[Chimera-users] finding only ligand-receptor Hbonds instead of all

[Rajlakshmi Chetty]

Dear Dr  Elaine C. Meng,

Greetings for the day!!
First of all thank you for your prompt reply.Your specified instructions
and answer solved my problem...I am happy for it☺!!!
My heartfelt thanks to you and and the UCSF Chimera team for  consideration
and help .


Kind regards
*Kind Regards*
*Rajlakshmi Chetty*
Doctoral Student
School of Chemical Sciences
Central University of Gujarat
Gandhinagar 382030 India

Mobile No :- * +91 9427178591*
                    +91 8780155455
e_mail      :-  *rajlakshmi at cug.ac.in <rajlakshmi at cug.ac.in>*
                     *www.researchgate.net/profile/Chetty_Rajlakshmi
<http://www.researchgate.net/profile/Chetty_Rajlakshmi>*


On Sun, Jul 8, 2018 at 10:26 PM, Elaine Meng <meng at cgl.ucsf.edu> wrote:

> Dear Rajlakshmi Chetty,
> To limit which H-bonds you are finding, first “select” some atoms like the
> ligand only, and then use the “Only find H-bonds...” option as shown in the
> dialog.  You have the option turned on, but you probably didn’t select any
> atoms first.  For explanation of that option and its further options, click
> the Help button on the dialog or see the same information here at our
> website:
> <http://www.rbvi.ucsf.edu/chimera/docs/ContributedSoftware/findhbond/
> findhbond.html>
>
> See also the “If endpoint hidden, show endpoint residue” option.
>
> Selected atoms are shown with green outline.  There are many ways to
> select, such as  Ctrl-click on one ligand atom and then press keyboard up
> arrow to increase to all ligand atoms, or with a command, etc. as explained
> here:
> <http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/selection.html>
>
> I hope this helps,
> Elaine
> -----
> Elaine C. Meng, Ph.D.
> UCSF Chimera(X) team
> Department of Pharmaceutical Chemistry
> University of California, San Francisco
>
> > On Jul 7, 2018, at 12:15 AM, Rajlakshmi Chetty <rrlchetty2013 at gmail.com>
> wrote:
> >
> > Dear Sir/Madam
> >
> > Greetings for the day!!
> >
> > Myself Rajlakshmi Chetty, is Doctoral student in field of Nanomaterials.
> I am self learning and using chimera since back few days with the help of
> website tutorials and am stuck with a problem which is described below:
> >
> > I have .pdb file format of docked complex (Hex software) in which their
> is H bond is missing between ligand and receptor when opened in chimera. I
> tried Tools>structure depiction>find H bond but in that parameters query
> when i apply I am getting H bond of the whole complex which I don't want. I
> want to visualize H bond or any bonding between ligand and receptor. Is
> their any other way or what parameters change i need to do?
> >
> > I have attached H bond parameters dialog box with this mail.
> >
> > This problem where I am stuck is need for the time for my research work.
> So your kind help will be a great blessings for me. Your help of gratitude
> will be highly appreciated.
> >
> > Thanking you and looking forward for your reply!!
>
>


-- 
*Kind Regards*
*Rajlakshmi Chetty*
Doctoral Student
School of Chemical Sciences
Central University of Gujarat
Gandhinagar 382030 India

Mobile No :- * +91 9427178591*
                    +91 8780155455
e_mail      :-  *rajlakshmi at cug.ac.in <rajlakshmi at cug.ac.in>*
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://plato.cgl.ucsf.edu/pipermail/chimera-users/attachments/20180709/f57313f0/attachment.html>