Skip to main content
. 2021 Apr 15;12(19):6652–6669. doi: 10.1039/d0sc04657d

Simulated properties of Aβ 40 sampled with different force fields.

Quantity Force fields
a03ws a99SB-ILDN/TIP4P-D a99SB-UCB a99SB-disp a99SB*-ILDN/TIP3P C22*/TIP3P C36m
RMSDexp Cα-shift (ppm) 0.738 0.589 0.641 0.631 0.759 0.688 0.634
RMSDRC Cα-shift (ppm)a 0.678 0.555 0.593 0.580 0.706 0.627 0.572
RMSDexp C′-shift (ppm) 1.025 0.964 0.927 0.929 0.984 0.961 0.978
RMSDRC C′-shift (ppm)a 1.211 1.077 1.041 1.117 1.209 1.188 1.177
χ 2 J-coupling 7.03 3.28 1.94 4.50 6.33 2.50 3.05
Ree〉 ± S.D. (nm)b 2.64 ± 1.60 3.97 ± 1.53 4.22 ± 1.68 3.17 ± 1.25 2.22 ± 0.82 2.67 ± 1.14 3.09 ± 1.54
EFRET〉 ± S.D. 0.83 ± 0.26 0.65 ± 0.31 0.59 ± 0.33 0.81 ± 0.23 0.96 ± 0.06 0.88 ± 0.17 0.80 ± 0.27
Rgyr〉 ± S.D. (nm) 1.31 ± 0.30 1.65 ± 0.30 1.76 ± 0.40 1.38 ± 0.30 1.11 ± 0.08 1.24 ± 0.20 1.45 ± 0.30
Rhyd〉 ± S.D. (nm) 1.62 ± 0.16 1.77 ± 0.13 1.80 ± 0.13 1.66 ± 0.11 1.53 ± 0.05 1.60 ± 0.11 1.69 ± 0.13
a

For the calculation of the RMSD with respect to the RC chemical shifts, the RC values and correction factors determined in ref. 65 and 66 for IDPs at 300 K and pH 7 were used.

b

S.D. = standard deviation.