scholarly journals A catalytic consensus motif for d-mannitol 2-dehydrogenase, a member of a polyol-specific long-chain dehydrogenase family, revealed by kinetic characterization of site-directed mutants of the enzyme from Pseudomonas fluorescens

2002 ◽  
Vol 367 (1) ◽  
pp. 13-18 ◽  
Author(s):  
Mario KLIMACEK ◽  
Bernd NIDETZKY
Keyword(s):  
Pseudomonas Fluorescens ◽  
Isotope Effects ◽  
Wild Type ◽  
Solvent Isotope Effect ◽  
General Base ◽  
Kinetic Isotope ◽  
Solvent Isotope ◽  
Auxiliary Role ◽  
Long Chain

Lys-295, Asn-300 and His-303 of d-mannitol 2-dehydrogenase from Pseudomonas fluorescens were mutated individually into alanine (K295A, N300A and H303A respectively). Purified mutants displayed catalytic efficiencies for NAD+-dependent oxidation of d-mannitol 300-fold (H303A), 1000-fold (N300A) and approx. 400000-fold (K295A) below the wild-type level. Comparison of primary kinetic isotope effects on kinetic parameters for d-fructose reduction by wild-type and mutants at pH10.0 demonstrate that Asn-300 has an auxiliary role in stabilization of the transition state of hydride transfer, and His-303 contributes to substrate positioning. The large solvent isotope effect of 11±1 on kcat for mannitol oxidation by K295A at pH(2H) 10.5 suggests a role for Lys-295 in general base enzymic catalysis. Positional conservation of Lys-295, Asn-300 and His-303 across a family of polyol-specific long-chain dehydrogenases suggests a unique catalytic signature: Lys-Xaa4-Asn-Xaa2-His (where ‘Xaa’ denotes ‘any amino acid').

Solvent isotope effects in the oxidation of dipeptides by aqueous chlorine

1999 ◽  
Vol 77 (5-6) ◽  
pp. 997-1004 ◽  
Author(s):  
X L Armesto ◽  
M Canle L. ◽  
V García ◽  
J A Santaballa
Keyword(s):  
Isotope Effect ◽  
Deuterium Oxide ◽  
Isotope Effects ◽  
Second Step ◽  
Solvent Isotope Effect ◽  
General Base ◽  
Peptide Oxidation ◽  
Solvent Isotope ◽  
Hydrolysis Of ◽  
Solvent Isotope Effects

A kinetic study of the mechanism of oxidation of Ala-Gly and Pro-Gly by aqueous chlorine has been carried out. Among other experimental facts, the deuterium solvent isotope effects were used to clarify the mechanisms involved. In a first stage, N-chlorination takes place, and then the (N-Cl)-dipeptide decomposes through two possible mechanisms, depending on the acidity of the medium. The initial chlorination step shows a small isotope effect. In alkaline medium, two consecutive processes take place: first, the general base-catalyzed formation of an azomethine (β ca. 0.27), which has an inverse deuterium solvent isotope effect (kOH-/kOD- ~ 0.8). In a second step, the hydrolysis of the azomethine intermediate takes place, which is also general base-catalyzed, without deuterium solvent isotope effect, the corresponding uncatalyzed process having a normal deuterium solvent isotope effect (kH2O/kD2O ~ 2). In acid medium, the (N-Cl)-dipeptide undergoes disproportionation to a (N,N)-di-Cl-dipeptide, the very fast decomposition of the latter in deuterium oxide preventing a reliable estimation of the solvent isotope effect.Key words: chlorination, deuterium isotope effects, fractionation factors, peptide oxidation, water treatment.

scholarly journals Inverse Solvent Isotope Effects in Enzyme-Catalyzed Reactions

Molecules ◽  
2020 ◽  
Vol 25 (8) ◽  
pp. 1933
Author(s):  
Patrick L. Fernandez ◽  
Andrew S. Murkin
Keyword(s):  
Isotope Effect ◽  
Isotope Effects ◽  
Solvent Isotope Effect ◽  
Kinetic Isotope ◽  
Rate Limiting Step ◽  
Catalyzed Reactions ◽  
Enzyme Catalyzed Reactions ◽  
Solvent Isotope ◽  
Rate Limiting ◽  
Solvent Isotope Effects

Solvent isotope effects have long been used as a mechanistic tool for determining enzyme mechanisms. Most commonly, macroscopic rate constants such as kcat and kcat/Km are found to decrease when the reaction is performed in D2O for a variety of reasons including the transfer of protons. Under certain circumstances, these constants are found to increase, in what is termed an inverse solvent kinetic isotope effect (SKIE), which can be a diagnostic mechanistic feature. Generally, these phenomena can be attributed to an inverse solvent equilibrium isotope effect on a rapid equilibrium preceding the rate-limiting step(s). This review surveys inverse SKIEs in enzyme-catalyzed reactions by assessing their underlying origins in common mechanistic themes. Case studies for each category are presented, and the mechanistic implications are put into context. It is hoped that readers may find the illustrative examples valuable in planning and interpreting solvent isotope effect experiments.

scholarly journals A solvent-isotope-effect study of proton transfer during catalysis by Escherichia coli (lacZ) β-galactosidase

1990 ◽  
Vol 268 (2) ◽  
pp. 317-323 ◽  
Author(s):  
T Selwood ◽  
M L Sinnott
Keyword(s):  
Escherichia Coli ◽  
Isotope Effect ◽  
Kinetic Isotope Effect ◽  
Isotope Effects ◽  
Effect Study ◽  
Solvent Isotope Effect ◽  
Kinetic Isotope ◽  
Solvent Isotope ◽  
Paper Abstract ◽  
Hydrolysis Of

1. Michaelis-Menten parameters for the hydrolysis of 4-nitrophenyl β-D-galactopyranoside and 3,4-dinitrophenyl β-D-galactopyranoside Escherichia coli (lacZ) β-galactosidase were measured as a function of pH or pD (pL) in both 1H2O and 2H2O. 2. For hydrolysis of 4-nitrophenyl β-D-galactopyranoside by Mg2(+)-free enzyme, V is pL-independent below pL 9, but the V/Km-pL profile is sigmoid, the pK values shifting from 7.6 +/- 0.1 in 1H2O to 8.2 +/- 0.1 in 2H2O, and solvent kinetic isotope effects are negligible, in accord with the proposal [Sinnott, Withers & Viratelle (1978) Biochem. J. 175, 539-546] that glycone-aglycone fission without acid catalysis governs both V and V/Km. 3. V for hydrolysis of 4-nitrophenyl β-D-galactopyranoside by Mg2(+)-enzyme varies sigmoidally with pL, the pK value shifting from 9.19 +/- 0.09 to 9.70 +/- 0.07; V/Km shows both a low-pL fall, probably due to competition between Mg2+ and protons [Tenu, Viratelle, Garnier & Yon (1971) Eur. J. Biochem. 20, 363-370], and a high-pL fall, governed by a pK that shifts from 8.33 +/- 0.08 to 8.83 +/- 0.08. There is a negligible solvent kinetic isotope effect on V/Km, but one of 1.7 on V, which a linear proton inventory shows to arise from one transferred proton. 4. The variation of V and V/Km with pL is sigmoid for hydrolysis of 3,4-dinitrophenyl β-D-galactopyranoside by Mg2(+)-enzyme, with pK values showing small shifts, from 8.78 +/- 0.09 to 8.65 +/- 0.08 and from 8.7 +/- 0.1 to 8.9 +/- 0.1 respectively. There is no solvent isotope effect on V or V/Km for 3,4-dinitrophenyl β-D-galactopyranoside, despite hydrolysis of the galactosyl-enzyme intermediate governing V. 5. Identification of the ‘conformation change’ in the hydrolysis of aryl galactosides proposed by Sinnott & Souchard [(1973) Biochem. J. 133, 89-98] with the protolysis of the magnesium phenoxide arising from the action of enzyme-bound Mg2+ as an electrophilic catalyst rationalizes these data and also resolves the conflict between the proposals and the 18O kinetic-isotope-effect data reported by Rosenberg & Kirsch [(1981) Biochemistry 20, 3189-3196]. It should be noted that the actual Km values were determined to higher precision than can be estimated from the Figures in this paper.(ABSTRACT TRUNCATED AT 400 WORDS)

Kinetic and solvent isotope effects in oxidation of halogen derivatives of tyramine catalyzed by monoamine oxidase A

2019 ◽  
Vol 167 (1) ◽  
pp. 49-54
Author(s):  
Małgorzata Pająk
Keyword(s):  
Monoamine Oxidase ◽  
Isotope Effect ◽  
Isotope Effects ◽  
Monoamine Oxidase A ◽  
Oxidative Deamination ◽  
Solvent Isotope Effect ◽  
Kinetic Isotope ◽  
Solvent Isotope ◽  
Derivatives Of ◽  
Solvent Isotope Effects

Abstract The isotope effects approach was used to elucidate the mechanism of oxidative deamination of 3′-halotyramines, catalyzed by monoamine oxidase A (EC 1.4.3.4). The numerical values of kinetic isotope effect (KIE) and solvent isotope effect (SIE) were established using a non-competitive spectrophotometric technique. Based upon KIE and SIE values, some of the mechanistic details of investigated reaction were discussed.

Sauerstoffisotopieeffekte und Hydratstruktur von Alkalihalogenid-Lösungen in H2O und D2O / Oxygen Isotope Effects and Hydrate Structure of Alkali Halide Solutions in H2O and D2O

1973 ◽  
Vol 28 (2) ◽  
pp. 137-141 ◽  
Author(s):  
D. Götz ◽  
K. Heinzinger
Keyword(s):  
Oxygen Isotope ◽  
Oxygen Isotopes ◽  
Alkali Halide ◽  
Isotope Effects ◽  
Bulk Water ◽  
Hydration Water ◽  
Solvent Isotope Effect ◽  
Anion Effect ◽  
Solvent Isotope ◽  
Fractionation Factors

The fractionation of the oxygen isotopes in solutions of LiCl, NaCl. KCl, KBr, KJ and CsCl with H2O and D2O as solvent has been measured at 25 °C by means of the CO2-equilibration technique. As opposed to earlier measurements a slight anion dependence for the potassium halides has been found in H2O. This anion effect is much more pronounced in D2O. It even leads to a change in the directions of the 180 enrichment between cationic hydration water and bulk water for KCl and KBr. The absolute values of the fractionation factors for LiCl and CsCl, which differ in sign in H2O in agreement with positive and negative cationic hydration, respectively, as known from other kinds of measurements, is increased for LiCl and decreased for CsCl in D2O. There is no fractionation of the oxygen isotopes between hydration water and bulk water in both solvents for NaCl.The solvent isotope effect is explained by the stronger anion influence on the structure of the bulk water in D2O as compared with H2O. This stronger influence is expected because of the higher structural order in D2O than in H2O at the same temperature.

Characterization of Kinetic Isotope Effects and Label Loss in Deuterium-Based Isotopic Labeling Studies

2020 ◽  
Vol 12 (1) ◽  
pp. 234-243
Author(s):  
Robin A. de Graaf ◽  
Monique A. Thomas ◽  
Kevin L. Behar ◽  
Henk M. De Feyter
Keyword(s):  
Isotope Effects ◽  
Isotopic Labeling ◽  
Kinetic Isotope Effects ◽  
Kinetic Isotope

scholarly journals Tyr-143 facilitates interdomain electron transfer in flavocytochrome b2

1992 ◽  
Vol 285 (1) ◽  
pp. 187-192 ◽  
Author(s):  
C S Miles ◽  
N Rouvière-Fourmy ◽  
F Lederer ◽  
F S Mathews ◽  
G A Reid ◽  
...  
Keyword(s):  
Electron Transfer ◽  
Steady State ◽  
Isotope Effects ◽  
Mutant Enzyme ◽  
Stopped Flow ◽  
Wild Type ◽  
Wild Type Enzyme ◽  
Flavocytochrome B2 ◽  
Rate Determining Step ◽  
Kinetic Isotope

The role of Tyr-143 in the catalytic cycle of flavocytochrome b2 (L-lactate:cytochrome c oxidoreductase) has been examined by replacement of this residue with phenylalanine. The electron-transfer steps in wild-type and mutant flavocytochromes b2 have been investigated by using steady-state and stopped-flow kinetic methods. The most significant effect of the Tyr-143----Phe mutation is a change in the rate-determining step in the reduction of the enzyme. For wild-type enzyme the main rate-determining step is proton abstraction at the C-2 position of lactate, as shown by the 2H kinetic-isotope effect. However, for the mutant enzyme it is clear that the slowest step is interdomain electron transfer between the FMN and haem prosthetic groups. In fact, the rate of haem reduction by lactate, as determined by the stopped-flow method, is decreased by more than 20-fold, from 445 +/- 50 s-1 (25 degrees C, pH 7.5) in the wild-type enzyme to 21 +/- 2 s-1 in the mutant enzyme. Decreases in kinetic-isotope effects seen with [2-2H]lactate for mutant enzyme compared with wild-type, both for flavin reduction (from 8.1 +/- 1.4 to 4.3 +/- 0.8) and for haem reduction (from 6.3 +/- 1.2 to 1.6 +/- 0.5) also provide support for a change in the nature of the rate-determining step. Other kinetic parameters determined by stopped-flow methods and with two external electron acceptors (cytochrome c and ferricyanide) under steady-state conditions are all consistent with this mutation having a dramatic effect on interdomain electron transfer. We conclude that Tyr-143, an active-site residue which lies between the flavodehydrogenase and cytochrome domains of flavocytochrome b2, plays a key role in facilitating electron transfer between FMN and haem groups.

Heavy Atom Kinetic Isotope Effects in HCN Elimination from Some Tricyanides in Methanol [1]

1978 ◽  
Vol 33 (12) ◽  
pp. 1496-1502
Author(s):  
Fouad M. Fouad ◽  
Patrick G. Farrell
Keyword(s):  
Transition State ◽  
Opposite Direction ◽  
Isotope Effects ◽  
Heavy Atom ◽  
Transition States ◽  
Kinetic Isotope Effects ◽  
The Other ◽  
Kinetic Isotope ◽  
Solvent Isotope ◽  
Solvent Isotope Effects

AbstractRates of HCN elimination from polycyanides N,N-dimethyl-4-(1,2,2-tricyanoethyl)-aniline (1), 9-cyano-9-dicyanomethyl fluorene (2), 1,1-diphenyl-1,2,2-tricyanoethane (3), and 2-phenyl-1,1,2-tricyanopropane (4) have been studied in methanol. Elimination from 1 occurs via (E 1 c B)R, mechanism. On the other hand olefin formation from 2-4 has been shown to occur via (E 1)anion pathway. Heavy atom kinetic isotope effects indicated that product stability is not the sole factor controlling the transition state geometries. Values of k12/k14 were found to be in the order 2 > 3 > 4 > 1 which implied transition states with more carbanion-like structure in the opposite direction. Solvent isotope effects and enthalpies of activation were also determined and discussed in terms of transition states geometries.

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