Bug in secondary structure filter

Case number:671071-2012042
Topic:Game: Other
Opened by:ichwilldiesennamen
Opened on:Friday, September 10, 2021 - 07:00
Last modified:Tuesday, September 14, 2021 - 06:30

I tried to do a helix-only design on puzzle 2041 and was surprised to see that I got penalized for 122 helix-segments even though there are only 80 residues in the puzzle. Seems like the number of helix-segments is doubled in the filter.
Because if I add one helix-residue to a design which has just enough loop/sheet segments, then I get penalized for 2 helix-segments.
This should be easy to fix because it seems that you just have to divide by 2 somewhere.

(Fri, 09/10/2021 - 07:00  |  2 comments)

bkoep's picture
User offline. Last seen 21 hours 31 min ago. Offline
Joined: 11/15/2012
Groups: Foldit Staff

Since puzzle 2041 is a symmetric tetramer puzzle with 4 symmetric chains, I believe per-residue penalties are applied to all residues in the puzzle (not just the monomer subunit). However, I am surprised that you would ever see a penalty for just 2 helix residues. If you have a solution like that, could you share it with scientists?

Joined: 03/28/2020
Groups: Go Science

Oh ok, there is indeed a 4x penalty for one additional helix-segment on the monomer. See my shares iw6a and iw6b on this (b has 1 helix-segment more on the monomer). But still, in iw6a I got penalized for only 2 helix segments. Seems like there is an offset of 2 penalty-segments.
With this high 4x-penalty it does indeed not make sense to me to try a helix-only design so I will refrain from this.


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