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. Author manuscript; available in PMC: 2013 Jan 10.

Published in final edited form as: J Chem Theory Comput. 2011 Dec 8;8(1):335–347. doi: 10.1021/ct200712b

Atomic-level representations of twelve dinucleotide platforms created from the four identified backbone conformations (I-IV), i.e., idealized rSPSOMs, and the three studied base combinations (GU, AA, and UC). The combination is called compatible if the expected base…base interaction pattern (i.e., Sugar edge/Hoogsteen edge, Figure 8) is formed. The H-bonds between adjacent bases and the interactions of the 2′-hydroxyl groups typical for the conformational type (Table 3) are denoted by dashed green lines.

Atomic-level representations of twelve dinucleotide platforms created from the four identified backbone conformations (I-IV), i.e., idealized rSPSOMs, and the three studied base combinations (GU, AA, and UC). The combination is called compatible if the expected base…base interaction pattern (i.e., Sugar edge/Hoogsteen edge, Figure 8) is formed. The H-bonds between adjacent bases and the interactions of the 2′-hydroxyl groups typical for the conformational type (Table 3) are denoted by dashed green lines.