Re: [PyMOL] how to find the distance between carbon carbon bonds of two molecules with in 5 angstrom

[Jarrett J. <jar...@sc...>]

Hi,

You can specify carbon elements within a selection expression by adding `&
elem C`. Therefore your new command would look like:

dist Hydrophobic, alphaCD & elem C, carvacrol_out_ligand_01 & elem C, 5

[image: image.png]

Hope this helps,

Jarrett J

On Fri, Oct 1, 2021 at 2:49 AM chakkaravarthi saravanan <
cha...@gm...> wrote:

> What is the PYMOL common prompt to find all the carbon -carbon bonds
> within 5 Angstrom distance between the enclosed receptor and ligand
> molecules.
>
> I have used the following command However, It provides not only CC bonds
> it also provides C-OH bonds.
>
> dist Hydrophobic, alphaCD, carvacrol_out_ligand_01, 5
>
> How to specify the Carbon - Carbon bond between molecules.
>
>
> What is the command to calculate the number of those carbon-carbon bonds.
>
> Looking forward your reply
>
> Regards
>
> [image: image.png]
> --
> *Dr. S. Chakkaravarthi, Ph. D.,*
> Assistant Professor(Biochemistry)
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-- 

*Jarrett Johnson* | Senior Developer
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