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| Default ordering is done according to Pathway Number. Table headers can be used for changing the default ordering.
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| |
Name | Accession
Type | Initial
Conc.
(uM) | Volume
(fL) | Buffered | Sum Total Of | | 1 | temp-PIP2 | Network | 2.5 | 0 | 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.... | | 2 | basal_CaMKII_
cyt | Network | 2 | 0 | Yes | - | | 3 | PKC-control | Network | 0.1 | 0 | Yes | - | | 4 | Ca_control_cyt | Network | 0.08 | 0 | Yes | - | | 5 | Ca_control_PSD | Network | 0.08 | 0 | Yes | - | | 6 | basal_CaMKII_
PSD_control | Network | 2 | 0 | Yes | - | | 7 | AMPAR_bulk | Network | 0.0093 | 0 | Yes | - | | 8 | CaM-Ca4 | Network | 0 | 0 | No | - | | 9 | PP1-active | Network | 1.8 | 0 | No | - | | | Cohen et al Meth Enz 159 390-408 is main source of info conc = 1.8 uM | | 10 | cAMP | Network | 0 | 0 | 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. | | 11 | Ca | Network | 0.08 | 0 | No | - | | 12 | PKA-active | Network | 0 | 0 | No | - | | 13 | CaM-Ca3 | Network | 0 | 0 | No | - | | 14 | CaM-TR2-Ca2 | Network | 0 | 0 | No | - | | | This is the intermediate where the TR2 end (the high-affinity end) has bound the Ca but the TR1 end has not. | | 15 | PP2A | Network | 0.1111 | 0 | No | - | | 16 | CaNAB-Ca4 | Network | 0 | 0 | No | - | | 17 | CaMKII-thr286-Ca
M-PSD | Network | 0 | 0 | No | - | | 18 | CaMKII-CaM-PSD | Network | 0 | 0 | No | - | | 19 | CaMKII-thr286-PS
D | Network | 0 | 0 | No | - | | 20 | CaMKII-PSD | Network | 0 | 0 | No | - |
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