Hi Shahzad -
In your session file, these residues are part of a protein structure, so
"bringing them closer together" (e.g. with the `translate` command) would
distort the geometry of the protein and I would advise against it. I would
recommend simply adjusting the camera position to zoom on the selected residues.
```
# create a selection for your residues of interest and zoom on them
select my_residues, resi 132+137+215+254+256+265+375
zoom my_residues
# or set the camera explicitly with the mouse (then copy using the "Get View"
button and paste at command prompt)
set_view (\
0.565557718, -0.809213281, -0.159118786,\
0.178787529, -0.068047501, 0.981527865,\
-0.805093408, -0.583563268, 0.106191292,\
0.000148047, -0.000042731, -66.173744202,\
0.539898396, 36.191528320, 51.672920227,\
49.509685516, 82.788223267, -20.000000000 )
```
If you don't want empty space between them, you could add a
cartoon/ribbon/other representation, and make it some neutral color and/or
semitransparent to make it unobtrusive, while providing some context for the
highlighted residues.
```
show ribbon
set ribbon_color, grey90
set ribbon_as_cylinders, 1
set ribbon_transparency, 0.5
```
Hope that helps.
Cheers,
Jared
On April 12, 2019 at 8:59:33 AM, Dr Shahzad A. Pandith (drshah...@uok.edu.in)
wrote:
Dear all,
I am a PyMol user from past two years now. I need to know 'how can we bring two
amino acid residues closer in the PyMol window' to avoid huge spacing in
between.
Attached is a PyMol session file for reference.
Thanks and regards.
Shahzad
--
With best wishes
Shahzad A. Pandith, PhD
INSPIRE Faculty
Department of Botany
University of Kashmir
Voice: +91 959 660 6625, +91 941 935 4745
Email: pandithshah...@yahoo.com
http://bit.ly/1OzSxln | http://bit.ly/1VIePTn | http://bit.ly/1IQCShp
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