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BIOMD0000000152 - Fernandez2006_ModelA

 

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Reference Publication
Publication ID: 17194217
Fernandez E, Schiappa R, Girault JA, Le Novère N.
DARPP-32 is a robust integrator of dopamine and glutamate signals.
PLoS Comput. Biol. 2006 Dec; 2(12): e176
EMBL-EBI, Wellcome-Trust Genome Campus, Hinxton, United Kingdom.  [more]
Model
Original Model: http://www.ebi.ac.uk/compn...
Submitter: Nicolas Le Novère
Submission ID: MODEL3492630792
Submission Date: 30 Oct 2007 18:58:31 UTC
Last Modification Date: 05 Jul 2012 16:51:03 UTC
Creation Date: 28 Mar 2006 15:55:39 UTC
Encoders:  Nicolas Le Novère
   Lukas Endler
set #1
bqbiol:occursIn Taxonomy Homo sapiens
bqbiol:hasPart Gene Ontology dopamine receptor signaling pathway
Gene Ontology ionotropic glutamate receptor signaling pathway
Notes

To the extent possible under law, all copyright and related or neighbouring rights to this encoded model have been dedicated to the public domain worldwide. Please refer to CC0 Public Domain Dedication for more information.

In summary, you are entitled to use this encoded model in absolutely any manner you deem suitable, verbatim, or with modification, alone or embedded it in a larger context, redistribute it, commercially or not, in a restricted way or not.


To cite BioModels Database, please use: Li C, Donizelli M, Rodriguez N, Dharuri H, Endler L, Chelliah V, Li L, He E, Henry A, Stefan MI, Snoep JL, Hucka M, Le Novère N, Laibe C (2010) BioModels Database: An enhanced, curated and annotated resource for published quantitative kinetic models. BMC Syst Biol., 4:92.

Model
Publication ID: 17194217 Submission Date: 30 Oct 2007 18:58:31 UTC Last Modification Date: 05 Jul 2012 16:51:03 UTC Creation Date: 28 Mar 2006 15:55:39 UTC
Mathematical expressions
Reactions
D_CDK5_binding D_CDK5_unbinding DPhospho_by_CDK5_on_75 DCDK1_binding
D_CDK1_unbinding D_Phospho_by_CK1_on_137 D_PKA_binding D_PKA_unbinding
D_Phospho_by_PKA_on_34 D34_CDK5_binding D34_CK1_binding D34_PP2B_binding
D34_CDK5_unbinding D34_Phospho_by_CDK5_on_75 D34_CK1_unbinding D34_Phospho_by_CK1_on_137
D34_Dephospho_by_PP2B D34_PP2B_unbinding D75_CK1_binding D75_PKA_binding
D75_PP2A_binding D75_PP2AP_binding D75_CK1_unbinding D75_Phospho_by_CK1_on_137
D75_Phospho_by_PKA_on_34 D75_PKA_unbinding D75_dephospho_by_PP2A D75_PP2A_unbinding
D75_dephospho_by_PP2AP D75_PP2AP_unbinding D137_CDK5_binding D137_PKA_binding
D137_PP2C_binding D137_CDK5_unbinding D137_Phospho_by_CDK5_on_75 D137_PKA_unbinding
D137_phospho_by_PKA_on_34 D137_dephospho_by_PP2C D137_PP2C_unbinding D34:75_CK1_binding
D34:137_CDK5_binding D34:137_CDK5_unbinding D34:75_CK1_unbinding D34:75_phospho_by_CK1_on_137
D34:137_phospho_by_CDK5_on_75 D75:137_PKA_binding D75:137_phospho_by_PKA_on_34 D75:137_PKA_unbinding
D34:75_PP2B_binding D34:75_PP2B_unbinding D34:75_dephopsho_by_PP2B_on_34 D34:137_PP2B_binding
D34:137_dephospho_by_PP2B_on_34 D34:137_PP2B_unbinding D34:75:137_PP2B_binding D34:75:137_PP2B_unbinding
D34:75:137_dephospho_by_PP2B_on_34 D34:75_PP2A_binding D34:75_dephospho_by_PP2A_on_75 D34:75_PP2A_unbinding
D75:137_PP2A_binding D75:137_dephospho_by_PP2A_on_75 D75:137_PP2A_unbinding D34:75:137_PP2A_binding
D34:75:137_dephospho_by_PP2A_on_75 D34:75:137_PP2A_unbinding D34:75_PP2AP_binding D34:75_dephospho_by_PP2AP_on_75
D34:75_PP2AP_unbinding D75:137_PP2AP_binding D75:137_dephospho_by_PP2AP_on_75 D75:137_PP2AP_unbinding
D34:75:137_dephospho_by_PP2AP_on 75 D34:75:137_PP2AP_binding D34:75:137_PP2AP_unbinding D34:137_PP2C_binding
D34:137_dephospho_by_PP2C_on_137 D34:137_PP2C_unbinding D75:137_PP2C_binding D75:137_dephospho_by_PP2C_137
D75:137_PP2C_unbinding D34:75:137_PP2C_binding D34:75:137_dephospho_by_PP2C_on_137 D34:75:137_PP2C_unbinding
CK1P_PP2B_binding CK1P_PP2B_unbinding CK1P_dephospho_by_PP2B CK1_phosphorylation
PDE_PKA_binding PDE_phospho_by_PKA PDE_PKA_unbinding PDEP_dephospho
PP2A_PKA_binding PP2A_PKA_unbinding PP2A_phospho_by_PKA PP2AP_dephospho
PP2Binactive_Ca_binding PP2B_activation PP2BinactiveCa2_Ca_unbinding PP2B_inactivation
R2C2_cAMP_binding cAMP_R2C2_binding_by_cAMP cAMP2_R2C2_binding_by_cAMP cAMP3_R2C2_binding_by_cAMP
cAMP_R2C2_unbinding cAMP2_R2C2_unbinding cAMP3_R2C2_unbinding cAMP4_R2C2_unbinding
cAMP4_R2C_PKA_binding cAMP4_R2C2_PKA_unbinding cAMP4_R2_PKA_binding cAMP4_R2C_PKA_unbinding
cAMP_PDE_binding cAMP_PDE_unbinding cAMP_PDE_degradation cAMP_PDEP_binding
cAMP_PDEP_unbinding cAMP_PDEP_degradation Ca_in Ca_destroy
Events
cAMP_pulse ca_on1 ca_on2 ca_off
Ca_on3 ca_on4 ca_on5 ca_on6
ca_on7 ca_on8 ca_on9 ca_on10
ca_off2 ca_off3 ca_off4 ca_off5
ca_off6 ca_off7 ca_off8 ca_off9
ca_off10      
Physical entities
Compartments Species
Spine D CDK5 D_CDK5
D75 CK1 D_CK1
D137 PKA D_PKA
D34 D34_CDK5 D34_CK1
PP2B D34_PP2B D34:75
D34:137 D75_CK1 D75_PKA
PP2A D75_PP2A PP2AP
D75_PP2AP D75:137 D137_CDK5
D137_PKA D137_PP2C PP2C
D34:75_CK1 D34:137_CDK5 D34:75:137
D75:137_PKA D34:75_PP2B D34:137_PP2B
D34:75:137_PP2B D34:75_PP2A D75:137_PP2A
D34:75:137_PP2A D34:75_PP2AP D75:137_PP2AP
D34:75:137_PP2AP D34:137_PP2C D75:137_PP2C
PDE PP2Binactive D34:75:137_PP2C
CK1P CK1P_PP2B PDE_PKA
PDEP PP2A_PKA Ca
PP2BinactiveCa2 R2C2 cAMP
cAMP_R2C2 cAMP2_R2C2 cAMP3_R2C2
cAMP4_R2C2 cAMP4_R2C cAMP4_R2
cAMP_PDE AMP cAMP_PDEP
Empty    
Global parameters
ca_in cAMP_delay cAMP_Ca_delay kon_high
spike_duration spike_interval kon_low  
Reactions (120)
 
 D_CDK5_binding [D] + [CDK5] → [D_CDK5];  
 
 D_CDK5_unbinding [D_CDK5] → [D] + [CDK5];  
 
 DPhospho_by_CDK5_on_75 [D_CDK5] → [D75] + [CDK5];  
 
 DCDK1_binding [D] + [CK1] → [D_CK1];  
 
 D_CDK1_unbinding [D_CK1] → [D] + [CK1];  
 
 D_Phospho_by_CK1_on_137 [D_CK1] → [D137] + [CK1];  
 
 D_PKA_binding [D] + [PKA] → [D_PKA];  
 
 D_PKA_unbinding [D_PKA] → [D] + [PKA];  
 
 D_Phospho_by_PKA_on_34 [D_PKA] → [D34] + [PKA];  
 
 D34_CDK5_binding [D34] + [CDK5] → [D34_CDK5];  
 
 D34_CK1_binding [D34] + [CK1] → [D34_CK1];  
 
 D34_PP2B_binding [D34] + [PP2B] → [D34_PP2B];  
 
 D34_CDK5_unbinding [D34_CDK5] → [D34] + [CDK5];  
 
 D34_Phospho_by_CDK5_on_75 [D34_CDK5] → [D34:75] + [CDK5];  
 
 D34_CK1_unbinding [D34_CK1] → [D34] + [CK1];  
 
 D34_Phospho_by_CK1_on_137 [D34_CK1] → [D34:137] + [CK1];  
 
 D34_Dephospho_by_PP2B [D34_PP2B] → [D] + [PP2B];  
 
 D34_PP2B_unbinding [D34_PP2B] → [D34] + [PP2B];  
 
 D75_CK1_binding [D75] + [CK1] → [D75_CK1];  
 
 D75_PKA_binding [D75] + [PKA] → [D75_PKA];  
 
 D75_PP2A_binding [D75] + [PP2A] → [D75_PP2A];  
 
 D75_PP2AP_binding [D75] + [PP2AP] → [D75_PP2AP];  
 
 D75_CK1_unbinding [D75_CK1] → [D75] + [CK1];  
 
 D75_Phospho_by_CK1_on_137 [D75_CK1] → [CK1] + [D75:137];  
 
 D75_Phospho_by_PKA_on_34 [D75_PKA] → [D34:75] + [PKA];  
 
 D75_PKA_unbinding [D75_PKA] → [D75] + [PKA];  
 
 D75_dephospho_by_PP2A [D75_PP2A] → [D] + [PP2A];  
 
 D75_PP2A_unbinding [D75_PP2A] → [D75] + [PP2A];  
 
 D75_dephospho_by_PP2AP [D75_PP2AP] → [D] + [PP2AP];  
 
 D75_PP2AP_unbinding [D75_PP2AP] → [D75] + [PP2AP];  
 
 D137_CDK5_binding [D137] + [CDK5] → [D137_CDK5];  
 
 D137_PKA_binding [D137] + [PKA] → [D137_PKA];  
 
 D137_PP2C_binding [D137] + [PP2C] → [D137_PP2C];  
 
 D137_CDK5_unbinding [D137_CDK5] → [D137] + [CDK5];  
 
 D137_Phospho_by_CDK5_on_75 [D137_CDK5] → [D75:137] + [CDK5];  
 
 D137_PKA_unbinding [D137_PKA] → [D137] + [PKA];  
 
 D137_phospho_by_PKA_on_34 [D137_PKA] → [D34:137] + [PKA];  
 
 D137_dephospho_by_PP2C [D137_PP2C] → [D] + [PP2C];  
 
 D137_PP2C_unbinding [D137_PP2C] → [D137] + [PP2C];  
 
 D34:75_CK1_binding [D34:75] + [CK1] → [D34:75_CK1];  
 
 D34:137_CDK5_binding [D34:137] + [CDK5] → [D34:137_CDK5];  
 
 D34:137_CDK5_unbinding [D34:137_CDK5] → [D34:137] + [CDK5];  
 
 D34:75_CK1_unbinding [D34:75_CK1] → [D34:75] + [CK1];  
 
 D34:75_phospho_by_CK1_on_137 [D34:75_CK1] → [D34:75:137] + [CK1];  
 
 D34:137_phospho_by_CDK5_on_75 [D34:137_CDK5] → [D34:75:137] + [CDK5];  
 
 D75:137_PKA_binding [D75:137] + [PKA] → [D75:137_PKA];  
 
 D75:137_phospho_by_PKA_on_34 [D75:137_PKA] → [D34:75:137] + [PKA];  
 
 D75:137_PKA_unbinding [D75:137_PKA] → [D75:137] + [PKA];  
 
 D34:75_PP2B_binding [D34:75] + [PP2B] → [D34:75_PP2B];  
 
 D34:75_PP2B_unbinding [D34:75_PP2B] → [D34:75] + [PP2B];  
 
 D34:75_dephopsho_by_PP2B_on_34 [D34:75_PP2B] → [D75] + [PP2B];  
 
 D34:137_PP2B_binding [D34:137] + [PP2B] → [D34:137_PP2B];  
 
 D34:137_dephospho_by_PP2B_on_34 [D34:137_PP2B] → [D137] + [PP2B];  
 
 D34:137_PP2B_unbinding [D34:137_PP2B] → [D34:137] + [PP2B];  
 
 D34:75:137_PP2B_binding [D34:75:137] + [PP2B] → [D34:75:137_PP2B];  
 
 D34:75:137_PP2B_unbinding [D34:75:137_PP2B] → [D34:75:137] + [PP2B];  
 
 D34:75:137_dephospho_by_PP2B_on_34 [D34:75:137_PP2B] → [D75:137] + [PP2B];  
 
 D34:75_PP2A_binding [D34:75] + [PP2A] → [D34:75_PP2A];  
 
 D34:75_dephospho_by_PP2A_on_75 [D34:75_PP2A] → [D34] + [PP2A];  
 
 D34:75_PP2A_unbinding [D34:75_PP2A] → [D34:75] + [PP2A];  
 
 D75:137_PP2A_binding [D75:137] + [PP2A] → [D75:137_PP2A];  
 
 D75:137_dephospho_by_PP2A_on_75 [D75:137_PP2A] → [D137] + [PP2A];  
 
 D75:137_PP2A_unbinding [D75:137_PP2A] → [D75:137] + [PP2A];  
 
 D34:75:137_PP2A_binding [D34:75:137] + [PP2A] → [D34:75:137_PP2A];  
 
 D34:75:137_dephospho_by_PP2A_on_75 [D34:75:137_PP2A] → [D34:137] + [PP2A];  
 
 D34:75:137_PP2A_unbinding [D34:75:137_PP2A] → [D34:75:137] + [PP2A];  
 
 D34:75_PP2AP_binding [D34:75] + [PP2AP] → [D34:75_PP2AP];  
 
 D34:75_dephospho_by_PP2AP_on_75 [D34:75_PP2AP] → [D34] + [PP2AP];  
 
 D34:75_PP2AP_unbinding [D34:75_PP2AP] → [D34:75] + [PP2AP];  
 
 D75:137_PP2AP_binding [D75:137] + [PP2AP] → [D75:137_PP2AP];  
 
 D75:137_dephospho_by_PP2AP_on_75 [D75:137_PP2AP] → [D137] + [PP2AP];  
 
 D75:137_PP2AP_unbinding [D75:137_PP2AP] → [D75:137] + [PP2AP];  
 
 D34:75:137_dephospho_by_PP2AP_on 75 [D34:75:137_PP2AP] → [D34:137] + [PP2AP];  
 
 D34:75:137_PP2AP_binding [D34:75:137] + [PP2AP] → [D34:75:137_PP2AP];  
 
 D34:75:137_PP2AP_unbinding [D34:75:137_PP2AP] → [D34:75:137] + [PP2AP];  
 
 D34:137_PP2C_binding [D34:137] + [PP2C] → [D34:137_PP2C];  
 
 D34:137_dephospho_by_PP2C_on_137 [D34:137_PP2C] → [D34] + [PP2C];  
 
 D34:137_PP2C_unbinding [D34:137_PP2C] → [D34:137] + [PP2C];  
 
 D75:137_PP2C_binding [D75:137] + [PP2C] → [D75:137_PP2C];  
 
 D75:137_dephospho_by_PP2C_137 [D75:137_PP2C] → [D75] + [PP2C];  
 
 D75:137_PP2C_unbinding [D75:137_PP2C] → [D75:137] + [PP2C];  
 
 D34:75:137_PP2C_binding [D34:75:137] + [PP2C] → [D34:75:137_PP2C];  
 
 D34:75:137_dephospho_by_PP2C_on_137 [D34:75:137_PP2C] → [D34:75] + [PP2C];  
 
 D34:75:137_PP2C_unbinding [D34:75:137_PP2C] → [D34:75:137] + [PP2C];  
 
 CK1P_PP2B_binding [CK1P] + [PP2B] → [CK1P_PP2B];  
 
 CK1P_PP2B_unbinding [CK1P_PP2B] → [CK1P] + [PP2B];  
 
 CK1P_dephospho_by_PP2B [CK1P_PP2B] → [CK1] + [PP2B];  
 
 CK1_phosphorylation [CK1] → [CK1P];  
 
 PDE_PKA_binding [PDE] + [PKA] → [PDE_PKA];  
 
 PDE_phospho_by_PKA [PDE_PKA] → [PDEP] + [PKA];  
 
 PDE_PKA_unbinding [PDE_PKA] → [PDE] + [PKA];  
 
 PDEP_dephospho [PDEP] → [PDE];  
 
 PP2A_PKA_binding [PP2A] + [PKA] → [PP2A_PKA];  
 
 PP2A_PKA_unbinding [PP2A_PKA] → [PP2A] + [PKA];  
 
 PP2A_phospho_by_PKA [PP2A_PKA] → [PP2AP] + [PKA];  
 
 PP2AP_dephospho [PP2AP] → [PP2A];  
 
 PP2Binactive_Ca_binding [PP2Binactive] + 2.0 × [Ca] → [PP2BinactiveCa2];  
 
 PP2B_activation [PP2BinactiveCa2] + 2.0 × [Ca] → [PP2B];  
 
 PP2BinactiveCa2_Ca_unbinding [PP2BinactiveCa2] → [PP2Binactive] + 2.0 × [Ca];  
 
 PP2B_inactivation [PP2B] → [PP2BinactiveCa2] + 2.0 × [Ca];  
 
 R2C2_cAMP_binding [R2C2] + [cAMP] → [cAMP_R2C2];  
 
 cAMP_R2C2_binding_by_cAMP [cAMP_R2C2] + [cAMP] → [cAMP2_R2C2];  
 
 cAMP2_R2C2_binding_by_cAMP [cAMP2_R2C2] + [cAMP] → [cAMP3_R2C2];  
 
 cAMP3_R2C2_binding_by_cAMP [cAMP3_R2C2] + [cAMP] → [cAMP4_R2C2];  
 
 cAMP_R2C2_unbinding [cAMP_R2C2] → [R2C2] + [cAMP];  
 
 cAMP2_R2C2_unbinding [cAMP2_R2C2] → [cAMP_R2C2] + [cAMP];  
 
 cAMP3_R2C2_unbinding [cAMP3_R2C2] → [cAMP2_R2C2] + [cAMP];  
 
 cAMP4_R2C2_unbinding [cAMP4_R2C2] → [cAMP3_R2C2] + [cAMP];  
 
 cAMP4_R2C_PKA_binding [cAMP4_R2C] + [PKA] → [cAMP4_R2C2];  
 
 cAMP4_R2C2_PKA_unbinding [cAMP4_R2C2] → [cAMP4_R2C] + [PKA];  
 
 cAMP4_R2_PKA_binding [cAMP4_R2] + [PKA] → [cAMP4_R2C];  
 
 cAMP4_R2C_PKA_unbinding [cAMP4_R2C] → [cAMP4_R2] + [PKA];  
 
 cAMP_PDE_binding [cAMP] + [PDE] → [cAMP_PDE];  
 
 cAMP_PDE_unbinding [cAMP_PDE] → [cAMP] + [PDE];  
 
 cAMP_PDE_degradation [cAMP_PDE] → [AMP] + [PDE];  
 
 cAMP_PDEP_binding [cAMP] + [PDEP] → [cAMP_PDEP];  
 
 cAMP_PDEP_unbinding [cAMP_PDEP] → [cAMP] + [PDEP];  
 
 cAMP_PDEP_degradation [cAMP_PDEP] → [AMP] + [PDEP];  
 
 Ca_in [Empty] → [Ca];  
 
 Ca_destroy [Ca] → [Empty];  
 
Events (21)
 
 cAMP_pulse
cAMP = 6.6E-6
 
 ca_on1
ca_in = kon_high
 
 ca_on2
ca_in = kon_high
 
 ca_off
ca_in = kon_low
 
 Ca_on3
ca_in = kon_high
 
 ca_on4
ca_in = kon_high
 
 ca_on5
ca_in = kon_high
 
 ca_on6
ca_in = kon_high
 
 ca_on7
ca_in = kon_high
 
 ca_on8
ca_in = kon_high
 
 ca_on9
ca_in = kon_high
 
 ca_on10
ca_in = kon_high
 
 ca_off2
ca_in = kon_low
 
 ca_off3
ca_in = kon_low
 
 ca_off4
ca_in = kon_low
 
 ca_off5
ca_in = kon_low
 
 ca_off6
ca_in = kon_low
 
 ca_off7
ca_in = kon_low
 
 ca_off8
ca_in = kon_low
 
 ca_off9
ca_in = kon_low
 
 ca_off10
ca_in = kon_low
 
 Spine Spatial dimensions: 3.0  Compartment size: 1.0E-15
 
 D
Compartment: Spine
Initial concentration: 4.98E-6
 
 CDK5
Compartment: Spine
Initial concentration: 2.0E-7
 
 D_CDK5
Compartment: Spine
Initial concentration: 0.0
 
 D75
Compartment: Spine
Initial concentration: 0.0
 
 CK1
Compartment: Spine
Initial concentration: 1.66E-7
 
 D_CK1
Compartment: Spine
Initial concentration: 0.0
 
 D137
Compartment: Spine
Initial concentration: 0.0
 
 PKA
Compartment: Spine
Initial concentration: 0.0
 
 D_PKA
Compartment: Spine
Initial concentration: 0.0
 
 D34
Compartment: Spine
Initial concentration: 0.0
 
 D34_CDK5
Compartment: Spine
Initial concentration: 0.0
 
 D34_CK1
Compartment: Spine
Initial concentration: 0.0
 
 PP2B
Compartment: Spine
Initial concentration: 0.0
 
 D34_PP2B
Compartment: Spine
Initial concentration: 0.0
 
 D34:75
Compartment: Spine
Initial concentration: 0.0
 
 D34:137
Compartment: Spine
Initial concentration: 0.0
 
 D75_CK1
Compartment: Spine
Initial concentration: 0.0
 
 D75_PKA
Compartment: Spine
Initial concentration: 0.0
 
 PP2A
Compartment: Spine
Initial concentration: 2.0E-7
 
 D75_PP2A
Compartment: Spine
Initial concentration: 0.0
 
 PP2AP
Compartment: Spine
Initial concentration: 0.0
 
 D75_PP2AP
Compartment: Spine
Initial concentration: 0.0
 
 D75:137
Compartment: Spine
Initial concentration: 0.0
 
 D137_CDK5
Compartment: Spine
Initial concentration: 0.0
 
 D137_PKA
Compartment: Spine
Initial concentration: 0.0
 
 D137_PP2C
Compartment: Spine
Initial concentration: 0.0
 
 PP2C
Compartment: Spine
Initial concentration: 1.33E-7
 
 D34:75_CK1
Compartment: Spine
Initial concentration: 0.0
 
 D34:137_CDK5
Compartment: Spine
Initial concentration: 0.0
 
 D34:75:137
Compartment: Spine
Initial concentration: 0.0
 
 D75:137_PKA
Compartment: Spine
Initial concentration: 0.0
 
 D34:75_PP2B
Compartment: Spine
Initial concentration: 0.0
 
 D34:137_PP2B
Compartment: Spine
Initial concentration: 0.0
 
 D34:75:137_PP2B
Compartment: Spine
Initial concentration: 0.0
 
 D34:75_PP2A
Compartment: Spine
Initial concentration: 0.0
 
 D75:137_PP2A
Compartment: Spine
Initial concentration: 0.0
 
 D34:75:137_PP2A
Compartment: Spine
Initial concentration: 0.0
 
 D34:75_PP2AP
Compartment: Spine
Initial concentration: 0.0
 
 D75:137_PP2AP
Compartment: Spine
Initial concentration: 0.0
 
 D34:75:137_PP2AP
Compartment: Spine
Initial concentration: 0.0
 
 D34:137_PP2C
Compartment: Spine
Initial concentration: 0.0
 
 D75:137_PP2C
Compartment: Spine
Initial concentration: 0.0
 
 PDE
Compartment: Spine
Initial concentration: 2.0E-6
 
 PP2Binactive
Compartment: Spine
Initial concentration: 3.32E-7
 
 D34:75:137_PP2C
Compartment: Spine
Initial concentration: 0.0
 
 CK1P
Compartment: Spine
Initial concentration: 0.0
 
 CK1P_PP2B
Compartment: Spine
Initial concentration: 0.0
 
 PDE_PKA
Compartment: Spine
Initial concentration: 0.0
 
 PDEP
Compartment: Spine
Initial concentration: 0.0
 
 PP2A_PKA
Compartment: Spine
Initial concentration: 0.0
 
 Ca
Compartment: Spine
Initial concentration: 0.0
 
 PP2BinactiveCa2
Compartment: Spine
Initial concentration: 0.0
 
 R2C2
Compartment: Spine
Initial concentration: 6.64E-6
 
 cAMP
Compartment: Spine
Initial concentration: 0.0
 
 cAMP_R2C2
Compartment: Spine
Initial concentration: 0.0
 
 cAMP2_R2C2
Compartment: Spine
Initial concentration: 0.0
 
 cAMP3_R2C2
Compartment: Spine
Initial concentration: 0.0
 
 cAMP4_R2C2
Compartment: Spine
Initial concentration: 0.0
 
 cAMP4_R2C
Compartment: Spine
Initial concentration: 0.0
 
 cAMP4_R2
Compartment: Spine
Initial concentration: 0.0
 
 cAMP_PDE
Compartment: Spine
Initial concentration: 0.0
 
 AMP
Compartment: Spine
Initial concentration: 0.0
 
 cAMP_PDEP
Compartment: Spine
Initial concentration: 0.0
 
   Empty
Compartment: Spine
Initial concentration: 0.0
Constant
 
Global Parameters (7)
 
   ca_in
Value: 2.5E-8
 
   cAMP_delay
Value: 400.0
Constant
 
   cAMP_Ca_delay
Value: 50.0
Constant
 
   kon_high
Value: 6.6E-6
Constant
 
   spike_duration
Value: 2.0
Constant
 
   spike_interval
Value: 2.0
Constant
 
   kon_low
Value: 2.5E-8
Constant
 
D_CDK5_binding (1)
 
   kon1
Value: 5600000.0
Constant
 
D_CDK5_unbinding (1)
 
   koff1
Value: 12.0
Constant
 
DPhospho_by_CDK5_on_75 (1)
 
   kcat1
Value: 3.0
Constant
 
DCDK1_binding (1)
 
   kon2
Value: 4400000.0
Constant
 
D_CDK1_unbinding (1)
 
   koff2
Value: 12.0
Constant
 
D_Phospho_by_CK1_on_137 (1)
 
   kcat2
Value: 3.0
Constant
 
D_PKA_binding (1)
 
   kon3
Value: 5600000.0
Constant
 
D_PKA_unbinding (1)
 
   koff3
Value: 10.8
Constant
 
D_Phospho_by_PKA_on_34 (1)
 
   kcat3
Value: 2.7
Constant
 
D34_CDK5_binding (1)
 
   kon4
Value: 5600000.0
Constant
 
D34_CK1_binding (1)
 
   kon5
Value: 4400000.0
Constant
 
D34_PP2B_binding (1)
 
   kon6
Value: 1.0E7
Constant
 
D34_CDK5_unbinding (1)
 
   koff4
Value: 12.0
Constant
 
D34_Phospho_by_CDK5_on_75 (1)
 
   kcat4
Value: 3.0
Constant
 
D34_CK1_unbinding (1)
 
   koff5
Value: 12.0
Constant
 
D34_Phospho_by_CK1_on_137 (1)
 
   kcat5
Value: 3.0
Constant
 
D34_Dephospho_by_PP2B (1)
 
   kcat6
Value: 4.0
Constant
 
D34_PP2B_unbinding (1)
 
   koff6
Value: 16.0
Constant
 
D75_CK1_binding (1)
 
   kon7
Value: 4400000.0
Constant
 
D75_PKA_binding (1)
 
   kon8
Value: 5600000.0
Constant
 
D75_PP2A_binding (1)
 
   kon9
Value: 3800000.0
Constant
 
D75_PP2AP_binding (1)
 
   kon10
Value: 1.7E7
Constant
 
D75_CK1_unbinding (1)
 
   koff7
Value: 12.0
Constant
 
D75_Phospho_by_CK1_on_137 (1)
 
   kcat7
Value: 3.0
Constant
 
D75_Phospho_by_PKA_on_34 (1)
 
   kcat8
Constant
 
D75_PKA_unbinding (1)
 
   koff8
Value: 10.8
Constant
 
D75_dephospho_by_PP2A (1)
 
   kcat9
Value: 10.0
Constant
 
D75_PP2A_unbinding (1)
 
   koff9
Value: 24.0
Constant
 
D75_dephospho_by_PP2AP (1)
 
   kcat10
Value: 24.0
Constant
 
D75_PP2AP_unbinding (1)
 
   koff10
Value: 40.0
Constant
 
D137_CDK5_binding (1)
 
   kon11
Value: 5600000.0
Constant
 
D137_PKA_binding (1)
 
   kon12
Value: 5600000.0
Constant
 
D137_PP2C_binding (1)
 
   kon13
Value: 7500000.0
Constant
 
D137_CDK5_unbinding (1)
 
   koff11
Value: 12.0
Constant
 
D137_Phospho_by_CDK5_on_75 (1)
 
   kcat11
Value: 3.0
Constant
 
D137_PKA_unbinding (1)
 
   koff12
Value: 10.8
Constant
 
D137_phospho_by_PKA_on_34 (1)
 
   kcat12
Value: 2.7
Constant
 
D137_dephospho_by_PP2C (1)
 
   kcat13
Value: 3.0
Constant
 
D137_PP2C_unbinding (1)
 
   koff13
Value: 12.0
Constant
 
D34:75_CK1_binding (1)
 
   kon14
Value: 4400000.0
Constant
 
D34:137_CDK5_binding (1)
 
   kon18
Value: 5600000.0
Constant
 
D34:137_CDK5_unbinding (1)
 
   koff18
Value: 12.0
Constant
 
D34:75_CK1_unbinding (1)
 
   koff14
Value: 12.0
Constant
 
D34:75_phospho_by_CK1_on_137 (1)
 
   kcat14
Value: 3.0
Constant
 
D34:137_phospho_by_CDK5_on_75 (1)
 
   kcat18
Value: 3.0
Constant
 
D75:137_PKA_binding (1)
 
   kon21
Value: 5600000.0
Constant
 
D75:137_phospho_by_PKA_on_34 (1)
 
   kcat21
Constant
 
D75:137_PKA_unbinding (1)
 
   koff21
Value: 10.8
Constant
 
D34:75_PP2B_binding (1)
 
   kon17
Value: 1.0E7
Constant
 
D34:75_PP2B_unbinding (1)
 
   koff17
Value: 1600.0
Constant
 
D34:75_dephopsho_by_PP2B_on_34 (1)
 
   kcat17
Value: 4.0
Constant
 
D34:137_PP2B_binding (1)
 
   kon19
Value: 75000.0
Constant
 
D34:137_dephospho_by_PP2B_on_34 (1)
 
   kcat19
Value: 0.03
Constant
 
D34:137_PP2B_unbinding (1)
 
   koff19
Value: 0.12
Constant
 
D34:75:137_PP2B_binding (1)
 
   kon27
Value: 75000.0
Constant
 
D34:75:137_PP2B_unbinding (1)
 
   koff27
Value: 120.0
Constant
 
D34:75:137_dephospho_by_PP2B_on_34 (1)
 
   kcat27
Value: 0.03
Constant
 
D34:75_PP2A_binding (1)
 
   kon15
Value: 3800000.0
Constant
 
D34:75_dephospho_by_PP2A_on_75 (1)
 
   kcat15
Value: 10.0
Constant
 
D34:75_PP2A_unbinding (1)
 
   koff15
Value: 24.0
Constant
 
D75:137_PP2A_binding (1)
 
   kon22
Value: 3800000.0
Constant
 
D75:137_dephospho_by_PP2A_on_75 (1)
 
   kcat22
Value: 10.0
Constant
 
D75:137_PP2A_unbinding (1)
 
   koff22
Value: 24.0
Constant
 
D34:75:137_PP2A_binding (1)
 
   kon25
Value: 3800000.0
Constant
 
D34:75:137_dephospho_by_PP2A_on_75 (1)
 
   kcat25
Value: 10.0
Constant
 
D34:75:137_PP2A_unbinding (1)
 
   koff25
Value: 24.0
Constant
 
D34:75_PP2AP_binding (1)
 
   kon16
Value: 1.7E7
Constant
 
D34:75_dephospho_by_PP2AP_on_75 (1)
 
   kcat16
Value: 24.0
Constant
 
D34:75_PP2AP_unbinding (1)
 
   koff16
Value: 40.0
Constant
 
D75:137_PP2AP_binding (1)
 
   kon23
Value: 1.7E7
Constant
 
D75:137_dephospho_by_PP2AP_on_75 (1)
 
   kcat23
Value: 24.0
Constant
 
D75:137_PP2AP_unbinding (1)
 
   koff23
Value: 40.0
Constant
 
D34:75:137_dephospho_by_PP2AP_on 75 (1)
 
   kcat26
Value: 24.0
Constant
 
D34:75:137_PP2AP_binding (1)
 
   kon26
Value: 1.7E7
Constant
 
D34:75:137_PP2AP_unbinding (1)
 
   koff26
Value: 40.0
Constant
 
D34:137_PP2C_binding (1)
 
   kon20
Value: 7500000.0
Constant
 
D34:137_dephospho_by_PP2C_on_137 (1)
 
   kcat20
Value: 3.0
Constant
 
D34:137_PP2C_unbinding (1)
 
   koff20
Value: 12.0
Constant
 
D75:137_PP2C_binding (1)
 
   kon24
Value: 7500000.0
Constant
 
D75:137_dephospho_by_PP2C_137 (1)
 
   kcat24
Value: 3.0
Constant
 
D75:137_PP2C_unbinding (1)
 
   koff24
Value: 12.0
Constant
 
D34:75:137_PP2C_binding (1)
 
   kon28
Value: 7500000.0
Constant
 
D34:75:137_dephospho_by_PP2C_on_137 (1)
 
   kcat28
Value: 3.0
Constant
 
D34:75:137_PP2C_unbinding (1)
 
   koff28
Value: 12.0
Constant
 
CK1P_PP2B_binding (1)
 
   kon29
Value: 3.0E7
Constant
 
CK1P_PP2B_unbinding (1)
 
   koff29
Value: 24.0
Constant
 
CK1P_dephospho_by_PP2B (1)
 
   kcat29
Value: 6.0
Constant
 
CK1_phosphorylation (1)
 
   kcat30
Value: 1.0
Constant
 
PDE_PKA_binding (1)
 
   kon31
Value: 6000000.0
Constant
 
PDE_phospho_by_PKA (1)
 
   kcat31
Value: 9.0
Constant
 
PDE_PKA_unbinding (1)
 
   koff31
Value: 36.0
Constant
 
PDEP_dephospho (1)
 
   kcat32
Value: 0.1
Constant
 
PP2A_PKA_binding (1)
 
   kon33
Value: 1.0E7
Constant
 
PP2A_PKA_unbinding (1)
 
   koff33
Value: 16.0
Constant
 
PP2A_phospho_by_PKA (1)
 
   kcat33
Value: 4.0
Constant
 
PP2AP_dephospho (1)
 
   kcat34
Value: 5.0
Constant
 
PP2Binactive_Ca_binding (1)
 
   kon35
Value: 1.0E15
Constant
 
PP2B_activation (1)
 
   kon36
Value: 3.0E15
Constant
 
PP2BinactiveCa2_Ca_unbinding (1)
 
   koff35
Value: 1.0
Constant
 
PP2B_inactivation (1)
 
   koff36
Value: 1.0
Constant
 
R2C2_cAMP_binding (1)
 
   kon37
Value: 5.4E7
Constant
 
cAMP_R2C2_binding_by_cAMP (1)
 
   kon38
Value: 5.4E7
Constant
 
cAMP2_R2C2_binding_by_cAMP (1)
 
   kon39
Value: 7.5E7
Constant
 
cAMP3_R2C2_binding_by_cAMP (1)
 
   kon40
Value: 7.5E7
Constant
 
cAMP_R2C2_unbinding (1)
 
   koff37
Value: 33.0
Constant
 
cAMP2_R2C2_unbinding (1)
 
   koff38
Value: 33.0
Constant
 
cAMP3_R2C2_unbinding (1)
 
   koff39
Value: 110.0
Constant
 
cAMP4_R2C2_unbinding (1)
 
   koff40
Value: 32.5
Constant
 
cAMP4_R2C_PKA_binding (1)
 
   kon41
Value: 1.8E7
Constant
 
cAMP4_R2C2_PKA_unbinding (1)
 
   koff41
Value: 60.0
Constant
 
cAMP4_R2_PKA_binding (1)
 
   kon42
Value: 1.8E7
Constant
 
cAMP4_R2C_PKA_unbinding (1)
 
   kon43
Value: 60.0
Constant
 
cAMP_PDE_binding (1)
 
   kon44
Value: 2520000.0
Constant
 
cAMP_PDE_unbinding (1)
 
   koff44
Value: 40.0
Constant
 
cAMP_PDE_degradation (1)
 
   kcat44
Value: 10.0
Constant
 
cAMP_PDEP_binding (1)
 
   kon45
Value: 5040000.0
Constant
 
cAMP_PDEP_unbinding (1)
 
   koff45
Value: 80.0
Constant
 
cAMP_PDEP_degradation (1)
 
   kcat45
Value: 20.0
Constant
 
Ca_destroy (1)
 
   k58
Value: 1.7
Constant
 
Representative curation result(s)
Representative curation result(s) of BIOMD0000000152

Curator's comment: (updated: 03 Mar 2008 11:20:27 GMT)

Figure 5A reproduced with SBML odeSolver. Note that the ordinates are in concentrations rather than number of molecules.

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