Hi
Is there a problem with automatic disulfides in Modeller 6? My recent models are being produced without the disulfides present in the templates and I don't remember this being a problem with earlier versions. In the log file there is a call to the relevant patch routine
TOP_________> 151 465 PATCH_SS_TEMPLATES
but it doesn't seem to work. The template files have been processed so that they have lost PDB headers but I assume MODELLER figures SS bonds for itself rather than reading SSBOND lines in PDB headers...
We can always define the disulfides manually with the general PATCH command but, as the manual says, they'll be better defined by PATCH_SS_TEMPLATES - generated restraints.
Thanks for your help.
Daniel
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