[gmx-users] Membrane protein MD Simulation

[Behnoush Zare]

Thanks Yanzi,Thanks Mark,
for your very usefull points,

I have another pdb2gmx running on thr protein.pdb with ffgmx force filed(matching with lipid.itp).
Also I have removed the including ffG43a1 from the lipid.itp and then running grompp. The new errors are:

ERROR 1 [file "popc.itp", line 3]:
  Incorrect number of atomtypes for dihedral (1 instead of 2 or 4)

Fatal error:
Bonded/nonbonded atom type '1' not found!

I have read the chapter 5 of the manual but I dont have any idea about these errors.
Could you please tell me what are these errors and what should I do to pass this step?
Thank you very much in advance,
Best regards,

Behnoush Zare,
Iran University of Medical Sciences,
Department of Pharmacology,
Tehran, Iran.