Is it really worthwhile to submit to scientists a fold which is only r50? Bearing in mind that r50 might only be 200 energy points from r1 in some cases and in other cases 2000 points lower than r1. Also some r50s may be just rough folds with no refinement while others may just represent an unstable fold?
If it doesn't violate patent concerns or other such things, can we get some more feedback about what does and doesn't make a "good" surfing hotdog fold.I'd like to know about what makes the wet lab folds work and not work, rather than the score. So far, we mostly have either horseshoe helices (from one end), helices from each end, or a "seatbelt" fold which is similar to the Koga & Koga designs. The "seatbelt" keeps the helices pretty close, so they can't have many aromatics. The others, or "ankle strap" ones have more room and can have things like a pi sandwich in the middle.
I would be nice to be able to focus our folds on things that would be useful, even if our machines are too small to get top scores
In the recent blog comments, bkoep mentions that the box plots about improvement in "top scoring solutions" are based on the top 10 solo and evo solutions per puzzle. Was 10 the cutoff just for those graphs, or is that a cutoff you use for sending things to Rosetta as well? I'm wondering, if my best solution finishes at rank 11-30, will you for sure look at it, or do I need to share that best one with scientists as well as my lower-scoring tracks?
As we US citizens know, funding is getting tougher and tougher. What can we do to help – time, energy, tech support, whatever
We'd like to know. Really
Do you use filters when you send some "ideal" design to Rosetta?
I dont' understand the difference between loops and disordered sections.
In ED, some "disordered" portions are outside of the cloud, which I understand they don't have fixed specific shape (do they move position into water depending on temperature etc ?). In your latest co-players-authored paper, you had to get these disordered regions out in order to demonstrate we found a good solution.
Some loops are inside of the cloud: their exact position seems important to get points.
What is the difference ? are there disordered loops and ordered loops?