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Featured Citations

Ribosome-NatA architecture reveals that rRNA expansion segments coordinate N-terminal acetylation. Knorr AG, Schmidt C et al. Nat Struct Mol Biol. 2019 Jan;26(1):35-39.

CRISPR RNA-guided autonomous delivery of Cas9. Wilkinson RA, Martin C et al. Nat Struct Mol Biol. 2019 Jan;26(1):14-24.

Cryo-EM structure of the native butyrylcholinesterase tetramer reveals a dimer of dimers stabilized by a superhelical assembly. Leung MR, van Bezouwen LS et al. Proc Natl Acad Sci USA. 2018 Dec 26;115(52):13270-13275.

Structure of the type VI secretion system TssK-TssF-TssG baseplate subcomplex revealed by cryo-electron microscopy. Park YJ, Lacourse KD et al. Nat Commun. 2018 Dec 19;9(1):5385.

Microtubule structure by cryo-EM: snapshots of dynamic instability. Manka SW, Moores CA. Essays Biochem. 2018 Dec 7;62(6):737-751.

See also: RCSB PDB Images
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News

December 17, 2018

ChimeraX version 0.8 is available. See the change log for what's new.

August 7, 2018

ChimeraX version 0.7 is available. See the change log for what's new.

July 13, 2018

New Virtual Reality at UCSF website shares information on VR projects, resources, and related issues.

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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 development is supported in part by grants from the National Institutes of Health (currently R01-GM129325, previously P41-GM103311).

Feature Highlight

Morphing Movie

Morphing between atomic structures can be calculated wih the morph command and played back in an animation. This movie shows morphing between two conformations of the FGFR1 kinase domain:

  • inactive structure (PDB 3C4F, chain A)
  • activated structure (PDB 3GQI, chain A) with phosphorylated tyrosines and bound ATP analog
The tyrosine side chains and ATP analog are color-coded by element: light blue carbon, red oxygen, blue nitrogen, and orange phosphorus.

Morphing and other setup was done with the command file kmorph-prep.cxc, followed by interactively positioning the structure and saving the view, then running kmorph-play.cxc to add 2D labels and record the movie.

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Example Image

cyclodextrin pore

Cyclodextrin Pore

The outer-membrane protein CymA admits bulky molecules into the periplasmic space of Klebsiella oxytoca. Here, CymA (PDB 4d5d chain A) is depicted in a style reminiscent of a diagnostic X-ray, with transparent molecular surface and β-strand “ribs” in white. The protein has ingested α-cyclodextrin (top) and β-cyclodextrin (bottom), bound at the entry site and near the exit, respectively. Cyclodextrin carbon atoms are shown in blue-gray and oxygen atoms in brick red. For image setup, see the command file xray.cxc.

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