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Recent Citations

Sub-2‚ÄČÅ Ewald curvature corrected structure of an AAV2 capsid variant. Tan YZ, Aiyer S et al. Nat Commun. 2018 Sep 7;9(1):3628.

Malaria parasite translocon structure and mechanism of effector export. Ho CM, Beck JR et al. Nature. 2018 Sep 6;561(7721):70-75.

Structural basis of pan-Ebolavirus neutralization by an antibody targeting the glycoprotein fusion loop. Murin CD, Bruhn JF et al. Cell Rep. 2018 Sep 4;24(10):2723-2732.e4.

Crystal structure of the Frizzled 4 receptor in a ligand-free state. Yang S, Wu Y et al. Nature. 2018 Aug 30;560(7720):666-670.

Electron-microscopy-based epitope mapping defines specificities of polyclonal antibodies elicited during HIV-1 BG505 envelope trimer immunization. Bianchi M, Turner HL et al. Immunity. 2018 Aug 21;49(2):288-300.e8.

(Previously featured citations...)

Chimera Search

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News

September 21, 2018

Mac users are advised to hold off upgrading to Mojave until we find a fix for Chimera buttons not being shown until the windows containing them are resized.

July 3, 2018

Chimera production release 1.13 is now available. See the release notes for what's new.

June 2, 2018

A production release candidate (version 1.13) is available; please try it and report any problems. See the release notes for what's new.

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Upcoming Events

UCSF Chimera is a highly extensible program for interactive visualization and analysis of molecular structures and related data, including density maps, supramolecular assemblies, sequence alignments, docking results, trajectories, and conformational ensembles. High-quality images and animations can be generated. Chimera includes complete documentation and several tutorials, and can be downloaded free of charge for academic, government, nonprofit, and personal use. Chimera is developed by the Resource for Biocomputing, Visualization, and Informatics (RBVI), supported in part by the National Institutes of Health (P41-GM103311).

UCSF ChimeraX (or simply ChimeraX) is the next-generation molecular visualization program from the RBVI, following UCSF Chimera.

Feature Highlight

1le4 sequence

Annotations from UniProt

The PDB/UniProt Info tool retrieves sequence and structure annotations for Protein Data Bank (PDB) entries using a Web service provided by the RCSB PDB. Sequences are displayed in Multalign Viewer, and feature annotations from UniProt are mapped onto the sequences as regions or colored boxes. In the region browser (figure at right):

  • making a region Active selects any corresponding structure residues for further operations; only one region can be active at a time
  • making a region Shown displays it in the sequence window
  • the square color wells show (and allow changing) the region interior and border colors
UniProt annotations can also be fetched along with a sequence or mapped to a sequence already in Multalign Viewer regardless of whether the sequence is associated with a structure.

(More features...)

Gallery Sample

Sliced Potassium Channel

Potassium channel (Protein Data Bank entry 1bl8) on a dark slate blue background with potassium ions shown in firebrick. The channel is comprised of four chains. Each chain has been rainbow-colored from blue at the N-terminus to red at the C-terminus, but only the surface of the channel is shown. The surface has been sliced with a per-model clipping plane. The surface cap color is plum except with opacity set to 0.8. The shininess and brightness have been set to 128 and 8, respectively, and the lights on the scene have been moved from their default positions. The subdivision quality (related to the smoothness of the spherical ions) is 5.0, and the molecular surface was computed with probe radius and vertex density set to 1.0 and 6.0, respectively. (More samples...)


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