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Re: [PyMOL] Greetings
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From: Jared S. <jar...@co...> - 2019-04-12 16:27:33
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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 (drs...@uo...) 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: pan...@ya... http://bit.ly/1OzSxln | http://bit.ly/1VIePTn | http://bit.ly/1IQCShp Sender notified by Mailtrack 04/10/19, 5:25:20 PM _______________________________________________ PyMOL-users mailing list Archives: http://www.mail-archive.com/pym...@li... Unsubscribe: https://sourceforge.net/projects/pymol/lists/pymol-users/unsubscribe |
