Biology Reference
In-Depth Information
FIGURE 3.3
3DPSGs and network parameter distribution in dark andMII rhodopsin. The 3DPSGs concerning dark (A) andMII (B) states are shown. Nodes are
represented as spheres centered on the C
-atoms of the protein, on the C8 atomof retinal, and the O atomof the structural water molecules. Nodes
are colored according to their location (i.e., according to the different receptor regions). In this respect, helices 1, 2, 3, 4, 5, 6, 7, and 8 are,
respectively, blue, orange, green, pink, yellow, cyan, violet, and red. I1 and E1 are lime, I2 and E2 are gray, I3 and E3 aremagenta, and N-term and
C-term, including H8, are red. The diameter of the circle is proportional to the number of links made by the considered node, with the lowest
value corresponding to one link. Links are red. In panels (C) and (D), only links that are specific to the dark (orange) and MII (violet) states are,
respectively, shown. Specific nodes hold the same link color, whereas common nodes are green. The contribution of each receptor portion to those
nodes and links that are specific to the dark (orange) and MII (violet) states is plotted as well in panels (E) and (F), respectively.
a
