Binding site types

A wide range of reversible adsorption kinetic rates was also found by TIR/FRAP for another protein, lysozyme, on a substrate with a different surface charge, alkylated silicon oxide.(61) It is possible that the wide range of rates results from a spectrum of surface binding site types and/or formation of multilayers of adsorbed protein. 

ANTIBODY-HAPTEN INTERACTIONS TYPE 1, 2, 3 COPPER BINDING SITES Type I dehydrogenase,... 

Rhus vernicifera laccase is known to incorporate four tightly bound copper atoms distributed in three distinct sites. Type 1 copper is responsible for the intense blue colouration, and a second form of metal ion, type 2, is not associated with any specific spectroscopic absorption bands but has been inferred from e.s.r. studies. This centre is known to function as a strong anion-binding site. Type 3 copper is non-detectable by e.s.r. and is characterized by a u.v. absorption band (Amax ca. 330 nm). Anaerobic stopped-flow studies with hydroquinone (HgQ) have been made to investigate the mode of reduction at these centres. The type 1 and type 3 copper ions are reduced in parallel at comparable rates over a wide range of substrate concentrations and pH. The rate data are consistent with the mechanism... 

A summary of binding site types found in tRNAs, listing the metal ions that bind to them. Details, with references, are given for particular metals and RNA species in section 4.4.3.1.2, which follows. 

Serine proteinases such as chymotrypsin and subtilisin catalyze the cleavage of peptide bonds. Four features essential for catalysis are present in the three-dimensional structures of all serine proteinases a catalytic triad, an oxyanion binding site, a substrate specificity pocket, and a nonspecific binding site for polypeptide substrates. These four features, in a very similar arrangement, are present in both chymotrypsin and subtilisin even though they are achieved in the two enzymes in completely different ways by quite different three-dimensional structures. Chymotrypsin is built up from two p-barrel domains, whereas the subtilisin structure is of the a/p type. These two enzymes provide an example of convergent evolution where completely different loop regions, attached to different framework structures, form similar active sites. 

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 . 

The incorporation of S-N chains between metal centres by the use of heteroaryl substituents in complexes of the type 14.7 has been proposed as a way to generate new materials that may function as molecular wires. However, the synthesis of thiazyl chains bearing metal-binding sites has yet to be achieved. 

Fig. 6-12. Different types of binding sites in polymers eontaining miero- (site B), meso- and maerop-ores (site A) C) Embedded site, D) Site eomplementary to dimer or multimer, E) Indueed binding site, E) Nonseleetive site, G) Residual template.

Often the materials swell to different extents depending on the type of diluent. The swelling is here normally high in solvents and low in nonsolvents for the polymer. Unfortunately, this may lead to large changes in the accessibility and density of the binding sites when the solvent is changed [16]. 

Why does EDTA cause only 90% inhibition, leaving 10% of the activity intact Buffer solutions usually contain 0.1 1 pM of contaminating Ca2+ when special precaution is not taken, and this concentration is much greater than the molar concentration of luciferase used in the experiments. Thus, one of the possibilities would be that Ca2+ interacts with the molecule of luciferase and can increase the activity of luciferase about 10 times, in spite of the fact that the molecule of luciferase lacks the Ca2+ binding site of EF-hand type (Thompson et al., 1989). Another possibility would be that EDTA interacts directly with the molecules of luciferase, to cause the inhibition. The question remains unresolved. 

A class of sedative/hypnotic type drug that exert their effects through the benzodiazepine binding site on GABAa receptors. The class consists both of molecules that contain the benzodiazepine moiety, for example diazepam, lorazepam and flunitrazepam, and the newer, non-benzodiazepine compounds such as zolpidem, zopiclone, indiplon and zaleplon. BzRAs are primarily used for the treatment of anxiety, insomnia and to elicit varying levels of sedation. The wide selection of compounds currently available affords the prescribing clinician extensive options in terms of relative efficacies and durations of action. 

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