[Chimera-users] turning ksdssp off?

Eric Pettersen pett at cgl.ucsf.edu
Mon Mar 15 16:17:10 PDT 2010

Hi Sumitro,
	The shortest answer is no, there is no way (barring some Python  
shenanigans).  You could clear SS assignments afterward with:

setattr r isHelix false #
setattr r isStrand false #

Can you describe why you want to turn off the SS computation?  We  
might make it optional somehow if it was of general use.


                         Eric Pettersen
                         UCSF Computer Graphics Lab

On Mar 14, 2010, at 6:54 AM, Sumitro Harjanto wrote:

> Hi,
> Is there any way to turn off automatic secondary structure  
> assignment upon opening a pdb file that does not contain secondary  
> assignments?
> Cheers,
> Sumitro
> ---------------------------------------------------------------------------------------------------------------------------------------------
>> Opening B-7301_SRWGYQVKH_1K5N.pdb...
> Computing secondary structure assignments...
> Computed secondary structure assignments (see reply log)
> Model 2 (B-7301_SRWGYQVKH_1K5N.pdb) appears to be a protein without  
> secondary structure assignments.
> Automatically computing assignments using 'ksdssp' and parameter  
> values:
>   energy cutoff -0.5
>   minimum helix length 3
>   minimum strand length 3
> Use command 'help ksdssp' for more information.

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