[gmx-users] Making pdb files

David van der Spoel spoel at xray.bmc.uu.se
Wed Aug 4 09:53:39 CEST 2004

On Tue, 3 Aug 2004, Amy Petrik wrote:

>Hi Guys!
>I need to make a pdb file for a peptide we are using.  I know that I can create one in a program like chem3d but when I use that file it doesn't work in gromacs.  I am creating the pdb on a mac and using gromacs on a linux box.  I have tried doing some light editting to make it work but the backbone doesn't even appear to be connected.  What is everyone else doing to make pdb files?  Thanks!
try pymol http://pymol.sf.net
There's a very nice Mac version of it
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David van der Spoel, PhD, Assoc. Prof., Molecular Biophysics group,
Dept. of Cell and Molecular Biology, Uppsala University.
Husargatan 3, Box 596,  	75124 Uppsala, Sweden
phone:	46 18 471 4205		fax: 46 18 511 755
spoel at xray.bmc.uu.se	spoel at gromacs.org   http://xray.bmc.uu.se/~spoel

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