Team:EPF-Lausanne/Implementation

From 2009.igem.org

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We start from .pdb, .psf, .rtf generated in the previous section. Complete process is on a separate page [[Team:EPF-Lausanne/Modeling/RunSimulation|How to run a simulation]].
We start from .pdb, .psf, .rtf generated in the previous section. Complete process is on a separate page [[Team:EPF-Lausanne/Modeling/RunSimulation|How to run a simulation]].
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<html>
 
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<title>liste déroulante dynamique</title>
 
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<head>
 
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<script language="Javascript" type="text/javascript" >
 
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function choix(formulaire)
 
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{
 
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var j;
 
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var i = formulaire.boite1.selectedIndex;
 
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if (i == 0)
 
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for(j = 1; j <3; j++)
 
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formulaire.boite2.options[j].text="Non!!";
 
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else{
 
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switch (i){
 
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case 1 : var text = new Array( "Marseille","PSG","Monaco");
 
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break;
 
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case 2 : var text = new Array("Toulouse","Agen","Paris");
 
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break;
 
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case 3 : var text = new Array("Dijon","Pau","Gravelines");
 
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break;
 
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}
 
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for(j = 0; j<3; j++)
 
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formulaire.boite2.options[j+1].text=text[j];
 
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}
 
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formulaire.boite2.selectedIndex=0;
 
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}
 
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</script>
 
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</head>
 
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<body>
 
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<form name="formulaire">
 
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<select name="boite1" onChange="choix(this.form)">
 
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<option selected>...........Choisissez une rubrique...........</option>
 
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<option>How to run simulation</option>
 
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<option>rugby</option>
 
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<option>basket</option>
 
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</select>
 
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<select name="boite2">
 
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<option selected>...........Choisissez une rubrique...........</option>
 
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<option></option>
 
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<option></option>
 
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<option></option>
 
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</form>
 
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</select>
 
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</body>
 
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</html>
 
</div><div CLASS="epfl09bouchon"></div>
</div><div CLASS="epfl09bouchon"></div>

Revision as of 09:09, 28 July 2009



Contents

Implementation of the simulation



LOV domains are the light-sensitive portion of phototropins. They absorb light through a flavin cofactor, photo-chemicaly form a covalent bond between the chromophore and a cysteine residue in the protein, and proceed to mediate activation of an attached kinase domain.

Generating input files

First we need a compatible .pdb in addition to parameter and topology files. Steps to generate all the input files are explained in detail on this page How to generate input files. This is a kind of summary of the tuto.

.conf parameters

We should explain here what are the keywords we use in the .conf.

Run a complete simulation

We start from .pdb, .psf, .rtf generated in the previous section. Complete process is on a separate page How to run a simulation.


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