Thiamin diphosphate structure

Thiamin, structure of, 530, 1045 thiazolium ring in, 530 Thiamin diphosphate, p/Ca of, 1151 reaction with pyruvate, 1151-1153 structure of. 1151 ylide from. 1151 Thiazole, basicity of. 948 thio-, thioester name ending, 787 Thioacetal, synthesis of, 743 Thioanisole, electrostatic potential map of. 777... 

Berthold CL, P Moussatche, NGJ Richards, Y Lindqvist (2005) Structural basis for activation of the thiamin diphosphate-dependent enzyme oxalyl-CoA decarboxylase by adenosine diphosphate. J Biol Chem 280 41645-41654. 

M. S. Hasson, A. Muscate, M. J. McLeish, L. S. Polovnikova, J. A. Gerlt, G. L. Kenyon, G. A. Petsko, D. Ringe, The crystal structure of benzoylformate decarboxylase at 1.6 A resolution, diversity of catalytic residues in thiamin diphosphate-dependent enzymes. Biochemistry 1998, 37, 9918-9930. 

Compounds, often derivatives of vitamins that, while in the active site of the enzyme, alter the structure of a substrate in a way that permits it to react more readily. Coenzyme A, pyridoxal phosphate, thiamin diphosphate, and vitamin B12 coenzymes fall into this group. 

We see that the essence of the action of thiamin diphosphate as a coenzyme is to convert the substrate into a form in which electron flow can occur from the bond to be broken into the structure of the coenzyme. Because of this alteration in structure, a bond breaking reaction that would not otherwise have been possible occurs readily. To complete the catalytic cycle, the electron flow has to be reversed again. The thiamin-bound cleavage product (an enamine) from either of the adducts in Eq. 14-20 can be reconverted to the thiazolium dipolar ion and an aldehyde as shown in step b of Eq. 14-21 for decarboxylation of pyruvate to acetaldehyde. 

By 1998, X-ray structures had been determined for four thiamin diphosphate-dependent enzymes (1) a bacterial pyruvate oxidase,119120 (2) yeast and bacterial pyruvate decarboxylases,121 122c (3) transketolase,110123124 and (4) benzoylformate decarboxylase.1243 Tire reactions catalyzed by these enzymes are all quite different, as are the sequences of the proteins. However, the thiamin diphosphate is bound in a similar way in all of them. 

Most known thiamin diphosphate-dependent reactions (Table 14-2) can be derived from the five halfreactions, a through e, shown in Fig. 14-3. Each halfreaction is an a cleavage which leads to a thiamin- bound enamine (center, Fig. 14-3) The decarboxylation of an a-oxo acid to an aldehyde is represented by step b followed by a in reverse. The most studied enzyme catalyzing a reaction of this type is yeast pyruvate decarboxylase, an enzyme essential to alcoholic fermentation (Fig. 10-3). There are two 250-kDa isoenzyme forms, one an a4 tetramer and one with an ( P)2 quaternary structure. The isolation of ohydroxyethylthiamin diphosphate from reaction mixtures of this enzyme with pyruvate52 provided important verification of the mechanisms of Eqs. 14-14,14-15. Other decarboxylases produce aldehydes in specialized metabolic pathways indolepyruvate decarboxylase126 in the biosynthesis of the plant hormone indoIe-3-acetate and ben-zoylformate decarboxylase in the mandelate pathway of bacterial metabolism (Chapter 25).1243/127... 

Figure 14-2 (A) Stereoscopic view of the active site of pyruvate oxidase from the bacterium Lactobacillus plantarium showing the thiamin diphosphate as well as the flavin part of the bound FAD. The planar structure of the part of the intermediate enamine that arises from pyruvate is shown by dotted lines. Only some residues that may be important for catalysis are displayed G35 , S36 , E59 , H89 , F12T, Q122 , R264, F479, and E483. Courtesy of Georg E. Schulz.119 (B) Simplified view with some atoms labeled and some side chains omitted. The atoms of the hypothetical enamine that are formed from pyruvate, by decarboxylation, are shown in green.

Schellenberger A, Neef H, Golbig R, Hiibner G, Konig S (1990) Mechanistic aspects of thiamine pyrophosphate enzymes via site-directed substitutions of the coenzyme structure. In Bisswanger H, Ullrich H (eds) Biochemistry and physiology of thiamin diphosphate enzymes. VCH, Weinheim, p 3... 

This vitamin acts as a coenzyme in the metabolism of carbohydrates and is present in all living tissues. It acts in the form of thiamin diphosphate in the decarboxylation of a-keto acids and is referred to as cocarboxylase. Thiamin is available in the form of its chloride or nitrate, and its structural formula is shown in Figure 9-12. The molecule contains two basic nitrogen atoms one is in the primary amino group, the other in the quater-... 

Y. Lindqvist, G. Schneider, U. Ermler, and M. Sundstrom. 1992. Three-dimensional structure of transketolase, a thiamine diphosphate dependent enzyme, at 2.5 A resolution EMBO J. 11 2373-2379. (PubMed)... 

Studies on thiamine (vitamin Bi) catalyzed formation of acyloins from aliphatic aldehydes and on thiamine or thiamine diphosphate catalyzed decarboxylation of pyruvate have established the mechanism for the catalytic activity of 1,3-thiazolium salts in carbonyl condensation reactions. In the presence of bases, quaternary thiazolium salts are transformed into the ylide structure (2), the ylide being able to exert a cat ytic effect resembling that of the cyanide ion in the benzoin condensation (Scheme 2). Like cyanide, the zwitterion (2), formed by the reaction of thiazolium salts with base, is nucleophilic and reacts at the carbonyl group of aldehy s. The resultant intermediate can undergo base-catalyzed proton... 

Arjunan, P., et al. (1996). Crystal structure of the thiamin diphosphate-dependent enzyme pyruvate decarboxylase from the yeast saccharomyces cerevisiae at 2.3 A Resolution. J. Mol. Biol. 256, 590-600... 

An elegant work is reported concerning the oxidation of 2-alkyl and 2-benzylthia-zolium salts, in the presence of a base, with the scope of finding a structural relationship for the thiamine-bound intermediate which intervene in the oxidative decarboxylation of a-ketoacids catalysed by thiamin diphosphate-dependent enzymes. 2-Alkyl and 2-benzylthiazolium salts, which are not electroactive, can be transformed into electroactive species by treatment with the base (trimethylsilyl)amide. Subsequent anodic oxidation affords the corresponding symmetrical dimers, by an EC mechanism (Scheme 72). As expected, the stabilizing effect of the substituents R, R at the a-carbon on the radical cation follows the order H < Me < OMe. When R is aryl, electron-donating p-substituents again enhance the enamine oxidation. 

Konig, S., Schellenberger, A., Neee, H., Schneider, G. (1994), Specificity of coenzyme binding in thiamin diphosphate-dependent enzymes. Crystal structures of yeast transketolase in complex with analogs of thiamin diphosphate, J. Biol. Chem. 269, 10879-10882. 

A thiamin diphosphate binding fold revealed by comparison of the crystal structures of transketolase, pyruvate oxidase and pyruvate decarboxylase. Structure 1, 95-103. 

C. B. Rios, Generation, Structure and Chemical Properties of Enamines Related to the Key Intermediate in Thiamin Diphosphate Dependent Enzymatic Pathways. Ph.D. Thesis, Rutgers University Graduate Eaculty at Newark, NJ, 1988. 

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