VMD-L Mailing List

From: flavio seixas (oivalf_nix_at_yahoo.com)
Date: Tue Jun 18 2013 - 17:58:17 CDT

It seems you are not using topology files for the ligands PYP and 3DR Try to generate them and include they in the psf generator script. Regards,   ------------------------------------- Flavio Augusto Vicente Seixas Laboratory of Structural Biochemistry Department of Biochemistry Universidade Estadual de Maringá, PR, Brazil http://www.uem.br ________________________________ From: Nathan Li <nathan.li17_at_gmail.com> To: vmd-l_at_ks.uiuc.edu Sent: Tuesday, June 18, 2013 2:53 PM Subject: vmd-l: PSF not generating Hi all, I'm fairly new to VMD and just finished the tutorial. I'm trying to generate a PSF file for the following file, but it's not recognizing some of the bonds and atoms. http://www.rcsb.org/pdb/explore/explore.do?structureId=1FZL Any help would be greatly appreciated.  Thanks!