scholarly journals Chemistry of cation hydration and conduction in a skeletal muscle ryanodine receptor

2019 ◽  
Author(s):  
Zhaolong Wu ◽  
Congcong Liu ◽  
Hua Yu ◽  
Duan Kang ◽  
Yinping Ma ◽  
...  
Keyword(s):  
Skeletal Muscle ◽  
Binding Sites ◽  
Ryanodine Receptors ◽  
Cation Binding ◽  
Water Molecules ◽  
Ion Permeation ◽  
Multiscale Dynamics ◽  
Hydration Shells ◽  
Cation Hydration ◽  
Dynamics Simulations

AbstractRyanodine receptors (RyRs) are Ca2+-regulated Ca2+ channels of 2.2-megadalton in muscles and neurons for calcium signaling. How Ca2+ regulates ion conduction in the RyR channels remains elusive. We determined a 2.6-Å cryo-EM structure of rabbit skeletal muscle RyR1, and used multiscale dynamics simulations to elucidate cation interactions with RyR1. We investigated 21 potential cation-binding sites that may together rationalize biphasic Ca2+ response of RyR1. The selectivity filter captures a cation hydration complex by hydrogen-bonding with both the inner and outer hydration shells of water molecules. Molecular dynamics simulations suggest that adjacent Ca2+ ions moving in concert along ion-permeation pathway are separated by at least two cation-binding sites. Our analysis reveals that RyR1 has been evolved to favor its interactions with two hydration shells of cations.

scholarly journals Origin and control of ionic hydration patterns in nanopores

2021 ◽  
Vol 2 (1) ◽  
Author(s):  
Miraslau L. Barabash ◽  
William A. T. Gibby ◽  
Carlo Guardiani ◽  
Alex Smolyanitsky ◽  
Dmitry G. Luchinsky ◽  
...  
Keyword(s):  
Molecular Dynamics ◽  
Molecular Dynamics Simulations ◽  
Distribution Functions ◽  
Water Molecules ◽  
Surrounding Water ◽  
Ionic Hydration ◽  
Hydration Shells ◽  
Water Layers ◽  
Dynamics Simulations ◽  
And Control

AbstractIn order to permeate a nanopore, an ion must overcome a dehydration energy barrier caused by the redistribution of surrounding water molecules. The redistribution is inhomogeneous, anisotropic and strongly position-dependent, resulting in complex patterns that are routinely observed in molecular dynamics simulations. Here, we study the physical origin of these patterns and of how they can be predicted and controlled. We introduce an analytic model able to predict the patterns in a graphene nanopore in terms of experimentally accessible radial distribution functions, giving results that agree well with molecular dynamics simulations. The patterns are attributable to a complex interplay of ionic hydration shells with water layers adjacent to the graphene membrane and with the hydration cloud of the nanopore rim atoms, and we discuss ways of controlling them. Our findings pave the way to designing required transport properties into nanoionic devices by optimising the structure of the hydration patterns.

scholarly journals Hydration of Simple Model Peptides in Aqueous Osmolyte Solutions

2021 ◽  
Vol 22 (17) ◽  
pp. 9350
Author(s):  
Aneta Panuszko ◽  
Maciej Pieloszczyk ◽  
Anna Kuffel ◽  
Karol Jacek ◽  
Karol A. Biernacki ◽  
...  
Keyword(s):  
High Stability ◽  
Water Molecules ◽  
Hydration Water ◽  
Computational Results ◽  
Protein Surface ◽  
Structure Of Water ◽  
Hydration Shells ◽  
Dynamics Simulations ◽  
Proteins And Peptides ◽  
Main Factor

The biology and chemistry of proteins and peptides are inextricably linked with water as the solvent. The reason for the high stability of some proteins or uncontrolled aggregation of others may be hidden in the properties of their hydration water. In this study, we investigated the effect of stabilizing osmolyte–TMAO (trimethylamine N-oxide) and destabilizing osmolyte–urea on hydration shells of two short peptides, NAGMA (N-acetyl-glycine-methylamide) and diglycine, by means of FTIR spectroscopy and molecular dynamics simulations. We isolated the spectroscopic share of water molecules that are simultaneously under the influence of peptide and osmolyte and determined the structural and energetic properties of these water molecules. Our experimental and computational results revealed that the changes in the structure of water around peptides, caused by the presence of stabilizing or destabilizing osmolyte, are significantly different for both NAGMA and diglycine. The main factor determining the influence of osmolytes on peptides is the structural-energetic similarity of their hydration spheres. We showed that the chosen peptides can serve as models for various fragments of the protein surface: NAGMA for the protein backbone and diglycine for the protein surface with polar side chains.

scholarly journals Effects of ATP on the Interaction of Ca++, Mg++, and K+ with Fragmented Sarcoplasmic Reticulum Isolated from Rabbit Skeletal Muscle

1967 ◽  
Vol 50 (5) ◽  
pp. 1327-1352 ◽  
Author(s):  
Arselio P. Carvalho ◽  
Barbara Leo
Keyword(s):  
Skeletal Muscle ◽  
Sarcoplasmic Reticulum ◽  
Binding Sites ◽  
Membrane Fraction ◽  
Binding Capacity ◽  
Cation Binding ◽  
The Other ◽  
Surface Binding ◽  
Ph Values ◽  
Number Of Binding Sites

Fragmented sarcoplasmic reticulum isolated from skeletal muscle of the rabbit has a cation-binding capacity of about 350 µeq/g of protein at neutral pH. The same binding sites bind Ca, Mg, K, and H ions and, consequently, the selective binding of Ca induced by ATP releases an amount of the other cations equivalent to the Ca taken up. At pH values below 6.2, an increasing number of binding sites are associated with H+, and ATP induces exchange of Ca mostly for H+. At pH values above 6.2, the binding sites exist in the form of Mg and K, and Ca is bound in exchange for these cations. The total bound Ca + Mg + K, expressed in microequivalents of cations bound per gram of protein, is approximately constant at various pCa values, which indicates a stoichiometric exchange of Ca for the other cations. To accomplish the same degree of exchange of Ca for other cations bound, in the absence of ATP, concentrations of free Ca++ of about 1000-fold higher than those needed in the presence of ATP are required in the medium. We cannot distinguish between a mechanism whereby Ca actively transported into a compartment of the microsomal vesicles containing also the binding sites is bound passively to these sites in exchange for Mg, K, and H and another in which ATP selectively increases the affinity of surface-binding sites for Ca. Irrespective of the mechanism of accumulation, the Ca retained does not contribute to the activity of the cation in the membrane fraction. Caffeine (10 mM) has no effect on the binding of Ca, but releases a more labile fraction of Ca, which presumably accumulates in excess of the bound Ca. Procaine (5 mM) antagonizes the effect of caffeine. Acetylcholine and epinephrine have no effect on the binding of Ca.

A Molecular Dynamics Study of Ionic Hydration Near a Platinum Surface

1991 ◽  
Vol 46 (10) ◽  
pp. 876-886 ◽  
Author(s):  
J. Seitz-Beywl ◽  
M. Poxleitner ◽  
K. Heinzinger
Keyword(s):  
Boundary Layer ◽  
Molecular Dynamics ◽  
Distribution Functions ◽  
Water Molecules ◽  
Molecular Orbital Calculations ◽  
Platinum Surface ◽  
Average Temperature ◽  
Ionic Hydration ◽  
Hydration Shells ◽  
Dynamics Simulations

AbstractTwo Molecular Dynamics simulations have been performed where a Pt(100) surface is covered with three layers of water molecules and a lithium or an iodide ion is placed additionally in the boundary layer. The flexible BJH model of water is employed in the simulations and the ion-water, platinum-water and platinum-ion potentials are derived from molecular orbital calculations. The simulations extended over 7.5 ps at an average temperature of 298 K. The effect of the Pt(100) surface on the ionic hydration is demonstrated by the comparison of the radial distribution functions, the orientation of the water molecules and their geometrical arrangement in the first hydration shells of the ions in the boundary layer with those in a 2.2 molal bulk Lil solution.

scholarly journals Effects of Potentiators of Muscular Contraction on Binding of Cations by Sarcoplasmic Reticulum

1968 ◽  
Vol 51 (3) ◽  
pp. 427-442 ◽  
Author(s):  
Arselio P. Carvalho
Keyword(s):  
Skeletal Muscle ◽  
Sarcoplasmic Reticulum ◽  
Binding Sites ◽  
Muscular Contraction ◽  
Cation Binding ◽  
Muscle Membrane ◽  
Force Of Contraction ◽  
Primary Event ◽  
Contraction Coupling ◽  
Total Capacity

Anionic (NO3-, Br-, I-, and SCN-) and cationic (Zn++ and Cd++) potentiators of the twitch output of skeletal muscle depress the active binding of Ca by sarcoplasmic reticulum isolated from rabbit skeletal muscle. Zinc and Cd exchange for Ca and Mg at the binding sites of the reticular membranes, whereas the anions effectively induce a replacement by Mg of Ca bound actively in the presence of ATP. In the absence of ATP, the passive binding of both Ca and Mg is increased by the anions tested. Furthermore, the anions increase the total capacity of the membrane fragments for passive cation binding. The Ca-stimulated ATPase activity of the membranes is inhibited by Zn and Cd, but not by the anions. Shifts in cations bound to muscle membrane systems caused by agents that increase the force of contraction developed during the twitch are considered to be the primary event modifying excitation-contraction coupling, and thus leading to potentiation.

scholarly journals Origin and control of ionic hydration patterns in nanopores

2020 ◽  
Author(s):  
Miraslau Barabash ◽  
William Gibby ◽  
Carlo Guardiani ◽  
Alex Smolyanitsky ◽  
Dmitry Luchinsky ◽  
...  
Keyword(s):  
Molecular Dynamics ◽  
Molecular Dynamics Simulations ◽  
Water Molecules ◽  
Complex Interplay ◽  
Surrounding Water ◽  
Ionic Hydration ◽  
Hydration Shells ◽  
Water Layers ◽  
Dynamics Simulations ◽  
And Control

Abstract In order to permeate a nanopore, an ion must overcome a dehydration energy barrier caused by the redistribution of surrounding water molecules. The redistribution is inhomogeneous, anisotropic and strongly position-dependent, resulting in complex patterns that are routinely observed in molecular dynamics simulations. We now address the questions of the physical origin of these patterns and of how they can be predicted and controlled. We introduce an analytic model able to predict the patterns in terms of experimentally accessible radial distributions functions, yielding results that agree well with molecular dynamics simulations. We show that the patterns are attributable to a complex interplay of ionic hydration shells with water layers adjacent to the membrane and with the hydration cloud of the nanopore rim atoms, and we discuss ways of controlling them. Our findings pave the way to designing required transport properties into nanoionic devices by optimising the structure of the hydration patterns.

Dihydropyridine and ryanodine receptor binding after eccentric contractions in mouse skeletal muscle

2004 ◽  
Vol 96 (5) ◽  
pp. 1619-1625 ◽  
Author(s):  
Christopher P. Ingalls ◽  
Gordon L. Warren ◽  
Jia-Zheng Zhang ◽  
Susan L. Hamilton ◽  
R. B. Armstrong
Keyword(s):  
Skeletal Muscle ◽  
Ryanodine Receptor ◽  
Receptor Binding ◽  
Binding Sites ◽  
Muscle Injury ◽  
Extensor Digitorum Longus ◽  
Ryanodine Receptors ◽  
Extensor Digitorum ◽  
Eccentric Contractions ◽  
Scatchard Analysis

The purpose of this study was to determine whether there are alterations in the dihydropyridine and/or ryanodine receptors that might explain the excitation-contraction uncoupling associated with eccentric contraction-induced skeletal muscle injury. The left anterior crural muscles (i.e., tibialis anterior, extensor digitorum longus, and extensor hallucis longus) of mice were injured in vivo by 150 eccentric contractions. Peak isometric tetanic torque of the anterior crural muscles was reduced ∼45% immediately and 3 days after the eccentric contractions. Partial restoration of peak isometric tetanic and subtetanic forces of injured extensor digitorum longus muscles by 10 mM caffeine indicated the presence of excitation-contraction uncoupling. Scatchard analysis of [3H]ryanodine binding indicated that the number of ryanodine receptor binding sites was not altered immediately postinjury but decreased 16% 3 days later. Dihydropyridine receptor binding sites increased ∼20% immediately after and were elevated to the same extent 3 days after the injury protocol. Muscle injury did not alter the sensitivity of either receptor. These data suggest that a loss or altered sensitivity of the dihydropyridine and ryanodine receptors does not contribute to the excitation-contraction uncoupling immediately after contraction-induced muscle injury. We also concluded that the loss in ryanodine receptors 3 days after injury is not the primary cause of excitation-contraction uncoupling at that time.

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