| |
Name | Accession
Type | Initial
Conc.
(uM) | Volume
(fL) | Buffered | Sum Total Of |
| 1 | CaTransp-2Ca | Network | 0 | 0 | No | - |
| | equivalent to the enzyme-substrate complex. 2 Ca are bound to the transporter. ATP is ignored. |
| 2 | inact_cap_entry | Network | 0 | 0 | No | - |
| | represents the portion of the capacitative-Ca entry channel which is blocked when there is lots of Ca sequestered in the stores |
| 3 | Ca5-Cal | Network | 0 | 0 | No | - |
| | Calsequestrin with 5 Ca molecules bound |
| 4 | Ca10-Cal | Network | 0 | 0 | No | - |
| | Calsequestrin with 10 Ca molecules bound |
| 5 | Ca15-Cal | Network | 0 | 0 | No | - |
| | Calsequestrin with 15 Ca molecules bound |
| 6 | Ca25-Cal | Network | 0 | 0 | No | - |
| | Calsequestrin with 25 Ca molecules bound |
| 7 | Ca30-Cal | Network | 0 | 0 | No | - |
| | Calsequestrin with 30 Ca molecules bound |
| 8 | Ca35-Cal | Network | 0 | 0 | No | - |
| | Calsequestrin with 35 Ca molecules bound |
| 9 | Ca40-Cal | Network | 0 | 0 | No | - |
| | Calsequestrin with 40 Ca molecules bound |
| 10 | Ca20-Cal | Network | 0 | 0 | No | - |
| | Calsequestrin with 20 Ca molecules bound |
| 11 | IP3 | Network | 0 | 0 | No | IP3(145)
|
| | Inositol(145)trisphosphate |
| 12 | IP3R* | Network | 0 | 0 | No | - |
| | This is the ligand-bound form of the IP3R. |
| 13 | Ca-leak-from-ext
racell | Network | 0.0008 | 0 | No | - |
| | This represents the pool of Ca leak channels. The conc gradient is so large that this pool needs only a 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 * grad => 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. |
| 14 | CaEPump | Network | 0.005 | 0 | No | - |
| | The calcium electrogenic pump: Mc Burney and Neering, TINS 10(4), 1987, 164-169. We treat the pump as a simple Michaelis-Menten enzyme. Levels are constrained tightly by the need to keep resting Ca levels at 80 nM. |
| 15 | capacitive_Ca_
entry* | Network | 0.01 | 0 | No | - |
| | This mechanism has taken a while to be more tightly confirmed as probably being the TRP channel. In this model the channel is implemented to match experimental observations about capacitative Ca entry. Levels are set by two constraints: the resting Ca levels, and the height of the response to IP3. |
| 16 | IP3R | Network | 0.0166 | 0 | No | - |
| | The number of the IP3Rs in the cell is present only implicitly in the model, and is lumped in with the total permeability of the IP3R pool. The latter is constrained by the height of the Ca transient. |
| 17 | Ca-leak-to-cytop
lasm | Network | 0.024 | 0 | Yes | - |
| | represents the channels that leak Ca into the cytoplasm. Effects of membrane potential are not considered. The amount and total flux are constrained by the need to balance Ca flux and keep basal Ca around 80 nM. |
| 18 | Ca | Network | 0.08 | 0 | No | - |
| | This pool represents intracellular calcium. Resting levels are around 80 nM, but this is subject to all sorts of influxes and pumps. |
| 19 | CaTransp | Network | 0.24 | 0 | No | - |
| | The calcium transporter levels are constrained by the resting levels of Ca in the cell. The rate of Ca sequestration depends on the amount of this pool. |
| 20 | Ca-sequester | Network | 5.796 | 0 | No | - |
| | Sequestered Ca pool The vol is 0.16 * the vol of the cell as a whole. |
arrow indicates that ordering is done according to ascending or descending order.
and 
color.