| |
Name | Pathway Name /
Pathway No. | Accession
Type | Initial
Conc.
(uM) | Volume
(fL) | Buffered | Sum Total Of |
| 1 | tot_CaM_CaMKII | CaMKII
Pathway No. 106 | Network | 0 | 1000 | No | 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 |
| 2 | tot_autonomous_
CaMKII | CaMKII
Pathway No. 106 | Network | 0 | 1000 | No | 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*** |
| 3 | total-CaMKII | CaMKII
Pathway No. 106 | Network | 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. |
| 4 | Rec-Gq | Gq
Pathway No. 111 | Network | 0 | 1000 | No | - |
| | Turns out that a large fraction of the the receptor binds to the G-protein even in the absence of ligand. This pool represents this step. Fraction of Rec-Gq is 44% of receptor, from Fay et al 1991 Biochem 30:5066-5075 Since this is not the same receptor, this value is a bit doubtful. Still, we adjust the rate consts in Rec-bind-Gq to match. |
| 5 | Rec-Glu-Gq | Gq
Pathway No. 111 | Network | 0 | 1000 | No | - |
| | This is the ternary complex of receptor, ligand and G protein. |
| 6 | Rec-Glu | Gq
Pathway No. 111 | Network | 0 | 1000 | No | - |
| | Glu-Receptor complex. |
| 7 | PP1-active | CaMKII
Pathway No. 106 | Network | 1.8 | 1000 | No | - |
| | Cohen et al Meth Enz 159 390-408 is main source of info concentration of enzyme = 1.8 uM |
| 8 | PP-IP5-K-complex | IHP-system
Pathway No. 116 | Network | 0 | 1000 | No | - |
| | enzyme substrate complex of PP-InsP5 kinase and PP-InsP5 |
| 9 | PP-IP5-K | IHP-system
Pathway No. 116 | Network | 0.057 | 1000 | No | - |
| | from Huang et al, Biochem 37; 1998: 14998-15004 |
| 10 | PP-IP5 | IHP-system
Pathway No. 116 | Network | 2 | 1000 | No | - |
| | Diphosphoinositol pentakisphosphate Conc from Huang et al, Biochem 37; 1998 |
| 11 | PP-IP4 | IHP-system
Pathway No. 116 | Network | 14.9999 | 1000 | No | - |
| | Diphosphoinositol tetrakisphosphate Conc from Saiardi et al, JBC 275; 2000 |
| 12 | PLC-Gq | PLCbeta
Pathway No. 112 | Network | 0 | 1000 | No | - |
| | from Smrcka et al, 1991 Science 251: 804-807 |
| 13 | PLC-Ca-Gq | PLCbeta
Pathway No. 112 | Network | 0 | 1000 | No | - |
| | This should really be labelled PLC-Ca-GTP.Gq_alpha This is the most active form of the enzyme. |
| 14 | PLC-Ca | PLCbeta
Pathway No. 112 | Network | 0 | 1000 | No | - |
| | From Sternweis et al Phil Trans R Soc Lond 1992, also matched by Homma et al. k1 = 1.5e-5, now 4.2e-6 k2 = 70/sec; now 40/sec k3 = 17.5/sec; now 10/sec Note that the wording in Sternweis et al is ambiguous re the Km. Also Smrcka et al; Science 251, 15.2.1991, pp804-807 |
| 15 | PLC | PLCbeta
Pathway No. 112 | Network | 0.04 | 1000 | No | - |
| | Smrcka et al; Science 251, 15.2.1991, pp804-807 |
| 16 | PKC-DAG-memb* | PKC
Pathway No. 108 | Network | 0 | 1000 | No | - |
| | Active, membrane attached form of Ca.DAG.PKC complex. |
| 17 | PKC-DAG-AA* | PKC
Pathway No. 108 | Network | 0 | 1000 | No | - |
| | Membrane translocated form of PKC-DAG-AA complex. |
| 18 | PKC-DAG-AA | PKC
Pathway No. 108 | Network | 0 | 1000 | No | - |
| | Complex of PKC, DAG and AA giving rise to synergistic activation of PKC by DAG and AA at resting Ca. |
| 19 | PKC-DAG | PKC
Pathway No. 108 | Network | 0 | 1000 | No | - |
| | This is a DAG-bound intermediate used in synergistic activation of PKC by DAG and AA. |
| 20 | PKC-cytosolic | PKC
Pathway No. 108 | Network | 1 | 1000 | No | - |
| | Marquez et al J. Immun 149,2560(92) est 1e6/cell for chromaffin cells Kikkawa et al 1982 JBC 257(22):13341 have PKC levels in brain at about 1 uM. The cytosolic form is the inactive PKC. This is really a composite of three isoforms: alpha, beta and gamma which have slightly different properties and respond to different combinations of Ca, AA and DAG. |
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