scholarly journals Catalytic mechanism of a family 3 β-glucosidase and mutagenesis study on residue Asp-247

2001 ◽  
Vol 355 (3) ◽  
pp. 835-840 ◽  
Author(s):  
Yaw-Kuen LI ◽  
Jiunly CHIR ◽  
Fong-Yi CHEN
Keyword(s):  
Amino Acid ◽  
Essential Amino Acid ◽  
Catalytic Mechanism ◽  
Bond Cleavage ◽  
Isotope Effects ◽  
Kinetic Isotope Effects ◽  
Site Directed Mutagenesis ◽  
Wild Type ◽  
Wild Type Enzyme ◽  
Kinetic Isotope

A family 3 β-glucosidase (EC 3.2.1.21) from Flavobacterium meningosepticum has been cloned and overexpressed. The mechanistic action of the enzyme was probed by NMR spectroscopy and kinetic investigations, including substrate reactivity, secondary kinetic isotope effects and inhibition studies. The stereochemistry of enzymic hydrolysis was identified as occurring with the retention of an anomeric configuration, indicating a double-displacement reaction. Based on the kcat values with a series of aryl glucosides, a Bronsted plot with a concave-downward shape was constructed. This biphasic behaviour is consistent with a two-step mechanism involving the formation and breakdown of a glucosyl–enzyme intermediate. The large Bronsted constant (β =-0.85) for the leaving-group-dependent portion (pKa of leaving phenols > 7) indicates substantial bond cleavage at the transition state. Secondary deuterium kinetic isotope effects with 2,4-dinitrophenyl β-D-glucopyanoside, o-nitrophenyl β-D-glucopyanoside and p-cyanophenyl β-D-glucopyanoside as substrates were 1.17±0.02, 1.19±0.02 and 1.04±0.02 respectively. These results support an SN1-like mechanism for the deglucosylation step and an SN2-like mechanism for the glucosylation step. Site-directed mutagenesis was also performed to study essential amino acid residues. The activities (kcat/Km) of the D247G and D247N mutants were 30000- and 200000-fold lower respectively than that of the wild-type enzyme, whereas the D247E mutant retained 20% of wild-type activity. These results indicate that Asp-247 is an essential amino acid. It is likely that this residue functions as a nucleophile in the reaction. This conclusion is supported by the kinetics of the irreversible inactivation of the wild-type enzyme by conduritol-B-epoxide, compared with the much slower inhibition of the D247E mutant and the lack of irreversible inhibition of the D247G mutant.

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.

Transition-state structure for the hydronium-ion-promoted hydrolysis of α-d-glucopyranosyl fluoride

2015 ◽  
Vol 93 (4) ◽  
pp. 463-467 ◽  
Author(s):  
Jefferson Chan ◽  
Ariel Tang ◽  
Andrew J. Bennet
Keyword(s):  
Transition State ◽  
Kinetic Isotope Effect ◽  
Bond Cleavage ◽  
Isotope Effects ◽  
Kinetic Isotope Effects ◽  
Theoretical Modelling ◽  
Kinetic Isotope ◽  
Hydronium Ion ◽  
Anomeric Carbon ◽  
Hydrolysis Of

The transition state for the hydronium-ion-promoted hydrolysis of α-d-glucopyranosyl fluoride in water has been characterized by combining multiple kinetic isotope effect measurements with theoretical modelling. The measured kinetic isotope effects for the C1-deuterium, C2-deuterium, C5-deuterium, anomeric carbon-13, and ring oxygen-18 are 1.219 ± 0.021, 1.099 ± 0.024, 0.976 ± 0.014, 1.014 ± 0.005, and 0.991 ± 0.013, respectively. The transition state for the hydronium ion reaction is late with respect to both C–F bond cleavage and proton transfer.

Catalytic Mechanism of Scytalone Dehydratase:  Site-Directed Mutagenisis, Kinetic Isotope Effects, and Alternate Substrates

Biochemistry ◽  
1999 ◽  
Vol 38 (19) ◽  
pp. 6012-6024 ◽  
Author(s):  
Gregory S. Basarab ◽  
James J. Steffens ◽  
Zdzislaw Wawrzak ◽  
Rand S. Schwartz ◽  
Tomas Lundqvist ◽  
...  
Keyword(s):  
Catalytic Mechanism ◽  
Isotope Effects ◽  
Kinetic Isotope Effects ◽  
Kinetic Isotope ◽  
Scytalone Dehydratase

Deuterium kinetic isotope effects on the thermal isomerizations of deuteriocyclopropane to deuterium-labeled propenes

2005 ◽  
Vol 83 (9) ◽  
pp. 1510-1515
Author(s):  
John E Baldwin ◽  
Stephanie R Singer
Keyword(s):  
Key Words ◽  
Gas Phase ◽  
Bond Cleavage ◽  
Isotope Effects ◽  
Reactive Intermediates ◽  
Kinetic Isotope Effects ◽  
Thermal Rearrangement ◽  
Carbon Bond ◽  
Kinetic Isotope ◽  
Carbon Carbon Bond

The gas-phase thermal isomerizations of deuteriocyclopropane to the four possible monodeuterium-labeled propenes have been followed at 435 °C. The observed distribution of products provides estimates of two deuterium kinetic isotope effects, the secondary [Formula: see text] for the carbon–carbon bond cleavage leading to trimethylene diradical reactive intermediates and the primary [Formula: see text] ratio for a [1,2] shift of a hydrogen or deuterium leading from the diradical to a labeled propene. The values determined are [Formula: see text] = 1.09 ± 0.03 and [Formula: see text] = 1.55 ± 0.06. The experimental [Formula: see text] value found agrees well with some, but not all, earlier calculated values and conjectures. Key words: cyclopropane, thermal rearrangement, kinetic isotope effects.

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