Fig. 3. Challenge pipeline.

a–c, Overview of the challenge setup (a), submissions (b) and evaluation (c) strategy. d, Scores comparison. Multiple interactive tabular and graphical displays enable comparative evaluations (model-compare.emdataresource.org). Top, Map-Model FSC curves, APOF 1.8 Å models (random light colors) versus reference model (bold cherry red). Map-Model FSC measures overall agreement of the experimental density map with a density map derived from the coordinate model (model map)¹². Curves are calculated from Fourier coefficients of the two maps and plotted versus frequency (resolution⁻¹). The resolution value corresponding to FSC = 0.5 (black horizontal line) is typically reported. Smaller values indicate better fit. Bottom, scores comparison tool, ADH models. Interactive score distribution sliders reveal at a glance how well submitted models performed relative to each other. Parallel lanes display score distributions for each evaluated metric in a manner conceptually similar to the graphical display for key metrics used in wwPDB validation reports^4,32. Score distributions are shown for four representative metrics, one from each evaluation track. Model scores are plotted horizontally (semi-transparent diamonds) with color coding to indicate worse (left, orange) and better (right, green) values. Darker, opaque diamonds indicate multiple overlapping scores. Scores for two individual models are also highlighted: the interactive display enables individual models to be identified and compared (red and blue triangles).