AMBER: some questions when using ATP

From: du yongchun <phoebus2008.hotmail.com>
Date: Thu, 27 Oct 2005 02:28:44 +0000

hi,amber
    I have some questions when using ATP in amber8.I download atp prep &=20
 frcmod files in http://pharmacy.man.ac.uk/amber/,and then use them in=20
 tleap.The command is as following:
 source leaprc.gaff
 mods=3Dloadamberparams frcmod.phos(downloaded)
  loadamberprep ATP.prep(downloaded)
  x=3Dsavepdb atp atp.pdb
But when I use VMD to see the atp.pdb ,I find the there are not bonds=20
 between phoshate groups. Can you tell me why and how I modify them.
Thanks ! =20
                                           du
                                           2005.6.2

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Received on Thu Oct 27 2005 - 03:53:00 PDT
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