Fri, 06/25/2021 - 13:56
#2
ALA loaded incorrectly
I could not load an alanine in a loop because it was greyed out. Don't think that's intended.
Fri, 06/25/2021 - 21:50
#3
Does auto secondary structure say the segment is helix or sheet?
I'm guessing that if you run auto secondary structure
on that "loop" segment, Foldit will say the segment is
a helix or sheet instead of a loop. Maybe if you distort
that segment enough that its backbone hydrogen bonds
break, it will be treated as a loop instead. You might
also try using the Blueprint Tool to place a short ideal
loop there. Another idea is to try mutating to proline
before mutating to alanine. Proline's backbone N won't
form hydrogen bonds like other amino acids do. Maybe
this will force the segment to become loop so you can
then mutate it to alanine. Yet another idea is to find
the segment in the Rama Map and move it out of the red
and blue regions (I think this can be done in the
Selection Interface). Then mutate it to alanine. Then
move it in the Rama Map back to where it started.
Buried Unsats (max +500)
Penalizes polar atoms that cannot make hydrogen bonds, -200 points per atom (not including symmetric copies).
Core Existence: Monomer (max +1600)
Ensures that at least 16 residues are buried in the core of the monomer unit.
Core: Complex (max +0)
Awards no bonuses or penalties. Click Show to see which residues count as "Core" for the H-bond Network objective.
Interaction Energy (max +500)
Monitors that all large PHE, TYR, and TRP residues are scoring well.
H-bond Network (max +2400)
Rewards networks that comprise at least 2 H-bonds involving core residues.
Between 1 and 12 H-bonds should cross the interface between symmetric units.
Networks must be at least 75% satisfied (i.e. 75% of all bondable atoms in a network must make a H-bond).
SS Design (max +500)
Penalizes all CYS residues. Penalizes GLY, ALA residues in sheets. Penalizes GLY, ALA in helices.
Ideal Loops (max +500)
Penalizes any loop region that does not match one of the Building Blocks in the Blueprint tool. Use "Auto Structures" to see which regions of your protein count as loops.