/usr/share/cain/examples/sbml/WilkinsonSMfSB/ch07-mm-stoch.xml is in cain-examples 1.10+dfsg-1.
This file is owned by root:root, with mode 0o644.
The actual contents of the file can be viewed below.
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 | <?xml version="1.0" encoding="UTF-8"?>
<sbml xmlns="http://www.sbml.org/sbml/level2" level="2" version="1">
<model id="MMKineticsStoch" name="Michaelis-Menten Kinetics (stochastic)">
<listOfUnitDefinitions>
<unitDefinition id="substance">
<listOfUnits>
<unit kind="item" multiplier="1" offset="0"/>
</listOfUnits>
</unitDefinition>
</listOfUnitDefinitions>
<listOfCompartments>
<compartment id="Cell" size="1e-15"/>
</listOfCompartments>
<listOfSpecies>
<species id="S" compartment="Cell" initialAmount="301" hasOnlySubstanceUnits="true"/>
<species id="E" compartment="Cell" initialAmount="120" hasOnlySubstanceUnits="true"/>
<species id="SE" compartment="Cell" initialAmount="0" hasOnlySubstanceUnits="true"/>
<species id="P" compartment="Cell" initialAmount="0" hasOnlySubstanceUnits="true"/>
</listOfSpecies>
<listOfReactions>
<reaction id="Binding" reversible="false">
<listOfReactants>
<speciesReference species="S"/>
<speciesReference species="E"/>
</listOfReactants>
<listOfProducts>
<speciesReference species="SE"/>
</listOfProducts>
<kineticLaw>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<times/>
<ci> c1 </ci>
<ci> S </ci>
<ci> E </ci>
</apply>
</math>
<listOfParameters>
<parameter id="c1" value="0.00166"/>
</listOfParameters>
</kineticLaw>
</reaction>
<reaction id="Dissociation" reversible="false">
<listOfReactants>
<speciesReference species="SE"/>
</listOfReactants>
<listOfProducts>
<speciesReference species="S"/>
<speciesReference species="E"/>
</listOfProducts>
<kineticLaw>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<times/>
<ci> c2 </ci>
<ci> SE </ci>
</apply>
</math>
<listOfParameters>
<parameter id="c2" value="0.0001"/>
</listOfParameters>
</kineticLaw>
</reaction>
<reaction id="Conversion" reversible="false">
<listOfReactants>
<speciesReference species="SE"/>
</listOfReactants>
<listOfProducts>
<speciesReference species="P"/>
<speciesReference species="E"/>
</listOfProducts>
<kineticLaw>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<times/>
<ci> c3 </ci>
<ci> SE </ci>
</apply>
</math>
<listOfParameters>
<parameter id="c3" value="0.1"/>
</listOfParameters>
</kineticLaw>
</reaction>
</listOfReactions>
</model>
</sbml>
|