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DNA-binding models. (A) The original model predicts no interaction of a 5OVH DNA substrate with residues K241, K215, or R216 but does suggest close contact with R172. (B) Such interactions are predicted in the revised model. (C) Stereoview of revised conceptual binding model (PDB ID code 1J5F). The model was energy-minimized by using X-PLOR and obvious steric clashes are absent (32). The position of the single-stranded tail (red) behind the nuclease is depicted arbitrarily.
