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Rxn_blocked_PKA.xml
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Rxn_blocked_PKA.xml
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<?xml version="1.0"?>
<ReactionScheme>
<!-- you can specify the units of the diffusion constant. If they are not specified they are assumed to be micron^2/second, (microns written "mu" here) it should understand microns, mm, and m for distances and seconds and ms for times -->
<!-- This code is implemented CaMKII_bimols Rns -0.44, 0.28, 0.088. Fix 3 products 2rxns break down to 2nd order rxn : LbARG/Ip35P1P2 -->
<!-- last rxn of Ip35p1p2 was wrong reactant:fixed on Aug,8th,2008
Chosen katp=1 sec(not 10 sec) is enough -->
<!-- Suggested by avrama Ca kdiff=600 for helping fast decay on Feb.24th 2009-->
<Specie name="Ca" id="Ca" kdiff="174.3" kdiffunit="mu2/s" />
<Specie name="CaOut" id="CaOut" kdiff="3." kdiffunit="mu2/s" />
<!--Added from Andy's model-->
<Specie name="CaOutLeak" id="CaOutLeak" kdiff="0"
kdiffunit="mu2/s" />
<Specie name="CaCbuf" id="CaCbuf" kdiff="10" kdiffunit="mu2/s"/>
<Specie name="Cbuf" id="Cbuf" kdiff="10" kdiffunit="mu2/s"/>
<Specie name="Leak" id="Leak" kdiff="0" kdiffunit="mu2/s" />
<Specie name="Calbin" id="Calbin" kdiff="9.3" kdiffunit="mu2/s" />
<Specie name="CalbinC" id="CalbinC" kdiff="9.3" kdiffunit="mu2/s" />
<Specie name="CaBCa" id="CaBCa" kdiff="10" kdiffunit="mu2/s"/>
<Specie name="CaB" id="CaB" kdiff="10" kdiffunit="mu2/s"/>
<!--Added from Andy's model-->
<Specie name="ISOOut" id="ISOOut" kdiff="10." kdiffunit="mu2/s" />
<Specie name="Ibuf" id="Ibuf" kdiff="1" kdiffunit="mu2/s" />
<Specie name="ISOIbuf" id="ISOIbuf" kdiff="0" kdiffunit="mu2/s" />
<Specie name="Epac1" id="Epac1" kdiff="5.61" kdiffunit="mu2/s" />
<Specie name="Epac1cAMP" id="Epac1cAMP" kdiff="5.62"
kdiffunit="mu2/s" />
<Specie name="pmca" id="pmca" kdiff="0" kdiffunit="mu2/s" />
<Specie name="ncx" id="ncx" kdiff="0" kdiffunit="mu2/s" />
<Specie name="pmcaCa" id="pmcaCa" kdiff="0" kdiffunit="mu2/s" />
<Specie name="ncxCa" id="ncxCa" kdiff="0" kdiffunit="mu2/s" />
<Specie name="ISO" id="ISO" kdiff="111.4" kdiffunit="mu2/s" />
<!--Added from Andy's model-->
<Specie name="bAR" id="bAR" kdiff="0" kdiffunit="mu2/s" />
<Specie name="Gs" id="Gs" kdiff="0" kdiffunit="mu2/s" />
<Specie name="Gi" id="Gi" kdiff="0" kdiffunit="mu2/s" />
<Specie name="ISObAR" id="ISObAR" kdiff="0" kdiffunit="mu2/s" />
<Specie name="ISObARGs" id="ISObARGs" kdiff="0"
kdiffunit="mu2/s" />
<Specie name="PKAcISObAR" id="PKAcISObAR" kdiff="0"
kdiffunit="mu2/s" />
<Specie name="PKAcpISObAR" id="PKAcpISObAR" kdiff="0"
kdiffunit="mu2/s" />
<Specie name="PKAcppISObAR" id="PKAcppISObAR" kdiff="0"
kdiffunit="mu2/s" />
<Specie name="PKAcpppISObAR" id="PKAcpppISObAR" kdiff="0"
kdiffunit="mu2/s" />
<Specie name="pISObAR" id="pISObAR" kdiff="0" kdiffunit="mu2/s" />
<Specie name="ppISObAR" id="ppISObAR" kdiff="0"
kdiffunit="mu2/s" />
<Specie name="pppISObAR" id="pppISObAR" kdiff="0"
kdiffunit="mu2/s" />
<Specie name="ppppISObAR" id="ppppISObAR" kdiff="0"
kdiffunit="mu2/s" />
<Specie name="ppppISObARGi" id="ppppISObARGi" kdiff="0"
kdiffunit="mu2/s" />
<Specie name="PKAcbAR" id="PKAcbAR" kdiff="0" kdiffunit="mu2/s" />
<Specie name="PKAcpbAR" id="PKAcpbAR" kdiff="0"
kdiffunit="mu2/s" />
<Specie name="PKAcppbAR" id="PKAcppbAR" kdiff="0"
kdiffunit="mu2/s" />
<Specie name="PKAcpppbAR" id="PKAcpppbAR" kdiff="0"
kdiffunit="mu2/s" />
<Specie name="pbAR" id="pbAR" kdiff="0" kdiffunit="mu2/s" />
<Specie name="ppbAR" id="ppbAR" kdiff="0" kdiffunit="mu2/s" />
<Specie name="pppbAR" id="pppbAR" kdiff="0" kdiffunit="mu2/s" />
<Specie name="ppppbAR" id="ppppbAR" kdiff="0" kdiffunit="mu2/s" />
<Specie name="ppppbARGi" id="ppppbARGi" kdiff="0"
kdiffunit="mu2/s" />
<Specie name="GsbAR" id="GsbAR" kdiff="0" kdiffunit="mu2/s" />
<Specie name="GasGTP" id="GasGTP" kdiff="0" kdiffunit="mu2/s" />
<Specie name="GasGDP" id="GasGDP" kdiff="0" kdiffunit="mu2/s" />
<Specie name="GaiGTP" id="GaiGTP" kdiff="0" kdiffunit="mu2/s" />
<Specie name="GaiGDP" id="GaiGDP" kdiff="0" kdiffunit="mu2/s" />
<Specie name="Gibg" id="Gibg" kdiff="0" kdiffunit="mu2/s" />
<Specie name="Gsbg" id="Gsbg" kdiff="0" kdiffunit="mu2/s" />
<Specie name="Da" id="Da" kdiff="10" kdiffunit="mu2/s" />
<Specie name="Dbuf" id="Dbuf" kdiff="1" kdiffunit="mu2/s" />
<Specie name="DaDbuf" id="DaDbuf" kdiff="0" kdiffunit="mu2/s" />
<Specie name="DaOut" id="DaOut" kdiff="1" kdiffunit="mu2/s" />
<Specie name="D1R" id="D1R" kdiff="0" kdiffunit="mu2/s" />
<Specie name="DaD1R" id="DaD1R" kdiff="0" kdiffunit="mu2/s" />
<Specie name="DaD1RGs" id="DaD1RGs" kdiff="0" kdiffunit="mu2/s" />
<Specie name="GsD1R" id="GsD1R" kdiff="0" kdiffunit="mu2/s" />
<Specie name="AC1" id="AC1" kdiff="0" kdiffunit="mu2/s" />
<Specie name="AC1GasGTP" id="AC1GasGTP" kdiff="0"
kdiffunit="mu2/s" />
<Specie name="AC1GasGTPCaMCa4" id="AC1GasGTPCaMCa4" kdiff="0"
kdiffunit="mu2/s" />
<Specie name="AC1GasGTPCaMCa4ATP" id="AC1GasGTPCaMCa4ATP" kdiff="0"
kdiffunit="mu2/s" />
<Specie name="AC1GaiGTP" id="AC1GaiGTP" kdiff="0"
kdiffunit="mu2/s" />
<Specie name="AC1GaiGTPCaMCa4" id="AC1GaiGTPCaMCa4" kdiff="0"
kdiffunit="mu2/s" />
<Specie name="AC1GaiGTPCaMCa4ATP" id="AC1GaiGTPCaMCa4ATP" kdiff="0"
kdiffunit="mu2/s" />
<Specie name="AC1GasGTPGaiGTP" id="AC1GasGTPGaiGTP" kdiff="0"
kdiffunit="mu2/s" />
<Specie name="AC1GasGTPGaiGTPCaMCa4" id="AC1GasGTPGaiGTPCaMCa4"
kdiff="0" kdiffunit="mu2/s" />
<Specie name="AC1GsGiCaMCa4ATP" id="AC1GsGiCaMCa4ATP" kdiff="0"
kdiffunit="mu2/s" />
<Specie name="ATP" id="ATP" kdiff="1" kdiffunit="mu2/s" />
<Specie name="cAMP" id="cAMP" kdiff="86.4" kdiffunit="mu2/s" />
<Specie name="AC1CaMCa4" id="AC1CaMCa4" kdiff="0"
kdiffunit="mu2/s" />
<Specie name="AC1CaMCa4ATP" id="AC1CaMCa4ATP" kdiff="0"
kdiffunit="mu2/s" />
<Specie name="AC8" id="AC8" kdiff="0" kdiffunit="mu2/s" />
<Specie name="AC8CaMCa4" id="AC8CaMCa4" kdiff="0"
kdiffunit="mu2/s" />
<Specie name="AC8CaMCa4ATP" id="AC8CaMCa4ATP" kdiff="0"
kdiffunit="mu2/s" />
<Specie name="PDE1" id="PDE1" kdiff="0" kdiffunit="mu2/s" />
<Specie name="PDE1CaMCa4" id="PDE1CaMCa4" kdiff="0"
kdiffunit="mu2/s" />
<Specie name="PDE1CaMCa4cAMP" id="PDE1CaMCa4cAMP" kdiff="0"
kdiffunit="mu2/s" />
<Specie name="AMP" id="AMP" kdiff="84.8" kdiffunit="mu2/s" />
<Specie name="Ng" id="Ng" kdiff="0" kdiffunit="mu2/s" />
<Specie name="NgCaM" id="NgCaM" kdiff="0" kdiffunit="mu2/s" />
<!-- -->
<Specie name="CaM" id="CaM" kdiff="4" kdiffunit="mu2/s" />
<!--Calmodulin-->
<Specie name="CaMCa2" id="CaMCa2" kdiff="4" kdiffunit="mu2/s" />
<!-- 2 Ca bound Calmodulin-->
<Specie name="CaMCa4" id="CaMCa4" kdiff="4" kdiffunit="mu2/s" />
<!-- 4 Ca bound Calmodulin-->
<!-- -->
<Specie name="PP2B" id="PP2B" kdiff="0" kdiffunit="mu2/s" />
<Specie name="PP2BCaM" id="PP2BCaM" kdiff="0" kdiffunit="mu2/s" />
<Specie name="PP2CaMCa2" id="PP2BCaMCa2" kdiff="0"
kdiffunit="mu2/s" />
<Specie name="PP2BCaMCa4" id="PP2BCaMCa4" kdiff="0"
kdiffunit="mu2/s" />
<Specie name="CK" id="CK" kdiff="0.1" kdiffunit="mu2/s"/>
<Specie name="CKCaMCa4" id="CKCaMCa4" kdiff="0.1" kdiffunit="mu2/s"/>
<Specie name="CKpCaMCa4" id="CKpCaMCa4" kdiff="3.6" kdiffunit="mu2/s"/>
<Specie name="CKp" id="CKp" kdiff="3.6" kdiffunit="mu2/s"/>
<Specie name="CKpPP1" id="CKpPP1" kdiff="0" kdiffunit="mu2/s"/>
<Specie name="CKpCaMCa4PP1" id="CKpCaMCa4PP1" kdiff="0" kdiffunit="mu2/s"/>
<Specie name="CKpCaMCa4PP2A" id="CKpCaMCa4PP2A" kdiff="3.6" kdiffunit="mu2/s"/>
<Specie name="CKpPP2A" id="CKpPP2A" kdiff="3.6" kdiffunit="mu2/s"/>
<Specie name="PP2A" id="PP2A" kdiff="3.6" kdiffunit="mu2/s"/>
<Specie name="PP2ACKpCaMCa4" id="PP2ACKpCaMCa4" kdiff="3.6" kdiffunit="mu2/s"/>
<Specie name="PP2ACKCaMCa4" id="PP2ACKCaMCa4" kdiff="3.6" kdiffunit="mu2/s"/>
<Specie name="PP2ACKp" id="PP2ACKp" kdiff="3.6" kdiffunit="mu2/s"/>
<Specie name="pPP2A" id="pPP2A" kdiff="3.6" kdiffunit="mu2/s"/>
<Specie name="PP2ApPP2A" id="PP2ApPP2A" kdiff="3.6" kdiffunit="mu2/s"/>
<Specie name="PKA" id="PKA" kdiff="0" kdiffunit="mu2/s" />
<Specie name="PKAcAMP2" id="PKAcAMP2" kdiff="0"
kdiffunit="mu2/s" />
<Specie name="PKAcAMP4" id="PKAcAMP4" kdiff="0"
kdiffunit="mu2/s" />
<Specie name="PKAr" id="PKAr" kdiff="0" kdiffunit="mu2/s" />
<Specie name="PKAc" id="PKAc" kdiff="0.836" kdiffunit="mu2/s" />
<Specie name="I1" id="I1" kdiff="9.49" kdiffunit="mu2/s" />
<Specie name="I1PKAc" id="I1PKAc" kdiff="10.6" kdiffunit="mu2/s" />
<Specie name="Ip35" id="Ip35" kdiff="7.02" kdiffunit="mu2/s" />
<Specie name="PP1" id="PP1" kdiff="0" kdiffunit="mu2/s" />
<Specie name="Ip35PP1" id="Ip35PP1" kdiff="0" kdiffunit="mu2/s" />
<Specie name="Ip35PP2BCaMCa4" id="Ip35PP2BCaMCa4" kdiff="0"
kdiffunit="mu2/s" />
<Specie name="Ip35PP1PP2BCaMCa4" id="Ip35PP1PP2BCaMCa4" kdiff="0"
kdiffunit="mu2/s" />
<!-- AddRxns -->
<!--NMDARs-->
<Specie name="NMDAR" id="NMDAR" kdiff="0" kdiffunit="mu2/s" />
<Specie name="PKAcNMDAR" id="PKAcNMDAR" kdiff="0" kdiffunit="mu2/s" />
<Specie name="pNMDAR" id="pNMDAR" kdiff="0" kdiffunit="mu2/s" />
<Specie name="PP2BpNMDAR" id="PP2BpNMDAR" kdiff="0" kdiffunit="mu2/s" />
<Specie name="PP1pNMDAR" id="PP1pNMDAR" kdiff="0" kdiffunit="mu2/s" />
<!--AMPARs-->
<Specie name="GluR1" id="GluR1" kdiff="0" kdiffunit="mu2/s" />
<Specie name="GluR1_S845" id="GluR1_S845" kdiff="0"
kdiffunit="mu2/s" />
<Specie name="GluR1_S831" id="GluR1_S831" kdiff="0"
kdiffunit="mu2/s" />
<Specie name="GluR1_S845_S831" id="GluR1_S845_S831" kdiff="0"
kdiffunit="mu2/s" />
<Specie name="GluR1_PKAc" id="GluR1_PKAc" kdiff="0"
kdiffunit="mu2/s" />
<Specie name="GluR1_CKCaM" id="GluR1_CKCaM" kdiff="0"
kdiffunit="mu2/s" />
<Specie name="GluR1_CKpCaM" id="GluR1_CKpCaM" kdiff="0"
kdiffunit="mu2/s" />
<Specie name="GluR1_CKp" id="GluR1_CKp" kdiff="0"
kdiffunit="mu2/s" />
<Specie name="GluR1_S845_CKCaM" id="GluR1_S845_CKCaM" kdiff="0"
kdiffunit="mu2/s" />
<Specie name="GluR1_S845_CKpCaM" id="GluR1_S845_CKpCaM" kdiff="0"
kdiffunit="mu2/s" />
<Specie name="GluR1_S845_CKp" id="GluR1_S845_CKp" kdiff="0"
kdiffunit="mu2/s" />
<Specie name="GluR1_S831_PKAc" id="GluR1_S831_PKAc" kdiff="0"
kdiffunit="mu2/s" />
<Specie name="GluR1_S845_S831_PP1" id="GluR1_S845_S831_PP1"
kdiff="0" kdiffunit="mu2/s" />
<Specie name="GluR1_S845_S831_PP1_2" id="GluR1_S845_S831_PP1_2"
kdiff="0" kdiffunit="mu2/s" />
<Specie name="GluR1_S831_PP1" id="GluR1_S831_PP1" kdiff="0"
kdiffunit="mu2/s" />
<Specie name="GluR1_S845_PP1" id="GluR1_S845_PP1" kdiff="0"
kdiffunit="mu2/s" />
<Specie name="GluR1_S831_PP2A" id="GluR1_S831_PP2A" kdiff="0"
kdiffunit="mu2/s" />
<Specie name="GluR1_S845_PP2A" id="GluR1_S845_PP2A" kdiff="0"
kdiffunit="mu2/s" />
<Specie name="GluR1_S845_S831_PP2A" id="GluR1_S845_S831_PP2A"
kdiff="0" kdiffunit="mu2/s" />
<Specie name="GluR1_S845_S831_PP2A_2" id="GluR1_S845_S831_PP2A_2"
kdiff="0" kdiffunit="mu2/s" />
<Specie name="GluR1_S845_PP2B" id="GluR1_S845_PP2B" kdiff="0"
kdiffunit="mu2/s" />
<Specie name="GluR1_S845_S831_PP2B" id="GluR1_S845_S831_PP2B"
kdiff="0" kdiffunit="mu2/s" />
<Specie name="PDE4" id="PDE4" kdiff="0" kdiffunit="mu2/s" />
<Specie name="PDE4cAMP" id="PDE4cAMP" kdiff="0"
kdiffunit="mu2/s" />
<Specie name="PKAcPDE4" id="PKAcPDE4" kdiff="0"
kdiffunit="mu2/s" />
<Specie name="pPDE4" id="pPDE4" kdiff="0" kdiffunit="mu2/s" />
<Specie name="pPDE4cAMP" id="pPDE4cAMP" kdiff="0"
kdiffunit="mu2/s" />
<Specie name="PKAc_PDE4_cAMP" id="PKAc_PDE4_cAMP" kdiff="0"
kdiffunit="mu2/s" />
<!--*************************************************************************
Now, the reactions themselves SAME means params are same in both files
**************************************************************************-->
<!--I. *********** Ca pump and buffer rxns ************* -->
<!-- i: Ca pump high affinity - Ca + pmca <-> pmcaCa SAME-->
<Reaction name = "Ca_pump1a" id="Ca_pump1a">
<Reactant specieID="Ca"/>
<Reactant specieID="pmca"/>
<Product specieID="pmcaCa"/>
<forwardRate>0.05e-3</forwardRate>
<reverseRate>9e-3</reverseRate>
</Reaction>
<!-- ii: Ca pump high affinity - pmcaCa <-> pmca + CaOut SAME-->
<Reaction name = "Ca_pump1b" id="Ca_pump1b">
<Reactant specieID="pmcaCa"/>
<Product specieID="pmca"/>
<Product specieID="CaOut"/>
<forwardRate>3.0e-3</forwardRate>
<reverseRate>0</reverseRate>
</Reaction>
<!-- iii: Ca pump low affinity - Ca + ncx <-> ncxCa SAME-->
<Reaction name = "Ca_pump2a" id="Ca_pump2a">
<Reactant specieID="Ca"/>
<Reactant specieID="ncx"/>
<Product specieID="ncxCa"/>
<forwardRate>0.011e-3</forwardRate>
<reverseRate>11.2e-3</reverseRate>
</Reaction>
<!-- iv: Ca pump low affinity - ncxCa <-> ncx + CaOut SAME-->
<Reaction name = "Ca_pump2b" id="Ca_pump2b">
<Reactant specieID="ncxCa"/>
<Product specieID="ncx"/>
<Product specieID="CaOut"/>
<forwardRate>5.6e-3</forwardRate>
<reverseRate>0</reverseRate>
</Reaction>
<!-- v: Ca leak - CaOut + Leak <-> CaOutLeak GQ RXN FILE, Leak is sm only-->
<Reaction name = "Ca_leak" id="Ca_leak">
<Reactant specieID="CaOut"/>
<Reactant specieID="Leak"/>
<Product specieID="CaOutLeak"/>
<forwardRate>0.01e-6</forwardRate>
<reverseRate>1.1e-3</reverseRate>
</Reaction>
<!-- vi: Ca leak - CaOutLeak <-> Ca (inside) + Leak -->
<Reaction name = "Ca_leak" id="Ca_leak">
<Reactant specieID="CaOutLeak"/>
<Product specieID="Ca"/>
<Product specieID="Leak"/>
<forwardRate>1.1e-3</forwardRate>
<reverseRate>0</reverseRate>
</Reaction>
<!-- vii: Ca Buffer Ca + Calbindin <-> calbinC SAME-->
<Reaction name = "Ca_buffer" id="Ca_Buffer">
<Reactant specieID="Ca"/>
<Reactant specieID="Calbin"/>
<Product specieID="CalbinC"/>
<forwardRate>0.028e-3</forwardRate>
<reverseRate>19.6</reverseRate>
</Reaction>
<!-- Irreversible IC Ca Buffer Ca + CaB <-> CaBCa -->
<Reaction name = "CaIn_buffer" id="CaIn_buffer">
<Reactant specieID="Ca"/>
<Reactant specieID="CaB"/>
<Product specieID="CaBCa"/>
<forwardRate>2.8e-5</forwardRate>
<reverseRate>0</reverseRate>
<Q10>0.2</Q10>
</Reaction>
<Reaction name="CaCbufCa+Cbuf" id="CaCbufCa+Cbuf">
<Reactant specieID="CaCbuf" />
<Product specieID="Cbuf" />
<Product specieID="Ca" />
<forwardRate>20e-03</forwardRate>
<reverseRate>0</reverseRate>
</Reaction>
<Reaction name="CaOut+CbufNULL" id="CaOut_CbufNULL">
<Reactant specieID="CaOut" />
<Reactant specieID="Cbuf" />
<forwardRate>1e-06</forwardRate>
<reverseRate>0</reverseRate>
</Reaction>
<!--0a. Injected DaDbuf dissociates to Dbuf (external) and Da: DaDbuf -> Da + Dbuf -->
<!-- G_protein part -->
<Reaction name="ISO_buffer" id="ISO_Buffer">
<Reactant specieID="ISO" />
<Product specieID="ISOOut" />
<forwardRate>1.0e-3</forwardRate>
<reverseRate>0.0055e-6</reverseRate>
<Q10>0.2</Q10>
</Reaction>
<Reaction name="ISOIbuf--ISO+Ibuf" id="ISOIbuf--ISO+Ibuf">
<Reactant specieID="ISOIbuf" />
<Product specieID="Ibuf" />
<Product specieID="ISO" />
<forwardRate>20e-03</forwardRate>
<reverseRate>0</reverseRate>
</Reaction>
<!--0c. excess DaOut eliminated to prevent baseline shift: DaOut + Dbuf
<-> DaOutbuf -->
<Reaction name="ISOOut+Ibuf--NULL" id="ISOOut_buf--NULL">
<Reactant specieID="ISOOut" />
<Reactant specieID="Ibuf" />
<forwardRate>1e-06</forwardRate>
<reverseRate>0</reverseRate>
</Reaction>
<!-- 1) ISO + bAR
<-> ISObAR -->
<Reaction name="ISObAR_bind" id="ISObAR_bind">
<Reactant specieID="ISO" />
<Reactant specieID="bAR" />
<Product specieID="ISObAR" />
<forwardRate>0.005555e-3</forwardRate>
<!--ten times higer
than previously-->
<reverseRate>5e-3</reverseRate>
<Q10>0.2</Q10>
</Reaction>
<!-- 2) ISObAR + Gs
<-> ISObARGs -->
<Reaction name="ISObARGs_bind" id="ISObARGs_bind">
<Reactant specieID="ISObAR" />
<Reactant specieID="Gs" />
<Product specieID="ISObARGs" />
<forwardRate>0.0006e-3</forwardRate>
<reverseRate>0.001e-3</reverseRate>
<Q10>0.2</Q10>
</Reaction>
<!-- 3) Gs + bAR
<-> GsbAR -->
<Reaction name="GsbAR_bind" id="GsbAR_bind">
<Reactant specieID="Gs" />
<Reactant specieID="bAR" />
<Product specieID="GsbAR" />
<forwardRate>0.00004e-3</forwardRate>
<reverseRate>0.0003e-3</reverseRate>
<Q10>0.2</Q10>
</Reaction>
<!-- 4) GsbAR + ISO
<-> ISObARGs -->
<Reaction name="GsbARISO_bind" id="GsbARISO_bind">
<Reactant specieID="GsbAR" />
<Reactant specieID="ISO" />
<Product specieID="ISObARGs" />
<forwardRate>0.0025e-3</forwardRate>
<reverseRate>0.5e-3</reverseRate>
<Q10>0.2</Q10>
</Reaction>
<!-- 5a) ISObARGs -> ISObARGsbg + GasGTP -->
<Reaction name="GasGTP_bind" id="GasGTP_bind">
<Reactant specieID="ISObARGs" />
<Product specieID="ISObAR" />
<Product specieID="GasGTP" />
<Product specieID="Gsbg" />
<forwardRate>25e-3</forwardRate>
<reverseRate>0</reverseRate>
<Q10>0.2</Q10>
</Reaction>
<!--II. *********** Gs coupled receptor, from GS RXN FILE *************-->
<!--0a. Injected DaDbuf dissociates to Dbuf (external) and Da: DaDbuf -> Da + Dbuf -->
<Reaction name="DaDbuf--Da+Dbuf" id="DaDbuf--Da+Dbuf">
<Reactant specieID="DaDbuf" />
<Product specieID="Dbuf" />
<Product specieID="Da" />
<forwardRate>20e-03</forwardRate>
<reverseRate>0</reverseRate>
</Reaction>
<!--0b. Da or Da Agonist is extruded -->
<Reaction name="Da--DaOut" id="Da--DaOut">
<Reactant specieID="Da" />
<Product specieID="DaOut" />
<forwardRate>1.0e-3</forwardRate>
<reverseRate>0.0055e-6</reverseRate>
</Reaction>
<!--0c. excess DaOut eliminated to prevent baseline shift: DaOut + Dbuf
<-> DaOutbuf -->
<Reaction name="DaOut+Dbuf--NULL" id="DaOut_buf--NULL">
<Reactant specieID="DaOut" />
<Reactant specieID="Dbuf" />
<forwardRate>1e-06</forwardRate>
<reverseRate>0</reverseRate>
</Reaction>
<!--1a. Da + D1R
<-> DaD1R Kd=3000 source: Sunahara et al. Nature 1991-->
<Reaction name="Da+D1R--DaD1R" id="Da+D1R--DaD1R">
<Reactant specieID="Da" />
<Reactant specieID="D1R" />
<Product specieID="DaD1R" />
<forwardRate>0.00166667e-03</forwardRate>
<reverseRate>5e-03</reverseRate>
</Reaction>
<!-- 2a. DaD1R + Gsabg
<-> DaD1RGs Kd=11.666667 source: Zhuang J Neurosci 2000-->
<Reaction name="DaD1R+Gs--DaD1RGs" id="DaD1R+Gs--DaD1RGs">
<Reactant specieID="DaD1R" />
<Reactant specieID="Gs" />
<Product specieID="DaD1RGs" />
<forwardRate>0.03e-03</forwardRate>
<reverseRate>0.4e-03</reverseRate>
</Reaction>
<!-- 1b. Gsabg + D1R
<-> GsD1R Kd=35 source: PMR-->
<Reaction name="Gsabg+D1R--GsD1R" id="Gsabg+D1R--GsD1R">
<Reactant specieID="Gs" />
<Reactant specieID="D1R" />
<Product specieID="GsD1R" />
<forwardRate>0.01e-03</forwardRate>
<reverseRate>0.4e-03</reverseRate>
</Reaction>
<!-- 2b. GsD1R + Da
< - > DaD1RGs Kd=1000 source: Falkenburger J Gen Phys off-rate, Dreyer J Neurosci-->
<Reaction name="GsD1R+Da--DaD1RGs" id="GD1R+Da--DaD1RGs">
<Reactant specieID="GsD1R" />
<Reactant specieID="Da" />
<Product specieID="DaD1RGs" />
<forwardRate>0.005e-03</forwardRate>
<reverseRate>5e-03</reverseRate>
</Reaction>
<!-- 3. DaD1RGs
<-> DaD1R + GsaGTP +Gbg-->
<Reaction name="DaD1RGs-DaD1R+GsaGTP+Gbg reac"
id="DaD1RGs-DaD1R+GsaGTP+Gbg_id">
<Reactant specieID="DaD1RGs" />
<Product specieID="DaD1R" />
<Product specieID="GasGTP" />
<Product specieID="Gsbg" />
<forwardRate>0.15e-03</forwardRate>
<reverseRate>0.0</reverseRate>
</Reaction>
<!--*****************PKAc phosphorylation of DaD1R *******************************-->
<!--4. PKAc + DaD1RGs -> PKAcDaD1RGs Km= 500nM affinity for dephosphorylation is 10 lower than for cAMP accumulation for Glioma Cells, so lower the KM even more-->
<!-- AMC 06/27/12: Below are the reactions for PKA-mediated ISObAR desensitization and subsequent Gs-to-Gi switching -->
<!-- 5c1) ISObAR + PKAc -> PKAcISObAR -->
<Reaction name="ISObAR_phos" id="ISObAR_phos">
<Reactant specieID="ISObAR" />
<Reactant specieID="PKAc" />
<Product specieID="PKAcISObAR" />
<forwardRate>0</forwardRate>
<reverseRate>0</reverseRate>
<Q10>0.2</Q10>
</Reaction>
<!-- 5d1) PKAcISObAR -> pISObAR + PKAc -->
<Reaction name="pISObAR_reac" id="pISObAR_reac">
<Reactant specieID="PKAcISObAR" />
<Product specieID="pISObAR" />
<Product specieID="PKAc" />
<forwardRate>0</forwardRate>
<reverseRate>0</reverseRate>
<Q10>0.2</Q10>
</Reaction>
<!-- 5c2) pISObAR + PKAc -> PKApcISObAR -->
<Reaction name="pISObAR_phos" id="pISObAR_phos">
<Reactant specieID="pISObAR" />
<Reactant specieID="PKAc" />
<Product specieID="PKAcpISObAR" />
<forwardRate>0</forwardRate>
<reverseRate>0</reverseRate>
<Q10>0.2</Q10>
</Reaction>
<!-- 5d2) PKAcpISObAR -> ppISObAR + PKAc -->
<Reaction name="ppISObAR_reac" id="ppISObAR_reac">
<Reactant specieID="PKAcpISObAR" />
<Product specieID="ppISObAR" />
<Product specieID="PKAc" />
<forwardRate>0</forwardRate>
<reverseRate>0</reverseRate>
<Q10>0.2</Q10>
</Reaction>
<!-- 5c3) ppISObAR + PKAc -> PKAcppISObAR -->
<Reaction name="ppISObAR_phos" id="ppISObAR_phos">
<Reactant specieID="ppISObAR" />
<Reactant specieID="PKAc" />
<Product specieID="PKAcppISObAR" />
<forwardRate>0</forwardRate>
<reverseRate>0</reverseRate>
<Q10>0.2</Q10>
</Reaction>
<!-- 5d3) PKAcppISObAR -> pppISObAR + PKAc -->
<Reaction name="pppISObAR_reac" id="pppISObAR_reac">
<Reactant specieID="PKAcppISObAR" />
<Product specieID="pppISObAR" />
<Product specieID="PKAc" />
<forwardRate>0</forwardRate>
<reverseRate>0</reverseRate>
<Q10>0.2</Q10>
</Reaction>
<!-- 5c4) pppISObAR + PKAc -> PKAcpppISObAR -->
<Reaction name="pppISObAR_phos" id="pppISObAR_phos">
<Reactant specieID="pppISObAR" />
<Reactant specieID="PKAc" />
<Product specieID="PKAcpppISObAR" />
<forwardRate>0</forwardRate>
<reverseRate>0</reverseRate>
<Q10>0.2</Q10>
</Reaction>
<!-- 5d4) PKAcpppISObAR -> ppppISObAR + PKAc -->
<Reaction name="ppppISObAR_reac" id="ppppISObAR_reac">
<Reactant specieID="PKAcpppISObAR" />
<Product specieID="ppppISObAR" />
<Product specieID="PKAc" />
<forwardRate>0</forwardRate>
<reverseRate>0</reverseRate>
<Q10>0.2</Q10>
</Reaction>
<!-- 5e) ppppISObAR + Gi -> ppppISObARGi -->
<Reaction name="ppppISObARGi_bind" id="ppppISObARGi_bind">
<Reactant specieID="ppppISObAR" />
<Reactant specieID="Gi" />
<Product specieID="ppppISObARGi" />
<forwardRate>0.15e-3</forwardRate>
<reverseRate>0.25e-3</reverseRate>
<Q10>0.2</Q10>
</Reaction>
<!-- 5f) ppppISObARGi -> ppppISObARGibg + GaiGTP -->
<Reaction name="GaiGTP_bind" id="GaiGTP_bind">
<Reactant specieID="ppppISObARGi" />
<Product specieID="Gibg" />
<Product specieID="ppppISObAR" />
<Product specieID="GaiGTP" />
<forwardRate>0.2e-3</forwardRate>
<reverseRate>0</reverseRate>
<Q10>0.2</Q10>
</Reaction>
<!-- 5h1) pISObAR -> ISObAR -->
<Reaction name="pISObAR_dephos" id="pISObAR_dephos">
<Reactant specieID="pISObAR" />
<Product specieID="ISObAR" />
<forwardRate>0.25e-05</forwardRate>
<reverseRate>0</reverseRate>
<Q10>0.2</Q10>
</Reaction>
<!-- 5h2) ppISObAR -> pISObAR -->
<Reaction name="ppISObAR_dephos" id="ppISObAR_dephos">
<Reactant specieID="ppISObAR" />
<Product specieID="pISObAR" />
<forwardRate>0.25e-05</forwardRate>
<reverseRate>0</reverseRate>
<Q10>0.2</Q10>
</Reaction>
<!-- 5h3) pppISObAR -> ppISObAR -->
<Reaction name="pppISObAR_dephos" id="pppISObAR_dephos">
<Reactant specieID="pppISObAR" />
<Product specieID="ppISObAR" />
<forwardRate>0.25e-05</forwardRate>
<reverseRate>0</reverseRate>
<Q10>0.2</Q10>
</Reaction>
<!-- 5h3) ppppISObAR -> pppISObAR -->
<Reaction name="ppppISObAR_dephos" id="ppppISObAR_dephos">
<Reactant specieID="ppppISObAR" />
<Product specieID="pppISObAR" />
<forwardRate>0.25e-05</forwardRate>
<reverseRate>0</reverseRate>
<Q10>0.2</Q10>
</Reaction>
<!-- 5ac1) bAR + PKAc -> PKAcbAR -->
<Reaction name="bAR_phos" id="bAR_phos">
<Reactant specieID="bAR" />
<Reactant specieID="PKAc" />
<Product specieID="PKAcbAR" />
<forwardRate>0</forwardRate>
<reverseRate>0</reverseRate>
<Q10>0.2</Q10>
</Reaction>
<!-- 5ad1) PKAcbAR -> pbAR + PKAc -->
<Reaction name="pbAR_reac" id="pbAR_reac">
<Reactant specieID="PKAcbAR" />
<Product specieID="pbAR" />
<Product specieID="PKAc" />
<forwardRate>0</forwardRate>
<reverseRate>0</reverseRate>
<Q10>0.2</Q10>
</Reaction>
<!-- 5ac2) pbAR + PKAc -> PKAcpbAR -->
<Reaction name="pbAR_phos" id="pbAR_phos">
<Reactant specieID="pbAR" />
<Reactant specieID="PKAc" />
<Product specieID="PKAcpbAR" />
<forwardRate>0</forwardRate>
<reverseRate>0</reverseRate>
<Q10>0.2</Q10>
</Reaction>
<!-- 5d2) PKAcpbAR -> ppbAR + PKAc -->
<Reaction name="ppbAR_reac" id="ppbAR_reac">
<Reactant specieID="PKAcpbAR" />
<Product specieID="ppbAR" />
<Product specieID="PKAc" />
<forwardRate>0</forwardRate>
<reverseRate>0</reverseRate>
<Q10>0.2</Q10>
</Reaction>
<!-- 5ac3) ppbAR + PKAc -> PKAcppbAR -->
<Reaction name="ppbAR_phos" id="ppbAR_phos">
<Reactant specieID="ppbAR" />
<Reactant specieID="PKAc" />
<Product specieID="PKAcppbAR" />
<forwardRate>0</forwardRate>
<reverseRate>0</reverseRate>
<Q10>0.2</Q10>
</Reaction>
<!-- 5ad3) PKAcppbAR -> pppbAR + PKAc -->
<Reaction name="pppbAR_reac" id="pppbAR_reac">
<Reactant specieID="PKAcppbAR" />
<Product specieID="pppbAR" />
<Product specieID="PKAc" />
<forwardRate>0</forwardRate>
<reverseRate>0</reverseRate>
<Q10>0.2</Q10>
</Reaction>
<!-- 5ac4) pppbAR + PKAc -> PKAcpppbAR -->
<Reaction name="pppbAR_phos" id="pppbAR_phos">
<Reactant specieID="pppbAR" />
<Reactant specieID="PKAc" />
<Product specieID="PKAcpppbAR" />
<forwardRate>0</forwardRate>
<reverseRate>0</reverseRate>
<Q10>0.2</Q10>
</Reaction>
<!-- 5ad4) PKAcpppISObAR -> ppppISObAR + PKAc -->
<Reaction name="ppppbAR_reac" id="ppppbAR_reac">
<Reactant specieID="PKAcpppbAR" />
<Product specieID="ppppbAR" />
<Product specieID="PKAc" />
<forwardRate>0</forwardRate>
<reverseRate>0</reverseRate>
<Q10>0.2</Q10>
</Reaction>
<!-- 5ae) ppppbAR + Gi -> ppppbARGi -->
<Reaction name="ppppbARGi_bind" id="ppppbARGi_bind">
<Reactant specieID="ppppbAR" />
<Reactant specieID="Gi" />
<Product specieID="ppppbARGi" />
<forwardRate>0.075e-3</forwardRate>
<reverseRate>0.125e-3</reverseRate>
<Q10>0.2</Q10>
</Reaction>
<!-- 5af) ppppbARGi -> ppppbARGibg + GaiGTP -->
<Reaction name="GaiGTP_bind_r" id="GaiGTP_bind_r">
<Reactant specieID="ppppbARGi" />
<Product specieID="ppppbAR" />
<Product specieID="Gibg" />
<Product specieID="GaiGTP" />
<forwardRate>0.1e-3</forwardRate>
<reverseRate>0</reverseRate>
<Q10>0.2</Q10>
</Reaction>
<!-- 5ah1) pISObAR -> ISObAR -->
<Reaction name="pbAR_dephos" id="pbAR_dephos">
<Reactant specieID="pbAR" />
<Product specieID="bAR" />
<forwardRate>0.25e-05</forwardRate>
<reverseRate>0</reverseRate>
<Q10>0.2</Q10>
</Reaction>
<!-- 5ah2) ppISObAR -> pISObAR -->
<Reaction name="ppbAR_dephos" id="ppbAR_dephos">
<Reactant specieID="ppbAR" />
<Product specieID="pbAR" />
<forwardRate>0.25e-05</forwardRate>
<reverseRate>0</reverseRate>
<Q10>0.2</Q10>
</Reaction>
<!-- 5ah3) pppbAR -> ppbAR -->
<Reaction name="pppbAR_dephos" id="pppbAR_dephos">
<Reactant specieID="pppbAR" />
<Product specieID="ppbAR" />
<forwardRate>0.25e-05</forwardRate>
<reverseRate>0</reverseRate>
<Q10>0.2</Q10>
</Reaction>
<!-- 5ah3) ppppbAR -> pppbAR -->
<Reaction name="ppppbAR_dephos" id="ppppbAR_dephos">
<Reactant specieID="ppppbAR" />
<Product specieID="pppbAR" />
<forwardRate>0.25e-05</forwardRate>
<reverseRate>0</reverseRate>
<Q10>0.2</Q10>
</Reaction>
<!-- 6a) GasGTP -> GasGDP -->
<Reaction name="GasGTP_disso" id="GasGTP_disso">
<Reactant specieID="GasGTP" />
<Product specieID="GasGDP" />
<forwardRate>10e-3</forwardRate>
<reverseRate>0</reverseRate>
<Q10>0.2</Q10>
</Reaction>
<!-- 7a) GasGDP + Gbg -> Gs -->
<Reaction name="Gs_form" id="Gs_form">
<Reactant specieID="GasGDP" />
<Reactant specieID="Gsbg" />
<Product specieID="Gs" />
<forwardRate>100e-3</forwardRate>
<reverseRate>0</reverseRate>
<Q10>0.2</Q10>
</Reaction>
<!-- 6b) GaiGTP -> GaiGDP -->
<Reaction name="GaiGTP_disso" id="GaiGTP_disso">
<Reactant specieID="GaiGTP" />
<Product specieID="GaiGDP" />
<forwardRate>0.125e-3</forwardRate>
<reverseRate>0</reverseRate>
<Q10>0.2</Q10>
</Reaction>
<!-- 7b) GaiGDP + Gbg -> Gi -->
<Reaction name="Gi_form" id="Gi_form">
<Reactant specieID="GaiGDP" />
<Reactant specieID="Gibg" />
<Product specieID="Gi" />
<forwardRate>1.25e-3</forwardRate>
<reverseRate>0</reverseRate>
<Q10>0.2</Q10>
</Reaction>
<!--Fine, but I in future would like to compare above to Linderman who studies G proteins. Above is old from Destexhe-->
<!-- AC part:AC1 & AC8 activation through CaMCa4 -->
<!-- Add 1 more reaction(11) for AC1 bound CaMCa4 form binds Gsa-->
<!-- reaction 4, kcat adjusted by 4X faster than previous due to facilitate-->
<!-- 1a) GasGTP + AC1
<-> E(AC1GasGTP) -->
<Reaction name="GasGTP_AC1_reac" id="GasGTP_AC1_reac">
<Reactant specieID="GasGTP" />
<Reactant specieID="AC1" />
<Product specieID="AC1GasGTP" />
<forwardRate>0.0385e-3</forwardRate>
<reverseRate>10e-3</reverseRate>
<Q10>0.2</Q10>
</Reaction>
<!-- 1b) E + CaMCa4
<-> ECaM(AC1GasGTPCaMCa4) -->
<Reaction name="AC1GasGTP_CaMCa4_Reac" id="AC1GasGTP_CaMCa4_Reac">
<Reactant specieID="AC1GasGTP" />
<Reactant specieID="CaMCa4" />
<Product specieID="AC1GasGTPCaMCa4" />
<forwardRate>6.0e-6</forwardRate>
<reverseRate>0.9e-3</reverseRate>
<Q10>0.2</Q10>
</Reaction>
<!-- 1c) ECaM + ATP
<-> ECaMATP -->
<Reaction name="AC1GasGTPCaMCa4_ATP_Reac"
id="AC1GasGTPCaMCa4_ATP_Reac">
<Reactant specieID="AC1GasGTPCaMCa4" />
<Reactant specieID="ATP" />
<Product specieID="AC1GasGTPCaMCa4ATP" />
<forwardRate>0.01e-3</forwardRate>
<reverseRate>2273e-3</reverseRate>
<Q10>0.2</Q10>
</Reaction>
<!-- 1d) ECaMATP -> ECaM + cAMP -->
<Reaction name="AC1GasGTPCaMCa4ATP_diss"
id="AC1GasGTPCaMCa4ATP_diss">
<Reactant specieID="AC1GasGTPCaMCa4ATP" />
<Product specieID="cAMP" />
<Product specieID="AC1GasGTPCaMCa4" />
<forwardRate>0.02842</forwardRate>
<reverseRate>0</reverseRate>
<Q10>0.2</Q10>
</Reaction>
<!-- 2a) GaiGTP + E
<-> F(AC1GasGTPGaiGTP) -->
<Reaction name="GaiGTP_AC1GasGTP_reac" id="GaiGTP_AC1GasGTP_reac">
<Reactant specieID="GaiGTP" />
<Reactant specieID="AC1GasGTP" />
<Product specieID="AC1GasGTPGaiGTP" />
<forwardRate>0.0625e-3</forwardRate>
<reverseRate>10e-3</reverseRate>
<Q10>0.2</Q10>
</Reaction>
<!-- 2b) F + CaMCa4
<-> FCaM(AC1GasGTPGaiGTPCaMCa4) -->
<Reaction name="AC1GasGTPGaiGTP_CaMCa4_Reac"
id="AC1GasGTPGaiGTP_CaMCa4_Reac">
<Reactant specieID="AC1GasGTPGaiGTP" />
<Reactant specieID="CaMCa4" />
<Product specieID="AC1GasGTPGaiGTPCaMCa4" />
<forwardRate>0.006e-3</forwardRate>
<reverseRate>0.9e-3</reverseRate>
<Q10>0.2</Q10>
</Reaction>
<!-- 2c) FCaM + ATP
<-> FCaMATP -->
<Reaction name="AC1GasGTPGaiGTPCaMCa4_ATP_Reac"
id="AC1GasGTPGaiGTPCaMCa4_ATP_Reac">
<Reactant specieID="AC1GasGTPGaiGTPCaMCa4" />
<Reactant specieID="ATP" />
<Product specieID="AC1GsGiCaMCa4ATP" />
<forwardRate>0.01e-3</forwardRate>
<reverseRate>2273e-3</reverseRate>
<Q10>0.2</Q10>
</Reaction>
<!-- 2d) FCaMATP -> FCaM + cAMP -->
<Reaction name="AC1GsGiCaMCa4ATP_diss" id="AC1GsGiCaMCa4ATP_diss">
<Reactant specieID="AC1GsGiCaMCa4ATP" />
<Product specieID="cAMP" />
<Product specieID="AC1GasGTPGaiGTPCaMCa4" />
<forwardRate>2.842e-3</forwardRate>
<reverseRate>0</reverseRate>
<Q10>0.2</Q10>
</Reaction>
<!-- 3a) GaiGTP + AC1CaM4
<-> GCaM(AC1CaMCa4GaiGTP) -->
<Reaction name="GaiGTP_AC1CaMCa4_reac" id="GaiGTP_AC1CaMCa4_reac">
<Reactant specieID="GaiGTP" />
<Reactant specieID="AC1CaMCa4" />
<Product specieID="AC1GaiGTPCaMCa4" />
<forwardRate>0.0625e-3</forwardRate>
<reverseRate>10e-3</reverseRate>
<Q10>0.2</Q10>
</Reaction>
<!-- 3b) G + CaMCa4
<-> GCaM(AC1GaiGTPCaMCa4) -->
<!-- 3c) GCaM + ATP
<-> GCaMATP -->
<Reaction name="AC1GaiGTPCaMCa4_ATP_Reac"
id="AC1GaiGTPCaMCa4_ATP_Reac">
<Reactant specieID="AC1GaiGTPCaMCa4" />
<Reactant specieID="ATP" />
<Product specieID="AC1GaiGTPCaMCa4ATP" />
<forwardRate>0.01e-3</forwardRate>
<reverseRate>2273e-3</reverseRate>
<Q10>0.2</Q10>
</Reaction>
<!-- 3d) GCaMATP -> GCaM + cAMP -->
<Reaction name="AC1GaiGTPCaMCa4ATP_diss"
id="AC1GaiGTPCaMCa4ATP_diss">
<Reactant specieID="AC1GaiGTPCaMCa4ATP" />
<Product specieID="cAMP" />
<Product specieID="AC1GaiGTPCaMCa4" />
<forwardRate>0.5684e-3</forwardRate>
<reverseRate>0</reverseRate>
<Q10>0.2</Q10>
</Reaction>
<!-- 5) AC1 + CaMCa4
<-> AC1CaM -->
<Reaction name="AC1CaMCa4_Reac" id="AC1CaMCa4_Reac">
<Reactant specieID="AC1" />
<Reactant specieID="CaMCa4" />
<Product specieID="AC1CaMCa4" />
<forwardRate>0.006e-3</forwardRate>
<reverseRate>0.9e-3</reverseRate>
<Q10>0.2</Q10>
</Reaction>
<!-- 6) AC1CaM + ATP
<-> AC1CaMATP -->
<Reaction name="AC1CaMCa4ATP_bind" id="AC1CaMCa4ATP_bind">
<Reactant specieID="AC1CaMCa4" />
<Reactant specieID="ATP" />
<Product specieID="AC1CaMCa4ATP" />
<forwardRate>0.01e-3</forwardRate>
<reverseRate>2273e-3</reverseRate>
<Q10>0.2</Q10>
</Reaction>
<!-- 7) AC1CaMATP -> AC1CaM +cAMP -->
<Reaction name="AC1CaMCa4ATP_disso" id="AC1CaMCa4ATP_disso">
<Reactant specieID="AC1CaMCa4ATP" />
<Product specieID="cAMP" />
<Product specieID="AC1CaMCa4" />
<forwardRate>5.684e-3</forwardRate>
<reverseRate>0</reverseRate>
<Q10>0.2</Q10>
</Reaction>
<!-- 6a) G + GasGTP
<-> F(AC1GasGTPGaiGTP) -->
<Reaction name="AC1GaiGTP_GasGTP_Reac" id="AC1GaiGTP_GasGTP_Reac">
<Reactant specieID="AC1GaiGTP" />
<Reactant specieID="GasGTP" />
<Product specieID="AC1GasGTPGaiGTP" />
<forwardRate>0.0000625</forwardRate>
<reverseRate>10e-3</reverseRate>
<Q10>0.2</Q10>
</Reaction>
<!--AC1 is fine - thermodynamically balanced. But what is source for affinity to ATP? 2273 is very large backward rate;large Kb prevents large E-S intermidiate complex, Kd(cAMP)=2.3(+-)0.8 mM, low affinity -->
<!-- 8) AC8 + CaMCa4
<-> AC8CaM -->
<Reaction name="AC8_CaMCa4_bind" id="AC8_CaMCa4_bind">
<Reactant specieID="AC8" />
<Reactant specieID="CaMCa4" />
<Product specieID="AC8CaMCa4" />
<forwardRate>0.00125e-3</forwardRate>
<reverseRate>1e-3</reverseRate>
<Q10>0.2</Q10>
</Reaction>
<!-- 9) AC8CaM + ATP
<-> AC8CaMATP -->
<Reaction name="AC8CaMCa4_ATP_bind" id="AC8CaMCa4_ATP_bind">
<Reactant specieID="AC8CaMCa4" />
<Reactant specieID="ATP" />
<Product specieID="AC8CaMCa4ATP" />
<forwardRate>0.01e-3</forwardRate>
<reverseRate>2273e-3</reverseRate>
<Q10>0.2</Q10>
</Reaction>
<!-- 10) AC8CaMATP -> AC8CaM + cAMP -->
<Reaction name="AC8CaMCa4ATP_disso" id="AC8CaMCa4ATP_disso">
<Reactant specieID="AC8CaMCa4ATP" />
<Product specieID="cAMP" />
<Product specieID="AC8CaMCa4" />
<forwardRate>2.842e-3</forwardRate>
<reverseRate>0</reverseRate>
<Q10>0.2</Q10>
</Reaction>
<!-- CaM, CaMCa4 and PP2B Binding -->
<!--1) CaM + 2Ca
<-> CaMCa2 -->
<!--This is the C site-->
<Reaction name="CaM_bind" id="CaM_bind">
<Reactant specieID="CaM" />
<Reactant specieID="Ca" n="2" />
<Product specieID="CaMCa2" />
<forwardRate>6e-6</forwardRate>
<reverseRate>9.1e-3</reverseRate>
<Q10>0.2</Q10>
</Reaction>
<!--2) CaMCa2 + 2Ca
<-> CaMCa4 -->
<!--This is the N-site-->
<Reaction name="CaMCa2_bind" id="CaMCa2_bind">
<Reactant specieID="CaMCa2" />
<Reactant specieID="Ca" n="2" />
<Product specieID="CaMCa4" />
<forwardRate>0.1e-3</forwardRate>
<reverseRate>1000e-3</reverseRate>
<Q10>0.2</Q10>
</Reaction>
<!-- Kubota, Putkey, Waxham, 2007, Biophys J, 92:3848-3859, constants
k5 and k_5-->
<!--2a) CaM + Ng
<-> NgCaM -->
<!--I step of the Neurogranin -->
<Reaction name="NgCaM_bind" id="NgCaM_bind">
<Reactant specieID="CaM" />
<Reactant specieID="Ng" />
<Product specieID="NgCaM" />
<forwardRate>28.e-6</forwardRate>
<reverseRate>36.e-3</reverseRate>
<Q10>0.2</Q10>
</Reaction>
<!--3) CaM + PP2B
<-> PP2CaM -->
<Reaction name="PP2_bind" id="PP2_bind">
<Reactant specieID="CaM" />
<Reactant specieID="PP2B" />