| | Name | Initial Conc. (uM) | Volume (fL) | Buffered |
| 1 | CaMK-thr306 | 0 | 1000 | No |
| | This forms due to basal autophosphorylation, but I think it has to be considered as a pathway even if some CaM is floating around. In either case it will tend to block further binding of CaM, and will not display any enzyme activity. See Hanson and Schulman JBC 267:24 pp17216-17224 1992 |
| 2 | CaMKII | 70 | 1000 | No |
| | Huge concentration of CaMKII. In PSD it is 20-40% of protein, so we assume it is around 2.5% of protein in spine as a whole. This level is so high it is unlikely to matter much if we are off a bit. This comes to about 70 uM. Seen the review: Hanson and Schulman 1992 Ann. Rev. Biuochem 60:559-601 |
| 3 | CaMKII*** | 0 | 1000 | No |
| | From Hanson and Schulman, the CaMKII does a lot of autophosphorylation just after the CaM is released. This prevents further CaM binding and renders the enzyme quite independent of Ca. |
| 4 | CaMKII-CaM | 0 | 1000 | No |
| | This is the regular, CaM-activated form of CaMKII. See the review Hanson and Schulman 1992 Ann. Rev. Biochem 60:559-601 |
| 5 | CaMKII-thr286 | 0 | 1000 | No |
| | The threonine-286 phosphorylated form of CaMKII. It is likely to be a short-lived intermediate, since it will be phosphorylated further as soon as the CAM falls off. |
| 6 | CaMKII-thr286*-CaM | 0 | 1000 | No |
| | From Hanson and Schulman, the thr286 is responsible for autonomous activation of CaMKII. |
| 7 | PP1-active | 1.8 | 1000 | No |
| | Cohen et al Meth Enz 159 390-408 is main source of info concentration of enzyme = 1.8 uM |
| 8 | total-CaMKII | 70 | 1000 | Yes |
| | This pool is purely here to provide a single, fixed number, which is the total amount of CaMKII. This is used by the autophosphorylation steps to scale down the rates so that the autophosphorylation reactions are independent of CaMKII levels. |
| 9 | tot_autonomous_CaMKII | 0 | 1000 | No |
| | This is the sum total of the various CaM-independent forms of the kinase. There are actually several possible states here, but I only consider the forms thr-286 phosphorylated form and the doubly/triply phosphorylated form including the thr305/306, represented here as CaMKII*** |
| 10 | tot_CaM_CaMKII | 0 | 1000 | No |
| | This pool sums the levels of the CaM-bound forms of CaMKII: CaMKII-CaM + CaMKII-thr286*-CaM. Although their phosphorylation states are different, the level of activity is about the same so it makes sense to sum the levels. Hanson et al 1994 Neuron 12:943-956 |
| | Target | Inputs |
| 1 |
tot_autonomous_CaMKII | CaMKII-thr286
CaMKII***
|
This is the sum total of the various CaM-independent forms of the kinase. There are actually several possible states here, but I only consider the forms thr-286 phosphorylated form and the doubly/triply phosphorylated form including the thr305/306, represented here as CaMKII*** | | 2 |
tot_CaM_CaMKII | CaMKII-CaM
CaMKII-thr286*-C
aM
|
This pool sums the levels of the CaM-bound forms of CaMKII: CaMKII-CaM + CaMKII-thr286*-CaM. Although their phosphorylation states are different, the level of activity is about the same so it makes sense to sum the levels. Hanson et al 1994 Neuron 12:943-956 |
