Dual substrate/solvent- roles of water and mixed reaction-diffusion control of β-Galactosidase catalyzed reactions in PEG-induced macromolecular crowding conditions

2019 ◽  
Vol 515 (1) ◽  
pp. 190-195 ◽  
Author(s):  
Verónica Nolan ◽  
Pedro D. Clop ◽  
M. Inés Burgos ◽  
María A. Perillo
2014 ◽  
Vol 118 (15) ◽  
pp. 4062-4068 ◽  
Author(s):  
Cristina Balcells ◽  
Isabel Pastor ◽  
Eudald Vilaseca ◽  
Sergio Madurga ◽  
Marta Cascante ◽  
...  

2001 ◽  
Vol 41 (supplement) ◽  
pp. S186
Author(s):  
J. Ozaki ◽  
M. Hirata ◽  
S. Kondo

2021 ◽  
Author(s):  
Karthik Pushpavanam ◽  
Brittney Hellner ◽  
François Baneyx

To emulate the control that biomineralizing organisms exert over reactant transport, we construct a countercurrent reaction-diffusion chamber in which an agarose hydrogel regulates the fluxes of inorganic precursor and precipitating...


2003 ◽  
Vol 13 (08) ◽  
pp. 2189-2239 ◽  
Author(s):  
Lequan Min ◽  
Jingtao Wang ◽  
Xisong Dong ◽  
Guanrong Chen

This paper presents some analytical criteria for local activity principle in reaction–diffusion Cellular Nonlinear Network (CNN) cells [Chua, 1997, 1999] that have four local state variables with three ports. As a first application, a cellular nonlinear network model of tumor growth and immune surveillance against cancer (GISAC) is discussed, which has cells defined by the Lefever–Erneaux equations, representing the densities of alive and dead cancer cells, as well as the number of free and bound cytotoxic cells, per unit volume. Bifurcation diagrams of the GISAC CNN provide possible explanations for the mechanism of cancer diffusion, control, and elimination. Numerical simulations show that oscillatory patterns and convergent patterns (representing cancer diffusion and elimination, respectively) may emerge if selected cell parameters are located nearby or on the edge of the chaos domain. As a second application, a smoothed Chua's oscillator circuit (SCC) CNN with three ports is studied, for which the original prototype was introduced by Chua as a dual-layer two-dimensional reaction–diffusion CNN with three state variables and two ports. Bifurcation diagrams of the SCC CNN are computed, which only demonstrate active unstable domains and edges of chaos. Numerical simulations show that evolution of patterns of the state variables of the SCC CNN can exhibit divergence, periodicity, and chaos; and the second and the fourth state variables of the SCC CNNs may exhibit generalized synchronization. These results demonstrate once again Chua's assertion that a wide spectrum of complex behaviors may exist if the corresponding CNN cell parameters are chosen in or nearby the edge of chaos.


2019 ◽  
Author(s):  
Hadi Rahmaninejad ◽  
Tom Pace ◽  
Shashank Bhatt ◽  
Bin Sun ◽  
Peter M Kekenes-Huskey

Nucleotides comprise small molecules that perform critical signaling and energetic roles in biological systems. Of these, the concentrations of adenosine and its derivatives, including adenosine tri-, di-, and mono-phosphate are dynamically controlled in the extracellular-space by ecto-nucleotidases that rapidly degrade such nucleotides. In many instances, the close coupling between cells such as those in synaptic junctions yields tiny extracellular 'nanodomains' within which the charged nucleotides interact with densely-packed membranes and biomolecules. While the contributions of electrostatic and steric interactions within such nanodomains are known to shape diffusion-limited reaction rates, less is understood about how these factors control the kinetics of sequentially-coupled ecto-nucleotidase-catalyzed reactions. To rank the relative importance of these factors, we utilize reaction-diffusion numerical simulations to systematically probe coupled enzyme activity in narrow junctions. We perform these simulations in nanoscale geometries representative of narrow extracellular compartments, within which we localize sequentially- and spatially-coupled enzymes. These enzymes catalyze the conversion of a representative charged substrate such as (ATP) into substrates with different net charges, such as (AMP) and (Ado). Our modeling approach considers electrostatic interactions of diffusing, charged substrates with extracellular membranes, and coupled enzymes. With this model, we find that 1) Reaction rates exhibited confinement effects, namely reduced reaction rates relative to bulk, that were most pronounced when the enzyme was close to the pore size and 2) The presence of charge on the pore boundary further tunes reaction rates by controlling the pooling of substrate near the reactive protein akin to ions near trans-membrane proteins. These findings suggest how remarkable reaction efficiencies of coupled enzymatic processes can be supported in charged and spatially-confined volumes of extracellular spaces.


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