Hi Lynne, The Foldseek results are automatically cached in a JSON ".sms" file (e.g. on my Mac the default location is in ~/Downloads/ChimeraX/Foldseek/ ), but (1) there are lots of other numbers that you may not want (coordinates, perhaps) (2) I don't know how hard it would be to extract just the parts that you want and get them into Excel The sms files are described here <https://rbvi.ucsf.edu/chimerax/docs/user/formats/sms.html> ...but you should just look at the ones on your own system with a text-editor to really understand the contents. I hope this helps, Elaine ----- Elaine C. Meng, Ph.D. UCSF Chimera(X) team Resource for Biocomputing, Visualization, and Informatics Department of Pharmaceutical Chemistry University of California, San Francisco
On May 15, 2025, at 7:40 AM, Lynne Howell via ChimeraX-users <chimerax-users@cgl.ucsf.edu> wrote:
Hi Is there an easy way to export the list of similar PDB structures, the % sequence ID, E-value etc that can be found using FOLDSEEK to an excel file. Thanks in advance L __________________________________________________________________________ P. Lynne Howell Canada Research Chair (2006-2020) Senior Scientist, Program in Molecular Medicine The Hospital for Sick Children Professor, Department of Biochemistry, University of Toronto Office and Mailing address: Room 20-9-715 Peter Gilgan Centre for Research and Learning (PGCRL) 686 Bay St. Toronto ON M5G 0A4 Phone: 416-813-5378 (Internal 305378) Web page: https://lab.research.sickkids.ca/howell/
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