6. 2D Display

2D molecular depictions are provided using OpenEye's Ogham toolkit. A large number of options are available in the applications preferences to customize how the depictions are drawn. Depictions are drawn as black on a white background by default as seen in Figure 6.1, but other color schemes are available and can seen in Figure 6.2.

**Figure 6.1:** 2D Depiction

**Figure 6.2:** Depiction color schemes
[Color on Black] [Color on White] [White on Black]

As might be expected, 2D depictions of this nature only make sense for small molecules (< 255 atoms in this case). For proteins, an amino acid sequence view is displayed instead (see Figure 6.3).

**Figure 6.3:** Amino Acid Sequence

VIDAVIDA

Subsections

6.1 Preview vs. Viewer
6.2 Interaction

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