#107 Generating peptides with structure in Pymol

[Joel Tyndall]

When you generate an ideal peptide in the form of an alpha helix using the builder function in Pymol, the intra-molecular H-bonds that characterise an alpha helix (I to i+4) are too close (2.2 Angstrom O-N). If you generate such a peptride, save it then reopen in Pymol, extra bonds are drawn between N-H and O= indicating the close proximity. Whilst I realise Pymol is not currently designed to “Model” structures, could this be updated.