Studies of the rate-limiting step in the tyrosine hydroxylase reaction: alternate substrates, solvent isotope effects, and transition-state analogs

Biochemistry ◽  
1991 ◽  
Vol 30 (26) ◽  
pp. 6386-6391 ◽  
Author(s):  
Paul F. Fitzpatrick
Keyword(s):  
Tyrosine Hydroxylase ◽  
Transition State ◽  
Isotope Effects ◽  
Transition State Analogs ◽  
Rate Limiting Step ◽  
Limiting Step ◽  
Solvent Isotope ◽  
Rate Limiting ◽  
Solvent Isotope Effects

scholarly journals Substrate-Dependent Sensitivity of SIRT1 to Nicotinamide Inhibition

Biomolecules ◽  
2021 ◽  
Vol 11 (2) ◽  
pp. 312
Author(s):  
Stacia Rymarchyk ◽  
Wenjia Kang ◽  
Yana Cen
Keyword(s):  
Proton Transfer ◽  
Isotope Effects ◽  
Negative Regulator ◽  
Base Exchange ◽  
Glucose And Lipid Metabolism ◽  
Rate Limiting Step ◽  
Limiting Step ◽  
Catalyzed Reactions ◽  
Solvent Isotope ◽  
Rate Limiting

SIRT1 is the most extensively studied human sirtuin with a broad spectrum of endogenous targets. It has been implicated in the regulation of a myriad of cellular events, such as gene transcription, mitochondria biogenesis, insulin secretion as well as glucose and lipid metabolism. From a mechanistic perspective, nicotinamide (NAM), a byproduct of a sirtuin-catalyzed reaction, reverses a reaction intermediate to regenerate NAD+ through “base exchange”, leading to the inhibition of the forward deacetylation. NAM has been suggested as a universal sirtuin negative regulator. Sirtuins have evolved different strategies in response to NAM regulation. Here, we report the detailed kinetic analysis of SIRT1-catalyzed reactions using endogenous substrate-based synthetic peptides. A novel substrate-dependent sensitivity of SIRT1 to NAM inhibition was observed. Additionally, SIRT1 demonstrated pH-dependent deacetylation with normal solvent isotope effects (SIEs), consistent with proton transfer in the rate-limiting step. Base exchange, in contrast, was insensitive to pH changes with no apparent SIEs, indicative of lack of proton transfer in the rate-limiting step. Consequently, NAM inhibition was attenuated at a high pH in proteated buffers. Our study provides new evidence for “activation by de-repression” as an effective sirtuin activation strategy.

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.

DFT study of phenol alkylation with propylene on H-BEA in the absence and presence of water

2021 ◽  
Author(s):  
Sajal Kanti Dutta ◽  
Vishal Agarwal
Keyword(s):  
Transition State ◽  
Transition State Theory ◽  
Rate Coefficient ◽  
Activation Barrier ◽  
State Theory ◽  
Dft Study ◽  
Phenol Alkylation ◽  
Rate Limiting Step ◽  
Limiting Step ◽  
Rate Limiting

Water reduces the activation barrier of the rate-limiting step of phenol alkylation with propylene in H-BEA. This, in turn, increases the transition-state theory rate coefficient by two orders-of-magnitude, suggesting much faster alkylation.

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.

scholarly journals Comment on “Topography of the free energy landscape of Claisen–Schmidt condensation: solvent and temperature effects on the rate-controlling step” by N. D. Coutinho, H. G. Machado, V. H. Carvalho-Silva and W. A. da Silva, Phys. Chem. Chem. Phys., 2021, 23, 6738

2021 ◽  
Vol 23 (38) ◽  
pp. 22199-22201
Author(s):  
Charles L. Perrin
Keyword(s):  
Temperature Effects ◽  
Isotope Effects ◽  
Energy Landscape ◽  
Kinetic Isotope Effects ◽  
Chem Phys ◽  
Kinetic Isotope ◽  
Rate Limiting Step ◽  
Limiting Step ◽  
Rate Limiting ◽  
Rate Controlling Step

The referenced article in PCCP presents calculations of solvent kinetic isotope effects that indicate that the rate-limiting step in base-catalyzed chalcone formation in aqueous solution becomes the second enolization.

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