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Figure 5 | BMC Systems Biology

Figure 5

From: Agent-based simulation of reactions in the crowded and structured intracellular environment: Influence of mobility and location of the reactants

Figure 5

Inaccessible volume fraction. The restricted volume close to all structures in the cell reduces the interaction volume (green) for the reaction. In order to estimate the effect of the reduced interaction volume on the reaction rate, the fraction of the accessible reaction volume has to be averaged over all possible molecule positions in the given cell. In the complex environment of the given random intracellular architecture the calculation of the corresponding f access-factor is only possible with a Monte-Carlo sampling method, averaging the accessible (green) volume fraction of the interaction volume of all possible molecular positions in the cell.

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