[Chimera-users] flipping model in chimera

[Elaine Meng]

Hi Dmitry,
As mentioned in my previous reply,
>  
> There is no option to do this for other types of models.
>  
Seems like if you did this with atomic model it would give the wrong handedness of all the chiral centers.  

However, there is a Chimera script for doing it here:

<https://github.com/asarnow/pyem/wiki/Z-Flip-for-Models-and-Maps>

I hope this helps,
Elaine
-----
Elaine C. Meng, Ph.D.                       
UCSF Chimera(X) team
Department of Pharmaceutical Chemistry
University of California, San Francisco

> On Sep 3, 2020, at 2:45 AM, Dmitry Semchonok <semchonok at gmail.com> wrote:
> 
> Dear Elaine, 
> By ‘model’ I mean coordinate file that is build up by coot/phenix for fitting into the volume map.
> The ‘vop zflip’ works for the volume maps
> Any options how to flip the coordinate map? 
> Thank you!
> Sincerely,
> Dmitry
>  
> От: Elaine Meng
> Отправлено: 2 сентября 2020 г. в 19:07
> Кому: Dmitry Semchonok
> Копия: Chimera
> Тема: Re: [Chimera-users] flipping model in chimera
>  
> Hi Dmitry,
> It depends what you mean by "model" but for maps in Chimera there is a "vop zflip" command for flipping about the Z axis only:
> <http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/midas/vop.html#zFlip>
>  
> There is no option to do this for other types of models.
>  
> ChimeraX map flipping ("volume flip") can use other axes, not just Z:
> <http://rbvi.ucsf.edu/chimerax/docs/user/commands/volume.html#flip>
>  
> I hope this helps,
> Elaine
> -----
> Elaine C. Meng, Ph.D.                      
> UCSF Chimera(X) team
> Department of Pharmaceutical Chemistry
> University of California, San Francisco
>  
> > On Sep 2, 2020, at 8:40 AM, Dmitry Semchonok <semchonok at gmail.com> wrote:
> >
> > Dear colleagues,
> > How to flip the model in chimera?
> > Thank you!
> > Sincerely.
> > Dmitry