| Name | Initial Conc. (uM) td> | Volume (fL) | Buffered |
1 | AMPAR_bulk | 0.0093 | 5 | Yes |
| |
2 | Anchor | 27.3333 | 0.01 | No |
| |
3 | Ca | 0.08 | 0.09 | No |
| |
4 | Ca-PSD | 0.08 | 0.01 | No |
| |
5 | CaM-Ca3 | 0 | 0.09 | No |
| |
6 | CaM-Ca3-PSD | 0 | 0.01 | No |
| |
7 | CaM-Ca4 | 0 | 0.09 | No |
| |
8 | CaM-Ca4-PSD | 0 | 0.01 | No |
| |
9 | CaM-TR2-Ca2 | 0 | 0.09 | No |
| This is the intermediate where the TR2 end (the high-affinity end) has bound the Ca but the TR1 end has not. |
10 | CaM-TR2-Ca2-PSD | 0 | 0.01 | No |
| This is the intermediate where the TR2 end (the high-affinity end) has bound the Ca but the TR1 end has not. |
11 | cAMP | 0 | 0.09 | No |
| The conc of this has been a problem. Schaecter and Benowitz use 50 uM, but Shinomura et al have < 5. So I have altered the cAMP-dependent rates in the PKA model to reflect this. |
12 | Ca_control_cyt | 0.08 | 0.09 | Yes |
| |
13 | Ca_control_PSD | 0.08 | 0.01 | Yes |
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14 | I_845 | 0 | 0.09 | No |
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15 | I_845-P | 0 | 0.09 | No |
| |
16 | I_845_PP | 0 | 0.09 | No |
| |
17 | PKC-active | 0.1 | 0.09 | No |
| |
18 | PKC-control | 0.1 | 0.09 | Yes |
| |
19 | PP1-active | 1.8 | 0.09 | No |
| Cohen et al Meth Enz 159 390-408 is main source of info conc = 1.8 uM |
20 | PP2A | 0.1111 | 0.09 | No |
| |
21 | Ser831 | 0 | 0.01 | No |
| |
22 | Ser831-P | 0 | 0.01 | No |
| |
23 | Ser831-PP | 0 | 0.01 | No |
| |
24 | Ser845 | 0 | 0.01 | No |
| |
25 | Ser845-P | 0 | 0.01 | No |
| |
26 | Ser845-PP | 0 | 0.01 | No |
| |
27 | temp-PIP2 | 2.5 | 0.09 | Yes |
| This isn't explicitly present in the M&L model, but is obviously needed. I assume its conc is fixed at 1uM for now, which is a bit high. PLA2 is stim 7x by PIP2 @ 0.5 uM (Leslie and Channon BBA 1045:261(1990) Leslie and Channon say PIP2 is present at 0.1 - 0.2mol% range in membs, which comes to 50 nM. Ref is Majerus et al Cell 37 pp 701-703 1984 Lets use a lower level of 30 nM, same ref.... |
28 | total_Int | 0 | 0.09 | No |
| |
29 | tot_I_GluR12 | 0 | 0.09 | No |
| |
30 | tot_mem_GluR12 | 0 | 0.01 | No |
| |