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dupont2

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Protein phosphorylation driven by intracellular calcium oscillations: a kinetic analysis.

  • G Dupont
  • Albert Goldbeter
Biophys. Chem. 1992; 42 (3): 257-270
Abstract
Given the ubiquitous nature of signal-induced Ca2+ oscillations, the question arises as to how cellular responses are affected by repetitive Ca2+ spikes. Among these responses, we focus on those involving protein phosphorylation. We examine, by numerical simulations of a theoretical model, the situation where a protein is phosphorylated by a Ca(2+)-activated kinase and dephosphorylated by a phosphatase. This reversible phosphorylation system is coupled to a mechanism generating cytosolic Ca2+ oscillations; for definiteness, this oscillatory mechanism is based on the process of Ca(2+)-induced Ca2+ release. The analysis shows that the average fraction of phosphorylated protein increases with the frequency of repetitive Ca2+ spikes; the latter frequency generally rises with the extent of external stimulation. Protein phosphorylation therefore provides a mechanism for the encoding of the external stimulation in terms of the frequency of signal-induced Ca2+ oscillations. Such a frequency encoding requires precise kinetic conditions on the Michaelis-Menten constants of the kinase and phosphatase, their maximal rates, and the degree of cooperativity in kinase activation by Ca2+. In particular, the most efficient encoding of Ca2+ oscillations based on protein phosphorylation occurs in conditions of zero-order ultrasensitivity, when the kinase and phosphatase are saturated by their protein substrate. The kinetic analysis uncovers a wide variety of temporal patterns of phosphorylation that could be driven by signal-induced Ca2+ oscillations.

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
1e-06 mole
60.0 second
Id Name Spatial dimensions Size
cytosol cytosol 3.0 1.0
store store 3.0 1.0
Id Name Initial quantity Compartment Fixed
W_star Phosphorylated protein 0.0 cytosol (cytosol)
Wt Total Protein 1.0 cytosol (cytosol)
Y 1.6 store (store)
Z 0.15 cytosol (cytosol)

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
Protein_Phosphorylation Protein Phosphorylation ∅ = W_star

cytosol * (vp / Wt) * (vk / vp * ((1 - W_star) / (K1 + 1 - W_star)) - W_star / (K2 + W_star))
R0 Calcium influx ∅ > Z

cytosol * v0
R1 InsP3 dependent Ca influx ∅ > Z

cytosol * v1_beta
R2 ATP driven pumping of Ca into store Z > Y

cytosol * (Vm2 * pow(Z, n) / (pow(Kp, n) + pow(Z, n)))
R3 ATP driven pumping into cytosol Y > Z

store * (Vm3 * pow(Y, m) * pow(Z, p) / ((pow(Kr, m) + pow(Y, m)) * (pow(K_A, p) + pow(Z, p))))
R_eff Ca efflux Z > ∅

cytosol * k * Z
Rf Calcium leak Y > Z

store * kf * Y

Global parameters

Id Value
K1 0.01
K2 0.01
K_A 0.9
Ka 2.5
Kp 1.0
Kr 2.0
Vm2 65.0
Vm3 500.0
k 10.0
kf 1.0
m 2.0
n 2.0
p 4.0
q 1.0
v0 1.0
v1_beta 2.7
vMK 20.0
vk 0.0
vp 2.5

Local parameters

Id Value Reaction

Assignment rules

Definition
vk = vMK * pow(Z, q) / (pow(Ka, q) + pow(Z, q))

Rate rules

Definition

Algebraic rules

Definition
Definition
Trigger Assignments