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Structures of several base pairs discussed in the paper. The hydrogen atoms in phosphate−sugar backbones are not shown. Only the base−base hydrogen bonds are shown. The proton from protonation and the bridging water are labeled with H and W, respectively. Most of the structures are taken from the BGSU Basepair Catalogue (http://rna.bgsu.edu/FR3D/basepair/). See ref (43) for notations.
