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<div><span style="line-height: 22.4px;">Dear Elaine，</span></div><div><span style="line-height: 22.4px;"><br></span></div><div>Thank you for your prompt and detailed answer, it very helpful！</div><div><br></div><div>Best Regards,</div><div>Lingyi</div>
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<div style="font-size:12px;line-height:1.5;word-break:break-all;margin-left:10px;margin-right:10px">On <span class="mail-date">3/25/2022 23:12</span>，<a class="mail-to" style="text-decoration:none;color:#2a83f2;" href="mailto:meng@cgl.ucsf.edu">Elaine Meng<meng@cgl.ucsf.edu></a> wrote： </div>
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Dear Lingyi,<br>The issue is that even when all the residues are "helix" they might be in different helices from each other, and ChimeraX will still draw a short loop between different helices. You can fix this by making sure all of those helix residues are in the same helix as each other, using the "ss_id" residue attribute ("SS ID" meaning secondary structure identifier).<br><br>Residue attributes:<br><http://rbvi.ucsf.edu/chimerax/docs/user/attributes.html#residue><br><br>You can control the attribute values of residues using the "setattr" command. <br><https://rbvi.ucsf.edu/chimerax/docs/user/commands/setattr.html><br><br>For example, to make sure that residues 130-144 of chain B are all helix (ss_type = 1) and in the same helix as each other (ss_id 999):<br><br>settatr /B:130-144 res ss_type 1<br>setattr /B:130-144 res ss_id 999<br><br>See these previous posts for more explanation and examples:<br><br><https://www.rbvi.ucsf.edu/pipermail/chimerax-users/2019-August/000632.html><br><https://www.rbvi.ucsf.edu/pipermail/chimerax-users/2021-March/002008.html><br><br>I hope this helps,<br>Elaine<br>-----<br>Elaine C. Meng, Ph.D. <br>UCSF Chimera(X) team<br>Department of Pharmaceutical Chemistry<br>University of California, San Francisco<br><br><br><br><br> <blockquote class="mmbqc1">On Mar 25, 2022, at 7:04 AM, 令怡 via ChimeraX-users <chimerax-users@cgl.ucsf.edu> wrote:<br> <br> Dear developers,<br> <br> Hello! I recently encountered some problems when using ChimeraX.<br> <br> When displaying the structure with cartoon, some helix is displayed as loop (Fig A). How to force it to be displayed as helix? I checked the User Guide and used the command "setattr sel residues is_helix true" for the selected amino acids, but only some amino acids can be displayed as helix (Fig B). Is that need to change ss_ id? I have tried, but it didn't work.<br> I will appreciate it if you could answer my question.<br> Looking forward to your reply!<br> <br> Best Regards<br> <br> Lingyi<br> <br> <br> <1DBF6A0C-D523-4CDB-ACB1-D7B975A7836D.png><br> _______________________________________________<br> ChimeraX-users mailing list<br> ChimeraX-users@cgl.ucsf.edu<br> Manage subscription:<br> https://www.rbvi.ucsf.edu/mailman/listinfo/chimerax-users<br></blockquote></blockquote><!--😀-->
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