VMD-L Mailing List

From: CPMAS Chen (cpmasmit_at_gmail.com)
Date: Sun Jan 21 2018 - 08:55:56 CST

Hi, VMD users,

I encountered a situation in presenting the secondary structure of a
protein.

In VMD-1.9.4a12, after I loaded the pdb, I chose new cartoon to present the
secondary structure. All chains are presented as random coil, the same as
tube representation. However, pymol correctly shows the secondary structure
of the same pdb file.

Has anyone encountered similar situation? what would be the fix?

I checked the pdb file, phenix.refine labeled all the helix/sheet in the
pdb file.

Thanks!

Best Regards,

Charles 

-- 
***************************************************
Charles Chen
Research Instructor
University of Pittsburgh School of Medicine
Department of Anesthesiology
******************************************************