simtk.org

Hello,

i am new to OpenMM, so if the fix is obvious please don't go too hard on me.
I created a PDB file with Avogadro, which works perfectly fine in VMD or PyMOL, but when i try to open it with app.PDBFile(), it somehow only loads two of the 33 Atoms??
I attached a screenshot of the python code which shows the problem, and also the PDB File i am talking about (only not saved as .pdb, since you cant upload that here)

Thank you very much, and best regards,
Dominik

Every atom in a residue is required to have a unique name. Because your atoms are all named either "H" or "C", it assumes they are alternate locations for the same two atoms rather than different atoms.

Thank you so much!!!