Physiology

Reaction Diagram

reactionDiagram

Cross-References

Annotations

Reactions

Reactions
Name
Structure
Kinetics
Depiction
STEP_PKASTEP r097 IC HMMIrreversible
STEPSTEP_PKA r096 IC HMMIrreversible
ATPcAMP r010 PM HMMIrreversible
ERK_activeERK_Tyr r093 IC HMMIrreversible
ERK_TyrERK r094 IC HMMIrreversible
PDE1_cAMPPDE1+AMP r027 IC MassAction
R2C2_cAMP4PKA+R2C_cAMP4 r044 IC MassAction
DARPP32_Pi_PP1PP1+DARPP32 r073 IC MassAction
PDE1+MMPXPDE1_inhibited r051 IC MassAction
DARPP32DARPP32_Pi r070 IC HMMIrreversible
DARPP32_Pi+PP1DARPP32_Pi_PP1 r071 IC MassAction
PDE2_active+cGMPPDE2_active_cGMP r019 IC MassAction
PDE2+Bay60PDE2_inhibited r054 IC MassAction
PDE2_active_cAMP+Bay60PDE2_inhibited r058 IC MassAction
Gaby+D1RD1R_Gaby r001 PM MassAction
PDE1_cGMPGMP+PDE1 r029 IC MassAction
PDE2_active_cGMP+Bay60PDE2_inhibited r059 IC MassAction
cGMPGMP r060 IC HMMIrreversible
Four1N+GluA1_845AMPAR r048 PM MassAction
PDE2_cGMPGMP+PDE2 r017 IC MassAction
PDE2_cAMPAMP+PDE2 r016 IC MassAction
PDE2+cAMPPDE2_cAMP r018 IC MassAction
PDE1+cGMPPDE1_cGMP r028 IC MassAction
DA_D1R_GabyGby+Ga_GTP+DA_D1R r005 PM MassAction
PDE1_cGMP+MMPXPDE1_inhibited r053 IC MassAction
DARPP32_PiDARPP32 r072 IC HMMIrreversible
D1R_Gaby+DADA_D1R_Gaby r002 PM MassAction
PDE1+cAMPPDE1_cAMP r026 IC MassAction
PDE1_cAMP+MMPXPDE1_inhibited r052 IC MassAction
PDE2+cGMPPDE2_active r011 IC MassAction
R2C2_cAMP2+cAMPR2C2_cAMP3 r042 IC MassAction
BRafBRaf_PKA r085 IC HMMIrreversible
BRaf_PKABRaf r086 IC HMMIrreversible
MEKMEK_Ser r087 IC HMMIrreversible
MEK_SerMEK_active r088 IC HMMIrreversible
ERKERK_Tyr r091 IC HMMIrreversible
MEK_activeMEK_Ser r089 IC HMMIrreversible
MEK_SerMEK r090 IC HMMIrreversible
ERK_TyrERK_active r092 IC HMMIrreversible
ERK_TyrERK r095 IC HMMIrreversible
ATPcAMP r025 PM HMMIrreversible
D1R+DADA_D1R r000 PM MassAction
GluA1_845GluA1 r047 IC HMMIrreversible
AMPARGluA1_dephos r049 PM HMMIrreversible
GluA1_dephosGluA1+Four1N r050 PM MassAction
PDE4PDE4_PKA r075 IC HMMIrreversible
Ga_GTP+AC5AC5_Ga r007 PM MassAction
Ga_GTPGa_GDP r006 PM MassAction
PDE4_ERKPDE4_ERK_PKA r077 IC HMMIrreversible
PDE4_ERK_PKAPDE4 r078 IC HMMIrreversible
PDE4_PKAPDE4_ERK_PKA r080 IC HMMIrreversible
PDE4_ERKPDE4 r076 IC HMMIrreversible
PDE4_PKAPDE4 r079 IC HMMIrreversible
cAMPAMP r083 IC HMMIrreversible
cAMPAMP r084 IC HMMIrreversible
cAMPAMP r024 IC HMMIrreversible
Bay60+PDE2_cGMPPDE2_inhibited r056 IC MassAction
PDE4PDE4_ERK r074 IC HMMIrreversible
cAMPAMP r081 IC HMMIrreversible
cGMP+PDE2PDE2_cGMP r012 IC MassAction
GluA1GluA1_845 r046 IC HMMIrreversible
cAMPAMP r082 IC HMMIrreversible
PDE2_active+Bay60PDE2_inhibited r057 IC MassAction
Bay60+PDE2_cAMPPDE2_inhibited r055 IC MassAction
PDE2_active_cGMPGMP+PDE2_active r015 IC MassAction
ATPcAMP r009 PM HMMIrreversible
PDE2_active_cAMPAMP+PDE2_active r014 IC MassAction
GTPcGMP r039 IC HMMIrreversible
R2C2_cAMP+cAMPR2C2_cAMP2 r041 IC MassAction
R2C_cAMP4R2_cAMP4+PKA r045 IC MassAction
PDE2_active+cAMPPDE2_active_cAMP r013 IC MassAction
R2C2_cAMP3+cAMPR2C2_cAMP4 r043 IC MassAction
Ga_GDP+GbyGaby r004 PM MassAction
DA_D1R+GabyDA_D1R_Gaby r003 PM MassAction
cAMP+R2C2R2C2_cAMP r040 IC MassAction
sGC_inactive+SNAPsGC_active r098 IC MassAction
GTPcGMP r099 IC HMMIrreversible

r097 Universal ID's

r097 Text Annotations

r096 Universal ID's

r096 Text Annotations

r010 Universal ID's

r010 Text Annotations

r093 Universal ID's

r093 Text Annotations

r094 Universal ID's

r094 Text Annotations

r027 Universal ID's

r027 Text Annotations

r044 Universal ID's

r044 Text Annotations

r073 Universal ID's

r073 Text Annotations

r051 Universal ID's

r051 Text Annotations

r070 Universal ID's

r070 Text Annotations

r071 Universal ID's

r071 Text Annotations

r019 Universal ID's

r019 Text Annotations

r054 Universal ID's

r054 Text Annotations

r058 Universal ID's

r058 Text Annotations

r001 Universal ID's

r001 Text Annotations

r029 Universal ID's

r029 Text Annotations

r059 Universal ID's

r059 Text Annotations

r060 Universal ID's

r060 Text Annotations

r048 Universal ID's

r048 Text Annotations

r017 Universal ID's

r017 Text Annotations

r016 Universal ID's

r016 Text Annotations

r018 Universal ID's

r018 Text Annotations

r028 Universal ID's

r028 Text Annotations

r005 Universal ID's

r005 Text Annotations

r053 Universal ID's

r053 Text Annotations

r072 Universal ID's

r072 Text Annotations

r002 Universal ID's

r002 Text Annotations

r026 Universal ID's

r026 Text Annotations

r052 Universal ID's

r052 Text Annotations

r011 Universal ID's

r011 Text Annotations

r042 Universal ID's

r042 Text Annotations

r085 Universal ID's

r085 Text Annotations

r086 Universal ID's

r086 Text Annotations

r087 Universal ID's

r087 Text Annotations

r088 Universal ID's

r088 Text Annotations

r091 Universal ID's

r091 Text Annotations

r089 Universal ID's

r089 Text Annotations

r090 Universal ID's

r090 Text Annotations

r092 Universal ID's

r092 Text Annotations

r095 Universal ID's

r095 Text Annotations

r025 Universal ID's

r025 Text Annotations

r000 Universal ID's

r000 Text Annotations

r047 Universal ID's

r047 Text Annotations

r049 Universal ID's

r049 Text Annotations

r050 Universal ID's

r050 Text Annotations

r075 Universal ID's

r075 Text Annotations

r007 Universal ID's

r007 Text Annotations

r006 Universal ID's

r006 Text Annotations

r077 Universal ID's

r077 Text Annotations

r078 Universal ID's

r078 Text Annotations

r080 Universal ID's

r080 Text Annotations

r076 Universal ID's

r076 Text Annotations

r079 Universal ID's

r079 Text Annotations

r083 Universal ID's

r083 Text Annotations

r084 Universal ID's

r084 Text Annotations

r024 Universal ID's

r024 Text Annotations

r056 Universal ID's

r056 Text Annotations

r074 Universal ID's

r074 Text Annotations

r081 Universal ID's

r081 Text Annotations

r012 Universal ID's

r012 Text Annotations

r046 Universal ID's

r046 Text Annotations

r082 Universal ID's

r082 Text Annotations

r057 Universal ID's

r057 Text Annotations

r055 Universal ID's

r055 Text Annotations

r015 Universal ID's

r015 Text Annotations

r009 Universal ID's

r009 Text Annotations

r014 Universal ID's

r014 Text Annotations

r039 Universal ID's

r039 Text Annotations

r041 Universal ID's

r041 Text Annotations

r045 Universal ID's

r045 Text Annotations

r013 Universal ID's

r013 Text Annotations

r043 Universal ID's

r043 Text Annotations

r004 Universal ID's

r004 Text Annotations

r003 Universal ID's

r003 Text Annotations

r040 Universal ID's

r040 Text Annotations

r098 Universal ID's

r098 Text Annotations

r099 Universal ID's

r099 Text Annotations

Expressions for r097

reaction rate

J

((Vmax * STEP_PKA) / (Km + STEP_PKA)) [uM.s-1]

Km (1/2 max)

Km

6.0 [uM]

max reaction rate

Vmax

(Kcat * PP1) [uM.s-1]

local

Kcat

5.0 [s-1]

Expressions for r096

reaction rate

J

((Vmax * STEP) / (Km + STEP)) [uM.s-1]

Km (1/2 max)

Km

25.641 [uM]

max reaction rate

Vmax

(Kcat * PKA) [uM.s-1]

local

Kcat

1.0 [s-1]

Expressions for r010

reaction rate

J

((Vmax * ATP) / (Km + ATP)) [molecules.um-2.s-1]

inward current density

I

0.0 [pA.um-2]

net charge valence

netValence

1.0 [1]

Km (1/2 max)

Km

315.0 [uM]

max reaction rate

Vmax

(Kcat * AC5_Ga) [molecules.um-2.s-1]

local

Kcat

8.5 [s-1]

Expressions for r093

reaction rate

J

((Vmax * ERK_active) / (Km + ERK_active)) [uM.s-1]

Km (1/2 max)

Km

0.77 [uM]

max reaction rate

Vmax

(Kcat * PP2A) [uM.s-1]

local

Kcat

0.636 [s-1]

Expressions for r094

reaction rate

J

((Vmax * ERK_Tyr) / (Km + ERK_Tyr)) [uM.s-1]

Km (1/2 max)

Km

0.46 [uM]

max reaction rate

Vmax

(Kcat * STEP) [uM.s-1]

local

Kcat

1.06 [s-1]

Expressions for r027

reaction rate

J

((Kf * PDE1_cAMP) - ((Kr * PDE1) * AMP)) [uM.s-1]

forward rate constant

Kf

4.73 [s-1]

reverse rate constant

Kr

0.0 [s-1.uM-1]

Expressions for r044

reaction rate

J

((Kf * R2C2_cAMP4) - ((Kr * PKA) * R2C_cAMP4)) [uM.s-1]

forward rate constant

Kf

0.05 [s-1]

reverse rate constant

Kr

0.085 [s-1.uM-1]

Expressions for r073

reaction rate

J

((Kf * DARPP32_Pi_PP1) - ((Kr * PP1) * DARPP32)) [uM.s-1]

forward rate constant

Kf

10.0 [s-1]

reverse rate constant

Kr

0.0 [s-1.uM-1]

Expressions for r051

reaction rate

J

(((Kf * PDE1) * MMPX) - (Kr * PDE1_inhibited)) [uM.s-1]

forward rate constant

Kf

1.0 [s-1.uM-1]

reverse rate constant

Kr

1.2 [s-1]

Expressions for r070

reaction rate

J

((Vmax * DARPP32) / (Km + DARPP32)) [uM.s-1]

Km (1/2 max)

Km

2.4 [uM]

max reaction rate

Vmax

(Kcat * PKA) [uM.s-1]

local

Kcat

2.7 [s-1]

Expressions for r071

reaction rate

J

(((Kf * DARPP32_Pi) * PP1) - (Kr * DARPP32_Pi_PP1)) [uM.s-1]

forward rate constant

Kf

100.0 [s-1.uM-1]

reverse rate constant

Kr

0.2 [s-1]

Expressions for r019

reaction rate

J

(((Kf * PDE2_active) * cGMP) - (Kr * PDE2_active_cGMP)) [uM.s-1]

forward rate constant

Kf

10.7 [s-1.uM-1]

reverse rate constant

Kr

86.0 [s-1]

Expressions for r054

reaction rate

J

(((Kf * PDE2) * Bay60) - (Kr * PDE2_inhibited)) [uM.s-1]

forward rate constant

Kf

1.0 [s-1.uM-1]

reverse rate constant

Kr

0.01 [s-1]

Expressions for r058

reaction rate

J

(((Kf * PDE2_active_cAMP) * Bay60) - (Kr * PDE2_inhibited)) [uM.s-1]

forward rate constant

Kf

1.0 [s-1.uM-1]

reverse rate constant

Kr

0.01 [s-1]

Expressions for r001

reaction rate

J

(((Kf * Gaby) * D1R) - (Kr * D1R_Gaby)) [molecules.um-2.s-1]

inward current density

I

0.0 [pA.um-2]

net charge valence

netValence

1.0 [1]

forward rate constant

Kf

0.06 [um2.s-1.molecules-1]

reverse rate constant

Kr

3.0E-4 [s-1]

Expressions for r029

reaction rate

J

((Kf * PDE1_cGMP) - ((Kr * GMP) * PDE1)) [uM.s-1]

forward rate constant

Kf

8.4 [s-1]

reverse rate constant

Kr

0.0 [s-1.uM-1]

Expressions for r059

reaction rate

J

(((Kf * PDE2_active_cGMP) * Bay60) - (Kr * PDE2_inhibited)) [uM.s-1]

forward rate constant

Kf

1.0 [s-1.uM-1]

reverse rate constant

Kr

0.01 [s-1]

Expressions for r060

reaction rate

J

((Vmax * cGMP) / (Km + cGMP)) [uM.s-1]

Km (1/2 max)

Km

25.0 [uM]

max reaction rate

Vmax

(Kcat * PDEbg_cGMP) [uM.s-1]

local

Kcat

25.0 [s-1]

Expressions for r048

reaction rate

J

(((Kf * Four1N) * GluA1_845) - (Kr * AMPAR)) [molecules.um-2.s-1]

inward current density

I

0.0 [pA.um-2]

net charge valence

netValence

1.0 [1]

forward rate constant

Kf

1.34 [molecules.um-2.s-1.uM-2]

reverse rate constant

Kr

0.008 [s-1]

Expressions for r017

reaction rate

J

((Kf * PDE2_cGMP) - ((Kr * GMP) * PDE2)) [uM.s-1]

forward rate constant

Kf

21.5 [s-1]

reverse rate constant

Kr

0.0 [s-1.uM-1]

Expressions for r016

reaction rate

J

((Kf * PDE2_cAMP) - ((Kr * AMP) * PDE2)) [uM.s-1]

forward rate constant

Kf

21.0 [s-1]

reverse rate constant

Kr

0.0 [s-1.uM-1]

Expressions for r018

reaction rate

J

(((Kf * PDE2) * cAMP) - (Kr * PDE2_cAMP)) [uM.s-1]

forward rate constant

Kf

3.5 [s-1.uM-1]

reverse rate constant

Kr

84.0 [s-1]

Expressions for r028

reaction rate

J

(((Kf * PDE1) * cGMP) - (Kr * PDE1_cGMP)) [uM.s-1]

forward rate constant

Kf

7.0 [s-1.uM-1]

reverse rate constant

Kr

33.6 [s-1]

Expressions for r005

reaction rate

J

((Kf * DA_D1R_Gaby) - (((Kr * Gby) * Ga_GTP) * DA_D1R)) [molecules.um-2.s-1]

inward current density

I

0.0 [pA.um-2]

net charge valence

netValence

1.0 [1]

forward rate constant

Kf

20.0 [s-1]

reverse rate constant

Kr

0.0 [um4.s-1.molecules-2]

Expressions for r053

reaction rate

J

(((Kf * PDE1_cGMP) * MMPX) - (Kr * PDE1_inhibited)) [uM.s-1]

forward rate constant

Kf

1.0 [s-1.uM-1]

reverse rate constant

Kr

1.2 [s-1]

Expressions for r072

reaction rate

J

((Vmax * DARPP32_Pi) / (Km + DARPP32_Pi)) [uM.s-1]

Km (1/2 max)

Km

0.37 [uM]

max reaction rate

Vmax

(Kcat * PP2A) [uM.s-1]

local

Kcat

6.7 [s-1]

Expressions for r002

reaction rate

J

(((Kf * D1R_Gaby) * DA) - (Kr * DA_D1R_Gaby)) [molecules.um-2.s-1]

inward current density

I

0.0 [pA.um-2]

net charge valence

netValence

1.0 [1]

forward rate constant

Kf

3.33 [s-1.uM-1]

reverse rate constant

Kr

10.0 [s-1]

Expressions for r026

reaction rate

J

(((Kf * PDE1) * cAMP) - (Kr * PDE1_cAMP)) [uM.s-1]

forward rate constant

Kf

0.36 [s-1.uM-1]

reverse rate constant

Kr

18.9 [s-1]

Expressions for r052

reaction rate

J

(((Kf * PDE1_cAMP) * MMPX) - (Kr * PDE1_inhibited)) [uM.s-1]

forward rate constant

Kf

1.0 [s-1.uM-1]

reverse rate constant

Kr

1.2 [s-1]

Expressions for r011

reaction rate

J

(((Kf * PDE2) * cGMP) - (Kr * PDE2_active)) [uM.s-1]

forward rate constant

Kf

4.1 [s-1.uM-1]

reverse rate constant

Kr

0.9 [s-1]

Expressions for r042

reaction rate

J

(((Kf * R2C2_cAMP2) * cAMP) - (Kr * R2C2_cAMP3)) [uM.s-1]

forward rate constant

Kf

0.27 [s-1.uM-1]

reverse rate constant

Kr

0.28 [s-1]

Expressions for r085

reaction rate

J

((Vmax * BRaf) / (Km + BRaf)) [uM.s-1]

Km (1/2 max)

Km

7.5 [uM]

max reaction rate

Vmax

(Kcat * PKA) [uM.s-1]

local

Kcat

3.0 [s-1]

Expressions for r086

reaction rate

J

((Vmax * BRaf_PKA) / (Km + BRaf_PKA)) [uM.s-1]

Km (1/2 max)

Km

15.657 [uM]

max reaction rate

Vmax

(Kcat * PP2A) [uM.s-1]

local

Kcat

6.0 [s-1]

Expressions for r087

reaction rate

J

((Vmax * MEK) / (Km + MEK)) [uM.s-1]

Km (1/2 max)

Km

0.15909 [uM]

max reaction rate

Vmax

(Kcat * BRaf_PKA) [uM.s-1]

local

Kcat

0.18 [s-1]

Expressions for r088

reaction rate

J

((Vmax * MEK_Ser) / (Km + MEK_Ser)) [uM.s-1]

Km (1/2 max)

Km

0.15909 [uM]

max reaction rate

Vmax

(Kcat * BRaf_PKA) [uM.s-1]

local

Kcat

0.18 [s-1]

Expressions for r091

reaction rate

J

((Vmax * ERK) / (Km + ERK)) [uM.s-1]

Km (1/2 max)

Km

0.046296 [uM]

max reaction rate

Vmax

(Kcat * MEK_active) [uM.s-1]

local

Kcat

0.15 [s-1]

Expressions for r089

reaction rate

J

((Vmax * MEK_active) / (Km + MEK_active)) [uM.s-1]

Km (1/2 max)

Km

15.657 [uM]

max reaction rate

Vmax

(Kcat * PP2A) [uM.s-1]

local

Kcat

6.0 [s-1]

Expressions for r090

reaction rate

J

((Vmax * MEK_Ser) / (Km + MEK_Ser)) [uM.s-1]

Km (1/2 max)

Km

15.657 [uM]

max reaction rate

Vmax

(Kcat * PP2A) [uM.s-1]

local

Kcat

6.0 [s-1]

Expressions for r092

reaction rate

J

((Vmax * ERK_Tyr) / (Km + ERK_Tyr)) [uM.s-1]

Km (1/2 max)

Km

0.046296 [uM]

max reaction rate

Vmax

(Kcat * MEK_active) [uM.s-1]

local

Kcat

0.15 [s-1]

Expressions for r095

reaction rate

J

((Vmax * ERK_Tyr) / (Km + ERK_Tyr)) [uM.s-1]

Km (1/2 max)

Km

9.0 [uM]

max reaction rate

Vmax

(Kcat * STEP_PKA) [uM.s-1]

local

Kcat

0.1 [s-1]

Expressions for r025

reaction rate

J

((Vmax * ATP) / (Km + ATP)) [molecules.um-2.s-1]

inward current density

I

0.0 [pA.um-2]

net charge valence

netValence

1.0 [1]

Km (1/2 max)

Km

1030.0 [uM]

max reaction rate

Vmax

(Kcat * ACbg) [molecules.um-2.s-1]

local

Kcat

0.9 [s-1]

Expressions for r000

reaction rate

J

(((Kf * D1R) * DA) - (Kr * DA_D1R)) [molecules.um-2.s-1]

inward current density

I

0.0 [pA.um-2]

net charge valence

netValence

1.0 [1]

forward rate constant

Kf

1.11 [s-1.uM-1]

reverse rate constant

Kr

10.0 [s-1]

Expressions for r047

reaction rate

J

((Vmax * GluA1_845) / (Km + GluA1_845)) [uM.s-1]

Km (1/2 max)

Km

0.97145 [uM]

max reaction rate

Vmax

(Kcat * PP1) [uM.s-1]

local

Kcat

0.17 [s-1]

Expressions for r049

reaction rate

J

((Vmax * AMPAR) / (Km + AMPAR)) [molecules.um-2.s-1]

inward current density

I

0.0 [pA.um-2]

net charge valence

netValence

1.0 [1]

Km (1/2 max)

Km

121.0 [molecules.um-2]

max reaction rate

Vmax

(Kcat * PP1) [molecules.um-2.s-1]

local

Kcat

0.17 [molecules.uM-1.um-2.s-1]

Expressions for r050

reaction rate

J

((Kf * GluA1_dephos) - ((Kr * GluA1) * Four1N)) [molecules.um-2.s-1]

inward current density

I

0.0 [pA.um-2]

net charge valence

netValence

1.0 [1]

forward rate constant

Kf

8.0E-4 [s-1]

reverse rate constant

Kr

0.0 [molecules.um-2.s-1.uM-2]

Expressions for r075

reaction rate

J

((Vmax * PDE4) / (Km + PDE4)) [uM.s-1]

Km (1/2 max)

Km

7.5 [uM]

max reaction rate

Vmax

(Kcat * PKA) [uM.s-1]

local

Kcat

3.0 [s-1]

Expressions for r007

reaction rate

J

(((Kf * Ga_GTP) * AC5) - (Kr * AC5_Ga)) [molecules.um-2.s-1]

inward current density

I

0.0 [pA.um-2]

net charge valence

netValence

1.0 [1]

forward rate constant

Kf

38.5 [um2.s-1.molecules-1]

reverse rate constant

Kr

50.0 [s-1]

Expressions for r006

reaction rate

J

((Kf * Ga_GTP) - (Kr * Ga_GDP)) [molecules.um-2.s-1]

inward current density

I

0.0 [pA.um-2]

net charge valence

netValence

1.0 [1]

forward rate constant

Kf

10.0 [s-1]

reverse rate constant

Kr

0.0 [s-1]

Expressions for r077

reaction rate

J

((Vmax * PDE4_ERK) / (Km + PDE4_ERK)) [uM.s-1]

Km (1/2 max)

Km

7.5 [uM]

max reaction rate

Vmax

(Kcat * PKA) [uM.s-1]

local

Kcat

0.1 [s-1]

Expressions for r078

reaction rate

J

((Vmax * PDE4_ERK_PKA) / (Km + PDE4_ERK_PKA)) [uM.s-1]

Km (1/2 max)

Km

8.0 [uM]

max reaction rate

Vmax

(Kcat * PP1) [uM.s-1]

local

Kcat

1.0 [s-1]

Expressions for r080

reaction rate

J

((Vmax * PDE4_PKA) / (Km + PDE4_PKA)) [uM.s-1]

Km (1/2 max)

Km

25.641 [uM]

max reaction rate

Vmax

(Kcat * ERK_active) [uM.s-1]

local

Kcat

0.1 [s-1]

Expressions for r076

reaction rate

J

((Vmax * PDE4_ERK) / (Km + PDE4_ERK)) [uM.s-1]

Km (1/2 max)

Km

8.0 [uM]

max reaction rate

Vmax

(Kcat * PP1) [uM.s-1]

local

Kcat

5.0 [s-1]

Expressions for r079

reaction rate

J

((Vmax * PDE4_PKA) / (Km + PDE4_PKA)) [uM.s-1]

Km (1/2 max)

Km

8.0 [uM]

max reaction rate

Vmax

(Kcat * PP1) [uM.s-1]

local

Kcat

5.0 [s-1]

Expressions for r083

reaction rate

J

((Vmax * cAMP) / (Km + cAMP)) [uM.s-1]

Km (1/2 max)

Km

1.8 [uM]

max reaction rate

Vmax

(Kcat * PDE4_PKA) [uM.s-1]

local

Kcat

27.0 [s-1]

Expressions for r084

reaction rate

J

((Vmax * cAMP) / (Km + cAMP)) [uM.s-1]

Km (1/2 max)

Km

1.8 [uM]

max reaction rate

Vmax

(Kcat * PDE4_ERK) [uM.s-1]

local

Kcat

0.01 [s-1]

Expressions for r024

reaction rate

J

((Vmax * cAMP) / (Km + cAMP)) [uM.s-1]

Km (1/2 max)

Km

10.0 [uM]

max reaction rate

Vmax

(Kcat * PDEbg_cAMP) [uM.s-1]

local

Kcat

25.0 [s-1]

Expressions for r056

reaction rate

J

(((Kf * Bay60) * PDE2_cGMP) - (Kr * PDE2_inhibited)) [uM.s-1]

forward rate constant

Kf

1.0 [s-1.uM-1]

reverse rate constant

Kr

0.01 [s-1]

Expressions for r074

reaction rate

J

((Vmax * PDE4) / (Km + PDE4)) [uM.s-1]

Km (1/2 max)

Km

0.47 [uM]

max reaction rate

Vmax

(Kcat * ERK_active) [uM.s-1]

local

Kcat

10.0 [s-1]

Expressions for r081

reaction rate

J

((Vmax * cAMP) / (Km + cAMP)) [uM.s-1]

Km (1/2 max)

Km

1.8 [uM]

max reaction rate

Vmax

(Kcat * PDE4) [uM.s-1]

local

Kcat

10.0 [s-1]

Expressions for r012

reaction rate

J

(((Kf * cGMP) * PDE2) - (Kr * PDE2_cGMP)) [uM.s-1]

forward rate constant

Kf

10.7 [s-1.uM-1]

reverse rate constant

Kr

86.0 [s-1]

Expressions for r046

reaction rate

J

((Vmax * GluA1) / (Km + GluA1)) [uM.s-1]

Km (1/2 max)

Km

7.5 [uM]

max reaction rate

Vmax

(Kcat * PKA) [uM.s-1]

local

Kcat

6.0 [s-1]

Expressions for r082

reaction rate

J

((Vmax * cAMP) / (Km + cAMP)) [uM.s-1]

Km (1/2 max)

Km

1.8 [uM]

max reaction rate

Vmax

(Kcat * PDE4_ERK_PKA) [uM.s-1]

local

Kcat

8.0 [s-1]

Expressions for r057

reaction rate

J

(((Kf * PDE2_active) * Bay60) - (Kr * PDE2_inhibited)) [uM.s-1]

forward rate constant

Kf

1.0 [s-1.uM-1]

reverse rate constant

Kr

0.01 [s-1]

Expressions for r055

reaction rate

J

(((Kf * Bay60) * PDE2_cAMP) - (Kr * PDE2_inhibited)) [uM.s-1]

forward rate constant

Kf

1.0 [s-1.uM-1]

reverse rate constant

Kr

0.01 [s-1]

Expressions for r015

reaction rate

J

((Kf * PDE2_active_cGMP) - ((Kr * GMP) * PDE2_active)) [uM.s-1]

forward rate constant

Kf

21.5 [s-1]

reverse rate constant

Kr

0.0 [s-1.uM-1]

Expressions for r009

reaction rate

J

((Vmax * ATP) / (Km + ATP)) [molecules.um-2.s-1]

inward current density

I

0.0 [pA.um-2]

net charge valence

netValence

1.0 [1]

Km (1/2 max)

Km

1030.0 [uM]

max reaction rate

Vmax

(Kcat * AC5) [molecules.um-2.s-1]

local

Kcat

0.2 [s-1]

Expressions for r014

reaction rate

J

((Kf * PDE2_active_cAMP) - ((Kr * AMP) * PDE2_active)) [uM.s-1]

forward rate constant

Kf

84.0 [s-1]

reverse rate constant

Kr

0.0 [s-1.uM-1]

Expressions for r039

reaction rate

J

((Vmax * GTP) / (Km + GTP)) [uM.s-1]

Km (1/2 max)

Km

100.0 [uM]

max reaction rate

Vmax

(Kcat * sGC_basal) [uM.s-1]

local

Kcat

0.18 [s-1]

Expressions for r041

reaction rate

J

(((Kf * R2C2_cAMP) * cAMP) - (Kr * R2C2_cAMP2)) [uM.s-1]

forward rate constant

Kf

0.035 [s-1.uM-1]

reverse rate constant

Kr

0.06 [s-1]

Expressions for r045

reaction rate

J

((Kf * R2C_cAMP4) - ((Kr * R2_cAMP4) * PKA)) [uM.s-1]

forward rate constant

Kf

0.05 [s-1]

reverse rate constant

Kr

0.085 [s-1.uM-1]

Expressions for r013

reaction rate

J

(((Kf * PDE2_active) * cAMP) - (Kr * PDE2_active_cAMP)) [uM.s-1]

forward rate constant

Kf

14.0 [s-1.uM-1]

reverse rate constant

Kr

84.0 [s-1]

Expressions for r043

reaction rate

J

(((Kf * R2C2_cAMP3) * cAMP) - (Kr * R2C2_cAMP4)) [uM.s-1]

forward rate constant

Kf

0.27 [s-1.uM-1]

reverse rate constant

Kr

0.28 [s-1]

Expressions for r004

reaction rate

J

(((Kf * Ga_GDP) * Gby) - (Kr * Gaby)) [molecules.um-2.s-1]

inward current density

I

0.0 [pA.um-2]

net charge valence

netValence

1.0 [1]

forward rate constant

Kf

100.0 [um2.s-1.molecules-1]

reverse rate constant

Kr

0.0 [s-1]

Expressions for r003

reaction rate

J

(((Kf * DA_D1R) * Gaby) - (Kr * DA_D1R_Gaby)) [molecules.um-2.s-1]

inward current density

I

0.0 [pA.um-2]

net charge valence

netValence

1.0 [1]

forward rate constant

Kf

0.6 [um2.s-1.molecules-1]

reverse rate constant

Kr

0.001 [s-1]

Expressions for r040

reaction rate

J

(((Kf * cAMP) * R2C2) - (Kr * R2C2_cAMP)) [uM.s-1]

forward rate constant

Kf

0.035 [s-1.uM-1]

reverse rate constant

Kr

0.06 [s-1]

Expressions for r098

reaction rate

J

(((Kf * sGC_inactive) * SNAP) - (Kr * sGC_active)) [uM.s-1]

forward rate constant

Kf

1.0 [s-1.uM-1]

reverse rate constant

Kr

0.25 [s-1]

Expressions for r099

reaction rate

J

((Vmax * GTP) / (Km + GTP)) [uM.s-1]

Km (1/2 max)

Km

45.0 [uM]

max reaction rate

Vmax

(Kcat * sGC_active) [uM.s-1]

local

Kcat

7.35 [s-1]

Structures

Name
Type
Electrical
PM Membrane IC(+)   EC(-)
IC Compartment (+)   (-)
EC Compartment (+)   (-)

PM Universal ID's

PM Text Annotations

IC Universal ID's

IC Text Annotations

EC Universal ID's

EC Text Annotations

Species

Name
Structure
BioNetGen Definition
Depiction
PDE2_cGMP IC IC
PDE2_inhibited IC IC
Bay60 IC IC
PDEbg_cGMP IC IC
GMP IC IC
PDE2_cAMP IC IC
GTP IC IC
sGC_basal IC IC
R2C2_cAMP IC IC
R2C2 IC IC
R2C2_cAMP2 IC IC
PKA IC IC
R2C_cAMP4 IC IC
R2_cAMP4 IC IC
R2C2_cAMP4 IC IC
GluA1_845 IC IC
Four1N IC IC
AMPAR PM PM
GluA1_dephos PM PM
Ga_GTP PM PM
PDE1 IC IC
D1R PM PM
Gaby PM PM
GluA1 IC IC
cAMP IC IC
DA_D1R_Gaby PM PM
PDE1_cGMP IC IC
R2C2_cAMP3 IC IC
PDE2 IC IC
cGMP IC IC
PDE2_active_cAMP IC IC
AMP IC IC
PDE2_active_cGMP IC IC
Gby PM PM
Ga_GDP PM PM
D1R_Gaby PM PM
DA_D1R PM PM
PDEbg_cAMP IC IC
ACbg PM PM
PDE1_cAMP IC IC
DA EC EC
DARPP32 IC IC
DARPP32_Pi IC IC
AC5 PM PM
AC5_Ga PM PM
DARPP32_Pi_PP1 IC IC
PP2A IC IC
MMPX IC IC
PP1 IC IC
ERK_active IC IC
PDE4_ERK IC IC
PDE4 IC IC
PDE4_PKA IC IC
PDE4_ERK_PKA IC IC
PDE1_inhibited IC IC
ATP IC IC
BRaf IC IC
BRaf_PKA IC IC
MEK_active IC IC
MEK_Ser IC IC
MEK IC IC
ERK_Tyr IC IC
ERK IC IC
STEP IC IC
STEP_PKA IC IC
PDE2_active IC IC
SNAP IC IC
sGC_inactive IC IC
sGC_active IC IC

PDE2_cGMP Universal ID's

PDE2_cGMP Text Annotations

PDE2_inhibited Universal ID's

PDE2_inhibited Text Annotations

Bay60 Universal ID's

Bay60 Text Annotations

PDEbg_cGMP Universal ID's

PDEbg_cGMP Text Annotations

GMP Universal ID's

GMP Text Annotations

PDE2_cAMP Universal ID's

PDE2_cAMP Text Annotations

GTP Universal ID's

GTP Text Annotations

sGC_basal Universal ID's

sGC_basal Text Annotations

R2C2_cAMP Universal ID's

R2C2_cAMP Text Annotations

R2C2 Universal ID's

R2C2 Text Annotations

R2C2_cAMP2 Universal ID's

R2C2_cAMP2 Text Annotations

PKA Universal ID's

PKA Text Annotations

R2C_cAMP4 Universal ID's

R2C_cAMP4 Text Annotations

R2_cAMP4 Universal ID's

R2_cAMP4 Text Annotations

R2C2_cAMP4 Universal ID's

R2C2_cAMP4 Text Annotations

GluA1_845 Universal ID's

GluA1_845 Text Annotations

Four1N Universal ID's

Four1N Text Annotations

AMPAR Universal ID's

AMPAR Text Annotations

GluA1_dephos Universal ID's

GluA1_dephos Text Annotations

Ga_GTP Universal ID's

Ga_GTP Text Annotations

PDE1 Universal ID's

PDE1 Text Annotations

D1R Universal ID's

D1R Text Annotations

Gaby Universal ID's

Gaby Text Annotations

GluA1 Universal ID's

GluA1 Text Annotations

cAMP Universal ID's

cAMP Text Annotations

DA_D1R_Gaby Universal ID's

DA_D1R_Gaby Text Annotations

PDE1_cGMP Universal ID's

PDE1_cGMP Text Annotations

R2C2_cAMP3 Universal ID's

R2C2_cAMP3 Text Annotations

PDE2 Universal ID's

PDE2 Text Annotations

cGMP Universal ID's

cGMP Text Annotations

PDE2_active_cAMP Universal ID's

PDE2_active_cAMP Text Annotations

AMP Universal ID's

AMP Text Annotations

PDE2_active_cGMP Universal ID's

PDE2_active_cGMP Text Annotations

Gby Universal ID's

Gby Text Annotations

Ga_GDP Universal ID's

Ga_GDP Text Annotations

D1R_Gaby Universal ID's

D1R_Gaby Text Annotations

DA_D1R Universal ID's

DA_D1R Text Annotations

PDEbg_cAMP Universal ID's

PDEbg_cAMP Text Annotations

ACbg Universal ID's

ACbg Text Annotations

PDE1_cAMP Universal ID's

PDE1_cAMP Text Annotations

DA Universal ID's

DA Text Annotations

DARPP32 Universal ID's

DARPP32 Text Annotations

DARPP32_Pi Universal ID's

DARPP32_Pi Text Annotations

AC5 Universal ID's

AC5 Text Annotations

AC5_Ga Universal ID's

AC5_Ga Text Annotations

DARPP32_Pi_PP1 Universal ID's

DARPP32_Pi_PP1 Text Annotations

PP2A Universal ID's

PP2A Text Annotations

MMPX Universal ID's

MMPX Text Annotations

PP1 Universal ID's

PP1 Text Annotations

ERK_active Universal ID's

ERK_active Text Annotations

PDE4_ERK Universal ID's

PDE4_ERK Text Annotations

PDE4 Universal ID's

PDE4 Text Annotations

PDE4_PKA Universal ID's

PDE4_PKA Text Annotations

PDE4_ERK_PKA Universal ID's

PDE4_ERK_PKA Text Annotations

PDE1_inhibited Universal ID's

PDE1_inhibited Text Annotations

ATP Universal ID's

ATP Text Annotations

BRaf Universal ID's

BRaf Text Annotations

BRaf_PKA Universal ID's

BRaf_PKA Text Annotations

MEK_active Universal ID's

MEK_active Text Annotations

MEK_Ser Universal ID's

MEK_Ser Text Annotations

MEK Universal ID's

MEK Text Annotations

ERK_Tyr Universal ID's

ERK_Tyr Text Annotations

ERK Universal ID's

ERK Text Annotations

STEP Universal ID's

STEP Text Annotations

STEP_PKA Universal ID's

STEP_PKA Text Annotations

PDE2_active Universal ID's

PDE2_active Text Annotations

SNAP Universal ID's

SNAP Text Annotations

sGC_inactive Universal ID's

sGC_inactive Text Annotations

sGC_active Universal ID's

sGC_active Text Annotations

Molecules

Name
BioNetGen Definition
DEPICTION

Observables

Name
Structure
Count
BNGL Definition
Sequence Type
DEPICTION

Applications

Name
Properties Math Type
Annotation
Application0 Specs - Species
Specs - Reaction
Simulations 		Deterministic (ODE) Compartmental

Application0 Universal ID's

Application0 Text Annotations

Specifications (Species) - Application0 go to Simulations

Species
Initial Condition
Diffusion Constant
Structure
PDE2_cGMP 0.0 [uM] 0.0 [um2/s] IC
PDE2_inhibited 0.0 [uM] 0.0 [um2/s] IC
Bay60 0.0 [uM] 0.0 [um2/s] IC
PDEbg_cGMP 0.1 [uM] 0.0 [um2/s] IC
GMP 0.0 [uM] 0.0 [um2/s] IC
PDE2_cAMP 0.0 [uM] 0.0 [um2/s] IC
GTP 500.0 [uM] 0.0 [um2/s] IC
sGC_basal 0.15 [uM] 0.0 [um2/s] IC
R2C2_cAMP 0.0 [uM] 0.0 [um2/s] IC
R2C2 0.5 [uM] 0.0 [um2/s] IC
R2C2_cAMP2 0.0 [uM] 0.0 [um2/s] IC
PKA 0.0 [uM] 0.0 [um2/s] IC
R2C_cAMP4 0.0 [uM] 0.0 [um2/s] IC
R2_cAMP4 0.0 [uM] 0.0 [um2/s] IC
R2C2_cAMP4 0.0 [uM] 0.0 [um2/s] IC
GluA1_845 0.0 [uM] 0.0 [um2/s] IC
Four1N 0.01 [uM] 0.0 [um2/s] IC
PDE1 0.5 [uM] 0.0 [um2/s] IC
GluA1 0.01 [uM] 0.0 [um2/s] IC
cAMP 0.0 [uM] 0.0 [um2/s] IC
PDE1_cGMP 0.0 [uM] 0.0 [um2/s] IC
R2C2_cAMP3 0.0 [uM] 0.0 [um2/s] IC
PDE2 0.5 [uM] 0.0 [um2/s] IC
cGMP 0.0 [uM] 0.0 [um2/s] IC
PDE2_active_cAMP 0.0 [uM] 0.0 [um2/s] IC
AMP 0.0 [uM] 0.0 [um2/s] IC
PDE2_active_cGMP 0.0 [uM] 0.0 [um2/s] IC
PDEbg_cAMP 0.1 [uM] 0.0 [um2/s] IC
PDE1_cAMP 0.0 [uM] 0.0 [um2/s] IC
DARPP32 0.5 [uM] 0.0 [um2/s] IC
DARPP32_Pi 0.0 [uM] 0.0 [um2/s] IC
DARPP32_Pi_PP1 0.0 [uM] 0.0 [um2/s] IC
PP2A 0.1 [uM] 0.0 [um2/s] IC
MMPX 0.0 [uM] 0.0 [um2/s] IC
PP1 0.11 [uM] 0.0 [um2/s] IC
ERK_active 0.0 [uM] 0.0 [um2/s] IC
PDE4_ERK 0.0 [uM] 0.0 [um2/s] IC
PDE4 0.1 [uM] 0.0 [um2/s] IC
PDE4_PKA 0.0 [uM] 0.0 [um2/s] IC
PDE4_ERK_PKA 0.0 [uM] 0.0 [um2/s] IC
PDE1_inhibited 0.0 [uM] 0.0 [um2/s] IC
ATP 5000.0 [uM] 0.0 [um2/s] IC
BRaf 0.18 [uM] 0.0 [um2/s] IC
BRaf_PKA 0.0 [uM] 0.0 [um2/s] IC
MEK_active 0.0 [uM] 0.0 [um2/s] IC
MEK_Ser 0.0 [uM] 0.0 [um2/s] IC
MEK 0.18 [uM] 0.0 [um2/s] IC
ERK_Tyr 0.0 [uM] 0.0 [um2/s] IC
ERK 0.36 [uM] 0.0 [um2/s] IC
STEP 0.2 [uM] 0.0 [um2/s] IC
STEP_PKA 0.0 [uM] 0.0 [um2/s] IC
PDE2_active 0.0 [uM] 0.0 [um2/s] IC
SNAP 0.0 [uM] 0.0 [um2/s] IC
sGC_inactive 0.15 [uM] 0.0 [um2/s] IC
sGC_active 0.0 [uM] 0.0 [um2/s] IC
DA 0.0 [uM] 0.0 [um2/s] EC
AMPAR 0.0 [uM] 0.0 [um2/s] PM
GluA1_dephos 0.0 [uM] 0.0 [um2/s] PM
Ga_GTP 0.0 [uM] 0.0 [um2/s] PM
D1R 20.0 [uM] 0.0 [um2/s] PM
Gaby 20.0 [uM] 0.0 [um2/s] PM
DA_D1R_Gaby 0.0 [uM] 0.0 [um2/s] PM
Gby 0.0 [uM] 0.0 [um2/s] PM
Ga_GDP 0.0 [uM] 0.0 [um2/s] PM
D1R_Gaby 0.0 [uM] 0.0 [um2/s] PM
DA_D1R 0.0 [uM] 0.0 [um2/s] PM
ACbg 15.0 [uM] 0.0 [um2/s] PM
AC5 55.0 [uM] 0.0 [um2/s] PM
AC5_Ga 0.0 [uM] 0.0 [um2/s] PM

Specifications (Reaction) - Application0 go to Simulations

Name
Enabled?
r097 included
r096 included
r010 included
r093 included
r094 included
r027 included
r044 included
r073 included
r051 included
r070 included
r071 included
r019 included
r054 included
r058 included
r001 included
r029 included
r059 included
r060 included
r048 included
r017 included
r016 included
r018 included
r028 included
r005 included
r053 included
r072 included
r002 included
r026 included
r052 included
r011 included
r042 included
r085 included
r086 included
r087 included
r088 included
r091 included
r089 included
r090 included
r092 included
r095 included
r025 included
r000 included
r047 included
r049 included
r050 included
r075 included
r007 included
r006 included
r077 included
r078 included
r080 included
r076 included
r079 included
r083 included
r084 included
r024 included
r056 included
r074 included
r081 included
r012 included
r046 included
r082 included
r057 included
r055 included
r015 included
r009 included
r014 included
r039 included
r041 included
r045 included
r013 included
r043 included
r004 included
r003 included
r040 included
r098 included
r099 included

Simulations - Application0 go to Specifications

Name
End Time
Output Options
DA1.0 63000.0

OutputTimeStep 60.0
DA0.1 63000.0

OutputTimeStep 60.0
DA0.1 + MMPX 63000.0

OutputTimeStep 60.0
DA0.1 + BAY607550 63000.0

OutputTimeStep 60.0
DA0.1 + SNAP 63000.0

OutputTimeStep 60.0

Application0 Universal ID's

Application0 Text Annotations

Application0 Universal ID's

Application0 Text Annotations

Application0 Universal ID's

Application0 Text Annotations

Application0 Universal ID's

Application0 Text Annotations

Application0 Universal ID's

Application0 Text Annotations

Assignments

Name Variable Assignment Function Expression

Events

Name Trigger Type Variable Assignment
dopamine on condition: 61200.0 DA --> 0.1
drug on condition: 61800.0 MMPX --> 0.0, Bay60 --> 0.0, SNAP --> 0.0

Geometry non-spatial1459406324

(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 PM

Events

Name Variable Rate Expression

Global Parameters

Name
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 Application0.bngl
SBML Application0.sbml
Matlab Application0.m
NFSim XML Application0.xml