Mechanism glyceraldehydes-3- phosphate

Analyses of enzyme reaction rates continued to support the formulations of Henri and Michaelis-Menten and the idea of an enzyme-substrate complex, although the kinetics would still be consistent with adsorption catalysis. Direct evidence for the participation of the enzyme in the catalyzed reaction came from a number of approaches. From the 1930s analysis of the mode of inhibition of thiol enzymes—especially glyceraldehyde-phosphate dehydrogenase—by iodoacetate and heavy metals established that cysteinyl groups within the enzyme were essential for its catalytic function. The mechanism by which the SH group participated in the reaction was finally shown when sufficient quantities of purified G-3-PDH became available (Chapter 4). 

Glyceraldehyde phosphate dehydrogenase probably holds the distinction of being the classic thiol enzyme in the minds of most biochemists . The thiol is believed to be involved in the initial attachment of the aldehyde substrate as a thiohemiacetal. The em me-bound thiohemiacetal is then oxidized by NAD generating an enzyme-bound thioester. In more sophisticated proposals for this mechanism the nicotinamide cofactor interacts with the active centre thiol as a charge transfer type of complex. This facilitates the reaction of the thiol with the carbonyl of the substrate. The thiol addition and the electron transfer to nicotinamide occur... 

During the metabolism of D-glucose 6-phosphate by the HMS pathway, D-ribulose 5-phosphate and D-ribose 5-phosphate are formed 74). The two pentoses then react to from D-sedoheptulose 7-phosphate and D-glyceralde-hyde 3-phosphate. The sedoheptulose phosphate and glyceraldehyde phosphate react to form D-fructose 6-phosphate and D-erythrose 4-phosphate. These reactions provide a cyclic mechanism which can be represent/ed as follows ... 

G. Alagona, P. Desmeules, C. Ghio, and P. A. Kollman, /. Am. Chem. Soc., 106, 3623 (1984). Quantum Mechanical and Molecular Mechanical Studies on a Model for the Dihy-droxyacetone Phosphate-Glyceraldehyde Phosphate Isomerization Catalyzed by Tiiose-phosphate Isomerase (TIM). 

Figure 3 A possible mechanism for the isomerization of dihydroxyacetone phosphate (DHAP) to D glyceraldehyde 3 phosphate (GAP) by the enzyme triosephosphate isomerase (TIM). The general acid (Glu 165) and general base (His 95) are shown.

As shown in Figure 16.10, this reaction mechanism involves nucleophilic attack by —SH on the substrate glyceraldehyde-3-P to form a covalent acylcysteine (or hemithioaeetal) intermediate. Hydride transfer to NAD generates a thioester intermediate. Nucleophilic attack by phosphate yields the desired mixed carboxylic-phosphoric anhydride product, 1,3-bisphosphoglycerate. Several examples of covalent catalysis will be discussed in detail in later chapters. 

FIGURE 19.18 A mechanism for the glycer-aldehyde-3-phosphate dehydrogenase reaction. Reaction of an enzyme snlfliydryl with the carbonyl carbon of glyceraldehyde-3-P forms a thiohemiacetal, which loses a hydride to NAD to become a thloester. Phosphorolysls of this thloester releases 1,3-blsphosphoglycerate. 

One of the steps in the biological pathway for carbohydrate metabolism is the conversion of fructose 1,6-bisphosphate into dihydroxyacetone phosphate and glyceraldehyde 3-phosphate. Propose a mechanism for the transformation. 

Figure 29.9 Mechanism of step 4 in Figure 29.7, the cleavage of fructose 1,6-bisphosphate to yield glyceraldehyde 3-phosphate and dihydroxyacetone phosphate.

Figure 29.10 Mechanism of Step 6 in Figure 29.7, the oxidation and phosphorylation of glyceraldehyde 3-phosphate to give 1,3-bisphosphoglycerate.

Problem 29.13 Write a mechanism for step 6 of gluconeogenesis, the reduction of 3-phospho-glyceryl phosphate with NADH/H+ to yield glyceraldehyde 3-phosphate. 

Another step in the pentose phosphate pathway for degrading sugars (see Problem 29.38) is the conversion of ribose S-phosphate to glyceraldehyde 3-phosphate. What kind of organic process is occurring Propose a mechanism for the conversion. 

Baker, M.S., Feigan, J. and Lowther, D.A. (1989). The mechanisms of chondrocyte hydrogen peroxide damage. Depletion of intracellular ATP due to suppression of glycolysis caused by oxidation of glyceraldehyde-3-phosphate dehydrogenase. J. Rheumatol. 16, 7-14. 

Parker D.J., and Allison, W.S. (1969) The mechanism of inactivation of glyceraldehyde 3-phosphate dehydrogenase by tetrathionate, o-iodosobenzoate, and iodine monochloride. J. Biol. Chem. 244, 180-189. 

Figure 5.11 Mechanism of the glyceraldehyde-3 -phosphate dehydrogenase reaction. (From Voet and Voet, 2004. Reproduced with permission from John Wiley Sons., Inc.)...

Velick, S.F. (1954). The alcohol and glyceraldehyde-3-phosphate dehydrogenases of yeast and mammals. In The Mechanism of Enzyme Action. (McElroy, W.D. Glass, B., Eds.), pp. 491-519. The Johns Hopkins Press, Baltimore. 

A three-substrate (A, B, and C), two-product (P and Q) enzyme reaction scheme in which all substrates and products bind and are released in an ordered fashion. Glyceraldehyde-3-phosphate dehydrogenase has been reported to have this reaction scheme. The steady-state and rapid equilibrium expressions, in the absence of products and abortive complexes, are identical to the ordered Ter Ter mechanism. See Ordered Ter Ter Mechanism... 

MECHANISM FIGURE 22-18 Tryptophan synthase reaction. This enzyme catalyzes a multistep reaction with several types of chemical rearrangements. An aldol cleavage produces indole and glyceraldehyde 3-phosphate this reaction does not require PLP. Dehydration of serine forms a PLP-aminoacrylate intermediate. In steps and this condenses with indole, and the product is hydrolyzed to release tryptophan. These PLP-facilitated transformations occur at the /3 carbon (C-3) of the amino acid, as opposed to the a-carbon reactions described in Figure 18-6. The /3 carbon of serine is attached to the indole ring system. Tryptophan Synthase Mechanism... 

Revises the presentation of the mechanism of glyceraldehyde 3-phosphate dehydrogenase. 

The most confusing aspect of the pathway proposed by Ochoa and his group now rests with the NAD requirement. In proceeding from L-malic acid to L-lactic acid, there is no net change in oxidation state. Yet in whole cells or cell-free extracts, the malo-lactic fermentation will not proceed in the absence of NAD. Therefore, by the proposed mechanism, one is unable to demonstrate the appearance of reduced cofactor, and the NAD specificity cannot be explained as a redox requirement. However, in the time since this mechanism was proposed, an NAD dependent enzyme (glyceraldehyde-3-phosphate dehydrogenase) has been described which requires NAD in a non-redox capacity (29), and it is possible that the same is true for the enzyme causing the malic acid-lactic acid transformation. 

A requirement for all fermentations is the existence of a mechanism for coupling ATP synthesis to the fermentation reactions. In the lactic acid and ethanol fermentations this coupling mechanism consists of the formation of the intermediate 1,3-bisphosphoglycerate by the glyceraldehyde 3-phosphate dehydrogenase (Fig. 10-3, step a). This intermediate contains parts of both the products ATP and lactate or ethanol. 

Photosynthesis. The formation of carbohydrates in green plants by the process of photosynthesis is described in ihc entry on Photosynthesis. The synthetic mechanism involves the addition of carbon dioxide to ribulose-1,5-diphosphate and the subsequent formation of two molecules of 3-phosphoglyccric acid which are reduced to glyceraldehyde-3-phosphate. The triose phosphates are utilized to again from ribulose-5-phosphates by enzymes of the pentose phosphate cycle Phosphorylation or ribulose-5-phosphate with ATP regenerates ribulose-1.5-diphosphate to accept another molecule of carbon dioxide. See also Phosphorylation (Photosynthetlc). 

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