Hi Nikita - To me this looks like the cartoon representation for missing residues, which is controlled by the cartoon_gap_cutoff <https://pymolwiki.org/index.php/Cartoon_gap_cutoff> setting. If you either `hide cartoon` or `set cartoon_gap_cutoff, 0`, does it go away?
Usually the dashed line would be somewhat curved for a normal gap to mimic an unmodeled flexible loop, but I can reproduce something similar to your image by creating a new object containing only with two non-contiguous residues and showing the cartoon for that object: ``` fetch 1shv as cartoon create gap_res, polymer.protein and resi 237+243 show sticks, gap_res ``` Hope that helps. Cheers, Jared On Sat, Feb 17, 2024 at 3:36 AM Maisnam Nikita Chanu <mnikita1...@gmail.com> wrote: > Dear All, > > My name is Nikita, I am a graduate student at Academia Sinica, Taiwan. > This e-mail aims to ask for help in identifying the bond/interaction > between two residues. > > I am currently learning about PyMol to utilize in my project. I used PyMol > to visualize potential H-bond interactions in specific amino acid residues. > However, I have just discovered that Arg465 and Ser461 show a distinct > interaction, as shown in the file. > Please help identify this interaction. > I would be grateful for any help or suggestions. > > Please don't hesitate to contact me if you have any questions. > I look forward to hearing from you. > > Best regards, > Nikita Chanu > > > _______________________________________________ > PyMOL-users mailing list > Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net > Unsubscribe: > https://sourceforge.net/projects/pymol/lists/pymol-users/unsubscribe
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