Hello X-PLOR'ers:
I'm having trouble with the acetylated N-terminus (ACE group)
and the amide C-terminus peptide blocking groups (CT2 group) in
X-PLOR (using the topallh22x.pro and parallh22x.pro files) . I am
trying to generate the PSF file for a PDB file consisting of several
peptides each of which is blocked with these groups. This works fine
when I haven't blocked the ends of the peptides (ie when I use the
standard N-terminus NTER and the standard C-terminus CTER).
(I am changing the relevant sections of the toph19.pep linker file.)
However, when I try to build hydrogens for the *capped* peptides during
PSF generation I get the following error:
X-PLOR>flags exclude vdw elec end
X-PLOR>hbuild
HBUILD> selection=( hydrogen )
HBUILD> phistep=4
HBUILD>
HBUILD>end
HBUILD: dihedral PHI STePs for spin = 4.0000
HBUILD: cutoff during water acceptor search = 7.5000
%HBUILD-ERR: some parameters unknown -> terminating
Subroutine DIE called . Terminating
This happens whether or not I have already added hydrogens to
the capping groups before I try to generate the PSF file. Has anyone
else had a similar problem with either the ACE or CT2 groups? Are there
known problems with these groups? Any information or suggestions on this
problem would be apprectiated.
Thanks in advance,
Christopher Sheldahl
