Fig. 1

Results of tomographic reconstruction. a Reconstructed three-dimensional (3D) optical density volumes at 708.2 (left) and 710.2 eV (right). The size of reconstructed voxels is 6.7 × 6.7 × 6.7 nm³. b Resolution estimation of the 3D volume at 708.2 eV in a by Fourier shell correlation (FSC, blue solid line with scatter) with 1/2-bit (red solid line) and 0.5 (magenta dashed-line) threshold criteria. c Representative cross-section of the tomogram at 708.2 eV along the highest resolution plane (xy). The slice of the same position at 710.2 eV is shown in Supplementary Fig. 7. The positions of the slices are marked as red (cutting along xy plane) and blue (cutting along xz plane) arrows in a. The resultant cross-sections onto the lower resolution plane (xz plane) at both 708.2 and 710.2 eV are shown in Supplementary Fig. 8. d Line profile indicated by the red arrow in c. Black-dashed lines are guides for 10–90% resolution criteria. Scale bars in a and c indicate 500 and 100 nm, respectvely