Thank you so much Oli. You are always a life saver. I will try it out. Best, B _____________________________________________ Binh A. Nguyen, Ph.D. Instructor @ Saelices's Lab Center for Alzheimer’s and Neurodegenerative Diseases Peter O’Donnell Jr. Brain Institute UT Southwestern Medical Center ________________________________ From: Oliver Clarke <olibclarke@gmail.com> Sent: Thursday, July 11, 2024 11:10 AM To: Binh Nguyen <AnBinh.Nguyen@UTSouthwestern.edu> Cc: ChimeraX Users Help <chimerax-users@cgl.ucsf.edu> Subject: Re: [chimerax-users] Generating long fibrils EXTERNAL MAIL The server seems to be down right now, but it is possible you could also do this using the sym command in ChimeraX (I'm just not sure whether there are options for helical or only point group symmetry): https://www.cgl.ucsf.edu/chimerax/docs/user/commands/sym.html<https://urldefense.com/v3/__https://www.cgl.ucsf.edu/chimerax/docs/user/commands/sym.html__;!!MznTZTSvDXGV0Co!HaFqsuwLDfRfu8q4dZomS3Nzg9ZqMnUw20jOZXLLUDsxNKSve8Cbj6G9IDvBT-vPAIcChPn5Yruop-yznxLN6S54OXjlGd8$> Cheers Oli On Jul 11, 2024, at 12:09 PM, Oliver Clarke <olibclarke@gmail.com> wrote: Hi Binh, There may well be a way to do this with ChimeraX, but you can also easily use servalcat for this: https://servalcat.readthedocs.io/en/latest/spa_examples/ab42.html#generate-symmetry-copies<https://urldefense.com/v3/__https://servalcat.readthedocs.io/en/latest/spa_examples/ab42.html*generate-symmetry-copies__;Iw!!MznTZTSvDXGV0Co!HaFqsuwLDfRfu8q4dZomS3Nzg9ZqMnUw20jOZXLLUDsxNKSve8Cbj6G9IDvBT-vPAIcChPn5Yruop-yznxLN6S54qmqsim8$> Cheers Oli On Jul 11, 2024, at 12:02 PM, Binh Nguyen via ChimeraX-users <chimerax-users@cgl.ucsf.edu> wrote: Dear all, Is there a way in chimeraX that I can use to generate a long fibril, say 20 chains, from a single chain with a twist angle of -1.4 degree and the rise (distance between layers) of 4.75 Angstrom. Some thing like this: <image.png> I normally used Coot and manually add a single layer into density. Thanks, B ________________________________ UT Southwestern Medical Center The future of medicine, today. _______________________________________________ ChimeraX-users mailing list -- chimerax-users@cgl.ucsf.edu<mailto:chimerax-users@cgl.ucsf.edu> To unsubscribe send an email to chimerax-users-leave@cgl.ucsf.edu<mailto:chimerax-users-leave@cgl.ucsf.edu> Archives: https://mail.cgl.ucsf.edu/mailman/archives/list/chimerax-users@cgl.ucsf.edu/<https://urldefense.com/v3/__https://mail.cgl.ucsf.edu/mailman/archives/list/chimerax-users@cgl.ucsf.edu/__;!!MznTZTSvDXGV0Co!HaFqsuwLDfRfu8q4dZomS3Nzg9ZqMnUw20jOZXLLUDsxNKSve8Cbj6G9IDvBT-vPAIcChPn5Yruop-yznxLN6S54EGBixzI$> CAUTION: This email originated from outside UTSW. Please be cautious of links or attachments, and validate the sender's email address before replying.