Enzymes active-site-directed inhibition

Information relevant to the mechanism of an enzyme-catalyzed reaction can, in general, only be obtained from irreversible inhibitors which react specifically at the active site and thereby inactivate the enzyme. As active-site-directed inhibition is treated in detail in Ref. 142 general aspects will be discussed here only briefly. In order to be suitable as an active-site-directed inhibitor, a compound must fulfil the following requirements. 

The active-site-directed inhibition of enzymes has been an important research topic in pharmaceutical drug design (Sandler, 1980). An early development of anti-cancer agents involved inhibitions of dihydrofolate reductase and thymidylate synthetase. Search enzyme resource sites for kinetic data (turnover number, Km and Kt) of these two enzymes. 

The power of the pooled GST fusion protein approach will increase as new biochemical reagents and assays become available. The development of chemical probes for biological processes, termed chemical biology, is a rapidly advancing field. For example, the chemical synthesis of an active site directed probe for identification of members of the serine hydrolase enzyme family has recently been described (Liu et al., 1999). The activity of the probe is based on the potent and irreversible inhibition of serine hydrolases by fluorophosphate (FP) derivatives such as diisopropyl fluorophosphate. The probe consists of a biotinylated long-chain fluorophosphonate, called FP-biotin (Liu et al., 1999). The FP-biotin was tested on crude tissue extracts from various organs of the rat. These experiments showed that the reagent can react with numerous serine hydrolases in crude extracts and can detect enzymes at subnanomolar... 

Active site-directed /3-lactam-derived inhibitors have a competitive component of inhibition, but once in the active site they form an acyl enzyme species which follows one or mote of the pathways outlined in Figure 1. 

Since guanine aminohydrolase catalyzes the deamination of thioguanine and 8-azaguanine thereby destroying their anti-neoplastic effects, Baker and his colleagues have prepared a series of active site directed irreversible inhibitors to block the enzyme in tumor tissue (193). The most effective inhibitor, 9-(4-methoxy phenyl)guanine, effected a 50 inhibition at 0.38 nM in the presence of 13.3 juM substrate (194). 

In the presence of an excess of the glutamine analog, DON, the enzyme is readily inactivated irreversibly (7). This substance behaves as an active-site-directed alkylating agent in a number of enzymes which utilize glutamine as substrate (3). With the use of 6-I4C-DON, the amount of inhibitor covalently bound to protein can be directly measured and, as shown in Fig. 1, this amount is linearly correlated with the extent of inhibition of catalytic activity. The simplest explanation of this behavior is that irreversible reaction of one molecule of DON with the enzyme inactivates one catalytic site, probably by combination with an essential group at that site. With this assumption the concentration of active sites in an enzyme preparation may be calculated for the... 

Active-site directed inhibitors have reactivity with the enzyme greatly enhanced over that of non-specific inhibitors thus phenacyl iodide inhibits papain 50-fold faster than iodoacetamide whereas the active-site directed inhibitor 4-toluenesulphonylamidomethyl chloromethyl ketone reacts some 650-fold faster. The enhanced rate is due to complexation of the inhibitor with the enzyme, and indicates that the inhibitor must be reacting at the active site. 

Irreversible enzyme inhibition, also cahed enzyme inactivation (or active-site directed ineversible inhibition, because it is generally competitive with substrate), occurs when a compound blocks the enzyme activity for an extended period of time, generally via covalent bond formation. Therefore, even though some slow tight-binding inhibitors functionahy block the enzyme activity irreversibly, they are stih considered reversible... 

Recent achievements in the development of active-site directed affinity probes for proteases and other enzyme classes provide direct chemical labeling of proteases of interest in the biological system (24-27). These specific activity probes allow joint evaluation of selective protease inhibition concomitant with labeling of relevant protease enzymes for more analyses. Moreover, activity-based probes that selectively label the main protease subclasses—cysteine, serine, metallo, aspartic, and threonine—can provide advantageous chemical approaches for functional protease identification. Activity probe labeling of proteases allows direct identihcation of enzyme proteins by tandem mass spectrometry. Such chemical probes directed to cysteine proteases have been instrumental for identification of the new cathepsin L cysteine protease pathway for neuropeptide biosynthesis, as summarized in this article. 

Active site directed p-lactam-derived inhibitors have a competitive component of inhibition, but once in the active site they form an acyl enzyme species which follows one or more of the pathways outlined in Figure 1. Compounds that follow Route C and form a transiendy inhibited enzyme species and are subsequendy hydrolyzed to products have been termed inhibitory substrates or competitive substrates. Inhibitors that give irreversibly inactivated p-lactamase (Route A) are called suicide inactivators or irreversible inhibitors. The term progressive inhibitor has also been used. An excellent review has appeared on inhibitor interactions with p-lactamases (28). 

N-bromoacetylethanolamine <1, 16> (<1> specific active site-directed inactivator of enzyme, in vitro and in vivo [56] <16> repetitive administration affects inhibition of glycolysis and lipid metabolism, causing suppression of body weight gain [56]) [56]... 

During irreversible inhibition, after initial binding of the inhibitor to the enzyme, covalent bonds are formed between a functional group on the enzyme and the inhibitor. This is the case, for example, for the active-site-directed inhibitors (affinity labelling). 

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