about
projects
people
publications
resources
resources
visit us
visit us
search
search
Quick Links
Featured Citations
Semantic design of functional de novo genes from a genomic language model. Merchant AT, King SH et al. Nature. 2026 Jan 15;649(8097):749-758.
Structural basis of regulated N-glycosylation at the secretory translocon. Yamsek M, Ma M et al. Nature. 2026 Jan 15;649(8097):777–784.
Plug-in strategy for resistance engineering inspired by potato NLRome. Wang L, Li H et al. Nature. 2026 Jan 8;649(8096):396–405.
Deep contrastive learning enables genome-wide virtual screening. Jia Y, Gao B et al. Science. 2026 Jan 8;391(6781):eads9530.
Recurrent acquisition of nuclease-protease pairs in antiviral immunity. Tuck OT, Hu JJ et al. Science. 2026 Jan 8;391(6781):195-201.
More citations...News
December 25, 2025
|
December 16, 2025
The ChimeraX 1.11 production release is available! See the change log for what's new.
November 21, 2025
The ChimeraX 1.11 release candidate is available – please try it and report any issues. See the change log for what's new. This will be the last release to support Red Hat Enterprise Linux 8 and its derivatives.
Previous news...Upcoming Events
UCSF ChimeraX (or simply ChimeraX) is the next-generation molecular visualization program from the Resource for Biocomputing, Visualization, and Informatics (RBVI), following UCSF Chimera. ChimeraX can be downloaded free of charge for academic, government, nonprofit, and personal use. Commercial users, please see ChimeraX commercial licensing.
ChimeraX is developed with support from National Institutes of Health R01-GM129325.
ChimeraX on Bluesky:
@chimerax.ucsf.edu
Feature Highlight
Hydrogen bonds (H-bonds) can be identified with the
H-Bonds tool,
hbonds command,
or the
Molecule Display
icon
and plotted as an interactive histogram with the command
crosslinks
histogram.
The ChimeraX graphics window shows the complex between a natural killer cell receptor 2B4 and its ligand CD48 (PDB 2ptt). The receptor protein is blue, the ligand protein pink, and H-bonds between them dashed yellow, with H-bonding residues labeled. Although not done here, the H-bonds could also be labeled by distance.
The histogram of H-bond distances on the top right is interactive: when the cursor is placed over a bar in the histogram, the corresponding H-bonds are temporarily enlarged in the 3D view and the others hidden. For image setup other than orientation, see the command file hb3.cxc.
More features...
Example Image
Atomic B-factor values are read from PDB and mmCIF input files and assigned as attributes that can be shown with coloring and used in atom specification. This example shows B-factor variation within a structure of the HIV-1 protease bound to an inhibitor (PDB 4hvp). For complete image setup, including positioning, color key, and label, see the command file bfactor.cxc.
Additional color key examples can be found in tutorials: Coloring by Electrostatic Potential, Coloring by Sequence Conservation
About RBVI | Projects | People | Publications | Resources | Visit Us
Copyright 2018 Regents of the University of California. All rights reserved.