From: Reza (resal81_at_gmail.com)
Date: Sun Sep 22 2013 - 22:26:33 CDT
I followed the BPTI example in the psfgen manual (http://www.ks.uiuc.edu/Research/vmd/plugins/psfgen/ug.pdf) and noticed that when patching the disulfide bridges, the angle and dihedral terms that involve the bridges are not automatically generated (e.g. SG-SG-CB angle). This is also the case with AutoPSF.
I found out that using the "regenerate" command after DISU patches seems to generate the missing angles and dihedral correctly. So I'm just wondering if the regenerate command is missing from the BPTI example or if it is intentionally left out?
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