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. 2003 Jul;85(1):49–60. doi: 10.1016/S0006-3495(03)74453-1

FIGURE 2.

FIGURE 2

FIGURE 2

FIGURE 2

(A) One slice of the vdW surface of barnase. This slice also cut through seven channels leading to the exterior of the protein and one internal cavity. The cross sections of the channels are drawn in dotted lines; the cavity is labeled. (B) The dielectric map on the slice in A generated using the vdW surface as the dielectric boundary with a resolution of 0.5 Å per grid. (C) The dielectric map generated using the SE surface as the dielectric boundary. Protein interior grids with a dielectric constant of 4 are shown in black whereas solvent grids with a dielectric constant of 78 are in white. Dielectric smoothing (Madura et al., 1995) was employed, thus boundary grids had dielectric constant (ɛ) intermediate between 4 and 78. Three gray levels are used to represent grids with 4 < ɛ ≤ 10, 10 < ɛ ≤ 30 and 30 < ɛ < 78.