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Chimera Tutorials

A set of tutorials is included in the Chimera User's Guide.

The expanded "Getting Started" tutorial is more suitable for printing (more self-contained rather than hyperlinked) than the above.

Video tutorials and tutorials from past Chimera workshops are also available.

This page contains still more tutorials.

Calculate and visualize APBS electrostatic potential by Thomas Evangelidis.

Comparing different ligands of the same protein. December 11, 2017.

Docking an atomic structure into low-resolution density. December 11, 2017.

Coloring by NMR chemical shift perturbation. November 29, 2017. Updated version November 28, 2018.

Mapping sequence conservation onto structures, with several example situations and data files. First presented in Fall 2014.

Making animations presented at the NIH Chimera workshop, October 3, 2012. Best viewed in a browser that handles embedded H.264 video (e.g. Chrome or Safari but not Firefox as of Oct 2012).

Making high quality images presented at the National University of Singapore cryoEM workshop, July 12, 2012.

Filtering and segmenting HIV virus electron tomography presented at the NIH Chimera Workshop, October 2-5, 2012, and at the National University of Singapore cryoEM workshop, July 12, 2012.

Functional annotation scenario: The Structure-Function Linkage Database (SFLD) and Chimera. 2014 update of a demonstration for an NIH site visit, November 2011.

Fitting ParM helical filaments, presented at Purdue University, November 30, 2011.

Segger segmentation tutorials from Greg Pintilie at NCMI (2011): Segmenting, fitting molecules to segments, scoring fits.

EM fitting tutorial with Rous sarcoma virus and comparison to HIV (data files, video, PDF) presented at the EMAN workshop held in Houston, Texas, March 2011.

EM fitting tutorial using HIV spikes and ParM filaments from EMBO practical course "The combination of electron microscopy and x-ray crystallography for the structure determination of large biological complexes" held in Grenoble, France, October 2009.

Movie making tutorial from movie making course at UCSF library (May 5, 2009).

Movie making tutorial from publication images and movies course (July 29, 2008).

Exercises from July 2008 volume data display course. Coloring using electrostatic potential, viewing crystal difference maps, solvent occupancy map, morphing between maps, erasing part of a map, tracing surfaces in tomograms.

Density maps. (March 2007). Coloring, morphing, and fitting maps. Plus basic map display and comparison of sequences and structures. Human RNA polymerase II example.

Molecular bracelet (February 2007). Creating an image with per-model clipping and silhouette edges; creating a short movie.

Chaperonin. Displaying electrostatic potential and crystallographic density map, and fitting model into EM density map.

Guide to Volume Data Display in Chimera. Example images and how-to instructions for volume data display features.

How to show a virus capsid. Example using Rhinovirus 2 bound to cellular receptor fragment.

GroEL tutorial. Density map and PDB model display.

Semliki forest virus tutorial. Density map and PDB model display.