Dear Thomas,
It’s phimap.cube file. ( .cube is an extension). These cube files are from
Delphi. ( Poisson Boltzmann solver).
Thank you ,
Best Regards
Divya
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________________________________
From: Thomas Holder <thomas.hol...@schrodinger.com>
Sent: Friday, August 17, 2018 4:51 AM
To: Divya Kaur Matta
Cc: pymol-users@lists.sourceforge.net
Subject: Re: [PyMOL] Slice
Hi Divya,
I can confirm that slices don't work properly with some map formats (those
which define a transformation matrix).
What's the file format (file extension) of your map?
Cheers,
Thomas
> On Aug 15, 2018, at 7:38 PM, Divya Kaur Matta <dma...@gradcenter.cuny.edu>
> wrote:
>
> Dear all,
>
>
> I would like to use the "Isomesh" and "Slice" command for the protein I am
> working on to get the electrostatic potential map of that protein. For that ,
> it requires map. I have got Delphi map for that. When I use the commands
> below, I got the mesh that aligns with the atoms of the pdb, however for
> slice, it is not aligned with the atoms. I would like to have a slice plane
> for my protein.
>
>
> For isomesh,
>
> isomesh map_n20, phimap, -20.0 ; color red, map_n20
>
> isomesh map_p20, phimap, 20.0 ; color blue, map_p20
>
> For slice,
>
> I did actions, show slice(default)
>
> Please find attached images for the slice I got.
>
>
> Thank you!
>
> Best Regards,
>
> Divya K. Matta
> Ph.D. Student in Chemistry
--
Thomas Holder
PyMOL Principal Developer
Schrödinger, Inc.
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