TABLE 1.
Proteins | Mr | Concentration | Rga | MassGuinierb | Quality of the fit | RgPoroda | MassPorodb | RgP(r)a | Dmaxc | Estimate | MassP(r)ab | Rgatomica | Dmaxatomicc | Best χ2 | NSD between 10 models |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
mg ml−1 | Å | kDa | % | Å | kDa | Å | Å | kDa | Å | Å | |||||
NucS | 59.2 | 4.31 | 35.0 | 60.7 | 86 | 35.6 | 59.2 | 35.6 | 111 | 0.908 | 55.0 | 34.5 | 111.8 | 0.7912 | 1.510 |
NucS + DNA | 59.2 | 3.56 | 35.0 | 63.2 | 91 | 35.7 | 62.4 | 35.6 | 111 | 0.935 | 55.5 | 34.6 | 112.4 | 0.9625 | 1.717 |
PCNA | 86.4 | 5.3 | 33.5 | 84.7 | 85 | 33.7 | 84.1 | 34.1 | 99 | 0.968 | 82.5 | 33.6 | 95.6 | 0.8060 | 1.157 |
NucS + PCNA | 145.6 | 4.6 | 38.7 | 148.9 | 89 | 38.8 | 132.8 | 39.4 | 130 | 0.889 | 137.5 | 39.9 | 131.2 | 1.242 | 0.833 |
a Rg, RgPorod, RgP(r), and Rgatomic given by the Guinier approximation, deduced from the Porod calculation, derived from the distance distribution function, and calculated for the final atomic model using the program CRYSOL, respectively.
b MassGuinier, MassPorod, MassP(r), mass of the protein given by the Guinier approximation, deduced from the Porod calculation, derived from the distance distribution function, and calculated for the final atomic model using the program CRYSOL, respectively.
c Dmax and Dmaxatomic correspond to the values deduced, respectively from the distance distribution function and the final model. The programs developed by Svergun and co-workers (65) minimize the normalized discrepancy function χ2.