Structural of binding sites

In general, ligand structure-based methods remain indispensable in those cases when the structure of binding site of the target protein is unknown. 

Cavasotto C, Orry AJW, Abagyan R A. Strnctnre-based identification of binding sites, native ligands and potential inhibitors for G-protein coupled receptors. Proteins Structure Funct Genet 2003 51 423-33. 

PROTEIN STRUCTURE OF PEPTIDE DEFORMYLASES Three-dimensional Structure Metal-binding Site... 

Curry, S., Mandelkow, H., Brick, P. and Franks, N. (1998) Crystal structure of human serum albumin complexed with fatty acid reveals an asymmetric distribution of binding sites. Nature Structural Biology 5, 827-835. 

The basic reactions of thiolsulfonates have been known for sometime (Field et al., 1961, 1964), but more recently, they have been applied to the study of protein interactions by site-directed modification of native cysteines or through modification of cysteines introduced at particular points in proteins by mutagenesis. Such studies have yielded insights into the structure and binding site characteristics of proteins (Kirley, 1989). Pascual et al. (1998) used AEAETS to probe the acetylcholine receptor from the extracellular side of the membrane in order to investigate the molecular accessibility and electrostatic potential within the open and closed channel. 

Since tRNA is more varied structurally than DNA, ethidium could reside in pockets as well as intercalate into double-strand regions. The fluorescence decay provides information about the type, or types, of binding sites occupied by ethidium. It is currently believed that the excited state of ethidium is quenched by proton transfer to the solvent0 86-1 and that its lifetime is reduced with increasing solvent exposure. If ethidium occupies two or more kinds of sites with different degrees of exposure to solvent, then its fluorescence decay is expected to be multiexponential. 

Premises Underlying SCAM Analysis of Binding Site Structure. 441... 

Polyphosphazenes and cyclophosphazenes are almost unique as carrier molecules for transition metals because of the wide range of binding sites that can be incorporated into the phosphazene structure. The substitutive mode of synthesis described earlier allows a structural diversity that is not found, for example, in polystyrene, polyphenylene oxide, or other organic carrier polymers. 

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