This option aligns a set of sketches in a chemical table in the same orientation according to a defined scaffold or color by a common substructure.

• Chemistry/Align-Color by 2D Scaffold
• Choose a loaded molecular table from the drop-down arrow.
• Draw a new scaffold using the molecular editor or choose the scaffold from a table (Index = row number).
• You can then Align or Match All the substructure and color.
• If coloring has already applied to the molecule then this new coloring by scaffold can be appended.
• Select color for common scaffold.