Bridge binding site

Figure E.6. Stereo view (cross-eye) of scallop muscle cross-bridge(Sl) to show the ATP binding site at the turn in a cleft. The cleft runs in two directions, one toward the actin-cross-bridge binding site and the other toward the hydrophobic dissociation...

Finally, the 1,3-dione systems prepared by Cram and Alberts deserve special note . These compounds, referred to as hexahosts are similar to the polymer-bound material illustrated as Compound 29 in Chap. 6. The synthesis is based on a methylene-bridged bis-dithiane unit. One of these may be cyclized with a polyethylene glycol, or more than one unit may be incorporated to give multiple 1,3-dione binding sites in the macrocycle. The former case is illustrated in Eq. (3.46). 

The in-out bicyclic amines prepared by Simmons and Park bear a remarkable semblance to the cryptands but lack the binding sites in the bridges. As a result, these molecules interact with electrophiles in a fashion similar to other tertiary amines and generally do not exhibit strong interactions with alkali or alkaline earth metal ions. The in-out bicyclic amines are prepared by reaction of the appropriate acid chlorides and amines in two stages to yield the macrobicyclic amine after reduction of the amidic linkages. A typical amine is shown above as compound 18. 

In other sections in this chapter, we have referred to a variety of macropolycyclic structures which are more elaborate than the simple three-stranded bicyclic cryptands. This includes bridged double-macrocycles " , in-out bicyclic amines and the macrotricyclic quaternary ammonium salts of Schmidtchen. In addition to these, there are two other types of compounds which deserve special note. The first of these is a stacked twin-ring cryptand, but it is a hybrid molecule rather than a double-cryptand . The species shown below as 20 is a crowned porphyrin, and was designed to provide a pair of metal cation binding sites similar to those which might be available in natural biological systems . 

Fig. 4. Tentative allocation of probe binding sites within the three-dimensional structure of Ca -ATPase derived from vanadate-induced E2-type crystals. The top picture is the projection view of the Ca -ATPase down the x-axis, revealing the pear-shaped contours of ATPase molecules. The maximum length of the cytoplasmic domain to the tip of the lobe is =r65A. In the middle and bottom pictures the same structure is viewed down the x-axis, revealing the gap between the bridge and the bilayer surface and the connections between ATPase molecules in neighboring dimer chains. The proposed binding sites for lAEDANS and FITC are indicated. The bottom right picture is the same structure viewed down the y-axis. Adapted from Taylor et al. [90].

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