Projecting the structural network onto the 2d free energy surface.

<p>The 2d free energy surface <i>W</i>(<i>Q</i>_i,<i>Q</i>_a) was generated from a total of 200 µsec simulation data present in <a href="http://www.ploscompbiol.org/article/info:doi/10.1371/journal.pcbi.1000047#pcbi-1000047-g003" target="_blank">Figure 3 (bottom)</a>. The structural network was taken from the <i>T</i>(5) and the color code for each cluster is the same as in <a href="http://www.ploscompbiol.org/article/info:doi/10.1371/journal.pcbi.1000047#pcbi-1000047-g006" target="_blank">Figure 6</a>. Each cluster falls nicely on top of the 2d free energy surface. Two representative reactive paths (as shown later in <a href="http://www.ploscompbiol.org/article/info:doi/10.1371/journal.pcbi.1000047#pcbi-1000047-g008" target="_blank">Figure 8</a>) are also shown in green (<a href="http://www.ploscompbiol.org/article/info:doi/10.1371/journal.pcbi.1000047#pcbi-1000047-g008" target="_blank">Figure 8B</a>) and magenta (<a href="http://www.ploscompbiol.org/article/info:doi/10.1371/journal.pcbi.1000047#pcbi-1000047-g008" target="_blank">Figure 8D</a>), respectively.