Thank you for your patience while I was discussing this issue with my committee. Attached is a sample showing how you might reproduce the Nonpolar Bonds as raised line drawings.
The print shape of the chemical structure is reproduced. However, there must be space between the lines and any chemical names or letters, so it is necessary to shorten the lines between letters, or add space to the shape to accommodate the braille letters.
I have asked someone who is familiar with chemistry about the second set of bonds, and I will update my post for you as soon as I can.