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 |