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On 13:58 Mon 04 May , Robert Campbell wrote: > Hi Donnie, > > On Mon, 04 May 2009 10:31:33 -0700, Donnie Berkholz > <[log in to unmask]> wrote: > > > I'd like to build a theoretical N-residue peptide manually by setting > > each torsion angle and building in poly-Ala. Can Coot do this, and if > > so, how do I do it? If not, any suggestions for other programs? > > I have a PyMOL script that will allow you to build a peptide of arbitrary > sequence with specified phi/psi angles for each amino acid using a file as > input. See build_seq_phi_psi.py at: > > http://pldserver1.biochem.queensu.ca/~rlc/work/pymol/ > > It also calls another python script of mine for converting sequence formats > http://pldserver1.biochem.queensu.ca/~rlc/work/scripts/seq_convert.py > but the simple function in there could have been included directly in the > first script. > > There is another one on the PyMOL Wiki: > http://pymolwiki.org/index.php/CreateSecondaryStructure Thanks, Rob! I've come across a web-based application called PepBuild that I'm using for the moment because I only need a few right now, so manual creation is fine. I'll give this a shot later on because I'm thinking about some more automated testing. -- Thanks, Donnie Donnie Berkholz P. Andrew Karplus lab Oregon State University