Nicotinamide adenine dinucleotide substrate specificity

The leading substrate (A) is nicotinamide adenine dinucleotide (NAD ), and NAD and NADH (product Q) compete for a common site on E. A specific example is offered by alcohol dehydrogenase (ADH) ... 

These dehydrogenases use nicotinamide adenine dinucleotide (NAD ) or nicotinamide adenine dinucleotide phosphate (NADP )—or both—and are formed in the body from the vitamin niacin (Chapter 45). The coenzymes are reduced by the specific substrate of the dehydrogenase and reoxidized by a suitable electron acceptor (Figure 11-4). They may freely and reversibly dissociate from their respective apoenzymes. 

The sirtuins (silent information regulator 2-related proteins class III HDACs) form a specific class of histone deacetylases. First, they do not share any sequence or structural homology with the other HDACs. Second, they do not require zinc for activity, but rather use the oxidized form of nicotinamide adenine dinucleotide (NAD ) as cofactor. The reaction catalyzed by these enzymes is the conversion of histones acetylated at specific lysine residues into deacetylated histones, the other products of the reaction being nicotinamide and the metabolite 2 -0-acetyl-adenosine diphosphate ribose (OAADPR) [51, 52]. As HATs and other HDACs, sirtuins not only use acetylated histones as substrates but can also deacetylate other proteins. Intriguingly, some sirtuins do not display any deacetylase activity but act as ADP-ribosyl transferases. 

Enzyme Cofactors. In many enzymatic reactions, and in particular biological reactions, a second substrate (i.e., species) must be introduced to activate the enzyme. This substrate, which is referred to as a cofactor or coenzyme even though it is not an enzyme as such, attaches to the enzyme and is most (often either reduced or oxidized during the course of the reaction. The enzyme-cofac-tor complex is referred to as a holoenzyme. The inactive form of the enzyime-cofactor complex for a specific reaction and reaction direction is called an apoenzyme. An example of the type of system in which a cofactor is used is the formation of ethanol from acetaldehyde in the presence of the enzyme alcohol dehydrogenase (ADH) and the cofactor nicotinamide adenine dinucleotide (NAD) ... 

When one of the substrates is water (i.e., when the process is one of hydrolysis), with the reaction taking place in aqueous solution, only a fraction of the total number of water molecules present participates in the reaction. The small change in the concentration of water has no effect on the rate of reaction and these pseudo-one substrate reactions are described by one-substi ate kinetics. More generally the concentrations of both substrates may be variable, and both may affect the rate of reaction. Among the bisubstrate reactions important in clinical enzymology are the reactions catalyzed by dehydrogenases, in which the second substrate is a specific coenzyme, such as the oxidized or reduced forms of nicotinamide adenine dinucleotide, (NADH), or nicotinamide adenine dinucleotide phosphate, (NADPH), and the amino-group transfers catalyzed by the aminotransferases. 

DHFR catalyzes the reduction of 7,8-dihydrofolate (H2F) to 5,6,7,8-tetrahydrofolate (H4F) using nicotinamide adenine dinucleotide phosphate (NADPH) as a cofactor (Fig. 17.1). Specifically, the pro-R hydride of NADPH is transferred stereospecifi-cally to the C6 of the pterin nucleus with concurrent protonation at the N5 position [1]. Structural studies of DHFR bound with substrates or substrate analogs have revealed the location and orientation of H2F, NADPH and the mechanistically important side chains [2]. Proper alignment of H2F and NADPH is crucial in enhancing the rate of the chemical step (hydride transfer). Ab initio, mixed quantum mechanical/molecular mechanical (QM/MM), and molecular dynamics computational studies have modeled the hydride transfer process and have deduced optimal geometries for the reaction [3-6]. The optimal C-C distance between the C4 of NADPH and C6 of H2F was calculated to be 2.7A [5, 6], which is significantly smaller than the initial distance of 3.34 A inferred from X-ray crystallography [2]. One proposed chemical mechanism involves a keto-enol tautomerization (Fig. 

Nicotinamide-adenine-dinucleotide, NAD, di-phosphopyrUUne nudeotide, DPN, codehydrogenase I, coenzyme I, cozymase a pyridine nucleotide coenzyme involved in many biochemical redox processes. It is the coenzyme of a large number of oxidoreducta-ses, which are classified as pyridine nucleotide-dependent dehydrogenases. Mechanistically, it serves as the electron acceptor in the enzymatic removal of hydrogen atoms from specific substrates. 

Although it was known that the intermediates of the yS-oxidation cycle are chaimelled towards PHA biosynthesis, only recently the precursor sources were identified. In A. caviae, the y3-oxidation intermediate, trans-2-tnoy -CoA is converted to (R)-3-hydroxyacyl-CoA via (R)-specific hydration catalysed by an (R)-specific enoyl-CoA hydratase [125, 126]. Subsequently, Tsuge and co-workers [127] reported the identification of similar enoyl-CoA hydratases in Pseudomonas aeruginosa. In the latter case, two different enoyl-CoA hydratases with different substrate specificities channelled both SCL and MCL enoyl-CoA towards PHA biosynthesis. In recombinant . coli it was further shown that 3-ketoacyl-CoA intermediates in the )8-oxidation cycle can also be channelled towards PHA biosynthesis by a nicotinamide adenine dinucleotide phosphate dependent (NADPH-dependent) 3-ketoacyl-ACP reductase [128]. A similar pathway was also identified in P. aeruginosa [129]. In addition, it was also reported that the acetoacetyl-CoA reductase (PhaB) of R. eutropha can also carry out the conversion of 3-ketoacyl-CoA intermediates in Pathway II to the corresponding (R)-3-hydroxyacyl- CoA in E. coli [130]. The results clearly indicate that several channelling pathways are available to supply substrates from the y3-oxidation cycle to the PHA synthase. This explains why it was not possible to obtain mutants that completely lack PHA accumulation ability, unless the mutation occurred in the PHA synthase gene [131]. 

The two synthetic diastereomeric nicotinamide adenine dinucleotide derivatives are attached via a methylene spacer at position 5 of the nicotinamide ring. Only the S-isomer undergoes the intramolecular hydride transfer, forming the corresponding pyruvate-nicotinamide analogue and NADH. Two (R)-lactate specific dehydrogenases, however, do not catalyze a similar reaction with either one of the two diastereoisomers. Consequently a possible arrangement of the substrates (lactate and pyruvate) at the active centers of these enzymes can be proposed ... 

U. Grau, H. Kapmeyer, and W. E. Trommer (1978), Combined coenzyme-substrate analogues of various dehydrogenases. Synthesis of (3S)- and (3R)-5-(3-carboxy-3-hydroxypropyl) nicotinamide adenine dinucleotide and their interaction with (S)- and (R)-lactate-specific dehydrogenases. Biochemistry 17, 4621-4626. 

D-Glucitol dehydrogenase has broad substrate-specificity. The enzyme oxidizes D-glucitol, L-iditol, ribitol, and xylitol in the presence of NAD+ cofactor.414 424 NAD+ can be replaced by 3-acetylpyridine adenine dinucleotide (AcPyAD), 3-thionicotinamide adenine dinucleotide (TNAD), or nicotinamide hypoxanthine dinucleotide (NHD).414... 

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