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Molecule Parameter List for PKC-cytosolic | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| The statistics table lists the distribution of a molecule acting either as a substrate, product, enzyme or as a molecule within the network. The text color of a molecule is highlighted by  color. | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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| PKC-cytosolic participated as | Molecule | Sum total of | Enzyme | Substrate of an enzyme | Product of an enzyme | Substrate in Reaction | Product in Reaction |
| No. of occurrences | 1 | 0 | 0 | 0 | 0 | 4 | 0 |
Accession and Pathway Details |
| Accession Name | Accession No. | Accession Type | Pathway Link |
| 3d_fold_model | 8 | Network | Shared_Object_3d_fold_model, PKC, MAPK, PLA2, Ras |
| This model is an annotated version of the synaptic signaling network. The primary reference is Bhalla US and Iyengar R. Science (1999) 283(5400):381-7 but several of the model pathways have been updated Bhalla US, Ram PT, Iyengar R. Science. 2002 Aug 9;297(5583):1018-23. | |||
PKC-cytosolic acting as a Molecule in 3d_fold_model Network
| Name | Accession Name | Pathway Name | Initial Conc. (uM) | Volume (fL) | Buffered | |
| PKC-cytosolic | 3d_fold_model Accession No. : 8 | PKC Pathway No. : 55 | 1 | 1000 | No | |
| Marquez et al J. Immun 149,2560(92) est 1e6/cell for chromaffin cells We will use 1 uM as our initial concen | ||||||
PKC-cytosolic acting as a Substrate in a reaction in 3d_fold_model Network
| Kd is calculated only for second order reactions, like nA+nB <->nC or nA<->nC+nD, where n is number and A,B,C,D are molecules, where as for first order reactions Keq is calculated. Kd for higher order reaction are not consider. |
| Name | Accession Name | Pathway Name | Kf | Kb | Kd | tau | Reagents | |
| 1 | PKC-act-by-Ca | 3d_fold_model Accession No. : 8 | PKC Pathway No. : 55 | 0.6 (uM^-1 s^-1) | 0.5 (s^-1) | Kd(bf) = 0.8333(uM) | - | Substrate Ca PKC-cytosolic Product PKC-Ca |
| Need est of rate of assoc of Ca and PKC. Assume it is fast The original parameter-searched kf of 439.4 has been scaled by 1/6e8 to account for change of units to n. Kf now 8.16e-7, kb=.6085 Raised kf to 1e-6 to match Ca curve, kb to .5 | ||||||||
| 2 | PKC-basal-act | 3d_fold_model Accession No. : 8 | PKC Pathway No. : 55 | 1 (s^-1) | 50 (s^-1) | Keq = 50(uM) | 0.02sec | Substrate PKC-cytosolic Product PKC-basal* |
| Initial basal levels were set by kf = 1, kb = 20. In model, though, the basal levels of PKC activity are higher. | ||||||||
| 3 | PKC-act-by-AA | 3d_fold_model Accession No. : 8 | PKC Pathway No. : 55 | 0.0001 (uM^-1 s^-1) | 0.1 (s^-1) | Kd(bf) = 833.3333(uM) | - | Substrate AA PKC-cytosolic Product PKC-AA* |
| Raise kf from 1.667e-10 to 2e-10 to get better match to data. | ||||||||
| 4 | PKC-n-DAG | 3d_fold_model Accession No. : 8 | PKC Pathway No. : 55 | 0.0006 (uM^-1 s^-1) | 0.1 (s^-1) | Kd(bf) = 166.6667(uM) | - | Substrate DAG PKC-cytosolic Product PKC-DAG |
| kf raised 10 X based on Shinomura et al PNAS 88 5149-5153 1991 closer analysis of Shinomura et al: kf now 1e-8 (was 1.66e-8). Further tweak. To get sufficient AA synergy, increase kf to 1.5e-8 26 June 1996: Corrected DAG levels: reduce kf by 15x from 1.5e-8 to 1e-9 | ||||||||