<DIV>Well I suposse that it is only necessary to build de peptide with the software that you want, for example pymol or Hyperchem, wathever. Save the construct in pdb format with the amino and carboxil end correctly.</DIV>
<DIV>Cesar<BR><BR><B><I>David <spoel@xray.bmc.uu.se></I></B> wrote:</DIV>
<BLOCKQUOTE class=replbq style="PADDING-LEFT: 5px; MARGIN-LEFT: 5px; BORDER-LEFT: #1010ff 2px solid">On Wed, 2005-04-27 at 13:10 -0700, Chris Gaughan wrote:<BR>> Hello,<BR>> <BR>> I am trying to generate coordinates for two small<BR>> peptides. There is no pdb reference for these peptides<BR>> because they are artificial. In my efforts to generate<BR>> .gro file for these peptides, I tried the dundee<BR>> prodrg2 server. This server allows you to draw small<BR>> molecules in a JME editor and it will use the drawing<BR>> to generate .gro and topology files. Unfortunately, my<BR>> peptide was too big and could not be processed.<BR>> <BR>> Does anyone know another wayI could generate topology<BR>> files for these peptides?<BR>Use pymol to build a pdb.<BR>> <BR>> Thanks<BR>> Chris G <BR>> <BR>> __________________________________________________<BR>> Do You Yahoo!?<BR>> Tired of spam? Yahoo! Mail has the best spam protect
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