- Author:
- Shelley Fong <s.fong@auckland.ac.nz>
- Date:
- 2021-05-31 18:20:34+12:00
- Desc:
- increased guess of forward kinetic rate constant in all reactions
- Permanent Source URI:
- https://staging.physiomeproject.org/workspace/674/rawfile/b22d4b553a41f8ed56c3e4a790af928d6bbe8213/saucerman_cAMP.cellml
<?xml version='1.0' encoding='UTF-8'?>
<model cmeta:id="saucerman_brunton_michailova_mcculloch_2003" name="saucerman_brunton_michailova_mcculloch_2003" xmlns="http://www.cellml.org/cellml/1.0#" xmlns:cellml="http://www.cellml.org/cellml/1.0#" xmlns:cmeta="http://www.cellml.org/metadata/1.0#">
<units name="millisecond">
<unit prefix="milli" units="second"/>
</units>
<units name="uM">
<unit prefix="micro" units="mole"/>
<unit exponent="-1.0" units="liter"/>
</units>
<units name="per_sec">
<unit exponent="-1.0" units="second"/>
</units>
<units name="uL">
<unit prefix="micro" units="liter"/>
</units>
<units name="uM_per_sec">
<unit exponent="-1.0" units="second"/>
<unit units="uM"/>
</units>
<units name="cm_per_sec">
<unit prefix="centi" units="meter"/>
<unit exponent="-1.0" units="second"/>
</units>
<units name="mM_per_sec">
<unit units="mM"/>
<unit exponent="-1.0" units="second"/>
</units>
<units name="mM">
<unit prefix="milli" units="mole"/>
<unit exponent="-1.0" units="liter"/>
</units>
<component name="environment">
<variable cmeta:id="environment.time" name="time" public_interface="out" units="second"/>
</component>
<component name="cAMP_parameters">
<variable cmeta:id="cAMP_parameters.AC_tot" initial_value="49.7e-3" name="AC_tot" public_interface="out" units="uM"/>
<variable cmeta:id="cAMP_parameters.ATP" initial_value="5e3" name="ATP" public_interface="out" units="uM"/>
<variable cmeta:id="cAMP_parameters.PDE_tot" initial_value="39e-3" name="PDE_tot" public_interface="out" units="uM"/>
<variable cmeta:id="cAMP_parameters.IBMX_tot" initial_value="1" name="IBMX_tot" public_interface="out" units="uM"/>
<variable cmeta:id="cAMP_parameters.Fsk_tot" initial_value="0" name="Fsk_tot" public_interface="out" units="uM"/>
<variable cmeta:id="cAMP_parameters.k_ac_basal" initial_value="0.2" name="k_ac_basal" public_interface="out" units="per_sec"/>
<variable cmeta:id="cAMP_parameters.k_ac_gsa" initial_value="8.5" name="k_ac_gsa" public_interface="out" units="per_sec"/>
<variable cmeta:id="cAMP_parameters.k_ac_fsk" initial_value="0" name="k_ac_fsk" public_interface="out" units="per_sec"/>
<variable cmeta:id="cAMP_parameters.k_pde" initial_value="5" name="k_pde" public_interface="out" units="per_sec"/>
<variable cmeta:id="cAMP_parameters.Km_basal" initial_value="1.03e3" name="Km_basal" public_interface="out" units="uM"/>
<variable cmeta:id="cAMP_parameters.Km_gsa" initial_value="315" name="Km_gsa" public_interface="out" units="uM"/>
<variable cmeta:id="cAMP_parameters.Km_fsk" initial_value="860" name="Km_fsk" public_interface="out" units="uM"/>
<variable cmeta:id="cAMP_parameters.Km_pde" initial_value="1.3" name="Km_pde" public_interface="out" units="uM"/>
<variable cmeta:id="cAMP_parameters.K_gsa" initial_value="0.4" name="K_gsa" public_interface="out" units="uM"/>
<variable cmeta:id="cAMP_parameters.K_fsk" initial_value="44" name="K_fsk" public_interface="out" units="uM"/>
<variable cmeta:id="cAMP_parameters.Ki_ibmx" initial_value="30" name="Ki_ibmx" public_interface="out" units="uM"/>
</component>
<component name="cAMP_module">
<variable cmeta:id="cAMP_module.time" name="time" public_interface="in" units="second"/>
<variable cmeta:id="cAMP_module.AC_tot" name="AC_tot" public_interface="in" units="uM"/>
<variable cmeta:id="cAMP_module.ATP" name="ATP" public_interface="in" units="uM"/>
<variable cmeta:id="cAMP_module.PDE_tot" name="PDE_tot" public_interface="in" units="uM"/>
<variable cmeta:id="cAMP_module.IBMX_tot" name="IBMX_tot" public_interface="in" units="uM"/>
<variable cmeta:id="cAMP_module.Fsk_tot" name="Fsk_tot" public_interface="in" units="uM"/>
<variable cmeta:id="cAMP_module.k_ac_basal" name="k_ac_basal" public_interface="in" units="per_sec"/>
<variable cmeta:id="cAMP_module.k_ac_gsa" name="k_ac_gsa" public_interface="in" units="per_sec"/>
<variable cmeta:id="cAMP_module.k_ac_fsk" name="k_ac_fsk" public_interface="in" units="per_sec"/>
<variable cmeta:id="cAMP_module.k_pde" name="k_pde" public_interface="in" units="per_sec"/>
<variable cmeta:id="cAMP_module.Km_basal" name="Km_basal" public_interface="in" units="uM"/>
<variable cmeta:id="cAMP_module.Km_gsa" name="Km_gsa" public_interface="in" units="uM"/>
<variable cmeta:id="cAMP_module.Km_fsk" name="Km_fsk" public_interface="in" units="uM"/>
<variable cmeta:id="cAMP_module.Km_pde" name="Km_pde" public_interface="in" units="uM"/>
<variable cmeta:id="cAMP_module.K_gsa" name="K_gsa" public_interface="in" units="uM"/>
<variable cmeta:id="cAMP_module.K_fsk" name="K_fsk" public_interface="in" units="uM"/>
<variable cmeta:id="cAMP_module.Ki_ibmx" name="Ki_ibmx" public_interface="in" units="uM"/>
<variable cmeta:id="cAMP_module.cAMP" initial_value="0.8453" name="cAMP" units="uM"/>
<variable cmeta:id="Gsa_GTP" name="Gsa_GTP" units="uM"/>
<variable cmeta:id="FSK" name="Fsk" units="uM"/>
<variable cmeta:id="AC" name="AC" units="uM"/>
<variable cmeta:id="PDE" name="PDE" units="uM"/>
<variable cmeta:id="IBMX" name="IBMX" units="uM"/>
<variable cmeta:id="Gsa_GTP_AC" name="Gsa_GTP_AC" units="uM"/>
<variable cmeta:id="Fsk_AC" name="Fsk_AC" units="uM"/>
<variable cmeta:id="AC_ACT_GSA" name="AC_ACT_GSA" units="uM_per_sec"/>
<variable cmeta:id="AC_ACT_BASAL" name="AC_ACT_BASAL" units="uM_per_sec"/>
<variable cmeta:id="AC_ACT_FSK" name="AC_ACT_FSK" units="uM_per_sec"/>
<variable cmeta:id="PDE_ACT" name="PDE_ACT" units="uM_per_sec"/>
<variable cmeta:id="cAMP_module.PDE_IBMX" name="PDE_IBMX" units="uM"/>
<variable cmeta:id="cAMP_module.Gs_agtp_tot" initial_value="0.02505" name="Gs_agtp_tot" units="uM"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<ci>Gsa_GTP_AC</ci>
<apply>
<divide/>
<apply>
<times/>
<ci>Gsa_GTP</ci>
<ci>AC</ci>
</apply>
<ci>K_gsa</ci>
</apply>
</apply>
<apply>
<eq/>
<ci>Fsk_AC</ci>
<apply>
<divide/>
<apply>
<times/>
<ci>Fsk</ci>
<ci>AC</ci>
</apply>
<ci>K_fsk</ci>
</apply>
</apply>
<apply>
<eq/>
<ci>AC_ACT_BASAL</ci>
<apply>
<divide/>
<apply>
<times/>
<ci>k_ac_basal</ci>
<ci>AC</ci>
<ci>ATP</ci>
</apply>
<apply>
<plus/>
<ci>Km_basal</ci>
<ci>ATP</ci>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>AC_ACT_GSA</ci>
<apply>
<divide/>
<apply>
<times/>
<ci>k_ac_gsa</ci>
<ci>Gsa_GTP_AC</ci>
<ci>ATP</ci>
</apply>
<apply>
<plus/>
<ci>Km_gsa</ci>
<ci>ATP</ci>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>AC_ACT_FSK</ci>
<apply>
<divide/>
<apply>
<times/>
<ci>k_ac_fsk</ci>
<ci>Fsk_AC</ci>
<ci>ATP</ci>
</apply>
<apply>
<plus/>
<ci>Km_fsk</ci>
<ci>ATP</ci>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>PDE_ACT</ci>
<apply>
<divide/>
<apply>
<times/>
<ci>k_pde</ci>
<ci>PDE</ci>
<ci>cAMP</ci>
</apply>
<apply>
<plus/>
<ci>Km_pde</ci>
<ci>cAMP</ci>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>PDE_IBMX</ci>
<apply>
<divide/>
<apply>
<times/>
<ci>PDE</ci>
<ci>IBMX</ci>
</apply>
<ci>Ki_ibmx</ci>
</apply>
</apply>
<apply>
<eq/>
<ci>Gsa_GTP</ci>
<apply>
<minus/>
<ci>Gs_agtp_tot</ci>
<ci>Gsa_GTP_AC</ci>
</apply>
</apply>
<apply>
<eq/>
<ci>Fsk</ci>
<apply>
<minus/>
<ci>Fsk_tot</ci>
<ci>Fsk_AC</ci>
</apply>
</apply>
<apply>
<eq/>
<ci>AC</ci>
<apply>
<minus/>
<ci>AC_tot</ci>
<ci>Gsa_GTP_AC</ci>
</apply>
</apply>
<apply>
<eq/>
<ci>PDE</ci>
<apply>
<minus/>
<ci>PDE_tot</ci>
<ci>PDE_IBMX</ci>
</apply>
</apply>
<apply>
<eq/>
<ci>IBMX</ci>
<apply>
<minus/>
<ci>IBMX_tot</ci>
<ci>PDE_IBMX</ci>
</apply>
</apply>
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci>cAMP</ci>
</apply>
<apply>
<plus/>
<apply>
<minus/>
<apply>
<plus/>
<ci>AC_ACT_BASAL</ci>
<ci>AC_ACT_GSA</ci>
</apply>
<ci>PDE_ACT</ci>
</apply>
<ci>AC_ACT_FSK</ci>
</apply>
</apply>
</math>
</component>
<connection>
<map_components component_1="cAMP_parameters" component_2="cAMP_module"/>
<map_variables variable_1="Km_fsk" variable_2="Km_fsk"/>
<map_variables variable_1="k_pde" variable_2="k_pde"/>
<map_variables variable_1="Km_basal" variable_2="Km_basal"/>
<map_variables variable_1="ATP" variable_2="ATP"/>
<map_variables variable_1="Km_gsa" variable_2="Km_gsa"/>
<map_variables variable_1="K_fsk" variable_2="K_fsk"/>
<map_variables variable_1="PDE_tot" variable_2="PDE_tot"/>
<map_variables variable_1="IBMX_tot" variable_2="IBMX_tot"/>
<map_variables variable_1="k_ac_fsk" variable_2="k_ac_fsk"/>
<map_variables variable_1="K_gsa" variable_2="K_gsa"/>
<map_variables variable_1="Km_pde" variable_2="Km_pde"/>
<map_variables variable_1="Ki_ibmx" variable_2="Ki_ibmx"/>
<map_variables variable_1="Fsk_tot" variable_2="Fsk_tot"/>
<map_variables variable_1="k_ac_basal" variable_2="k_ac_basal"/>
<map_variables variable_1="k_ac_gsa" variable_2="k_ac_gsa"/>
<map_variables variable_1="AC_tot" variable_2="AC_tot"/>
</connection>
<connection>
<map_components component_1="environment" component_2="cAMP_module"/>
<map_variables variable_1="time" variable_2="time"/>
</connection>
</model>
