Making Electron Density easier to work with.

Case number:699969-2002670
Opened by:Steven Pletsch
Opened on:Friday, August 5, 2016 - 04:09
Last modified:Sunday, August 7, 2016 - 03:20

Perhaps this is something that would need to be done outside of foldit. Perhaps even a web app. But I was thinking about an electron density app to make the data easier to work with.

Basically you would be able to load the ED data and rather than using a fence to try and get your view where you want it. You could have the ooption to pop in spheres, cylinders, and cubes. Each 3D object would be adjustable in size and position along X/Y/Z (typical nodes to stretch, axis to move would suffice) allowing users to fit it over any ssection of the ED cloud.

You could then have a list at the side for each object, where you could name that section, show /hide that section, color that section, or hide/show the 3d object for editing it. There would also be those options for all ED data not within a defined area.

Each section designated by a 3D object could then be colored independtendtly, and be able to toggle it on/off from view.

I think that this tool would allow for users to go through and identify sections of the protein without having to view objects in front and behind, as well as easily keep track of areas they have preciously identified.

Being able to do this inside foldit would be great. But simply being able to edit this independently and load it as the ED data would also be beneficial. I don't know if a tool like this already exists outside of foldit (its a pretty basic concept so I assume it does) but it may be helpful in other programs as well.

(Fri, 08/05/2016 - 04:09  |  1 comment)

jeff101's picture
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Joined: 04/20/2012
Groups: Go Science

I think it would be useful to be able to fill in a continuous region of the Electron Density with a single color, as if the Electron Density were a mold and the color was like toothpaste filling up the mold. If the Electron Density has 2 or more separate continuous regions, one could fill each separate region with a different color. See for more details.


Developed by: UW Center for Game Science, UW Institute for Protein Design, Northeastern University, Vanderbilt University Meiler Lab, UC Davis
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