Re: [Jmol-users] Secondary structure does not match DSSP

Understood. Thanks for your replies and for a great program. Nicholas From: Eric Martz Sent: Sunday, April 23, 2017 11:18 AM To: jmol-users@lists.sourceforge.net Subject: Re: [Jmol-users] Secondary structure does not match DSSP Dear Nicholas, Angel is correct. By default, Jmol shows

Re: [Jmol-users] Secondary structure does not match DSSP

Dear Nicholas, Angel is correct. By default, Jmol shows the secondary structure that the authors specified in the PDB file with HELIX, SHEET and TURN records. You will notice that often, authors do not specify TURN records so there are no blue turns initially. After you calculate structure,

Re: [Jmol-users] Secondary structure does not match DSSP

Hi Nicholas > However, if I issue the command $calculate structure and then redisplay, the > structure > is then shown with a ribbon consistent with DSSP, running from 365 to 373. > Can anyone > tell me why Jmol doesn't display this stretch according to DSSP in the first > place? I am not

[Jmol-users] Secondary structure does not match DSSP

Hello, I'm using Jmol 14.13, which should use the DSSP v2.0 algorithm to compute secondary structure. The command $show defaultStructureDSSP returns true, so this should indeed be the case. However, Jmol displays residues 365-368 from 7odc.pdb as loop-type, not ribbon, while DSSP 2.0 computes