"

From 2013.igem.org

Revision as of 16:15, 8 September 2013 (view source) Damip (Talk | contribs) ← Older edit		Revision as of 16:16, 8 September 2013 (view source) Damip (Talk | contribs) Newer edit →
Line 35:		Line 35:
	<!-- Activating promoter bonding -->		<!-- Activating promoter bonding -->
-	<reaction probability="0.1">	+	<reaction probability="0.2">
	<in>FNR</in>		<in>FNR</in>
	<in>Pfnr_activator</in>		<in>Pfnr_activator</in>
Line 41:		Line 41:
	</reaction>		</reaction>
	<!-- Activating promoter unbonding -->		<!-- Activating promoter unbonding -->
-	<reaction probability="0.001">	+	<reaction probability="0.005">
	<in>Pfnr_activator_bond</in>		<in>Pfnr_activator_bond</in>
	<out>Pfnr_activator</out>		<out>Pfnr_activator</out>
Line 47:		Line 47:
	</reaction>		</reaction>
	<!-- Green reporter protein production -->		<!-- Green reporter protein production -->
-	<reaction probability="0.1">	+	<reaction probability="0.01">
	<in>Pfnr_activator_bond</in>		<in>Pfnr_activator_bond</in>
	<out>Pfnr_activator_bond</out>		<out>Pfnr_activator_bond</out>
Line 55:		Line 55:
	<!-- Repressor bonding -->		<!-- Repressor bonding -->
-	<reaction probability="0.05">	+	<reaction probability="0.2">
	<in>FNR</in>		<in>FNR</in>
	<in>Pfnr_repressor</in>		<in>Pfnr_repressor</in>
Line 61:		Line 61:
	</reaction>		</reaction>
	<!-- Repressor unbonding -->		<!-- Repressor unbonding -->
-	<reaction probability="0.05">	+	<reaction probability="0.005">
	<in>Pfnr_repressor_bond</in>		<in>Pfnr_repressor_bond</in>
	<out>Pfnr_repressor</out>		<out>Pfnr_repressor</out>
Line 67:		Line 67:
	</reaction>		</reaction>
	<!-- Blue reporter protein production -->		<!-- Blue reporter protein production -->
-	<reaction probability="0.05">	+	<reaction probability="0.001">
	<in>Pfnr_repressor</in>		<in>Pfnr_repressor</in>
	<out>Pfnr_repressor</out>		<out>Pfnr_repressor</out>

---

Revision as of 16:16, 8 September 2013

<?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="0.2">

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

</reaction> <reaction probability="0.005">

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

</reaction> <reaction probability="0.01">

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

</reaction>

<reaction probability="0.2">

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

</reaction> <reaction probability="0.005">

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

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

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

</reaction>

<reaction probability="0.0001">

<in>GP</in>

</reaction> <reaction probability="0.0001">

<in>BP</in>

</reaction>

</sim>