#107 Generating peptides with structure in Pymol

open
nobody
5
2012-12-06
2011-08-11
Joel Tyndall
No

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.

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