Rigid-body fitting to atomic force microscopy images for inferring probe shape and biomolecular structure
Fig 4
Twin-experiment for actin filament.
(A) One of the reference images used in this twin experiment, generated by a 3 nm/20 degree probe, with the pixel width 1 nm. (B) The image generated using the structure predicted from the image (A) with the cosine similarity-based cost function. (C) The difference between (A) and (B). (D) One of the reference images used in this twin experiment, generated by a 3 nm/20 degree probe. Unlike the panel (A), the pixel width is 2 nm, which is twice as large as that of panel (A). (E) The image generated from the structure predicted from the image (D) with the cosine similarity-based cost function. (F) The difference between panel (D) and (E). (A, B, D, E) The colormap of all the pseudo-AFM images is shared. (C, F) The color-bar of the difference maps is shared. (G) The resulting best scores of the prediction from the image with 1 nm pixel. (H) The structure-RMSD between the ground-truth structure and the predicted structure from the image with 1nm pixel. (I) The resulting best scores of the prediction from the image with 2 nm-wide pixels. (J) The structure-RMSD between the ground-truth structure and the predicted structure from the image with 2 nm-wide pixels. (G-J) Results from two probe angles, 10 degree in red and 20 degree in blue, are plotted in parallel. Solid lines connect the representative results from one reference AFM image. The cyan line shows the ground-truth probe shape.