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. 2014 Dec 18;4:7549. doi: 10.1038/srep07549

Figure 3. Dynamics of toyLIFE.

Figure 3

Input molecules at time step t are toyProteins (Ps) (including toyDimers (Ds)) and toyMetabolites, either produced as output at time step t − 1 or environmentally supplied (all toyMetabolites denoted Ms). Ps and Ds interact with Ms to produce complexes P-M and D-M. Next, these complexes, the remaining Ps and Ds, and the toyPolymerase (Pol) interact with toyGenes (G) at the regulation phase. The most stable complexes with promoters are formed (Pol-G, P-G and D-G), activating or inhibiting toyGenes. P-Ms and D-Ms do not participate in regulation. Ps and Ds not in complexes are eliminated and new Ps (dark grey) are formed. These Ps interact with all molecules present and form Ds, new P-M and D-M complexes, and catabolise old D-M complexes. At the end of this phase, all Ms not bound to Ps or Ds are returned to the environment, and all Ps and Ds in P-M and D-M complexes unbind and are degraded. The remaining molecules (Ms just released from complexes, as well as all free Ps and Ds) go to the input set of time step t + 1.