Re: n-terminus in my psfgen created pdb/psf file is missing

From: Jacqueline Schmidt (jacqueline_schmidt_1983_at_yahoo.com)
Date: Sun Sep 16 2012 - 12:09:15 CDT

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sorry, I understood the reason! I had a counter ion with my peptide prob solved! ________________________________ From: Jacqueline Schmidt <jacqueline_schmidt_1983_at_yahoo.com> To: namd <namd-l_at_ks.uiuc.edu> Sent: Sunday, September 16, 2012 12:15 PM Subject: namd-l: n-terminus in my psfgen created pdb/psf file is missing Dear Namd users, I have a question regarding psfgen. I have a pdb for a peptide for which I have created pdb/psf using psfgen. But for some reason the created files do not contain the n-terminus atoms (the first hydrogen is renamed from HT1 in my original pdb to HN (as the amide hydrogen should be) in the psfgen created files and the other HT2&3 are eliminated). Can anyone please tell me why this is happening? Thanks jakie 

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