[Chimera-users] chimera download
bushraistaj at gmail.com
Mon May 22 22:30:16 PDT 2017
Thank you Sir
Actually I intend to work on AutoDock and since it need a pdb file format I
wanted Chimera (but since you are saying I need pdb to load ligand file in
Chimera I will probably need some other tool.
Can I still get the chance to analyse my Docked results on Chimera software.
Thanks for your guidance
On Tue, May 23, 2017 at 2:11 AM, Elaine Meng <meng at cgl.ucsf.edu> wrote:
> Hello Maria Taj Muhammad,
> The address for questions about using Chimera is
> chimera-users at cgl.ucsf.edu (CC’d here).
> Chimera does not read chemdraw.cdx files, sorry.
> Here is a list of the atomic-structure formats that Chimera can read:
> You would probably want to use PDB, Mol2, or (MOL) SDF for your ligands,
> to read them in to Chimera. Then you can use the Dock Prep tool (in menu
> under Tools… Structure Editing) to add hydrogens and charges and save as
> I hope this helps,
> Elaine C. Meng, Ph.D.
> UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab
> Department of Pharmaceutical Chemistry
> University of California, San Francisco
> > On May 22, 2017, at 7:55 AM, Williams, Joanne <Joanne.Williams at ucsf.edu>
> > From: bushra TAJ <bushraistaj at gmail.com>
> > Date: Thursday, May 18, 2017 at 10:53 PM
> > Subject: Re: chimera download
> > Hello Sir
> > will you please guide me for one more thing, I got pdb of my protein and
> have Autodock installed in my PC. I have 6 derivatives that I synthesized
> myself, can I load chemdraw.cdx file in chimera to prepare it for docking
> and finally safe it in Mol2 format???
> > What format I can take of my ligand to load in Chimera??
> > On Fri, May 19, 2017 at 9:50 AM, bushra TAJ <bushraistaj at gmail.com>
> >> My full name is Maria Taj Muhammad and I am doing PhD at Karachi
> University Chemistry department in Karachi city of PAKISTAN.
> >> is that OK
> >> Regards
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