Ligplot [better]

The output is not a simple projection of 3D coordinates. Instead, LIGPLOT uses a simulated annealing or rule-based layout to:

A typical LIGPLOT diagram (see Figure 1 conceptual description) contains: ligplot

When comparing wild-type and mutant proteins, LigPlot can visually demonstrate how a mutation (e.g., changing a Threonine to an Alanine) might remove a critical hydrogen bond, explaining a loss in binding affinity or catalytic activity. The output is not a simple projection of 3D coordinates