Racemase mandelate

These results are compatible with an evolutionary history in which the new enzyme activity of mandelate racemase has evolved from a preexisting enzyme that catalyzes the basic chemical reaction of proton abstraction and formation of an intermediate. Subsequent mutations have modified the... 

Figure 4.9 Mechanisms of the reactions catalyzed by the enzymes mandelate racemase (a) and muconate lactonizing enzyme (b). The two overall reactions are quite different a change of configuration of a carbon atom for mandelate racemase versus ring closure for the lactonizing enzyme. However, one crucial step (red) in the two reactions is the same addition of a proton (blue) to an intermediate of the substrate (red) from a lysine residue of the enzyme (E) or. In the reverse direction, formation of an intermediate by proton abstraction from the carbon atom adjacent to the carboxylate group.

Neidhart, D.J., et al. Mandelate racemase and muconate lactonizing enzyme are mechanistically distinct and structurally homologous. Nature 347 ... 

Beanie, S. L., and Wolfenden, R., 1997. Mandelate racemase in pieces Effective concentrations of enzyme fnnctional groups in the transition state. Biochemistry 36 1646-1656. 

Faber and coworkers have reported a DKR of mandelic acid by using a lipase-catalyzed O-acylation followed by a racemization catalyzed by mandelate racemase. However, these two transformations do not take place simultaneously in the same pot. When the sequence was repeated four times, (S)-O-acetylmandelic acid was obtained in 80% isolated yield and >98% ee [57]. 

Faber et al. have reported a novel process for the overall deracemization of racemic mandelic acid derivatives using a combination of an enantioselective lipase and a mandelate racemase activity from Lactobacillus paracasei (Figure 5.19) [32]. 

Tsou AY, SC Ransom, JA Gerlt, DD Buechter, PC Babbitt, GL Kenyon (1990) Mandelate pathway of Pseudomonas putida sequence relationships involving mandelate racemase, (5)-mandelate dehydrogenase, and benzoylformate decarboxylase and expression of benzoylformate decarboxylase in Escherichia coli. Biochemistry 29 9856-9862. 

The mandelate pathway in Pseudomonas putida involves successive oxidation to benzoyl formate and benzoate, which is further metabolized via catechol and the 3-ketoadipate pathway (Figure 8.35a) (Hegeman 1966). Both enantiomers of mandelate were degraded through the activity of a mandelate racemase (Hegeman 1966), and the racemase (mdlA) is encoded in an operon that includes the next two enzymes in the pathway—5-mandel-ate dehydrogenase (mdlB) and benzoylformate decarboxylase (mdlC) (Tsou et al. 1990). 

Other Proteins The ouabain-binding site on (Na /K -adenosine-5 -triphosphatase, 46, 523 penicillin isocyanates for /3-lactamase, 46, 531 active site-directed addition of a small group to an enzyme the ethylation of ludferin, 46, 537 mandelate racemase, 46, 541 d imethylpyrazole carboxamidine and related derivatives, 46, 548 labeling of catechol O-methyltransferase with N-haloace-tyl derivatives, 46, 554 affinity labeling of binding sites in proteins by sensitized photooxidation, 46, 561 bromocolchicine as a iabei for tubuiin, 46, 567. 

Mandelate racemase, another pertinent example, catalyzes the kinetically and thermodynamically unfavorable a-carbon proton abstraction. Bearne and Wolfenden measured deuterium incorporation rates into the a-posi-tion of mandelate and the rate of (i )-mandelate racemi-zation upon incubation at elevated temperatures. From an Arrhenius plot, they obtained a for racemization and deuterium exchange rate was estimated to be around 35 kcal/mol at 25°C under neutral conditions. The magnitude of the latter indicated mandelate racemase achieves the remarkable rate enhancement of 1.7 X 10, and a level of transition state affinity (K x = 2 X 10 M). These investigators also estimated the effective concentrations of the catalytic side chains in the native protein for Lys-166, the effective concentration was 622 M for His-297, they obtained a value 3 X 10 M and for Glu-317, the value was 3 X 10 M. The authors state that their observations are consistent with the idea that general acid-general base catalysis is efficient mode of catalysis when enzyme s structure is optimally complementary with their substrates in the transition-state. See Reference Reaction Catalytic Enhancement... 

MANDELATE 4-MONOOXYGENASE MANDELATE RACEMASE L-Mandelate 4-hydroxylase,... 

Figure 13-5 An S-mandelate ion in the active site of mandelate racemase. Only some of the polar groups surrounding the active site are shown. The enzyme has two catalytic acid-base groups. Lysine 166 is thought to deprotonate S-mandelate to form the aci anion, while His 297 deprotonates R-mandelate to form the same anion.106...

Fig. 2 Mechanism of mandelate racemase.16,17 Lysl66 and His297 are the two general bases and are on opposite sides of mandelate.

G. L. Kenyon, J. A. Gerlt, G. A. Petsko, and J. W. Kozarich, Mandelate racemase structure-function studies of a pseudo-symmetric enzyme, Acc. Chem. Res. 1995, 28, 178-186. 

Figure 2.5 Logarithmic scale comparison of k,d and kuncat (= (rnon) for some representative reactions at 25 °C. The length of each vertical bar represents the rate enhancement. (Wolfenden, 2001). ADC arginine decarboxylase ODC orotidine 5 -phosphate decarboxylase STN staphylococcal nuclease GLU sweet potato /3-amylase FUM fumarase MAN mandelate racemase PEP carboxypeptodase B CDA E. coli cytidine deaminase KSI ketosteroid isomerase CMU chorismate mutase CAN carbonic anhydrase.

The mandelate and jS-ketoadipate pathways serve as an example of gene duplication, as there is strong evidence pointing to the former evolving from the latter. Evolution of mandelate racemase from muconate lactonizing enzyme points to the relevance of the enzyme mechanism for catalytic reactivity. 

Enolases mandelate racemase (MR), muconate-lactonizing enzyme (MLE), N-acetylamino acid racemase (NAAR) Hasson, 1998 Palmer, 1999... 

Mandelate racemase (MR) enables some strains of the common soil bacterium Pseudomonas putida to utilize mandelate from decomposing plant matter as a carbon source. MR is the first of five enzymes in the bacterial pathway that converts mandelate to benzoate. Then benzoate is broken down by another set of five enzymes of the ensuing /l-ketoadipate pathway to compounds that can be used to generate ATP, the cell s major source of chemical energy. 

B mandelate racemase Mg2+ proton abstraction to generate a carbanionic intermediate reprotonation of the intermediate... 

B major axis near /J-strand 1 M R, M LE are missing final a-helix domains cover the C-terminal end of the barrel domain blocks N-terminus of the barrel mandelate racemase, muconate cycloisomerase, xylose (glucose) isomerase... 

If Ke signifies the concentrations of enol and keto tautomers in a carboxylic acid, then pfCE is the difference between the pKa values of the a-protons of the keto tautomer and the hydroxyl group of the enol tautomer. pfCE, however, is also the difference in pfCa values between the a-protons and the proton of the carbonyl group of the carbonyl-protonated acid, that is deemed to be decisive (Gerlt, 1991) for the kinetics of abstraction of a proton, rather than the pfQ value of the substrate in solution. The pki of mandelic acid (15.4) links the pka of the a-proton of the keto tautomer (22.0) with the pK.d value of the enol tautomer (6.6). The pk, value also links the pka value of the a-proton with that of the carbonyl-bound proton of the protonated mandelic acid. If the pka value of the carbonyl-bound proton of the protonated mandelic acid is assumed to be about -8.0 then the pfQ value of the a-proton is about 7.4. This value matches well with the pka -values of Lys and His residues which have been assigned recently in the active center of mandelate race-mase, so electrophilic catalysis alone is able to explain the catalytic power of mandelate racemase. 

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