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Recent Citations
Structural insights into vesicular monoamine storage and drug interactions. Ye J, Chen H et al. Nature. 2024 May 2;629(8010):235–243.
Ciliopathy patient variants reveal organelle-specific functions for TUBB4B in axonemal microtubules. Dodd DO, Mechaussier S et al. Science. 2024 Apr 26;384(6694):eadf5489.
Necroptosis blockade prevents lung injury in severe influenza. Gautam A, Boyd DF et al. Nature. 2024 Apr 25;628(8009):835–843.
Cryogenic electron tomography reveals novel structures in the apical complex of Plasmodium falciparum. Sun SY, Segev-Zarko L-a et al. mBio. 2024 Apr 10;15(4):e0286423.
Conformational ensemble of yeast ATP synthase at low pH reveals unique intermediates and plasticity in F1-Fo coupling. Sharma S, Luo M et al. Nat Struct Mol Biol. 2024 Apr;31(4):657-666.
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October 30-31, 2023
Planned downtime: The Chimera and ChimeraX websites and associated web services will be unavailable Oct 30 8am PDT – Oct 31 11:59pm PDT.
April 19, 2023
Chimera production release 1.17.1 is now available, fixing an issue with 1.17 for Windows and Linux. See the release notes for details.
April 13, 2023
Chimera production release 1.17 is now available. Updating is required to keep using the tools that run Blast Protein, Modeller, and multiple sequence alignment with Clustal Omega or MUSCLE, as these will soon stop working in older versions. See the release notes for details.
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UCSF Chimera is a program for the interactive visualization and analysis of molecular structures and related data, including density maps, trajectories, and sequence alignments. It is available free of charge for noncommercial use. Commercial users, please see Chimera commercial licensing.
We encourage Chimera users to try ChimeraX for much better performance with large structures, as well as other major advantages and completely new features in addition to nearly all the capabilities of Chimera (details...).
Chimera is no longer under active development. Chimera development was supported by a grant from the National Institutes of Health (P41-GM103311) that ended in 2018.
Feature Highlight
Axes, planes, and centroids can be calculated from sets of atoms using the Axes/Planes/Centroids tool or the command define. Axes can be shown as cylinders, planes as disks, and centroids as spheres, and any of these can be used in distance and angle measurements.
For example, the figure shows the dopamine D3 receptor and bound inhibitor (PDB entry 3pbl) as modeled into the membrane in the OPM database. The planes of the inner and outer membrane boundaries are shown as transparent blue and red disks, respectively. The protein ribbon is rainbow-colored from blue at the N-terminus to red at the C-terminus, and the axis of each helix is shown as a cylinder of matching color. The axis of the red helix forms an angle of 15.1° with the membrane and comes within 3.5 Å of the inner boundary. The yellow and orange helices are nearly antiparallel (crossing angle 5.9°). The average (minimum, maximum) distance of inhibitor atoms from the outer boundary is 7.9 (5.1, 11.7) Å.
(More features...)Gallery Sample
Peroxiredoxins are enzymes that help cells cope with stressors such as high levels of reactive oxygen species. The image shows a decameric peroxiredoxin from human red blood cells (Protein Data Bank entry 1qmv), styled as a holiday wreath.
See also the RBVI holiday card gallery.
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