Hi Jason,
A more difficult one (at least for me)
Pymol seems to write (through save command) nucleic acid residue names not
as suggested by PDB convention.
Here is an extract of a PDB file (any PDB file containing nucleic acid
residues shows the same try 100D for example)
ATOM 1 O5' C A 1 -4.549 5.095 4.262 1.00 28.71 O
ATOM 2 C5' C A 1 -4.176 6.323 3.646 1.00 27.35 C
ATOM 3 C4' C A 1 -3.853 7.410 4.672 1.00 24.41 C
When I save this file (save command in pymol) i get this
Output from pymol
XXXXX (this is added by me)
ATOM 1 O5' C A 1 -4.549 5.095 4.262 1.00 28.71 O
ATOM 2 C5' C A 1 -4.176 6.323 3.646 1.00 27.35 C
ATOM 3 C4' C A 1 -3.853 7.410 4.672 1.00 24.41 C
In one instance, the "C" residue name is left justified and right justified
in the other.
Of course, this cannot happen for the three letter residue names.
Any clue ?
I tried the following :
pdb_truncate_residue_name (boolean, default: off) controls whether or not
PDB residue names are truncated to three letters only.
with no effect
Thanks for help
Pascal
________________________
------------------------------------------------------------------------------
Achieve unprecedented app performance and reliability
What every C/C++ and Fortran developer should know.
Learn how Intel has extended the reach of its next-generation tools
to help boost performance applications - inlcuding clusters.
http://p.sf.net/sfu/intel-dev2devmay
_______________________________________________
PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net)
Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users
Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net
