From: Stefan Franzen (
Date: Mon Feb 13 2012 - 09:31:12 CST

We are trying to create a patch for nucleotides that consists of both
2'-deoxy and 2'-O methyl ribonucleotides. The default deletes 2'-O methyl
so it appears necessary to develop a patch. However, there must be an
internal patch since the PSF builder automatically puts a second phosphate
into the patch that we added. We need to understand how to design a patch
that is consistent with the internal workings of the PSF builder, but have
no way to do this without knowing the precise way that the PSF builder

Stefan Franzen
Professor of Chemistry
North Carolina State University
Raleigh, NC 27695
Phone: 919-515-8915