Protein backbone angles can be shown in a Ramachandran Plot along with probability contours (green lines) from a reference set of well-determined structures. Each amino acid residue is shown as a dot in a graph of φ vs. ψ, more commonly known as a Ramachandran plot or Ramachandran map. Residues are shown as blue dots, or when selected, as red dots. In the example, all helix residues have been selected. Conversely, clicking a dot in the plot will select the corresponding residue in the structure. When the plot has mouse focus, the cursor position (x = φ, y = ψ) is reported under the plot.

Eukaryotic initiation factor (eIF) complex (from Protein Data Bank entry 1rf8) in which eIF4E, shown with blue ribbons, is completely encircled by eIF4G, shown with yellow ribbons and red molecular surface (image creation details). (More samples...)