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<h1>Introduction</h1> | <h1>Introduction</h1> | ||
<h6>To predict the designed system, iGEM TU Eindhoven developed a model to simulate the designed protein scaffold and its binding partner. The challenge is that there are many options of end products, making it impossible to apply an ordinary ODE-solver with differential equations. There are two approaches that we will introduce. The first is a simulation that we developed ourselves and that visualizes the system in a 2D simulation box.The second approach uses an already developed rule-based-model, which we adapted to our system.<br/> | <h6>To predict the designed system, iGEM TU Eindhoven developed a model to simulate the designed protein scaffold and its binding partner. The challenge is that there are many options of end products, making it impossible to apply an ordinary ODE-solver with differential equations. There are two approaches that we will introduce. The first is a simulation that we developed ourselves and that visualizes the system in a 2D simulation box.The second approach uses an already developed rule-based-model, which we adapted to our system.<br/> | ||
− | To get a more detailed description, go to the model page of <a href="https://2017.igem.org/Team:TU-Eindhoven/Model/2D_Simulation"> | + | To get a more detailed description, go to the model page of <a href="https://2017.igem.org/Team:TU-Eindhoven/Model/2D_Simulation">"Simulation in 2D"</a> and <a href="https://2017.igem.org/Team:TU-Eindhoven/Model/Rule_based_model">“Rule based model”</a>, or continue with reading to get a short overview of the molecules that are simulated with the models. <br/> <br/> |
The system that was already introduced in the project description looks a lot like in the figure below. The Scaffold Construct represents the three functional 14-3-3 monomers. We also described that the Scaffold construct would be a tetramer, but because we mutated the last pocket, the pocket has no function and could be left out of the model. At each functional pockets, an inducer can bind and facilitates the binding of the Binding Partner.<br/> | The system that was already introduced in the project description looks a lot like in the figure below. The Scaffold Construct represents the three functional 14-3-3 monomers. We also described that the Scaffold construct would be a tetramer, but because we mutated the last pocket, the pocket has no function and could be left out of the model. At each functional pockets, an inducer can bind and facilitates the binding of the Binding Partner.<br/> |
Revision as of 17:57, 1 November 2017