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Figure 7.
Figure 7. Comparison of Q[i]-site residues and ligands in
structures 1PPJ and Y21. The two structures were superimposed
based on cytochrome b residues 32-51, 79-99, 113-145, 161-201,
and 263-300. The backbone is shown for parts of transmembrane
helices A (pink), D (red), and E (green), in color for 1PPJ and
gray for Y21; as well as some of the linker region preceding
helices A and D. Relevant side-chains are drawn with bonds and
carbon atoms the same color as the backbone. Water molecules are
shown as red spheres for 1PPJ and pink spheres for Y21.
Antimycin from 1PPJ is shown as a purple ball-and stick figure
with red oxygen atoms, while ubiquinone from structure Y21 is
yellow. Note the relatively invariant positions of the backbone
and side-chains, and the positioning of the ubiquinone ring over
the amide moiety of antimycin.
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