First time trying to use Modeller and the log file terminates
with:
check_a_337E> Structure not read in.
There's nothing wrong with the PDB file as far as I can tell,
several other programs will read it.
Modeller seems to have read the alignment alright, although this bit:
(def)remove_gaps=True
is a little worrisome, since there are a couple of gaps in the
alignment. In fact, that's the whole point, I want to see if
modeller can close the gaps so that I don't have to do it manually
in a modelling program. The gaps are part of the structure that
flaps around in solution so it isn't in the PDB file, but it has
to be added before Gromacs will accept the structure.
Thanks,
David Mathog
mathog(a)caltech.edu
Manager, Sequence Analysis Facility, Biology Division, Caltech
