Dear Dr. Elaine Yang, I hope this message finds you well. I am reaching out to seek your assistance regarding some issues I am facing with accessing certain resources. Specifically, the following links are not working: Protein-Ligand Binding Sites Tutorial: https://www.rbvi.ucsf.edu/chimerax/docs/user/tutorials/binding-sites.html ViewDockX Tool: https://www.rbvi.ucsf.edu/chimerax/docs/user/tools/viewdockx.html. Additionally, I am unable to access any content from the ChimeraX tutorials. These resources are crucial for my current research, and I would greatly appreciate any help or guidance you can provide to resolve these issues. Thank you very much for your time and assistance. Best regards, Ahmed Morsy ========================= Ahmed Morsy, Ph.D.Assistant Professor, Department of Stem Cell & Regenerative Biotechnology,Konkuk University, 120 Neungdong-ro, Gwangjin-gu, Seoul 05029, KoreaTel.: 02-450-0498C.P.: +82/10-5299-5844E-mail: ahmed_morsy86@yahoo.com; ahmed@konkuk.ac.krOrcid id: https://orcid.org/0000-0003-3873-9903 Scopus id: 55258308400 (https://www.scopus.com/authid/detail.uri?authorId=55258308400) Researchgate: https://www.researchgate.net/profile/Ahmed-Abdal-Dayem GoogleScholar: https://scholar.google.co.kr/citations?user=NevFBgMAAAAJ&hl=en On Saturday, June 15, 2024 at 12:39:01 AM GMT+9, Elaine Meng <meng@cgl.ucsf.edu> wrote: UCSF ChimeraX version 1.8 has been released! ChimeraX includes user documentation and is free for noncommercial use. Download for Windows, Linux, and MacOS from: https://www.rbvi.ucsf.edu/chimerax/download.html Updates since version 1.7 (Dec 2023) include: - show worm depictions of attribute values (B-factor, conservation, etc.) using Render by Attribute tool or "cartoon byattribute" command - show attribute values with atomic radii using Render by Attribute or "size byattribute" - Select by Attribute graphical interface - Join Models generalized to any covalent bond (not just peptide) - show multiple alternate locations simultaneously with "altlocs show" - "pbond" command to create arbitrary pseudobonds - "measure contactarea" to report the area of one surface within a cutoff distance of another - Segmentations tool for interactive manual segmentation in 2D slice views, 3D (desktop), or 3D (VR) can be applied to any volume data, not just medical images; several fixes and ergonomic improvements including icons to assign/deassign mouse and VR hand-controller modes with a single click - set up and analyze batch AlphaFold predictions to search for protein-protein interactions (commands for advanced users who can run ColabFold directly on Linux) support for: - reading predicted aligned error (PAE) data from AlphaFold 3 - reading docking results from MOE - fetching atomic structures and maps from PDB-REDO - fetching/display of PDB NMR-STAR restraints For details, please see the ChimeraX change log: https://www.rbvi.ucsf.edu/trac/ChimeraX/wiki/ChangeLog On behalf of the team, 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 _______________________________________________ ChimeraX-announce mailing list -- chimerax-announce@cgl.ucsf.edu To unsubscribe send an email to chimerax-announce-leave@cgl.ucsf.edu