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Featured Citations

Mitoribosomal small subunit biogenesis in trypanosomes involves an extensive assembly machinery. Saurer M, Ramrath DJF et al. Science. 2019 Sep 13;365(6458):1144-1149.

CryoEM structures of Arabidopsis DDR complexes involved in RNA-directed DNA methylation. Wongpalee SP, Liu S et al. Nat Commun. 2019 Sep 2;10(1):3916.

Structure of the dynein-2 complex and its assembly with intraflagellar transport trains. Toropova K, Zalyte R et al. Nat Struct Mol Biol. 2019 Sep;26(9):823-829.

Conformational transitions of a neurotensin receptor 1-Gi1 complex. Kato HE, Zhang Y et al. Nature. 2019 Aug 1;572(7767):80-85.

A one-gate elevator mechanism for the human neutral amino acid transporter ASCT2. Garaeva AA, Guskov A et al. Nat Commun. 2019 Jul 31;10(1):3427.

See also: RCSB PDB Images
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News

June 20, 2019

ChimeraX virtual reality shown on PBS Newshour: How Close are Scientists to a Universal Flu Vaccine?

June 6, 2019

The ChimeraX 0.9 production release is available. See the change log for what's new.

May 30, 2019

From the Rochester Institute of Technology: Student develops tool to visualize molecular dynamics of proteins in virtual reality with ChimeraX.

Previous news...

Upcoming Events

September 24, 2019

At 12 pm EDT, Tristan Croll will give a live webinar on using ISOLDE, a ChimeraX plugin for interactively building high-quality atomic models into density maps of low-to-medium resolution. Later, the presentation will be posted on SBGridTV.


UCSF ChimeraX

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 licensing.

ChimeraX is developed with support from National Institutes of Health R01-GM129325 and the Office of Cyber Infrastructure and Computational Biology, National Institute of Allergy and Infectious Diseases.

Feature Highlight

membrane protein with lipophilicity coloring

Coloring by Molecular Lipophilicity Potential

Molecular lipophilicity potential (MLP) can be calculated for a protein and displayed with surface coloring using the command mlp or the Molecule Display icon . The image shows the photosynthetic reaction center from a purple sulfur bacterium, with MLP coloring on the molecular surface and membrane boundaries from OPM (Orientations of Proteins in Membranes entry 1eys). Blue and red balls represent the cytoplasmic and periplasmic sides of the bacterial inner membrane, respectively. Parts of the L, M, and H chains span the membrane, whereas the cytochrome subunit sits on the periplasmic side, at the top. The surface coloring ranges from dark goldenrod for the most hydrophobic potentials, through white, to dark cyan for the most hydrophilic. Ligands including lipid, detergent, heme, and various other cofactors are shown as purple surfaces.

For image setup after the structure from OPM has been opened, see the command file mlp.cxc.

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Example Image

neuraminidase flowers

Potassium Channel-Calmodulin Complex

KCNQ1 is the pore-forming subunit of a cardiac potassium channel. It binds to calmodulin, and mutations in either of these proteins can cause congenital long QT syndrome, a dangerous propensity for irregular heartbeats. In the image, a structure of the KCNQ1/calmodulin complex (PDB 5vms) has been assembled into the native tetrameric form with the sym command. The view is from the cytoplasmic side, with KCNQ1 shown as surfaces, calmodulin as cartoons, and calcium ions as balls. A pastel palette from ColorBrewer has been used to color the surfaces, darkened with color modify for the cartoons, and “rotated” 45° in hue for the ions. See the command file colormod.cxc.

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