ModelDB is moving. Check out our new site at The corresponding page is

Compartmental differences in cAMP signaling pathways in hippocam. CA1 pyr. cells (Luczak et al 2017)

 Download zip file 
Help downloading and running models
Model of cAMP signaling pathways in hippocampal CA1 pyramidal neurons investigate mechanisms underlying the experimentally observed difference in cAMP and PKA FRET between proximal and distal dendrites. Simulations show that compartmental difference in PKA activity required enrichment of protein phosphatase in small compartments; neither reduced PKA subunits nor increased PKA substrates were sufficient.
1 . Luczak V, Blackwell KT, Abel T, Girault JA, Gervasi N (2017) Dendritic diameter influences the rate and magnitude of hippocampal cAMP and PKA transients during ß-adrenergic receptor activation. Neurobiol Learn Mem 138:10-20 [PubMed]
Model Information (Click on a link to find other models with that property)
Model Type: Molecular Network;
Brain Region(s)/Organism: Hippocampus; Mouse;
Cell Type(s): Hippocampus CA1 pyramidal GLU cell;
Gap Junctions:
Receptor(s): Adrenergic;
Transmitter(s): Norephinephrine;
Simulation Environment:
Model Concept(s): G-protein coupled; Influence of Dendritic Geometry; Reaction-diffusion;
Implementer(s): Blackwell, Avrama [avrama at];
Search NeuronDB for information about:  Hippocampus CA1 pyramidal GLU cell; Adrenergic; Norephinephrine;

<OutputSet filename ="dt100" dt="100">

  <OutputSpecie name="Ca"/>
  <OutputSpecie name="CalbinC"/> 
  <OutputSpecie name="Calbin"/>
  <OutputSpecie name="Cam"/>
  <OutputSpecie name="CamCa2C"/>
  <OutputSpecie name="CamCa2N"/>
  <OutputSpecie name="CamCa4"/>
  <OutputSpecie       name="Epac1"     />
  <OutputSpecie       name="Epac1cAMP"     />
  <OutputSpecie       name="cAMP"        />
  <OutputSpecie       name="AMP"        />

        <OutputSpecie       name="L"           />
        <OutputSpecie       name="R"           />
        <OutputSpecie       name="Gs"           />
        <OutputSpecie       name="GsR"           />
        <OutputSpecie       name="LR"          />
        <OutputSpecie       name="LRGs"         />
        <OutputSpecie       name="PKAcLRGs"         />
        <OutputSpecie       name="pLRGs"         />
        <OutputSpecie       name="GasGTP"       />
        <OutputSpecie       name="GasGDP"       />
        <OutputSpecie       name="Gbg"       />

        <OutputSpecie       name="AC1"         />
        <OutputSpecie       name="AC1GasGTP"    />
        <OutputSpecie       name="AC1GasCamCa4"        />
        <OutputSpecie       name="AC1GasCamCa4ATP"     />
        <OutputSpecie       name="AC1CamCa4"      />
        <OutputSpecie       name="AC1CamCa4ATP"   />

	<OutputSpecie       name="AC5"/>
	<OutputSpecie       name="AC5Gas"/>
	<OutputSpecie       name="AC5GasATP"/>

	<OutputSpecie       name="PKA"         />
        <OutputSpecie       name="PKAcAMP2"    />
        <OutputSpecie       name="PKAcAMP4"    />
        <OutputSpecie       name="PKAr"        />
        <OutputSpecie       name="PKAc"        />

        <OutputSpecie       name="PDE4"  />
        <OutputSpecie       name="PDE4cAMP"  />
        <OutputSpecie       name="PKAcPDE4"  />
        <OutputSpecie       name="pPDE4"  />
        <OutputSpecie       name="pPDE4cAMP" />

    <OutputSpecie name="PP2B"/>
    <OutputSpecie name="PP2BCam"/>
    <OutputSpecie name="PP2BCamCa2C"/>
    <OutputSpecie name="PP2BCamCa2N"/>
    <OutputSpecie name="PP2BCamCa4"/>


	Each file will have a set of concentrations in compartments sampled according to the specified dt.

	Every <OutputSet> block must have in its definition one (and only one) instance of:
	 * filename
	And might have one (and only one) instance of:
	 * region or
	 * dt
	If "region" is omitted, then the conc's for the whole system will be saved.
	If "dt" is omitted, then the conc's will be written at each time step.

	So the "IO file" will be dependent on information stated in both the "Morph" (regions) and "Model" (dt) files.


Loading data, please wait...