Physiology
Reaction Diagram
Cross-References
Annotations
Reactions
| Reactions | Name | Structure | Kinetics | Depiction |
|---|---|---|---|---|
| Histamine+H1HR_inactH1HR_act | r0 | c0 | MassAction | |
| Gaq_inact+H1HR_actGaq_act | r1 | c0 | MassAction | |
| Gaq_act+PLC_inactPLC_act | r2 | c0 | MassAction | |
| Gaq_act+p63_inactp63_act | r3 | c0 | MassAction | |
| RhoA_inactRhoA_act | r4 | c0 | HMMIrreversible | |
| PIP2DAG+IP3 | r5 | c0 | HMMIrreversible | |
| Ca_ERCa_cyto | r6 | c0 | HMMIrreversible | |
| p115_inactp115_act | r8 | c0 | HMMIrreversible | |
| RhoA_inactRhoA_act | r9 | c0 | HMMIrreversible | |
| Ca_cytoCa_miscbound | r10 | c0 | MassAction | |
| Ca_cytoCa_ER | r11 | c0 | HMMIrreversible | |
| p115_actp115_inact | r13 | c0 | HMMIrreversible | |
| RhoA_actRhoA_inact | r12 | c0 | HMMIrreversible | |
| Ca_cytoCa_mito | r14 | c0 | MassAction | |
| Ca_cytoCa_Ex | r15 | c0 | HMMIrreversible | |
| Ca_ER | r16 | c0 | MassAction | |
| Ca_cyto+PKC_inactPKC_Ca | r7 | c0 | MassAction | |
| DAG+PKC_CaPKC_act | r20 | c0 | MassAction | |
| Gaq_actGaq_inact | r17 | c0 | MassAction | |
| Ca_ExCa_cyto | r21 | c0 | HMMIrreversible | |
| Expumps_in+Ca_cytoExpumps_out | r23 | c0 | MassAction | |
| Ca_Ex+Expumps_outExpumps_in | r24 | c0 | MassAction | |
| Ca_ERCa_cyto | r22 | c0 | MassAction | |
| Pyrilamine+H1HR_actH1HR_inact | r26 | c0 | MassAction | |
| PKC_actPKC_act_translocate | r27 | c0 | MassAction | |
| GDI_inactGDI_act | r28 | c0 | HMMIrreversible | |
| GDI_actGDI_inact | r30 | c0 | HMMIrreversible | |
| GAP_inactGAP_act | r25 | c0 | HMMIrreversible | |
| GAP_actGAP_inact | r29 | c0 | HMMIrreversible | |
| RhoA_actRhoA_inact | r31 | c0 | HMMIrreversible | |
| DAGDAG_deg | r18 | c0 | MassAction |
r0 Universal ID's
r0 Text Annotations
r1 Universal ID's
r1 Text Annotations
r2 Universal ID's
r2 Text Annotations
r3 Universal ID's
r3 Text Annotations
r4 Universal ID's
r4 Text Annotations
r5 Universal ID's
r5 Text Annotations
r6 Universal ID's
r6 Text Annotations
r8 Universal ID's
r8 Text Annotations
r9 Universal ID's
r9 Text Annotations
r10 Universal ID's
r10 Text Annotations
r11 Universal ID's
r11 Text Annotations
r13 Universal ID's
r13 Text Annotations
r12 Universal ID's
r12 Text Annotations
r14 Universal ID's
r14 Text Annotations
r15 Universal ID's
r15 Text Annotations
r16 Universal ID's
r16 Text Annotations
r7 Universal ID's
r7 Text Annotations
r20 Universal ID's
r20 Text Annotations
r17 Universal ID's
r17 Text Annotations
r21 Universal ID's
r21 Text Annotations
r23 Universal ID's
r23 Text Annotations
r24 Universal ID's
r24 Text Annotations
r22 Universal ID's
r22 Text Annotations
r26 Universal ID's
r26 Text Annotations
r27 Universal ID's
r27 Text Annotations
r28 Universal ID's
r28 Text Annotations
r30 Universal ID's
r30 Text Annotations
r25 Universal ID's
r25 Text Annotations
r29 Universal ID's
r29 Text Annotations
r31 Universal ID's
r31 Text Annotations
r18 Universal ID's
r18 Text Annotations
Expressions for r0
reaction rate
J
(((Kf * Histamine) * H1HR_inact) - (Kr * H1HR_act)) [uM.s-1]
forward rate constant
Kf
1.0E-4 [s-1.uM-1]
reverse rate constant
Kr
0.001 [s-1]
Expressions for r1
reaction rate
J
(((Kf * Gaq_inact) * H1HR_act) - (Kr * Gaq_act)) [uM.s-1]
forward rate constant
Kf
0.015 [s-1.uM-1]
reverse rate constant
Kr
7.2 [s-1]
Expressions for r2
reaction rate
J
(((Kf * Gaq_act) * PLC_inact) - (Kr * PLC_act)) [uM.s-1]
forward rate constant
Kf
0.0042 [s-1.uM-1]
reverse rate constant
Kr
1.0 [s-1]
Expressions for r3
reaction rate
J
(((Kf * Gaq_act) * p63_inact) - (Kr * p63_act)) [uM.s-1]
forward rate constant
Kf
0.04 [s-1.uM-1]
reverse rate constant
Kr
0.5 [s-1]
Expressions for r4
reaction rate
J
((Vmax * RhoA_inact) / (Km + RhoA_inact)) [uM.s-1]
Km (1/2 max)
Km
10.0 [uM]
max reaction rate
Vmax
(1.0 * p63_act) [uM.s-1]
Expressions for r5
reaction rate
J
((Vmax * PIP2) / (Km + PIP2)) [uM.s-1]
Km (1/2 max)
Km
1.55 [uM]
max reaction rate
Vmax
(800.0 * PLC_act) [uM.s-1]
Expressions for r6
reaction rate
J
((Vmax * Ca_ER) / (Km + Ca_ER)) [uM.s-1]
Km (1/2 max)
Km
0.0813 [uM]
max reaction rate
Vmax
(10.0 * IP3) [uM.s-1]
Expressions for r8
reaction rate
J
((Vmax * p115_inact) / (Km + p115_inact)) [uM.s-1]
Km (1/2 max)
Km
1.0 [uM]
max reaction rate
Vmax
(1.0 * PKC_act_translocate) [uM.s-1]
Expressions for r9
reaction rate
J
((Vmax * RhoA_inact) / (Km + RhoA_inact)) [uM.s-1]
Km (1/2 max)
Km
1.0 [uM]
max reaction rate
Vmax
(0.5 * p115_act) [uM.s-1]
Expressions for r10
reaction rate
J
((Kf * Ca_cyto) - (Kr * Ca_miscbound)) [uM.s-1]
forward rate constant
Kf
2.43 [s-1]
reverse rate constant
Kr
1.0 [s-1]
Expressions for r11
reaction rate
J
((Vmax * Ca_cyto) / (Km + Ca_cyto)) [uM.s-1]
Km (1/2 max)
Km
114.0 [uM]
max reaction rate
Vmax
(0.754 * SERCA) [uM.s-1]
Expressions for r13
reaction rate
J
((Vmax * p115_act) / (Km + p115_act)) [uM.s-1]
Km (1/2 max)
Km
8.25 [uM]
max reaction rate
Vmax
(0.0364 * phosphatase) [uM.s-1]
Expressions for r12
reaction rate
J
((Vmax * RhoA_act) / (Km + RhoA_act)) [uM.s-1]
Km (1/2 max)
Km
2.31 [uM]
max reaction rate
Vmax
(0.0541 * GAP_act) [uM.s-1]
Expressions for r14
reaction rate
J
((Kf * Ca_cyto) - (Kr * Ca_mito)) [uM.s-1]
forward rate constant
Kf
0.506 [s-1]
reverse rate constant
Kr
0.476 [s-1]
Expressions for r15
reaction rate
J
((Vmax * Ca_cyto) / (Km + Ca_cyto)) [uM.s-1]
Km (1/2 max)
Km
0.52 [uM]
max reaction rate
Vmax
(0.26 * Expumps_out) [uM.s-1]
Expressions for r16
reaction rate
J
(Kf * Ca_ER) [uM.s-1]
forward rate constant
Kf
0.0 [s-1]
reverse rate constant
Kr
0.0 [uM.s-1]
Expressions for r7
reaction rate
J
(((Kf * Ca_cyto) * PKC_inact) - (Kr * PKC_Ca)) [uM.s-1]
forward rate constant
Kf
0.02 [s-1.uM-1]
reverse rate constant
Kr
50.0 [s-1]
Expressions for r20
reaction rate
J
(((Kf * DAG) * PKC_Ca) - (Kr * PKC_act)) [uM.s-1]
forward rate constant
Kf
1.5E-5 [s-1.uM-1]
reverse rate constant
Kr
0.15 [s-1]
Expressions for r17
reaction rate
J
((Kf * Gaq_act) - (Kr * Gaq_inact)) [uM.s-1]
forward rate constant
Kf
(1.0 * PLC_act) [s-1]
reverse rate constant
Kr
0.0 [s-1]
Expressions for r21
reaction rate
J
((Vmax * Ca_Ex) / (Km + Ca_Ex)) [uM.s-1]
Km (1/2 max)
Km
1.0 [uM]
max reaction rate
Vmax
(0.1 * Expumps_in) [uM.s-1]
Expressions for r23
reaction rate
J
(((Kf * Expumps_in) * Ca_cyto) - (Kr * Expumps_out)) [uM.s-1]
forward rate constant
Kf
1.0E-4 [s-1.uM-1]
reverse rate constant
Kr
0.0 [s-1]
Expressions for r24
reaction rate
J
(((Kf * Ca_Ex) * Expumps_out) - (Kr * Expumps_in)) [uM.s-1]
forward rate constant
Kf
1.0E-4 [s-1.uM-1]
reverse rate constant
Kr
0.0 [s-1]
Expressions for r22
reaction rate
J
((Kf * Ca_ER) - (Kr * Ca_cyto)) [uM.s-1]
forward rate constant
Kf
0.00203 [s-1]
reverse rate constant
Kr
0.0 [s-1]
Expressions for r26
reaction rate
J
(((Kf * Pyrilamine) * H1HR_act) - (Kr * H1HR_inact)) [uM.s-1]
forward rate constant
Kf
1.0 [s-1.uM-1]
reverse rate constant
Kr
1.0 [s-1]
Expressions for r27
reaction rate
J
((Kf * PKC_act) - (Kr * PKC_act_translocate)) [uM.s-1]
forward rate constant
Kf
0.02 [s-1]
reverse rate constant
Kr
0.01 [s-1]
Expressions for r28
reaction rate
J
((Vmax * GDI_inact) / (Km + GDI_inact)) [uM.s-1]
Km (1/2 max)
Km
8.25 [uM]
max reaction rate
Vmax
(0.0364 * phosphatase) [uM.s-1]
Expressions for r30
reaction rate
J
((Vmax * GDI_act) / (Km + GDI_act)) [uM.s-1]
Km (1/2 max)
Km
1.0 [uM]
max reaction rate
Vmax
(1.0 * PKC_act_translocate) [uM.s-1]
Expressions for r25
reaction rate
J
((Vmax * GAP_inact) / (Km + GAP_inact)) [uM.s-1]
Km (1/2 max)
Km
8.25 [uM]
max reaction rate
Vmax
(0.0364 * phosphatase) [uM.s-1]
Expressions for r29
reaction rate
J
((Vmax * GAP_act) / (Km + GAP_act)) [uM.s-1]
Km (1/2 max)
Km
1.0 [uM]
max reaction rate
Vmax
(1.0 * PKC_act_translocate) [uM.s-1]
Expressions for r31
reaction rate
J
((Vmax * RhoA_act) / (Km + RhoA_act)) [uM.s-1]
Km (1/2 max)
Km
17.0 [uM]
max reaction rate
Vmax
(0.0242 * GDI_act) [uM.s-1]
Expressions for r18
reaction rate
J
((Kf * DAG) - (Kr * DAG_deg)) [uM.s-1]
forward rate constant
Kf
1.5E-7 [s-1]
reverse rate constant
Kr
0.0 [s-1]
Species
| Name | Structure | BioNetGen Definition | Depiction |
|---|---|---|---|
| Gaq_act | c0 | ||
| H1HR_act | c0 | ||
| Histamine | c0 | ||
| p63_act | c0 | ||
| PLC_act | c0 | ||
| PIP2 | c0 | ||
| DAG | c0 | ||
| IP3 | c0 | ||
| RhoA_act | c0 | ||
| Ca_cyto | c0 | ||
| PKC_act | c0 | ||
| p115_act | c0 | ||
| RhoA_inact | c0 | ||
| H1HR_inact | c0 | ||
| Gaq_inact | c0 | ||
| p63_inact | c0 | ||
| p115_inact | c0 | ||
| PKC_inact | c0 | ||
| Ca_ER | c0 | ||
| PLC_inact | c0 | ||
| Ca_miscbound | c0 | ||
| Ca_mito | c0 | ||
| Ca_Ex | c0 | ||
| phosphatase | c0 | ||
| GAP_act | c0 | ||
| SERCA | c0 | ||
| PKC_Ca | c0 | ||
| Expumps_out | c0 | ||
| Expumps_in | c0 | ||
| Pyrilamine | c0 | ||
| PKC_act_translocate | c0 | ||
| GDI_act | c0 | ||
| GDI_inact | c0 | ||
| GAP_inact | c0 | ||
| DAG_deg | c0 |
Gaq_act Universal ID's
Gaq_act Text Annotations
H1HR_act Universal ID's
H1HR_act Text Annotations
Histamine Universal ID's
Histamine Text Annotations
p63_act Universal ID's
p63_act Text Annotations
PLC_act Universal ID's
PLC_act Text Annotations
PIP2 Universal ID's
PIP2 Text Annotations
DAG Universal ID's
DAG Text Annotations
IP3 Universal ID's
IP3 Text Annotations
RhoA_act Universal ID's
RhoA_act Text Annotations
Ca_cyto Universal ID's
Ca_cyto Text Annotations
PKC_act Universal ID's
PKC_act Text Annotations
p115_act Universal ID's
p115_act Text Annotations
RhoA_inact Universal ID's
RhoA_inact Text Annotations
H1HR_inact Universal ID's
H1HR_inact Text Annotations
Gaq_inact Universal ID's
Gaq_inact Text Annotations
p63_inact Universal ID's
p63_inact Text Annotations
p115_inact Universal ID's
p115_inact Text Annotations
PKC_inact Universal ID's
PKC_inact Text Annotations
Ca_ER Universal ID's
Ca_ER Text Annotations
PLC_inact Universal ID's
PLC_inact Text Annotations
Ca_miscbound Universal ID's
Ca_miscbound Text Annotations
Ca_mito Universal ID's
Ca_mito Text Annotations
Ca_Ex Universal ID's
Ca_Ex Text Annotations
phosphatase Universal ID's
phosphatase Text Annotations
GAP_act Universal ID's
GAP_act Text Annotations
SERCA Universal ID's
SERCA Text Annotations
PKC_Ca Universal ID's
PKC_Ca Text Annotations
Expumps_out Universal ID's
Expumps_out Text Annotations
Expumps_in Universal ID's
Expumps_in Text Annotations
Pyrilamine Universal ID's
Pyrilamine Text Annotations
PKC_act_translocate Universal ID's
PKC_act_translocate Text Annotations
GDI_act Universal ID's
GDI_act Text Annotations
GDI_inact Universal ID's
GDI_inact Text Annotations
GAP_inact Universal ID's
GAP_inact Text Annotations
DAG_deg Universal ID's
DAG_deg Text Annotations
Applications
| Name | Properties | Math Type | Annotation |
|---|---|---|---|
| Application1 |
Specs -
Species Specs - Reaction Simulations |
Deterministic (ODE) Compartmental |
Application1 Universal ID's
Application1 Text Annotations
Specifications (Species) - Application1 go to Simulations
| Species | Initial Condition | Diffusion Constant | Structure |
|---|---|---|---|
| Gaq_act | 0.0 [uM] | 0.0 [um2/s] | c0 |
| H1HR_act | 0.0 [uM] | 0.0 [um2/s] | c0 |
| Histamine | 100.0 [uM] | 0.0 [um2/s] | c0 |
| p63_act | 0.0 [uM] | 0.0 [um2/s] | c0 |
| PLC_act | 0.0 [uM] | 0.0 [um2/s] | c0 |
| PIP2 | 48.0 [uM] | 0.0 [um2/s] | c0 |
| DAG | 0.72 [uM] | 0.0 [um2/s] | c0 |
| IP3 | 1.2 [uM] | 0.0 [um2/s] | c0 |
| RhoA_act | 0.0 [uM] | 0.0 [um2/s] | c0 |
| Ca_cyto | 0.1 [uM] | 0.0 [um2/s] | c0 |
| PKC_act | 0.0 [uM] | 0.0 [um2/s] | c0 |
| p115_act | 0.0 [uM] | 0.0 [um2/s] | c0 |
| RhoA_inact | 50.0 [uM] | 0.0 [um2/s] | c0 |
| H1HR_inact | 5.0 [uM] | 0.0 [um2/s] | c0 |
| Gaq_inact | 3.5 [uM] | 0.0 [um2/s] | c0 |
| p63_inact | 1.0 [uM] | 0.0 [um2/s] | c0 |
| p115_inact | 0.02 [uM] | 0.0 [um2/s] | c0 |
| PKC_inact | 15.0 [uM] | 0.0 [um2/s] | c0 |
| Ca_ER | 500.0 [uM] | 0.0 [um2/s] | c0 |
| PLC_inact | 1.0 [uM] | 0.0 [um2/s] | c0 |
| Ca_miscbound | 0.0 [uM] | 0.0 [um2/s] | c0 |
| Ca_mito | 0.0 [uM] | 0.0 [um2/s] | c0 |
| Ca_Ex | 0.0 [uM] | 0.0 [um2/s] | c0 |
| phosphatase | 0.5 [uM] | 0.0 [um2/s] | c0 |
| GAP_act | 3.0 [uM] | 0.0 [um2/s] | c0 |
| SERCA | 15.0 [uM] | 0.0 [um2/s] | c0 |
| PKC_Ca | 0.0 [uM] | 0.0 [um2/s] | c0 |
| Expumps_out | 15.6 [uM] | 0.0 [um2/s] | c0 |
| Expumps_in | 0.01 [uM] | 0.0 [um2/s] | c0 |
| Pyrilamine | 0.0 [uM] | 0.0 [um2/s] | c0 |
| PKC_act_translocate | 0.0 [uM] | 0.0 [um2/s] | c0 |
| GDI_act | 0.5 [uM] | 0.0 [um2/s] | c0 |
| GDI_inact | 0.0 [uM] | 0.0 [um2/s] | c0 |
| GAP_inact | 0.0 [uM] | 0.0 [um2/s] | c0 |
| DAG_deg | 0.0 [uM] | 0.0 [um2/s] | c0 |
Specifications (Reaction) - Application1 go to Simulations
| Name | Enabled? |
|---|---|
| r0 | included |
| r1 | included |
| r2 | included |
| r3 | included |
| r4 | included |
| r5 | included |
| r6 | included |
| r8 | included |
| r9 | included |
| r10 | included |
| r11 | included |
| r13 | included |
| r12 | included |
| r14 | included |
| r15 | included |
| r16 | included |
| r7 | included |
| r20 | included |
| r17 | included |
| r21 | included |
| r23 | included |
| r24 | included |
| r22 | included |
| r26 | included |
| r27 | included |
| r28 | included |
| r30 | included |
| r25 | included |
| r29 | included |
| r31 | included |
| r18 | included |
Simulations - Application1 go to Specifications
| Name | End Time | Output Options |
|---|---|---|
| Simulation 1 | 3000.0 |
OutputTimeStep 30.0 |
Application1 Universal ID's
Application1 Text Annotations
Assignments
| Name | Variable | Assignment Function Expression |
|---|
Events
| Name | Trigger Type | Variable Assignment |
|---|---|---|
| event0 | at time 1200.0 | Pyrilamine --> 100.0 |
Geometry non-spatial1830893501
(Origin: 0.0, 0.0, 0.0; Extent: 10.0, 10.0, 10.0 [um])
| Dimension | Type | Subdomain | Adjacent Subvolumes | Size | Mapped Compartment |
|---|---|---|---|---|---|
| Compartmental | Compartment | c0 |
Events
| Name | Variable | Rate Expression |
|---|
Downloads
| Model Format | Model Downloads |
|---|---|
| Virtual Cell Markup Language | VCML File |
| PDF Report | Report |
| COMBINE Archive | OMEX File |
| SEDML | SEDML File |
| File Format | Application Downloads |
| BNGL | Application1.bngl |
| SBML | Application1.sbml |
| Matlab | Application1.m |
| NFSim XML | Application1.xml |