Sidechain positions
| Case number: | 845813-985816 |
| Topic: | Game: Tools |
| Opened by: | reed |
| Status: | Resolved |
| Assigned: | Seth Cooper |
| Priority: | 3 |
| Type: | Suggestion |
| Opened on: | Thursday, March 19, 2009 - 15:43 |
| Last modified: | Tuesday, August 23, 2011 - 17:26 |
This suggestion was mentioned in the "sidechain flipping" article on the wiki, but I'll repeat it here.
To see the possible sidechain positions, right now we have to grab the sidechain and wave it around. For example, proline might have 1-2 positions and tryptophan might have 5-6 positions. To see all of these, sometimes I need to turn the protein around to make sureI found all of them. For the large juicy sidechains, it's not always clear at first that I've found every position.
It would be better if it was easier to see and access the possible positions (rotamers?) of each sidechain. For example, clicking (shift-click, ctrl-click?) on a sidechain could bring up discrete buttons for each position, or maybe a slider which slides through each position?
Example: We click on a long, squiggly sidechain and a slider with 4 positions pops up. We quickly slide through the 4 positions and watch the score change for each one. We stop on one that looks promising and start wiggling.
| Topic: Game: Display » Game: Tools |
| Priority: 3 » 1-High |
Agreed. We need an interface or slider-like tool to see what the sidechain rotameters would look like, and to select between them.
In the new Selection Interface you can select a sidechain and then use the left and right arrow keys on your keyboard to flip through the different positions.
| Status: Open » Done |
| Assigned: Anonymous » Seth Cooper |
| Priority: 1-High » 3 |
thanks for letting players know, Madde
Yes, they are called snap positions.
If you mouse over a segment and press TAB, it will show you the segment number (and more).
Using scripts, then you can change them by do_sidechain_snap(segment number, position).
get_sidechain_snap_count(segment number) will show you how many positions are possible for this segment.
When looping through the sidechain snap counts in your code watch out because the count can change in mid loop. It will cause an error and your code will stop.
Yeah, this thread gives more ifo how to avoid this:
http://fold.it/portal/node/988100
| Status: Done » Resolved |
Marking as resolved.
![](http://128.95.1.228:8000/tracking_pixel.gif?events=scAdd&f=1111&wdata={"x":12, "y":11}){kind=tracking}
This exact feature (with a slider to control rotamer positions) used to be in FoldIt. I agree it would be good if it were reinstated.