Fig. 3
From: An SVM-based method for assessment of transcription factor-DNA complex models
Prediction of complex models. RMSD vs. orientation potential, DDNA3 potential and SVM (RBF) quality score for three TF-DNA complexes 2c6y (a), 1jt0 (b), and 2bnw (c) from the testing dataset. The conformation with the lowest orientation potential (green), the lowest DDNA3 potential (orange) and the highest quality score or lowest 1- p (blue) are highlighted across the three selection methods. The RMSD cutoff is set at 3 Å (vertical gray dashed line) and the quality score cutoff value is set at 0.5 (horizontal gray dashed line) for the SVM model