pymol-users

[PyMOL] where can I ask questions? Is there any forum?

[Elizabeth T. <tsa...@ho...>]

Hey

I would like to know what is the best way to install and work protein-ligand docking.
I have Windows 11 and I tried Anaconda PyMOL but I think this way
you cannot have all plugins available.
So, what if I tried ubuntu with all is available on GitHub?
Can I do this?
The query arises because it is said that if you want to install linux in windows
you better use cygwin.
What do you think?
Thanks

Elizabeth

Sent from Outlook<http://aka.ms/weboutlook>

Re: [PyMOL] where can I ask questions? Is there any forum?

[Tamas H. <bio...@gm...>]

Hi,

I think that you have two issues:

#1 pymol autodock/vina plugin; it should work on windows, since it is written in python. The issue u might encounter: it may have written in an older python version than the pymol install

#2 you have to perform the docking with autodock or autodock vina. I think that these will not run on win.
You also have to prepare the prot and small molecule w autodocktools. Some gui apps might have preparation wizard.

Bests



⁣Az Android BlueMail letöltése ​

2024. ápr. 1. 17:23-n, 17:23-kor, Elizabeth Tsakelidou <tsa...@ho...> ezt írta:
>
>Hey
>
>I would like to know what is the best way to install and work
>protein-ligand docking.
>I have Windows 11 and I tried Anaconda PyMOL but I think this way
>you cannot have all plugins available.
>So, what if I tried ubuntu with all is available on GitHub?
>Can I do this?
>The query arises because it is said that if you want to install linux
>in windows
>you better use cygwin.
>What do you think?
>Thanks
>
>Elizabeth
>
>Sent from Outlook<http://aka.ms/weboutlook>
>
>
>------------------------------------------------------------------------
>
>
>
>------------------------------------------------------------------------
>
>_______________________________________________
>PyMOL-users mailing list
>Archives: http://www.mail-archive.com/pym...@li...
>Unsubscribe:
>https://sourceforge.net/projects/pymol/lists/pymol-users/unsubscribe

Re: [PyMOL] where can I ask questions? Is there any forum?

[Dr. V. M. <vij...@gm...>]

Dear Elizabeth
A simple solution is to use DockingApp in Windows. Downliad it from
following site:
http://www.computationalbiology.it/software.html
It is very easy to use it. Contact if you need any help.
From
Dr. Vijay H. Masand


On Mon, 1 Apr, 2024, 8:55 pm Elizabeth Tsakelidou, <tsa...@ho...>
wrote:

>
> Hey
>
> I would like to know what is the best way to install and work
> protein-ligand docking.
> I have Windows 11 and I tried Anaconda PyMOL but I think this way
> you cannot have all plugins available.
> So, what if I tried ubuntu with all is available on GitHub?
> Can I do this?
> The query arises because it is said that if you want to install linux in
> windows
> you better use cygwin.
> What do you think?
> Thanks
>
> Elizabeth
>
> Sent from Outlook <http://aka.ms/weboutlook>
> _______________________________________________
> PyMOL-users mailing list
> Archives: http://www.mail-archive.com/pym...@li...
> Unsubscribe:
> https://sourceforge.net/projects/pymol/lists/pymol-users/unsubscribe

Re: [PyMOL] where can I ask questions? Is there any forum?

[Elizabeth T. <tsa...@ho...>]

Thank you very much for your reply.
I will work some things that are seemingly working
for the moment
and if I see this does not lead anywhere, I ll come back to you.

Greetings,
Elizabeth

Sent from Outlook<http://aka.ms/weboutlook>

________________________________
From: Dr. Vijay Masand <vij...@gm...>
Sent: Monday, April 1, 2024 5:02 PM
To: Elizabeth Tsakelidou <tsa...@ho...>
Cc: pymol-users <pym...@li...>
Subject: Re: [PyMOL] where can I ask questions? Is there any forum?

Dear Elizabeth
A simple solution is to use DockingApp in Windows. Downliad it from following site:
http://www.computationalbiology.it/software.html
It is very easy to use it. Contact if you need any help.
From
Dr. Vijay H. Masand


On Mon, 1 Apr, 2024, 8:55 pm Elizabeth Tsakelidou, <tsa...@ho...<mailto:tsa...@ho...>> wrote:

Hey

I would like to know what is the best way to install and work protein-ligand docking.
I have Windows 11 and I tried Anaconda PyMOL but I think this way
you cannot have all plugins available.
So, what if I tried ubuntu with all is available on GitHub?
Can I do this?
The query arises because it is said that if you want to install linux in windows
you better use cygwin.
What do you think?
Thanks

Elizabeth

Sent from Outlook<http://aka.ms/weboutlook>

_______________________________________________
PyMOL-users mailing list
Archives: http://www.mail-archive.com/pym...@li...
Unsubscribe: https://sourceforge.net/projects/pymol/lists/pymol-users/unsubscribe