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. Author manuscript; available in PMC: 2009 Oct 1.
Published in final edited form as: J Phys Chem B. 2008 May 8;112(21):6716–6724. doi: 10.1021/jp800680w

Figure 5.

Figure 5

Time series from the 60-ns trajectories for the distances between the Arg280 guanidium nitrogen atom and the fourth Gua base of the p53 half site for complexes Ho (A), Ho_CAAG (B), Ho_CTAG (C) and Ho_CTTG (D), respectively. The atom specification shown on the Y-axis uses the CHARMm atom type convention. The pairs of atoms formed hydrogen bonds in the crystal structure and therefore were monitored for their dynamics behavior. These distances were shown for each of the four p53 monomers for every complex with the p53 core domains denoted as 1a, 1b, 2a and 2b in the inset legend as in Figure 1. The numerical notation for the base indicates its position in the quarter site G1A2G3C4A/T5.