ChimeraX cryoEM Visualization Tutorial: Bacterial ATP Synthase

This ChimeraX tutorial will look at how to visualize atomic models and maps of three conformations of a bacterial ATP synthase determined by cryoEM at 3.0 and 3.2 Anstrom resolution. We will create views of the data similar to those found in the February 2019 publication.

      Structure of a bacterial ATP synthase.
      Guo H, Suzuki T, Rubinstein JL.
      Elife. 2019 Feb 6;8. pii: e43128. doi: 10.7554/eLife.43128.

Atomic models PDB 6n2y, 6n2z, 6n30. EMDB maps 9333, 9334, 9335. ChimeraX can fetch these data files directly from the PDB and EMDB or you can download the files for offline use.


Basics: open, movement, styles, chains...

Miscellaneous - not sure how much of this to show at the start versus later on.

Morphing between 3 conformations

Viewing bound ADP, phosphate, ATP

Inspecting side-chain density, zones

Fitting atomic model into map

Proton intake channel. Proton outlet channel.

Look at proton channels

Look at unidirectional rotation