Hi Tony, Unfortunately, PyMOL knows only temporarily during cartoon generation what's protein and what's nucleic acid. It doesn't store this information with the atoms.
Maybe the following is a more robust hack than using residue names: select protein, (byres polymer & name CA) select nucleic, (byres polymer & name P) select rna, (byres polymer & name O2') select dna, (nucleic & !rna) To update these selections with a single key press, put this in your pymolrc: set_key F1, \ select protein, (byres polymer & name CA) \ select nucleic, (byres polymer & name P) \ select rna, (byres polymer & name O2') \ select dna, (nucleic & !rna) Cheers, Thomas > On Nov 30, 2017, at 1:00 PM, Tony Lewis <tonyele...@gmail.com> wrote: > > Dear PyMOL people, > > Please can anyone tell me if there's a standard way to select either of > nucleic / protein separately? > > I can use `polymer` to get both together but I can't see a standard way to > distinguish nucleic / protein within that. > > I'm currently using something like `resn A+C+G+U+DA+DC+DG+DT` to identify > nucleic but that's inadequate because it misses out various resn values (eg > BRU, OMG etc) that are part of modified DNA/RNA. > > The thing is: PyMOL clearly *knows* which bits are protein versus nucleic > because it draws the cartoons accordingly. So it feels like I should be > accessing this info from PyMOL rather than trying to hack together a list of > resn values. > > Many thanks for any help. > > Tony Lewis -- Thomas Holder PyMOL Principal Developer Schrödinger, Inc. ------------------------------------------------------------------------------ Check out the vibrant tech community on one of the world's most engaging tech sites, Slashdot.org! http://sdm.link/slashdot _______________________________________________ PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net) Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net
