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At least 343 records · Page 19Linked to original sources
PubMed1990

Kinetics of oxidative phosphorylation in Paracoccus denitrificans. 2. Evidence for a kinetic and thermodynamic modulation of F0F1-ATPase by the activity of the respiratory chain.

(1) The affinity of the F0F1-ATPase from Paracoccus denitrificans for ATP during NADH-driven oxidative phosphorylation has been analyzed under different conditions by examining the type and extent of product inhibition. (2) A limited collapse of the protonmotive force (delta p) due to partial uncoupling does not increase the affinity for ATP at the active site(s) of the enzyme; instead, a partial noncompetitive inhibition becomes apparent, compatible with the binding of ATP to a noncatalytic site (or sites) with high affinity. (3) In contrast, partial inhibition of the electron-transport chain increases the extent of pure competitive product inhibition and, therefore, the affinity for ATP at the active site(s). (4) The results are interpreted as indicative of a modulation of the rate of ATP release from the active site(s) of the F0F1-ATPase which is controlled by the activity of the electron-transport chain and not by delta p.

Adenosine Triphosphate↗
PubMed1998

Evaluation of cytochrome P450 mechanism and kinetics using kinetic deuterium isotope effects.

In this paper two hypotheses are tested: (i) the active oxygen species is similar in energetics for all cytochrome P450 (CYP) enzymes and (ii) linear free-energy relationships can be used to evaluate the mechanism of the reaction of these enzymes. A series of intramolecular isotope effects were determined and compared for CYPs 1A2, 2B1, 2C9, 2E1, and P450cam. The results indicate that the isotope effects are very similar for each of these isoforms of P450 and that the first hypothesis is likely to be true. Attempts to establish a linear free-energy relationship were only moderately successful: log Vmax = 0.11sigma+p + 1.73; r2 = 0.588. It was determined, through the use of intermolecular isotope effects, that the rates of hydrogen atom abstraction are masked. Thus, the second hypothesis is found to be false. This is likely to be a general result for CYP reactions, and linear free-energy relationships can only be used to determine the mechanism under very special circumstances. In all cases, the rate-limiting step should be evaluated with isotope effect experiments before any mechanistic conclusions can be drawn. If the intermolecular isotope effects are found to be masked, no mechanistic conclusion can be drawn from the linear free-energy relationship study.

Binding, Competitive↗
PubMed1965

Kinetics and mechanism of catalysis by proteolytic enzymes. The kinetics of hydrolysis of esters of gamma-guanidino-L-alpha-toluene-p-sulphonamidobutyric acid by bovine trypsin and thrombin.

1. Esters of gamma-guanidino-l-alpha-toluene-p-sulphonamidobutyric acid (alpha-N-toluene-p-sulphonyl-l-norarginine) have been synthesized and shown to be hydrolysed by bovine trypsin and thrombin. As substrates for these enzymes, they were better than esters of alpha-N-toluene-p-sulphonyl-l-homoarginine or of alpha-N-toluene-p-sulphonyl-l-ornithine but not as good as esters of alpha-N-toluene-p-sulphonyl-l-arginine. 2. With trypsin as catalyst, the methyl and propyl esters are hydrolysed at the same rate at high substrate concentrations and hence deacylation of the acyl-enzyme appears to be rate-determining. In the presence of thrombin, however, the methyl ester is hydrolysed much faster than the n-propyl ester. 3. The variation of k(0) with pH indicates that groups with pK((app.)) values of 7.05+/-0.02 and 6.53+/-0.02 must be dissociated in trypsin and thrombin respectively for hydrolysis to proceed. 4. Activation constants have been determined for the trypsin-catalysed hydrolysis of methyl gamma-guanidino-l-alpha-toluene-p-sulphonamidobutyrate and have been compared with the corresponding constants for the hydrolysis of homologous substrates. 5. Cholate increases k(0) and decreases K(m); the effects are more pronounced with thrombin than with trypsin.

Amino Acids↗
PubMed1981

Deviations from Michaelis-Menten kinetics. Computation of the probabilities of obtaining complex curves from simple kinetic schemes.

1. It is possible to calculate the intrinsic probability associated with any curve shape that is allowed for rational functions of given degree when the coefficients are independent or dependent random variables with known probability distributions. 2. Computations of such probabilities are described when the coefficients of the rational function are generated according to several probability distribution functions and in particular when rate constants are varied randomly for several simple model mechanisms. 3. It is concluded that each molecular mechanism is associated with a specific set of curve-shape probabilities, and this could be of value in discriminating between model mechanisms. 4. It is shown how a computer program can be used to estimate the probability of new complexities such as extra inflexions and turning points as the degree of rate equations increases. 5. The probability of 3 : 3 rate equations giving 2 : 2 curve shapes is discussed for unrestricted coefficients and also for the substrate-modifier mechanisms. 6. The probability associated with the numerical values of coefficients in rate equations is also calculated for this mechanism, and a possible method for determining the approximate magnitude of product-release steps is given. 7. The computer programs used in the computations have been deposited as Supplement SUP 50113 (21 pages) with the British Library Lending Division, Boston Spa, Wetherby, West Yorkshire LS23 7BQ, U.K., from whom copies can be obtained on the terms indicated in Biochem, J. (1978) 169, 5.

Binding Sites↗
PubMed1986

Chymopapain A. Purification and investigation by covalent chromatography and characterization by two-protonic-state reactivity-probe kinetics, steady-state kinetics and resonance Raman spectroscopy of some dithioacyl derivatives.

Chymopapain A was isolated from the dried latex of papaya (Carica papaya) by ion-exchange chromatography followed by covalent chromatography by thiol-disulphide interchange. The latter procedure was used to produce fully active enzyme containing one essential thiol group per molecule of protein, to establish that the chymopapain A molecule contains, in addition, one non-essential thiol group per molecule and to recalculate the literature value of epsilon 280 for the enzyme as 36 000 M-1 X cm -1. The Michaelis parameters for the hydrolysis of L-benzoylarginine p-nitroanilide and of benzyloxy-carbonyl-lysine nitrophenyl ester at 25 degrees C, and I 0.1 at several pH values catalysed by chymopapain A, papaya proteinase omega, papain (EC 3.4.22.2) and actinidin (EC 3.4.22.14) were determined. Towards these substrates chymopapain A has kcat./km values similar to those of actinidin and of papaya proteinase omega and significantly lower than those of papain or ficin. The environment of the catalytic site of chymopapain A is markedly different from those of other cysteine proteinases studied to date, as evidenced by the pH-dependence of the second-order rate constant (k) for the reaction of the catalytic-site thiol group with 2,2'-dipyridyl disulphide. The striking bell-shaped component that is a characteristic feature of the reactions of S-/ImH+ (thiolate/imidazolium) ion-pair components of many cysteine-proteinase catalytic sites with the 2,2'-dipyridyl disulphide univalent cation is not present in the pH-k profile for the chymopapain A reaction. The result is consistent with the presence of an additional positive charge in, or near, the catalytic site that repels the cationic form of the probe reagent. Resonance Raman spectra were collected at pH values 2.5, 6.0 and 8.0 for each of the following dithioacyl derivatives of chymopapain A: N-benzoylglycine-, N-(Beta-phenylpropionl)glycine- and N-methoxycarbonylphenylalanylglycine-. The main conclusion of the spectral study is that in each case the acyl group binds as a single population known as conformer B in which the glycinic N atom is in close contact with the thiol S atom of the catalytic-site cysteine residue, as is the case also for papain and other cysteine proteinases studied. Thus the abnormal catalytic-site environment of chymopapain A detected by the reactivity-probe studies, which may have consequences for the acylation step of the catalytic act, does not perturb the conformation of the bound acyl group at the acyl-enzyme-intermediate stage of catalysis.

2,2'-Dipyridyl↗
PubMed2000

Kinetic, thermodynamic, and developmental consequences of deleting creatine kinase isoenzymes from the heart. Reaction kinetics of the creatine kinase isoenzymes in the intact heart.

Creatine kinase (CK) exists as a family of isoenzymes in excitable tissue. We studied isolated perfused hearts from mice lacking genes for either the main muscle isoform of CK (M-CK) or both M-CK and the main mitochondrial isoform (Mt-CK) to determine 1) the biological significance of CK isoenzyme shifts, 2) the necessity of maintaining a high CK reaction rate, and 3) the role of CK isoenzymes in establishing the thermodynamics of ATP hydrolysis. (31)P NMR was used to measure [ATP], [PCr], [P(i)], [ADP], pH, as well as the unidirectional reaction rate of PCr--> [gamma-P]ATP. Developmental changes in the main fetal isoform of CK (BB-CK) were unaffected by loss of other CK isoenzymes. In hearts lacking both M- and Mt-CK, the rate of ATP synthesis from PCr was only 9% of the rate of ATP synthesis from oxidative phosphorylation demonstrating a lack of any high energy phosphate shuttle. We also found that the intrinsic activities of the BB-CK and the MM-CK isoenzymes were equivalent. Finally, combined loss of M- and Mt-CK (but not loss of only M-CK) prevented the amount of free energy released from ATP hydrolysis from increasing when pyruvate was provided as a substrate for oxidative phosphorylation.

Adenosine Triphosphate↗
PubMed1991

[Determination of kinetic parameters of protein metabolism in growing rats in conjunction with measurement of energy metabolism. 1. Determination of kinetic parameters of protein metabolism in relation to body weight and protein content of the feed].

The digestibility, the N balance, the rate of protein synthesis and other parameters, characterising the protein metabolism in dependence on live weight, protein- and energy supply are estimated on Wistar rats (4-5 animals/group). These experiments were done in 5 alternating consecutive growth and energy maintenance periods at 4 different levels of protein (6, 10, 17, 26% CP) during the live weight period of 70 to 230 g. The rate of protein synthesis was calculated from the course of renale 15N excretion by means of the end product method after giving a single dose of a mixture of 17 15N labelled amino acids. N deposition, rate of protein synthesis and flux rate increased with the protein level of the ration. During maintenance these data were much lower, but showed the same dependence on the protein level. The absolute protein synthesis (g/d) increased up to the live weight of 130... 180 g and decreased afterwards according to the age. The reutilization rate varied between 44 and 87% and decreased with increasing dietary protein level by 27% and during proceeding age by 8 ... 12%. In contrast to the absolute metabolism rates (g/d) the fractional rates (%/d) clearly decreased with the age of the animals. The stimulation of these rates by the dietary protein level resembled that for the absolute rates of synthesis. The protein deposition showed the typical course of a growing curve according to the N intake and the protein synthesis showed practically the same course but on a higher level. The break down remained constantly (approximately 140 mg N/d) up to an N intake of about 360 mg and afterwards it increased too.

Amino Acids↗