Fig. 1
From: Predicting protein residue-residue contacts using random forests and deep networks
Selected visualizations of long-range contact predictions from our “rf_full” model (δ = 0). a The 3D structure of CASP target T0778 showing a selection of four correctly predicted residue pairs that are in contact (30–61, 33–57, 51–77, 55–91). b A contact map for T0778 showing its true contacts (blue points in the lower right triangle), the top L/2 predicted contacts from the “rf_full” model (red points in the upper left triangle), and the locations of the interactions between the helices (H1-H4). c The 3D structure of T0778 showing four helices (H1-H4) which contain the correctly predicted residue pairs. d The 3D structure of CASP target T0798 showing a selection of four correctly predicted residue pairs (7–81, 8–58, 80–113, 114–144). e A contact map for T0798 showing its true contacts (blue points in the lower right triangle), and the top L/2 predicted contacts from the rf_full model (red points in the upper left triangle). f The 3D structure of T0798 showing five strands (S1-S5) which contain correctly predicted residue pairs. Please note that the coloration in sections (a) and (d) is only used to show pairs of residues and is not intended to compare contacts between the two structures. The coloration in sections (c) and (f) indicates each residue’s numerical position in the sequence of the structure. This coloring starts at the n-terminal with dark blue and continues to light blue, green, yellow, orange, and finally red at the c-terminal