AMBER Archive (2009)
Subject: Re: [AMBER] Antechamber Connectivity
From: George Tzotzos (gtzotzos_at_mac.com)
I'm trying to run antechamber on a ligand pdb file (Hs and charges already added). The ligand is an unsaturated aliphatic aldehyde (13 carbon atoms).
Antechamber rejects the ligand on account of wrong connectivity
13 is not a valid atom id in CONECT 13 12 11 10
I have checked the connectivity and looks OK to me.
I'm attaching the ligand pdb with connectivities. Your help would be greatly appreciated. It seems to me a trivial problem but I'm really stuck at the moment.
Thanks in advance