Fig. 6: Application on EMDB-wide unmodeled maps.
From: Automated detection and de novo structure modeling of nucleic acids from cryo-EM maps
a The distribution (Fill Area, left y-axis) and accumulated percentages (Line+Symbol, right y-axis) of local confidences for n = 64601 individual nucleotides built from n = 263 maps in the EMDB data set. b Average confidence score of each model as a function of map resolution. c Average confidence score of each model as a function of the number of the nucleotides in the built DNA/RNA model. d–f Examples of the EM2NA-built models. The built model (red) is superposed to density map (transparent gray) in each panel. The nucleotides in the built models are also colored from white (low confidence) to blue (high confidence). In d two RNA chains (57 nucleotides) are built from the map (EMD-3377, reported resolution 4.71 Å). The average confidence is 0.75. In e two DNA chains (290 nucleotides) are built from the map forming a DNA-duplex (EMD-8140, reported resolution 3.87 Å). The average confidence is 0.84. In f a large ribosome (5347 nucleotides) is built from the map (EMD-29405, reported resolution 3.10 Å) with an average confidence of 0.63. Dashed circles indicate the less confident nucleotides. Source data are provided as a Source Data file.
