[Chimera-users] Autodock Vina

Kate Wegener kate.wegener at adelaide.edu.au
Mon Apr 27 23:49:29 PDT 2020

Thanks Elaine. I have also found a web-server that runs Autodock Vina called Webina that I'm trialling. It creates an output file with extension *.pdbqt, but I can't work out how to open that in Chimera. Should it be possible? It asks me to select what type of file it is from an extensive list, but I don't see anything there that corresponds to Vina output. Any ideas?

kind regards,


From: Elaine Meng <meng at cgl.ucsf.edu>
Sent: Tuesday, 28 April 2020 12:21 AM
To: Kate Wegener <kate.wegener at adelaide.edu.au>
Cc: chimera-users at cgl.ucsf.edu <chimera-users at cgl.ucsf.edu>
Subject: Re: [Chimera-users] Autodock Vina

Hi Kate,
Sorry, there are no plans on our part.

Autodock Vina (and many other docking programs, DOCK etc.) are available for download and installation for running directly.

Or if you wish to avoid installing any docking program yourself, there are at least a few docking web servers you could also run directly (independent of Chimera).  I can't make a recommendation, but to mention a few:  Dock Blaster, SwissDock, MTiAutoDock ...

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

> On Apr 26, 2020, at 11:48 PM, Kate Wegener <kate.wegener at adelaide.edu.au> wrote:
> I'm new to this list, but I saw in the archives that there was a thread on the shutdown of the Opal2 server. I wondered if there were any plans to make Autodock Vina available on alternate servers? Or if anyone knows of another way to access an Autodock Vina server? I have been using this server in a class for the past 5 or 6 years, so I'm keen to find an alternative option.
> kind regards,
> Kate

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