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. 2019 Aug 19;15(8):e1006795. doi: 10.1371/journal.pcbi.1006795

Table 1. Parameter values and initial conditions of the 2D model.

a.u: arbitrary unit. In 2d, by definition, a MC time unit is 100 Δt and one MC space unit is set by the interaction radius of IP3R, i.e. dIP3R=1.0MC space unit. δ, β, μ, γ, b1, b2 and b3 are first order constants, in (MC time unit)−1. Diffusion coefficients DCa and DIP3 are expressed in (MC space unit)2.(MC time unit)−1 whereas α, a1, a2, a3 are expressed in (MC space unit)2.(MC time unit)−1.

Parameter Description Value in 2d model
V Cell volume 200 × 200 a.u.
IP3 dynamics
IP0 Initial IP3 number/conc. 15 molec.
DIP3 IP3 diffusion 10 a.u
Nplc PLCδ number/conc. 1000 molec.
δ PLCδ max rate 0.1 a.u
β IP3 decay 0.01 a.u
Ca2+ dynamics
Ca0 Initial Ca2+ number/conc. 50 molec.
DCa Ca2+ diffusion varied
μ Ca2+ flux through open IP3R 50 a.u
γ cytosolic Ca2+ influx 50 a.u
α Ca2+ decay rate 1.0 a.u
IP3R
NIP3R IP3R number 1000 molec.
dIP3R IP3R interact. distance 1 space unit
IP3R binding
a1 First Ca 1.0 a.u
a2 IP3 1.0 a.u
a3 Second Ca 0.1 a.u
IP3R dissociation
b1 First Ca 0.1 a.u
b2 IP3 0.1 a.u
b3 Second Ca 0.1 a.u