Accession Name | Accession No. | Accession Type | Pathway Link |
Ajay_Bhalla_ 2007_ReacDiff3 | 84 | Network | Shared_Object_Ajay_Bhalla_2007_ReacDiff3, PKC, PLA2, MAPK, PLA2, Ras, CaM, chain, kinetics, PKC, MAPK, Ras, CaM, kinetics[1], PKC, PLA2, MAPK, Ras, CaM, kinetics[2], PKC, PLA2, MAPK, Ras, CaM, kinetics[3], PKC, PLA2, MAPK, Ras, CaM, kinetics[4], PKC, PLA2, MAPK, Ras, CaM, kinetics[5], PKC, PLA2, MAPK, Ras, MAPK, CaM, kinetics[6], PKC, PLA2, MAPK, Ras, CaM, kinetics[7], PKC, PLA2, MAPK, Ras, CaM, PKC, kinetics[8], PLA2, MAPK, Ras, CaM, kinetics[9], PKC, PLA2, MAPK, Ras, CaM, kinetics[10], PKC, PLA2, MAPK, Ras, CaM, kinetics[11], PKC, PLA2, MAPK, Ras, CaM, kinetics[12], PKC, PLA2, Ras, CaM, kinetics[13], PKC, PLA2, MAPK, Ras, CaM, kinetics[14], PKC, PLA2, MAPK, Ras, CaM, kinetics[15], PKC, PLA2, MAPK, Ras, kinetics[16], CaM, PKC, PLA2, MAPK, Ras, CaM, kinetics[17], PKC, PLA2, MAPK, Ras, CaM, kinetics[18], PKC, PLA2, MAPK, Ras, CaM, kinetics[19], PKC, PLA2, MAPK, Ras, CaM, kinetics[20], PKC, PLA2, MAPK, Ras, CaM, kinetics[21], PKC, PLA2, MAPK, Ras, CaM, kinetics[22], PKC, PLA2, MAPK, Ras, CaM, kinetics[23], PKC, PLA2, MAPK, Ras, CaM |
This is a 25-compartment reaction-diffusion version of the Ajay_Bhalla_2007_bistable model. The original single-compartment model is repeated 25 times.
In addition, a subset (33 out of 50) molecules can diffuse between compartments. Diffusion is implemented as a reaction between corresponding molecules in neighboring compartments. Here D = 1e-13 m^2/sec (i.e., 0.1 micron^2/sec ) so the kf and kb of this reaction for these 10 micron compartments are both 0.001/sec.
The basal calcium level in this model is held at 95 nM which is rather close to threshold for the flip to the active state. This is necessary to sustain active propagation of activation.
The stimulus file bis6-propgn_D1e-13_FigEF which was used for the model to replicate Figure 4E and 4F from the paper. |
| Enzyme Molecule / Enzyme Activity | Accession Name | Pathway Name | Km (uM) | kcat (s^-1) | Ratio | Enzyme Type | Reagents |
1 | DAG-Ca-PLA2* / kenz
| Ajay_Bhalla_ 2007_ReacDiff3 Accession No. : 84 | PLA2 Pathway No. : 920 | 20 | 60 | 4 | explicit E-S complex | Substrate APC
Product AA
|
| 10 X raise oct 22 12 X raise oct 24 + conversion to k2 =4 * k3 |
2 | DAG-Ca-PLA2* / kenz
| Ajay_Bhalla_ 2007_ReacDiff3 Accession No. : 84 | PLA2 Pathway No. : 922 | 20 | 60 | 4 | explicit E-S complex | Substrate APC
Product AA
|
| 10 X raise oct 22 12 X raise oct 24 + conversion to k2 =4 * k3 |
3 | DAG-Ca-PLA2* / kenz
| Ajay_Bhalla_ 2007_ReacDiff3 Accession No. : 84 | PLA2 Pathway No. : 933 | 20 | 60 | 4 | explicit E-S complex | Substrate APC
Product AA
|
| 10 X raise oct 22 12 X raise oct 24 + conversion to k2 =4 * k3 |
4 | DAG-Ca-PLA2* / kenz
| Ajay_Bhalla_ 2007_ReacDiff3 Accession No. : 84 | PLA2 Pathway No. : 939 | 20 | 60 | 4 | explicit E-S complex | Substrate APC
Product AA
|
| 10 X raise oct 22 12 X raise oct 24 + conversion to k2 =4 * k3 |
5 | DAG-Ca-PLA2* / kenz
| Ajay_Bhalla_ 2007_ReacDiff3 Accession No. : 84 | PLA2 Pathway No. : 945 | 20 | 60 | 4 | explicit E-S complex | Substrate APC
Product AA
|
| 10 X raise oct 22 12 X raise oct 24 + conversion to k2 =4 * k3 |
6 | DAG-Ca-PLA2* / kenz
| Ajay_Bhalla_ 2007_ReacDiff3 Accession No. : 84 | PLA2 Pathway No. : 951 | 20 | 60 | 4 | explicit E-S complex | Substrate APC
Product AA
|
| 10 X raise oct 22 12 X raise oct 24 + conversion to k2 =4 * k3 |
7 | DAG-Ca-PLA2* / kenz
| Ajay_Bhalla_ 2007_ReacDiff3 Accession No. : 84 | PLA2 Pathway No. : 957 | 20 | 60 | 4 | explicit E-S complex | Substrate APC
Product AA
|
| 10 X raise oct 22 12 X raise oct 24 + conversion to k2 =4 * k3 |
8 | DAG-Ca-PLA2* / kenz
| Ajay_Bhalla_ 2007_ReacDiff3 Accession No. : 84 | PLA2 Pathway No. : 964 | 20 | 60 | 4 | explicit E-S complex | Substrate APC
Product AA
|
| 10 X raise oct 22 12 X raise oct 24 + conversion to k2 =4 * k3 |
9 | DAG-Ca-PLA2* / kenz
| Ajay_Bhalla_ 2007_ReacDiff3 Accession No. : 84 | PLA2 Pathway No. : 970 | 20 | 60 | 4 | explicit E-S complex | Substrate APC
Product AA
|
| 10 X raise oct 22 12 X raise oct 24 + conversion to k2 =4 * k3 |
10 | DAG-Ca-PLA2* / kenz
| Ajay_Bhalla_ 2007_ReacDiff3 Accession No. : 84 | PLA2 Pathway No. : 976 | 20 | 60 | 4 | explicit E-S complex | Substrate APC
Product AA
|
| 10 X raise oct 22 12 X raise oct 24 + conversion to k2 =4 * k3 |
11 | DAG-Ca-PLA2* / kenz
| Ajay_Bhalla_ 2007_ReacDiff3 Accession No. : 84 | PLA2 Pathway No. : 982 | 20 | 60 | 4 | explicit E-S complex | Substrate APC
Product AA
|
| 10 X raise oct 22 12 X raise oct 24 + conversion to k2 =4 * k3 |
12 | DAG-Ca-PLA2* / kenz
| Ajay_Bhalla_ 2007_ReacDiff3 Accession No. : 84 | PLA2 Pathway No. : 988 | 20 | 60 | 4 | explicit E-S complex | Substrate APC
Product AA
|
| 10 X raise oct 22 12 X raise oct 24 + conversion to k2 =4 * k3 |
13 | DAG-Ca-PLA2* / kenz
| Ajay_Bhalla_ 2007_ReacDiff3 Accession No. : 84 | PLA2 Pathway No. : 994 | 20 | 60 | 4 | explicit E-S complex | Substrate APC
Product AA
|
| 10 X raise oct 22 12 X raise oct 24 + conversion to k2 =4 * k3 |
14 | DAG-Ca-PLA2* / kenz
| Ajay_Bhalla_ 2007_ReacDiff3 Accession No. : 84 | PLA2 Pathway No. : 1000 | 20 | 60 | 4 | explicit E-S complex | Substrate APC
Product AA
|
| 10 X raise oct 22 12 X raise oct 24 + conversion to k2 =4 * k3 |
15 | DAG-Ca-PLA2* / kenz
| Ajay_Bhalla_ 2007_ReacDiff3 Accession No. : 84 | PLA2 Pathway No. : 1005 | 20 | 60 | 4 | explicit E-S complex | Substrate APC
Product AA
|
| 10 X raise oct 22 12 X raise oct 24 + conversion to k2 =4 * k3 |
16 | DAG-Ca-PLA2* / kenz
| Ajay_Bhalla_ 2007_ReacDiff3 Accession No. : 84 | PLA2 Pathway No. : 1011 | 20 | 60 | 4 | explicit E-S complex | Substrate APC
Product AA
|
| 10 X raise oct 22 12 X raise oct 24 + conversion to k2 =4 * k3 |
17 | DAG-Ca-PLA2* / kenz
| Ajay_Bhalla_ 2007_ReacDiff3 Accession No. : 84 | PLA2 Pathway No. : 1017 | 20 | 60 | 4 | explicit E-S complex | Substrate APC
Product AA
|
| 10 X raise oct 22 12 X raise oct 24 + conversion to k2 =4 * k3 |
18 | DAG-Ca-PLA2* / kenz
| Ajay_Bhalla_ 2007_ReacDiff3 Accession No. : 84 | PLA2 Pathway No. : 1023 | 20 | 60 | 4 | explicit E-S complex | Substrate APC
Product AA
|
| 10 X raise oct 22 12 X raise oct 24 + conversion to k2 =4 * k3 |
19 | DAG-Ca-PLA2* / kenz
| Ajay_Bhalla_ 2007_ReacDiff3 Accession No. : 84 | PLA2 Pathway No. : 1029 | 20 | 60 | 4 | explicit E-S complex | Substrate APC
Product AA
|
| 10 X raise oct 22 12 X raise oct 24 + conversion to k2 =4 * k3 |
20 | DAG-Ca-PLA2* / kenz
| Ajay_Bhalla_ 2007_ReacDiff3 Accession No. : 84 | PLA2 Pathway No. : 1035 | 20 | 60 | 4 | explicit E-S complex | Substrate APC
Product AA
|
| 10 X raise oct 22 12 X raise oct 24 + conversion to k2 =4 * k3 |
21 | DAG-Ca-PLA2* / kenz
| Ajay_Bhalla_ 2007_ReacDiff3 Accession No. : 84 | PLA2 Pathway No. : 1041 | 20 | 60 | 4 | explicit E-S complex | Substrate APC
Product AA
|
| 10 X raise oct 22 12 X raise oct 24 + conversion to k2 =4 * k3 |
22 | DAG-Ca-PLA2* / kenz
| Ajay_Bhalla_ 2007_ReacDiff3 Accession No. : 84 | PLA2 Pathway No. : 1047 | 20 | 60 | 4 | explicit E-S complex | Substrate APC
Product AA
|
| 10 X raise oct 22 12 X raise oct 24 + conversion to k2 =4 * k3 |
23 | DAG-Ca-PLA2* / kenz
| Ajay_Bhalla_ 2007_ReacDiff3 Accession No. : 84 | PLA2 Pathway No. : 1053 | 20 | 60 | 4 | explicit E-S complex | Substrate APC
Product AA
|
| 10 X raise oct 22 12 X raise oct 24 + conversion to k2 =4 * k3 |
24 | DAG-Ca-PLA2* / kenz
| Ajay_Bhalla_ 2007_ReacDiff3 Accession No. : 84 | PLA2 Pathway No. : 1059 | 20 | 60 | 4 | explicit E-S complex | Substrate APC
Product AA
|
| 10 X raise oct 22 12 X raise oct 24 + conversion to k2 =4 * k3 |
25 | DAG-Ca-PLA2* / kenz
| Ajay_Bhalla_ 2007_ReacDiff3 Accession No. : 84 | PLA2 Pathway No. : 1065 | 20 | 60 | 4 | explicit E-S complex | Substrate APC
Product AA
|
| 10 X raise oct 22 12 X raise oct 24 + conversion to k2 =4 * k3 |