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You can run AlphaFold protein structure predictions up to about 3000 amino acids from ChimeraX by paying Google to use an Nvidia A100 GPU (~$1.50 for 2000 amino acids). Details here youtu.be/H-pDs9rZtkw

Here's how to color a protein by the distance of its C-alpha atoms to another aligned protein using ChimeraX. Rabbit actin (1j6z) colored by similarity to an archaeal crenactin (4bql). How-to video youtu.be/XaTpB-UIxnU

Downtime. Due to server maintenance the ChimeraX website, associated web services (BLAST, Modeller, ...), and Toolshed will be unavailable Monday Oct 30, 2023 at 8 am – Oct 31 11:59 pm Pacific daylight time.

Downtime. The computers running the ChimeraX web site and web services (BLAST, Modeller...) and Toolshed went down yesterday, expected back Oct 31 11:59 pm Pacific daylight time. Status here wynton.ucsf.edu/hpc/status/

Downtime. The ChimeraX web site and services are still down due to UCSF Wynton cluster server maintenance. We expect them to be back online before November 3, 11:59 pm Pacific time. Sorry for the long outage.

Worms! Available in ChimeraX v1.8 daily builds 3/12/24 and newer. See rbvi.ucsf.edu/chimerax/featu… for details and the script to make this image.

CrAI, a tool using machine learning to automatically find antibodies in cryo-EM densities, is now available in ChimeraX (menu Tools / More Tools)! CrAI runs in seconds on a CPU, at resolutions up to 10A. Learn more at cxtoolshed.rbvi.ucsf.edu/apps/chimeraxc…

Downtime: The ChimeraX web site, web services (Blast Protein, Modeller tools, sequence realignment), mailing lists, and bug reporting will be down 9 AM Pacific time Monday June 17 to 5 PM Tuesday June 18 for building electrical upgrades.

The ChimeraX 1.8 release is available. Varying ribbon thickness ("worms") shows B-factor across human spliceosome structure PDB 8c6j. See what else is new in the ChimeraX change log. rbvi.ucsf.edu/trac/ChimeraX/…

In ChimeraX v1.9 daily builds 30/07/2024 or newer, raycasting can be used to render medical images and other volumes. Use 'volume projectionMode rays' or the new button on the medical image toolbar.

Morphing transition showing the open-close transition of the Campylobacter jejuni ATP-driven lipid-linked oligosaccharide flippase PglK (PDB codes: 5C73 and 5C76) #scivis #moleculart #sciart ChimeraX (bsky: chimerax.ucsf.edu)

Downtime for server maintenance: The ChimeraX website, Toolshed, web services (Blast Protein, Modeller, ...) and mailing list will be unavailable starting Monday, October 14, 10 AM PDT and continuing for several days, potentially through October 20th.

Candidate builds for the 1.9 ChimeraX release are availabe now on our website: cgl.ucsf.edu/chimerax/downl…

Speech recognition + LLM + AR + MD = Molecular graphics and modeling in the Holodeck (paraphrasing ChimeraX (bsky: chimerax.ucsf.edu) 's Tom Goddard in pubmed.ncbi.nlm.nih.gov/29964044/) Trying to make science fiction reality with Fabio Cortes and Lucien Krapp using #WebXR Watch with audio...!

We now have an account on the competing microblogging platform that cannot be named.

We've moved. To see the latest ChimeraX features such as anisotropic ellipsoids, Foldseek searches, and deep mutational scan visualization check out UCSFChimeraX at BlueSky.

ChimeraX AlphaFold prediction is working again. It was broken the past couple days because Google Colab updated the Python library numpy from version 1 to 2. Thanks to ColabFold developer Milot Mirdita for making Colabfold work with numpy 2.

Hey ChimeraX users! ChimeraX-CliX now supports color preview, quick menubar/toolbar search, and many other powerful features to support you. If you are interested in, please download the latest version -> cxtoolshed.rbvi.ucsf.edu/apps/chimeraxc…