[PyMOL] how to keep the atom order when convert mol2 file to pdb in pymol

Hi, Everyone. I always using pymol to prepare the pdb files for MD simulations. However, when I merge the extra small molecular (substrate optimized from the Gaussian09, mol2 formats) and the protein file (PDB formats) into the a single pdb, I found the atom order of substrate is not the

Re: [PyMOL] how to keep the atom order when convert mol2 file to pdb in pymol

http://www.pymolwiki.org/index.php/Retain_order see if this helps João On Fri, Aug 12, 2016 at 5:25 PM, windy wrote: > Hi, > >Everyone. > >I always using pymol to prepare the pdb files for MD simulations. > However, when I merge the extra small molecular (substrate optimized from > the

[PyMOL] how to keep the atom order when convert mol2 file to pdb in pymol

Hello Did you try to use the following command* before to save your pdb file? * set retain_order,[0,1] : http://www.pymolwiki.org/index.php/Retain_order Stephane -- Message: 4 Date: Sat, 13 Aug 2016 00:25:06 +0800 (CST) From: windy Subject: [PyMOL] how to keep t