[PyMOL] Weird color conection

[alberto m. <zr...@ho...>]

i need help please We have observed that when performing superpositions, the visual aid links between corresponding atoms are sometimes displayed in yellow and, in other cases, in purple. We have been trying to understand the underlying logic that determines this color difference.
For instance, we've noticed that complex, non-local, or multi-part superpositions sometimes result in purple links, while simpler alignments often result in yellow ones, but this is not always consistent. Our working hypothesis is that the color may be related to the energetic favorability or the complexity of the alignment solution, but this is purely speculation on our part.
understanding what does this conection between atoms mean is critical for our work please help