< Back to Article

Modeling the Effect of APC Truncation on Destruction Complex Function in Colorectal Cancer Cells

Figure 2

Site-specific details of the proteins and interactions considered in the model.

Proteins, interactions, and the functional components that mediate interactions are represented according to the conventions of Chylek et al. [42]. The numbering of arrows is the same as in Fig. 1. The double-arrowed lines represent reversible binding interactions. The lines ending with an open circle represent enzyme-substrate relationships and point to sites of phosphorylation. In the model, sites Ser-33, Ser-37, and Thr-41, which are substrates, are lumped together as a single site labeled S33/37. site Ser-45, which is a substrate, is labeled S45. In the model, the seven 20-aa repeats of APC are lumped into two distinct sites labeled 1 and 3. For further information about the model, see Materials and Methods. A complete and executable specification of the model is provided in the Supporting Information as a plain-text BioNetGen input file (Text S2). Note that there is a correspondence between the arrows shown here and the rules of the model (Text S1). Model parameter values are summarized in Table 1.

doi: https://doi.org/10.1371/journal.pcbi.1003217.g002