Mechanism and kinetics of inactivation at 40–70°C of the extracellular proteinase from Pseudomonas fluorescens 22F

1998 ◽  
Vol 65 (2) ◽  
pp. 261-272 ◽  
Author(s):  
ERIX P. SCHOKKER ◽  
MARTINUS A. J. S. VAN BOEKEL
Keyword(s):  
Molecular Mass ◽  
Pseudomonas Fluorescens ◽  
Computer Simulations ◽  
Rate Constants ◽  
Size Exclusion ◽  
Temperature Dependent ◽  
Extracellular Proteinase ◽  
Reaction Rate Constants ◽  
Exclusion Chromatography ◽  
Kinetics Of

HPLC size exclusion chromatography experiments showed that during inactivation at 40–70°C of the extracellular proteinase from Pseudomonas fluorescens 22F small molecular mass fragments were formed, indicating that autoproteolysis was at least one of the major causes of inactivation. The formation of small molecular mass fragments and the reaction order indicated that intermolecular autoproteolysis was more likely than intramolecular autodigestion. This was confirmed by computer simulations. The rate constants and the activation enthalpy (ΔH[Dagger]) and entropy (ΔS[Dagger]) for the reactions of the intermolecular autoproteolysis model were derived from computer simulations. ΔH[Dagger] and ΔS[Dagger] of the unfolding reaction were 504 kJ mol−1 and 1252 J mol K−1 respectively. ΔH[Dagger] and ΔS[Dagger] of the refolding reaction were strongly temperature dependent. The estimates for the enthalpy (ΔH0) and entropy (ΔS0) difference between the folded and unfolded state as derived from the reaction rate constants of unfolding and refolding were subject to large deviations, owing to accumulation of errors in the estimation of the kinetic characteristics.

scholarly journals Human Tyrosinase: Temperature-Dependent Kinetics of Oxidase Activity

2020 ◽  
Vol 21 (3) ◽  
pp. 895 ◽  
Author(s):  
Kenneth L. Young ◽  
Claudia Kassouf ◽  
Monika B. Dolinska ◽  
David Eric Anderson ◽  
Yuri V. Sergeev
Keyword(s):  
Driving Forces ◽  
Autosomal Recessive Disorder ◽  
Oculocutaneous Albinism ◽  
Binding Activity ◽  
Size Exclusion ◽  
Temperature Dependent ◽  
Exclusion Chromatography ◽  
Pigment Biosynthesis ◽  
Kinetics Of ◽  
Human Tyrosinase

Human tyrosinase (Tyr) is involved in pigment biosynthesis, where mutations in its corresponding gene TYR have been linked to oculocutaneous albinism 1, an autosomal recessive disorder. Although the enzymatic capabilities of Tyr have been well-characterized, the thermodynamic driving forces underlying melanogenesis remain unknown. Here, we analyze protein binding using the diphenol oxidase behavior of Tyr and van ’t Hoff temperature-dependent analysis. Recombinant Tyr was expressed and purified using a combination of affinity and size-exclusion chromatography. Michaelis-Menten constants were measured spectrophotometrically from diphenol oxidase reactions of Tyr, using L-3,4-dihydroxyphenylalanine (L-DOPA) as a substrate, at temperatures: 25, 31, 37, and 43 °C. Under the same conditions, the Tyr structure and the L-DOPA binding activity were simulated using 3 ns molecular dynamics and docking. The thermal Michaelis-Menten kinetics data were subjected to the van ‘t Hoff analysis and fitted with the computational model. The temperature-dependent analysis suggests that the association of L-DOPA with Tyr is a spontaneous enthalpy-driven reaction, which becomes unfavorable at the final step of dopachrome formation.

scholarly journals Characterization of Temperature-Dependent Kinetics of Oculocutaneous Albinism-Causing Mutants of Tyrosinase

2021 ◽  
Vol 22 (15) ◽  
pp. 7771
Author(s):  
Samuel A. Wachamo ◽  
Milan H. Patel ◽  
Paul K. Varghese ◽  
Monika B. Dolinska ◽  
Yuri V. Sergeev
Keyword(s):  
Trichoplusia Ni ◽  
Oculocutaneous Albinism ◽  
Size Exclusion ◽  
Temperature Dependent ◽  
Experimental Conditions ◽  
Rate Limiting Step ◽  
Its Gene ◽  
Exclusion Chromatography ◽  
First Time ◽  
Kinetics Of

Human tyrosinase (Tyr) is a glycoenzyme that catalyzes the first and rate-limiting step in melanin production, and its gene (TYR) is mutated in many cases of oculocutaneous albinism type phenotype in patients with OCA1 have only began to be examined and remain to be delineated. Here, we analyze the temperature-dependent kinetics of wild-type Tyr (WT) and two OCA1B mutant variants (R422Q and P406L) using Michaelis–Menten and Van’t Hoff analyses. Recombinant truncated human Tyr proteins (residues 19–469) were produced in the whole insect Trichoplusia Ni larvae. Proteins were purified by a combination of affinity and size-exclusion chromatography. The temperature dependence of diphenol oxidase protein activities and kinetic parameters were measured by dopachrome absorption. Using the same experimental conditions, computational simulations were performed to assess the temperature-dependent association of L-DOPA and Tyr. Our results revealed, for the first time, that the association of L-DOPA with R422Q and P406L followed by dopachrome formation is a complex reaction supported by enthalpy and entropy forces. We show that the WT has a higher turnover number as compared with both R422Q and P406L. Elucidating the kinetics and thermodynamics of mutant variants of Tyr in OCA1B helps to understand the mechanisms by which they lower Tyr catalytic activity and to discover novel therapies for patients.

Mechanodestruction of Isoprene Rubber. Part 1. Process Kinetics

2021 ◽  
Vol 80 (3) ◽  
pp. 118-122
Author(s):  
V.P. Dorozhkin ◽  
◽  
E.G. Mokhnatkina ◽  
D.N. Zemsky ◽  
A.D. Valiev ◽  
...  
Keyword(s):  
Experimental Data ◽  
Molecular Mass ◽  
Rate Constants ◽  
Oxidative Destruction ◽  
Process Kinetics ◽  
Mass Fractions ◽  
Rubber Part ◽  
Kinetics Of ◽  
Selection Of ◽  
Isoprene Rubber

A method is proposed that allows us to obtain the values of the rate constants (CR) of the processes of mechanodestruction (mechanical cracking) of kм, oxidative destruction of kо, and recombination of kр macromolecules, as well as the mass fractions of the corresponding fractions of φм, φо, and φр,r involved in the plasticization process (P) of SKI-3 isoprene rubber. The method is based on the selection of the values of these parameters that correspond to the previously obtained experimental data, using the previously obtained recurrent equations and a specially developed program. The dependences of the CR on the time P at 30oC are obtained, which allows us to describe the kinetics of the processes accompanying P at this temperature, and the changes in molecular mass (MM) in this process. It is shown that constant values of CR are established at large times of P. Refined explanations of the nature of the kinetics of the CR change at P are proposed. The MM value of SKI-3 macromolecules that have not undergone destruction is calculated, depending on the time of plasticization.

Kinetic and structural analysis of the ultrasensitive behaviour of cyanobacterial ADP-glucose pyrophosphorylase

2000 ◽  
Vol 350 (1) ◽  
pp. 139-147 ◽  
Author(s):  
Diego F. GÓMEZ CASATI ◽  
Miguel A. AON ◽  
Alberto A. IGLESIAS
Keyword(s):  
Conformational Changes ◽  
Tertiary Structure ◽  
Fluorescence Emission ◽  
Maximal Activity ◽  
Size Exclusion ◽  
Exclusion Chromatography ◽  
Adp Glucose Pyrophosphorylase ◽  
Kinetics Of ◽  
Allosteric Regulators

The kinetic and (supra)molecular properties of the ultrasensitive behaviour of ADP-glucose pyrophosphorylase (AGPase) from Anabaena PCC 7120 (a cyanobacterium) were exhaustively studied. The response of the enzyme toward the allosteric activator 3-phosphoglycerate (3PGA) occurs with ultrasensitivity as a consequence of the cross-talk with the inhibitor Pi. Molecular ‘crowding’renders AGPase more sensitive to the interplay between the allosteric regulators and, consequently, enhances the ultrasensitive response. In crowded media, and when orthophosphate is present, the activation kinetics of the enzyme with 3PGA proceed with increased co-operativity and reduced affinity toward the activator. Under conditions of ultrasensitivity, the enzyme's maximal activation takes place in a narrow range of 3PGA concentrations. Moreover, saturation kinetics of the enzyme with respect to its substrates, glucose 1-phosphate and ATP, were different at low or high 3PGA levels in crowded media. Only under the latter conditions did AGPase exhibit discrimination between low or high levels of the activator, which increased the affinity toward the substrates and the maximal activity reached by the enzyme. Studies of fluorescence emission of tryptophan residues, fourth-derivative spectroscopy and size-exclusion chromatography indicated that the ultrasensitive behaviour is correlated with intramolecular conformational changes induced in the tertiary structure of the homotetrameric enzyme. The results suggest a physiological relevance of the ultrasensitive response of AGPase in vivo, since the enzyme could be subtly sensing changes in the levels of allosteric regulators and substrates, and thus determining the flux of metabolites toward synthesis of storage polysaccharides.

scholarly journals Kinetic Monte Carlo simulation of the growth of CdSe nanocrystals

2021 ◽  
Vol 134 (1) ◽  
pp. 7-23
Author(s):  
S.M. Asadov ◽  
Keyword(s):  
Monte Carlo ◽  
Rate Constants ◽  
Reaction Rate ◽  
Kinetic Monte Carlo ◽  
Cdse Nanocrystals ◽  
Modified Model ◽  
Early Maturation ◽  
Reaction Rate Constants ◽  
Colloidal Crystallization ◽  
Kinetics Of

This article is devoted to modeling the kinetics of colloidal crystallization of cadmium selenide (CdSe) nanoparticles (NPs). The kinetic equation is modified, considering the contributions of the reaction rate constants of individual stages. It includes the reaction rate constants, thermodynamic and calculated parameters, and physical properties. There is used modified kinetic model based on the crystallization equation. There are considered the contributions of adsorption, desorption, and migration of nucleated particles at different times. Modified model assumes that, upon crystallization of NPs CdSe, monomer units depend on the frequency of attachment and detachment transitions of the monomer–CdSe complex. In this case, the transformation of the precursor into a monomer, the formation of an effective monomer and nucleation pass into the growth stage of (NC CdSe) nanocrystals with a seeded mass. In the process, the resulting nanocluster will continue to grow due to early maturation, aging, and subsequent growth into larger NC CdSe. The Kinetic Monte Carlo method (KMC) is used to approximate the model of the nucleation–growth of NC considering different contributions to the reaction rate constants. The modified model with the use of KMC allows to describe the dependences of the kinetic rate constants on the average radius of nanoparticles as a function of time, concentration, and distribution of NC CdSe at a given time. There are described conditions for the formation of NPs CdSe with an evolutionary distribution function of NC CdSe in size space. The results of modeling the kinetics of colloidal crystallization of CdSe can be used to control nucleation rate and growth of NPs CdSe, as well as similar systems in the formation of high-quality NC.

scholarly journals Bifidobacterium longum Endogalactanase Liberates Galactotriose from Type I Galactans

2005 ◽  
Vol 71 (9) ◽  
pp. 5501-5510 ◽  
Author(s):  
Sandra W. A. Hinz ◽  
Marieke I. Pastink ◽  
Lambertus A. M. van den Broek ◽  
Jean-Paul Vincken ◽  
Alphons G. J. Voragen
Keyword(s):  
Molecular Mass ◽  
Transmembrane Domain ◽  
Bifidobacterium Longum ◽  
Cell Extract ◽  
Size Exclusion ◽  
Glycoside Hydrolase Family ◽  
Type I ◽  
Native Molecular Mass ◽  
Exclusion Chromatography ◽  
Hydrolase Family

ABSTRACT A putative endogalactanase gene classified into glycoside hydrolase family 53 was revealed from the genome sequence of Bifidobacterium longum strain NCC2705 (Schell et al., Proc. Natl. Acad. Sci. USA 99:14422-14427, 2002). Since only a few endo-acting enzymes from bifidobacteria have been described, we have cloned this gene and characterized the enzyme in detail. The deduced amino acid sequence suggested that this enzyme was located extracellularly and anchored to the cell membrane. galA was cloned without the transmembrane domain into the pBluescript SK(−) vector and expressed in Escherichia coli. The enzyme was purified from the cell extract by anion-exchange and size exclusion chromatography. The purified enzyme had a native molecular mass of 329 kDa, and the subunits had a molecular mass of 94 kDa, which indicated that the enzyme occurred as a tetramer. The optimal pH of endogalactanase activity was 5.0, and the optimal temperature was 37°C, using azurine-cross-linked galactan (AZCL-galactan) as a substrate. The Km and V max for AZCL-galactan were 1.62 mM and 99 U/mg, respectively. The enzyme was able to liberate galactotrisaccharides from (β1→4)galactans and (β1→4)galactooligosaccharides, probably by a processive mechanism, moving toward the reducing end of the galactan chain after an initial midchain cleavage. GalA's mode of action was found to be different from that of an endogalactanase from Aspergillus aculeatus. The enzyme seemed to be able to cleave (β1→3) linkages. Arabinosyl side chains in, for example, potato galactan hindered GalA.

Kinetics of the Ozonation of Tetrabromobisphenol-A in Wastewater

2011 ◽  
Vol 383-390 ◽  
pp. 2945-2950 ◽  
Author(s):  
Jie Zhang ◽  
Shi Long He ◽  
Mei Feng Hou ◽  
Li Ping Wang ◽  
Li Jiang Tian
Keyword(s):  
Rate Constants ◽  
Apparent Rate Constant ◽  
Reaction Rate ◽  
Batch Reactor ◽  
Kinetic Studies ◽  
Tetrabromobisphenol A ◽  
First Order ◽  
Reaction Rate Constants ◽  
Pseudo First Order ◽  
Kinetics Of

The kinetics of TBBPA degradation by ozonation in semi-batch reactor was studied. The reaction rate constants of TBBPA with O3 and •OH were measured by means of direct ozone attack and competition kinetics, and the values of which were 6.10 l/(mol•s), 4.8×109 l/(mol•s), respectively. Results of kinetic studies showed that TBBPA degradation by ozonation under the different conditions tested followed the pseudo-first-order. The values of apparent rate constant of TBBPA degradation increased with the increase of ozone dosage and pH, but decreased with the increase of initial TBBPA concentration.

scholarly journals VirB8 homolog TraE from plasmid pKM101 forms a hexameric ring structure and interacts with the VirB6 homolog TraD

2018 ◽  
Vol 115 (23) ◽  
pp. 5950-5955 ◽  
Author(s):  
Bastien Casu ◽  
Charline Mary ◽  
Aleksandr Sverzhinsky ◽  
Aurélien Fouillen ◽  
Antonio Nanci ◽  
...  
Keyword(s):  
Molecular Mass ◽  
Secretion System ◽  
High Molecular Mass ◽  
Full Length ◽  
Size Exclusion ◽  
Cross Linking ◽  
X Ray ◽  
Exclusion Chromatography ◽  
Plasmid Pkm101 ◽  
Membrane Bound

Type IV secretion systems (T4SSs) are multiprotein assemblies that translocate macromolecules across the cell envelope of bacteria. X-ray crystallographic and electron microscopy (EM) analyses have increasingly provided structural information on individual T4SS components and on the entire complex. As of now, relatively little information has been available on the exact localization of the inner membrane-bound T4SS components, notably the mostly periplasmic VirB8 protein and the very hydrophobic VirB6 protein. We show here that the membrane-bound, full-length version of the VirB8 homolog TraE from the plasmid pKM101 secretion system forms a high-molecular-mass complex that is distinct from the previously characterized periplasmic portion of the protein that forms dimers. Full-length TraE was extracted from the membranes with detergents, and analysis by size-exclusion chromatography, cross-linking, and size exclusion chromatography (SEC) multiangle light scattering (MALS) shows that it forms a high-molecular-mass complex. EM and small-angle X-ray scattering (SAXS) analysis demonstrate that full-length TraE forms a hexameric complex with a central pore. We also overproduced and purified the VirB6 homolog TraD and show by cross-linking, SEC, and EM that it binds to TraE. Our results suggest that TraE and TraD interact at the substrate translocation pore of the secretion system.

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