Reaction
k1 5.0 reaction_1 (reaction_1)
k2 770.0 reaction_1 (reaction_1)
k1 420.0 reaction_2 (reaction_2)
k1 770.0 reaction_3 (reaction_3)
k2 5.0 reaction_3 (reaction_3)
k1 0.054 reaction_4 (reaction_4)
k2 0.02 reaction_4 (reaction_4)
k1 0.44 reaction_5 (reaction_5)
k2 0.0 reaction_5 (reaction_5)
k1 6.0 reaction_6 (reaction_6)
k2 0.02 reaction_6 (reaction_6)
k1 0.0 reaction_9 (reaction_8)
k2 0.0 reaction_9 (reaction_8)
k1 20.0 reaction_8 (reaction_9)
k2 0.0 reaction_8 (reaction_9)

Assignment rules

Definition

Rate rules

Definition

Algebraic rules

Definition
Trigger Assignments