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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 4.

Figure 4

Time series for the p53-p53 and p53-DNA interactions for the Ho, Ho_CAAG, the Ho_CTAG, and Ho_CTTG complexes. (A) Total p53-DNA interaction energies. (B) p53 dimer-dimer interactions energies. (C) The interaction energies between p53 tetramer and each of the 20 base pairs of the response elements, averaged over the period of 20–30 ns of the trajectory. Interaction energies were calculated with the interaction module of the CHARMm program and distance-dependent dielectric constant of 4 was used for electrostatic energy calculations and a nonbonded cutoff of 12 Å.