Table 1.
RDC calculation statistics
Subdomains | PDB | NRDCa | DA, Hzb | DR/DAc | α, ° | β, ° | γ, ° | rmsd, Hzd | Qe | Szz, ×104 | Syy, ×104 | Sxx, ×104 | GDO, ×104f | ηg |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
NBD IA-IB-IIA best fit | E. coli DnaK 1DKG.pdb | 108 | −11.62 | 0.29 | 80.27 | 79.16 | 93.75 | 5.28 | 0.43 | −9.54 | 6.81 | 2.73 | 9.83 | 0.43 |
Error selfh | 0.63 | 0.07 | 44.74 | 2.15 | 50.55 | 0.30 | 0.03 | 0.52 | 0.49 | 0.53 | 0.50 | 0.10 | ||
Error mci | 0.80 | 0.07 | 40.02 | 1.98 | 38.79 | 0.41 | 0.04 | 0.66 | 0.49 | 0.58 | 0.64 | 0.10 | ||
NBD IIB best fit | E. coli DnaK 1DKG.pdb | 29 | −12.09 | 0.22 | 97.98 | 64.16 | 78.93 | 5.32 | 0.43 | −9.93 | 6.61 | 3.32 | 10.11 | 0.33 |
Error selfh | 1.45 | 0.16 | 47.68 | 3.66 | 13.25 | 0.77 | 0.07 | 1.19 | 1.08 | 1.46 | 1.11 | 0.24 | ||
Error mci | 1.14 | 0.11 | 45.59 | 5.52 | 80.27 | 79.16 | 93.75 | 0.94 | 1.05 | 0.98 | 0.96 | 0.17 | ||
SBD BETA-LID best fit | E. coli DnaK 1DKX.pdb | 79 | −14.38 | 0.31 | 30.54 | 81.86 | 120.07 | 2.67 | 0.19 | −11.81 | 8.62 | 3.19 | 12.22 | 0.46 |
Error selfh | 0.44 | 0.03 | 34.46 | 1.39 | 33.40 | 0.37 | 0.03 | 0.36 | 0.25 | 0.34 | 0.33 | 0.05 | ||
Error mcj | 0.29 | 0.02 | 41.00 | 0.87 | 41.28 | 0.25 | 0.02 | 0.24 | 0.18 | 0.27 | 0.22 | 0.04 |
Best fits were computed using a grid-search program optimizing DA, DR/DA, and the three tensor orientation angles α, β, and γ.
aNumber of dipolar restraints used.
bDA = [Szz − (Syy + Sxx)/2]* DMAX, where DMAX is the full dipolar coupling (22 KHz).
cDR = (Sxx − Syy) * DMAX.
drmsd of RDC fit.
eQ = RMSD/.
fGDO = .
gη = (Sxx − Syy)/Szz.
hThirty fits were computed for NBD and SBD each, using on average 60% of the RDC data, randomly picked (self-validation).
iForty sets of synthetic RDC data, corresponding to the actual available RDC data for NBD IA, IB, and IIA, with a Monte Carlo random error of 15 degrees in NH orientation and a random RDC measurement error of 2 Hz were analyzed.
jForty sets of synthetic RDC data, corresponding to the actual available RDC data for the SBD, with a random error of 5° degrees in NH orientation and a random RDC measurement error of 2 Hz were analyzed.