Dipeptides, binding

A. J. Wilson, J. Hong, and A. D. Hamilton, Pattern-based detection of different proteins using an array of fluorescent protein surface receptors, J. Am. Chem. Soc. 126, 5656-5657 (2004). (f) C. Schmuck, and L. Geiger, Dipeptide binding in water by a de novo designed guanidinio-carbonylpyrrole receptor, J. Am. Chem. Soc. 126, 8898-8899 (2004). 

A CyD dimer 10 with a functional tether was synthesized for residue- and sequence-selective binding of nonaromatic dipeptides, binding Gly-Leu significantly better than Leu-Gly [136]. This remarkable difference in the binding between Leu-Gly and Gly-Leu can be accounted for in terms of the attractive/ repulsive interaction between the protonated amino group in the tether (-NH2 -)... 

Fig. 12.—Location" of the Third Binding-site in Nitroanilines (X), Sugars (-y), and Dipeptide Sweeteners (S). [Distances given in pm.]...

The binding specificity of d-[ C]glucose by the taste-papillae membranes, compared to that of control membranes isolated from epithelial tissue, has been confirmed in two studies. One inherent problem in the approach is that the stimuli, primarily carbohydrate sweeteners, are not ideal model compounds to use, as they are not active at low concentrations and do not show sufficiently high binding-constants. The use of other stimulus compounds that are at least several hundred times sweeter than sucrose, such as saccharin, dihydrochalcone sweeteners, dipeptide sweeteners, stevioside, perillartine and other sweet oximes, the 2-substituted 5-nitroanilines, and... 

E. and Randaccio, L. (1992) Gold(III) glycyl-L-histidine dipeptide complexes. Preparation and x-ray structures of monomeric and cyclic tetrameric species. Inorganic Chemistry, 31, 1983 (b) Carotti, S., Marcon, G., Marussich, M., Mazzei, T., Messori, L., Mini, E. and Orioli, P. (2000) Cytotoxicity and DNA binding properties... 

After formation of the initiation dipeptide, the first EF-G-dependent translocation allows binding of the third aminoacyl-tRNA in the A-site so that a tripeptide is formed. The apparent rate of this event may depend upon the nature of the initiation complex initially formed, being slower, for instance, with those containing mRNAs with an extended SD sequence than with those having either very short or no SD complementarity (C. O. G. and M. Rodnina, unpublished results). Furthermore, very powerful translocation inhibitors may block tripeptide formation to such an extent that they mimic translation initiation inhibitors. 

In the following section, we describe protocols for tests aimed at screening for compounds capable of interfering with some of the main activities of this factor, such as (a) recognition and binding of initiator tRNA (b) codon-dependent ribosomal binding of fMet-tRNA leading to the formation of a 30S or 70S initiation complex (c) ribosome-dependent hydrolysis of GTP and (d) accommodation of fMet-tRNA in the ribosomal P-site and formation of the first peptide bond (initiation dipeptide formation). 

Clare, R. A. Mueller, and K. Houseman, Effect of hydroxyl group configuration in hydroxyethylamine dipeptide isosteres on HIV protease inhibition Evidence for multiple binding modes, J. Med. Chem. 34 1222 (1991). 

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