There is an open-source implementation of the dssp method called
ksdssp, written by the UCSF group that distributes Chimera. I haven't
had reason to use it yet but the source definitely has functions for
writing out the pdb records. I suspect that one of the BioPython/perl/
etc. modules has the necessary conversion functions, although it might
take a bit of coding to apply them.
On Feb 8, 2009, at 4:32 PM, Don Kerkow <dker...@scripps.edu> wrote:
Hi all,
After seeing the string on secondary struct. assignment and
molecular visualization, I was wondering if anyone knows if there is
a way to produce the HELIX and SHEET records (i.e. explicit
secondary struct. assignment) automatically without depositing to
PDB. Obviously, I realize I could write this header manually based
on the assignments I get from DSSP, but for a large structure I was
hoping there is an easier way. I need this header for making
accurate cartoon figures in Pymol, but I am not yet ready to deposit
the structure if that is the only way to acquire such a header
automatically.
Any help is much appreciated!
Don Kerkow
