Entity Visual Shape
Physical Entities, such as proteins, small molecules, complexes, etc. Ellipse Shape
Interaction Entities, such as biochemical reactions, catalysis, etc.

 

Diamond Shape
Edge Type Arrow Shape
Inhibition Black inhibition arrow type
Containment, e.g. a complex can contain one or more proteins. Black ciricle arrow type
All other edge types, e.g. activation, left, right, etc. Black arrow type