Step 1: Install mosaics.3.9.2.
Step 2: Download and extract db_tutorial.tar.gz.
Change to folders DA5 and DA10 and submit this command:
/path/to/executable/mosaics.x ../refine.input > output
Diabody Modeling
Synthetic ligands called diabodies can change the amplitude and nature of signal activation, or counteract oncogenic ligand-independent intracellular signaling, by re-orienting the geometry of receptor dimerization. In this example we demonstrate the application of hierarchical natural move Monte Carlo to model diabody complexes and evaluate their dynamical nature. This computational project complemented the experimental study that used diabodies to tune cytokine receptor signaling. The corresponding paper is available online (Cell 160(6): 1196-1208 (2015)). Below there is a movie and we provide the instructions on how to carry out simulations on the diabody system in the study: