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Accession Type:
Network
Osc_Ca_
IP3metabolism
MIPP
CaMKII
CaM
PKC
IP3-3K
Gq
PLCbeta
134_dephos
145_dephos
IP4-system
IHP-system
1345_dephos
CaRegulation
 Molecule
 Enzyme
 Reaction
Othmer-Tang-mode
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Molecule List for pathway CaRegulation (Pathway Number 170)

 Name Initial Conc. (uM) Volume (fL) Buffered
1Ca0.081000No
    This pool represents intracellular calcium. Resting levels are around 80 nM, but this is subject to all sorts of influxes and pumps.
2Ca-ext4000100000Yes
    Extracell Ca conc = 4 mM Extracell vol assumed 100 X cell vol. It is anyway kept buffered for the purposes of the model, so the concentration won't change.
3Ca-leak-from-extracell0.00081000No
    This represents the pool of Ca leak channels. The conc gradient is so large that this pool needs only small number of molecules. For an equilibrium at 0.1 uM we need flow of 36e3/sec. With a permeability of 0.01 and a conc gradient of 4mM->0.1 uM (4e4) we get flux = N * perm * g rad => N = 36e3 / (1e-2 * 4e3) = 900 if flux = 20e3, N =500, which is what we use. This works out to a concentration of 0.83 nM.
4Ca-sequester6.3328160No
    Sequestered Ca pool The vol is 0.16 * the vol of the cell as a whole. The Ca-sequester conc that we use is same as that used in our other models (see Bhalla and Iyengar, Science 283, 1999: 381-387
5Ca10-Cal0160No
    Calsequestrin with 10 Ca molecules bound
6Ca15-Cal0160No
    Calsequestrin with 15 Ca molecules bound
7Ca20-Cal0160No
    Calsequestrin with 20 Ca molecules bound
8Ca25-Cal0160No
    Calsequestrin with 25 Ca molecules bound
9Ca30-Calseq0160No
    Calsequestrin with 30 Ca molecules bound
10Ca35-Calseq0160No
    Calsequestrin with 35 Ca molecules bound
11Ca40-Cal0160No
    Calsequestrin with 40 Ca molecules bound
12Ca5-Cal0160No
    Calsequestrin with 5 Ca molecules bound
13CaEPump0.011000No
    The calcium electrogenic pump: Mc Burney and Neering, TINS 10(4), 1987, 163-169. We treat the pump as a simple Michaelis-Menten enzyme. Levels are constrained tightly by the need to generate Ca oscillations within the Othmer-Tang model.
14Calseq9.09160No
    This is Calsequestrin or the calcium buffer in the ER. from Cala & Jones, JBC 258(19), 1983: 11932-36 Calseq is present as 4mg/g of membrane protein; membarne protein = 2% of cell mass = 0.02 * 1g/cc * (1e-9)cc =(2e-11) g Hence Calseq = 8e-14/550000 moles per (1.6e-13)l = 9.091uM As per Guidebook of the calcium-binding proteins by Celio; and Mitchell et al, JBC 263, 1988: 1376-81; 1 mol of Calsequestrin binds 40 mol of Ca. This is the stoichiometry we use. System limitations do not allow us to create a 40th order reaction. Hence Calseq binding to Ca has been modeled in eight consecutive steps of 5th order each. The affinity of Calsequestrin for Ca in our model is constrained by the levels of free Ca in the stores (Ca-sequester). We use a Kd such that Ca-sequester levels remain similar to levels in the CaRegulation model without Ca buffering.
15capacitive_Ca_entry*0.011000No
    This mechanism has taken a while to be more tightly confirmed as probably being the TRP channel. The channel is implemented to match experimental observations about capacitative Ca entry. Levels are unchanged from the CaReg model used to generate non-oscillatory Ca response in the IP3 metabolism network.
16inact_cap_entry01000No
    represents the portion of the capacitative-Ca entry channel which is blocked when there is lots of Ca sequestered in the stores


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