scholarly journals Temperature-dependences of the kinetics of reactions of papain and actinidin with a series of reactivity probes differing in key molecular recognition features

2006 ◽  
Vol 396 (1) ◽  
pp. 17-21 ◽  
Author(s):  
Sheraz Gul ◽  
Geoffrey W. Mellor ◽  
Emrys W. Thomas ◽  
Keith Brocklehurst
Keyword(s):  
Conformational Change ◽  
Rate Constants ◽  
Catalytic Site ◽  
Stopped Flow ◽  
Thiol Groups ◽  
Cysteine Peptidases ◽  
Temperature Dependences ◽  
Significant Conformational Change ◽  
Kinetics Of ◽  
Molecular Recognition Features

The temperature-dependences of the second-order rate constants (k) of the reactions of the catalytic site thiol groups of two cysteine peptidases papain (EC 3.4.22.2) and actinidin (EC 3.4.22.14) with a series of seven 2-pyridyl disulphide reactivity probes (R-S-S-2-Py, in which R provides variation in recognition features) were determined at pH 6.7 at temperatures in the range 4–30 °C by stopped-flow methodology and were used to calculate values of ΔS‡, ΔH‡ and ΔG‡. The marked changes in ΔS‡ from negative to positive in the papain reactions consequent on provision of increase in the opportunities for key non-covalent recognition interactions may implicate microsite desolvation in binding site–catalytic site signalling to provide a catalytically relevant transition state. The substantially different behaviour of actinidin including apparent masking of changes in ΔH‡ by an endothermic conformational change suggests a difference in mechanism involving kinetically significant conformational change.

scholarly journals Metal Enolates – Enamines – Enol Ethers: How Do Enolate Equivalents Differ in Nucleophilic Reactivity?

Synthesis ◽  
2019 ◽  
Vol 51 (05) ◽  
pp. 1157-1170 ◽  
Author(s):  
Artem Leonov ◽  
Daria Timofeeva ◽  
Armin Ofial ◽  
Herbert Mayr
Keyword(s):  
Rate Constants ◽  
Correlation Equation ◽  
Stopped Flow ◽  
Quinone Methides ◽  
Enol Ethers ◽  
Reactivity Descriptors ◽  
Silyl Enol Ethers ◽  
Nucleophilic Reactivity ◽  
Kinetics Of ◽  
Least Squares Minimization

The kinetics of the reactions of trimethylsilyl enol ethers and enamines (derived from deoxybenzoin, indane-1-one, and α-tetralone) with reference electrophiles (p-quinone methides, benzhydrylium and indolylbenzylium ions) were measured by conventional and stopped-flow photometry in acetonitrile at 20 °C. The resulting second-order rate constants were subjected to a least-squares minimization based on the correlation equation lg k = s N(N + E) for determining the reactivity descriptors N and s N of the silyl enol ethers and enamines. The relative reactivities of structurally analogous silyl enol ethers, enamines, and enolate anions towards carbon-centered electrophiles are determined as 1, 107, and 1014, respectively. A survey of synthetic applications of enolate ions and their synthetic equivalents shows that their behavior can be properly described by their nucleophilicity parameters, which therefore can be used for designing novel synthetic transformations.

scholarly journals Positive co-operative binding at two weak lysine-binding sites governs the Glu-plasminogen conformational change

1992 ◽  
Vol 285 (2) ◽  
pp. 419-425 ◽  
Author(s):  
U Christensen ◽  
L Mølgaard
Keyword(s):  
Ligand Binding ◽  
Binding Site ◽  
Conformational Change ◽  
Conformational Changes ◽  
Binding Sites ◽  
High Specificity ◽  
Stopped Flow ◽  
Protein Fluorescence ◽  
Lysine Residues ◽  
Kinetics Of

The kinetics of a series of Glu-plasminogen ligand-binding processes were investigated at pH 7.8 and 25 degrees C (in 0.1 M-NaCl). The ligands include compounds analogous to C-terminal lysine residues and to normal lysine residues. Changes of the Glu-plasminogen protein fluorescence were measured in a stopped-flow instrument as a function of time after rapid mixing of Glu-plasminogen and ligand at various concentrations. Large positive fluorescence changes (approximately 10%) accompany the ligand-induced conformational changes of Glu-plasminogen resulting from binding at weak lysine-binding sites. Detailed studies of the concentration-dependencies of the equilibrium signals and the rate constants of the process induced by various ligands showed the conformational change to involve two sites in a concerted positive co-operative process with three steps: (i) binding of a ligand at a very weak lysine-binding site that preferentially, but not exclusively, binds C-terminal-type lysine ligands, (ii) the rate-determining actual-conformational-change step and (iii) binding of one more lysine ligand at a second weak lysine-binding site that then binds the ligand more tightly. Further, totally independent initial small negative fluorescence changes (approximately 2-4%) corresponding to binding at the strong lysine-binding site of kringle 1 [Sottrup-Jensen, Claeys, Zajdel, Petersen & Magnusson (1978) Prog. Chem. Fibrinolysis Thrombolysis 3, 191-209] were observed for the C-terminal-type ligands. The finding that the conformational change in Glu-plasminogen involves two weak lysine-binding sites indicates that the effect cannot be assigned to any single kringle and that the problem of whether kringle 4 or kringle 5 is responsible for the process resolves itself. Probably kringle 4 and 5 are both participating. The involvement of two lysine binding-sites further makes the high specificity of Glu-plasminogen effectors more conceivable.

scholarly journals The Kinetics of Peroxynitrite on Insulin Nitration Damage

2020 ◽  
Author(s):  
Congxiao Zhang ◽  
Fusheng Sun ◽  
Congjiang Zhang ◽  
Yunjing Luo
Keyword(s):  
Activation Energy ◽  
Biological Activity ◽  
Glucose Metabolism ◽  
Rate Constants ◽  
The Body ◽  
Stopped Flow ◽  
Tyrosine Nitration ◽  
Protein Nitration ◽  
Physiological Conditions ◽  
Kinetics Of

Abstract Background: Insulin is one of the most important versatile hormones that is central to regulating the energy and glucose metabolism in the body. There has been accumulating evidence supporting that diabetes was associated with peroxynitrite and protein nitration, and insulin nitration induced by peroxynitrite affected its biological activity. Methods: In this paper, the kinetics of insulin nitration by peroxynitrite in physiological conditions was studied by the stopped flow technique. Results: We determined the values of the reactive rate constants of peroxynitrite decomposition and peroxynitrite-induced tyrosine nitration in the presence of insulin. The activation energy of peroxynitrite decomposition and 3-nitrotyrosine yield in the presence of insulin is 48.8 kJ·mol−1 and 42.7 kJ·mol−1 respectively. Conclusions: It is inferred that the glutamate residue of insulin accelerated peroxynitrite decomposition and tyrosine nitration by reducing the activation energy of reactions. The results could be beneficial for exploring the molecular mechanism of diabetes and offering a new target for diabetes therapies.

scholarly journals KINETICS OF OZONE REACTIONS WITH ADENINE AND CYTOSINE IN AQUEOUS SOLUTIONS

2020 ◽  
Vol 63 (10) ◽  
pp. 17-22
Author(s):  
Aigul A. Maksyutova ◽  
Elvina R. Khaynasova ◽  
Yuriy S. Zimin
Keyword(s):  
Aqueous Solutions ◽  
Rate Constants ◽  
Correlation Coefficients ◽  
Activation Parameters ◽  
Second Order ◽  
Order Kinetic ◽  
Temperature Dependences ◽  
Ozone Reactivity ◽  
Kinetics Of ◽  
Ozone Reactions

The ultraviolet spectroscopy method has been applied to study the kinetics of the ozone reactions with nitrogenous bases (NB), namely adenine and cytosine in aqueous solutions. At the first research stage, the range of NB working concentrations has been determined. It was found that linear dependences between optical densities and concentrations of nitrogenous bases aqueous solutions are quite reliable, with correlation coefficients r ≥ 0.998, are satisfied up to [NB] = 2.3 ∙ 10–4 mol/l. According to the Bouguer-Lambert-Beer law, adenine and cytosine extinction coefficients in aqueous solutions were determined and subsequently used to calculate their residual concentrations. At the next stage, the kinetics of nitrogenous bases ozonized oxidation was studied with equal initial concentrations of the starting substances ([NB]0 = [О3]0). The results revealed that the kinetic consumption curves of the starting reagents are fairly well linearized (r ≥ 0.996) in the second-order reaction equation coordinates. As found with the bubbling installation, 1 mol of the absorbed ozone falls on 1 mol of the used NB. Thus, the reactions of ozone with adenine and cytosine explicitly proceed according to the second-order kinetic laws (the first – according to О3 and the first – according to NB). The rate constants were calculated by the integral reaction equations, the values of which indicate a higher ozone reactivity in relation to nitrogen bases. The temperature dependences of the second-order rate constants was studied ranging 285-309 K, and the activation parameters (pre-exponential factors and activation energies) of the ozone reactions with adenine and cytosine in aqueous solutions were determined.

Mechanism of bromination of a quaternary pyrimidinium cation. Change of rate determining step with acidity

1978 ◽  
Vol 56 (23) ◽  
pp. 2970-2976 ◽  
Author(s):  
Oswald S. Tee ◽  
David C. Thackray ◽  
Charles G. Berks
Keyword(s):  
Kinetic Study ◽  
Rate Constants ◽  
Aqueous Media ◽  
Stopped Flow ◽  
Flow Method ◽  
High Acidity ◽  
Rate Determining Step ◽  
Kinetics Of ◽  
Good Agreement

The kinetics of bromination of the 1,2-dihydro-1,3-dimethyl-2-oxopyrimidinium cation (Q+) in aqueous media (pH 0–5) have been studied using the stopped-flow method. At the higher acidities (pH < 2) the results are consistent with rate determining attack by bromine upon the pseudobase (QOH), whereas at low acidities (pH > 4) it appears that pseudobase formation is rate determining. The change occurs because at high acidity the reversal of the pseudobase QOH to the cation is fast relative to bromine attack, whereas at low acidity the converse is true. Results obtained at intermediate acidities (pH 2–4) are consistent with this interpretation.A separate kinetic study of pseudobase formation (and decomposition) yielded rate constants in good agreement with those derived from the bromination study.

Kinetics of reactions of para-substituted phenyl isocyanates with amines and alcohols

1991 ◽  
Vol 56 (8) ◽  
pp. 1662-1670 ◽  
Author(s):  
Ivan Danihel ◽  
Falk Barnikol ◽  
Pavol Kristian
Keyword(s):  
Transition State ◽  
Solvent Effects ◽  
Rate Constants ◽  
Substituent Effects ◽  
Steric Effects ◽  
Stopped Flow ◽  
Partial Charges ◽  
Hammett Correlation ◽  
One Step ◽  
Kinetics Of

The reaction of para-substituted phenyl isocyanates with amines and alcohols was studied by stopped-flow method. The Hammett correlation obtained showed that the sensitivity of the above mentioned reactions toward substituent effects is the same as that of analogous reactions of phenyl isothiocyanates (ρ ~ 2). The rate constants of these reactions were found to be affected more by steric effects than by solvent effects. An one step multicentre mechanism with partial charges in transition state has been proposed for the title reactions.

Kinetics of oxidation of thiocyanate by aqueous iodine

1973 ◽  
Vol 26 (9) ◽  
pp. 1863 ◽  
Author(s):  
GT Briot ◽  
RH Smith
Keyword(s):  
Rate Constants ◽  
Activation Energies ◽  
Stopped Flow ◽  
Kinetics Of Oxidation ◽  
Rate Law ◽  
General Base ◽  
Present Rate ◽  
Rapid Equilibrium ◽  
Ph Range ◽  
Kinetics Of

The kinetics of oxidation of thiocyanate to sulphate by aqueous iodine in the pH range 9.2-12.5 have been studied using a spectrophotometric stopped flow technique. The reaction is general base-catalysed, having the rate law ��������������������� -d[I2]a/dt = ([SCN-][I3-]/[I-]2)Σ kB[B] where [I2]a is the total analytical concentration of iodine, [B] is the concentration of base, and where the summation is taken over all bases present. Rate constants, kB, and activation energies have been measured for the bases, OH-, PO43- and CO32-. ��� A mechanism involving the initial steps ����������������� I2+SCN- ↔ ISCN+I- �����������������(rapid equilibrium) ������������� ISCN+H2O+B → HOSCN+I- + HB+ �����������(rate determining) followed by rapid reactions of HOSCN with itself or with iodine is proposed.

scholarly journals Association of α-Synuclein with Lipid Vesicles. Stopped-Flow Kinetics of Concerted Binding and Conformational Change

2014 ◽  
Vol 106 (2) ◽  
pp. 248a
Author(s):  
Thomas M. Jovin ◽  
Volodymyr V. Shvadchak ◽  
Remco Siero ◽  
Lisandro J. Falomir-Lockhart ◽  
Vinod Subramaniam
Keyword(s):  
Conformational Change ◽  
Lipid Vesicles ◽  
Stopped Flow ◽  
Stopped Flow Kinetics ◽  
Kinetics Of

scholarly journals Reaction Kinetics of Carbon Dioxide in Aqueous Diethanolamine Solutions Using the Stopped-Flow Technique

2012 ◽  
Vol 19 (1) ◽  
pp. 55-66 ◽  
Author(s):  
Marta Siemieniec ◽  
Hanna Kierzkowska-Pawlak ◽  
Andrzej Chacuk
Keyword(s):  
Carbon Dioxide ◽  
Reaction Kinetics ◽  
Rate Constants ◽  
Reaction Rate ◽  
Reaction Rate Constant ◽  
Stopped Flow ◽  
First Order ◽  
Pseudo First Order ◽  
Kinetics Of ◽  
Good Agreement

Reaction Kinetics of Carbon Dioxide in Aqueous Diethanolamine Solutions Using the Stopped-Flow Technique The pseudo-first-order rate constants (kOV) for the reactions between CO2 and diethanolamine have been studied using the stopped-flow technique in an aqueous solution at 293, 298, 303 and 313 K. The amine concentrations ranged from 167 to 500 mol·m-3. The overall reaction rate constant was found to increase with amine concentration and temperature. Both the zwitterion and termolecular mechanisms were applied to correlate the experimentally obtained rate constants. The values of SSE quality index showed a good agreement between the experimental data and the corresponding fit by the use of both mechanisms.

scholarly journals Kinetics of the Reversible Transformation of 2,3-Dioxogulonic Acid into its Enol as a Function of the pH of the Medium

1978 ◽  
Vol 33 (10) ◽  
pp. 1184-1189
Author(s):  
J. Zuluaga ◽  
P. Martínez
Keyword(s):  
Kinetic Study ◽  
Equilibrium Constant ◽  
Rate Constants ◽  
Disodium Salt ◽  
Stopped Flow ◽  
Free Energies ◽  
Reversible Transformation ◽  
Flow Method ◽  
Kinetic Coefficients ◽  
Kinetics Of

Abstract 2,3-dioxogulonic acid and the disodium salt of its enol were synthesised, isolated and identified both chemically and spectroscopically. A kinetic study was carried out on its equilibrium by means of the “stopped flow” method for rapid processes, and the rate constants for the forward and backward reaction were determined as a function of the pH of the medium. The kinetic coefficients involved, equilibrium constant and Gibbs free energies were also determined.

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