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From 2013.igem.org

<?xml version="1.0" encoding="ISO-8859-1"?>

<sim>

<yscale>1300</yscale>

<volume>0.7</volume> <timestep>0.0001</timestep> <alpha>7.4e-7</alpha>

<molecule name="FNR" quantity="1000" adjustable="true"/> <molecule name="O2" const="true" adjustable="true" quantity="5000"/> <molecule name="FNR_ox" adjustable="true"/> <molecule name="Pfnr_activator" quantity="1" adjustable="true"/> <molecule name="Pfnr_activator_bond" adjustable="true"/> <molecule name="GP" curve_show="true" curve_color="#00AA00" adjustable="true"/> <molecule name="Pfnr_repressor" quantity="1" adjustable="true"/> <molecule name="Pfnr_repressor_bond" adjustable="true"/> <molecule name="BP" curve_show="true" curve_color="#0000FF" adjustable="true"/>

<reaction probability="0.1">

<in>FNR</in>
<in>O2</in>
<out>FNR_ox</out>

</reaction> <reaction probability="0.001">

<in>FNR_ox</in>
<out>O2</out>
<out>FNR</out>

</reaction>

<reaction probability="0.1">

<in>FNR</in>
<in>Pfnr_activator</in>
<out>Pfnr_activator_bond</out>

</reaction> <reaction probability="0.001">

<in>Pfnr_activator_bond</in>
<out>Pfnr_activator</out>
<out>FNR</out>

</reaction> <reaction probability="0.1">

<in>Pfnr_activator_bond</in>
<out>Pfnr_activator_bond</out>
<out>GP</out>

</reaction>

<reaction probability="0.05">

<in>FNR</in>
<in>Pfnr_repressor</in>
<out>Pfnr_repressor_bond</out>

</reaction> <reaction probability="0.05">

<in>Pfnr_repressor_bond</in>
<out>Pfnr_repressor</out>
<out>FNR</out>

</reaction> <reaction probability="0.05">

<in>Pfnr_repressor</in>
<out>Pfnr_repressor</out>
<out>BP</out>

</reaction>

<-- Reporter degradation --> <reaction probability="0.05">

<in>GP</in>

</reaction>

</sim>