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P. V. E. McClintock

Publications and source records attributed to P. V. E. McClintock.

At least 19 recordsLinked to original sources
arXiv2022

A low-frequency, high-amplitude, torsional oscillator for turbulence studies in quantum fluids

We describe a new type of torsional oscillator, suitable for studies of quantum fluids at frequencies of $\sim$ $100$ Hz, but capable of reaching high velocities of up to several cm\,s$^{-1}$. This requires the oscillator amplitude to exceed $100$ $μm$, which is much too large for a conventional capacitor-driven device. We describe the new geometry for the oscillator, discuss its design, and report our initial tests of its performance.

cond-mat.other↗
arXiv2020

Physics of selective conduction and point mutation in biological ion channels

We introduce a statistical and linear response theory of selective conduction in biological ion channels with multiple binding sites and possible point mutations. We derive an effective grand-canonical ensemble and generalised Einstein relations for the selectivity filter, assuming strongly coordinated ionic motion, and allowing for ionic Coulomb blockade. The theory agrees well with data from the KcsA K$^+$ channel and a mutant. We show that the Eisenman relations for thermodynamic selectivity follow from the condition for fast conduction and find that maximum conduction requires the binding sites to be nearly identical.

physics.bio-ph↗
arXiv2018

Quantized Dehydration and the Determinants of Selectivity in the NaChBac Bacterial Sodium Channel

A discrete electrostatic/diffusion model has been developed to describe the selective permeation of ion channels, based on ionic Coulomb blockade (ICB) and quantised dehydration (QD). It has been applied to describe selectivity phenomena measured in the bacterial NaChBac sodium channel and some of its mutants. Site-directed mutagenesis and the whole-cell patch-clamp technique were used to investigate how the value $Q_f$ of the fixed charge at the selectivity filter (SF) affected both valence and alike-charge selectivity. The new ICB/QD model predicts that increasing ${Q_f}$ should lead to a shift of selectivity sequences towards larger ion sizes and charges, a result that agrees with the present experiments and with earlier work. Comparison of the model with experimental data provides evidence for an {\it effective charge} $Q_f^*$ at the SF that is smaller in magnitude than the nominal $Q_f$ corresponding to the charge on the isolated protein residues. Furthermore, $Q_f^*$ was different for aspartate and glutamate charged rings and also depended on their position within the SF. It is suggested that protonation of the residues within the restricted space is an important factor in significantly reducing the effective charge of the EEEE ring. Values of $Q_f^*$ derived from experiments on the anomalous mole fraction effect (AMFE) agree well with expectations based on the ICB/QD model and have led to the first clear demonstration of the expected ICB oscillations in Ca$^{2+}$ conduction as a function of the fixed charge. Pilot studies of the dependence of Ca$^{2+}$ conduction on pH are consistent with the predictions of the model.

physics.bio-ph↗
arXiv2017

Effect of Local Binding on Stochastic Transport in Ion Channels

Ionic Coulomb blockade (ICB) is an electrostatic phenomenon recently discovered in low-capacitance ion channels/nanopores. Depending on the fixed charge that is present, ICB strongly and selectively influences the ease with which a given type of ion can permeate the pore. The phenomenon arises from the discreteness of the charge-carriers, the dielectric self-energy, an electrostatic exclusion principle, and sequential pore neutralization, and it manifests itself strongly for divalent ions (e.g.\ Ca$^{2+}$). Ionic Coulomb blockade is closely analogous to electronic Coulomb blockade in quantum dots. In addition to the non-local 1D Coulomb interaction considered in the standard Coulomb blockade approach, we now propose a correction to take account of the singular part of the attraction to the binding site (i.e.\ local site binding). We show that this correction leads to a geometry-dependent shift of one of the barrierless resonant conduction points M$_0^{CB}$. We also show that local ion-ion repulsion accounts for a splitting of Ca$^{2+}$ profiles observed earlier in Brownian dynamics simulations.

physics.bio-ph↗
arXiv2017

Kinetic model of selectivity and conductivity of the KcsA filter

We introduce a self-consistent multi-species kinetic theory based on the structure of the narrow voltage-gated potassium channel. Transition rates depend on a complete energy spectrum with contributions including the dehydration amongst species, interaction with the dipolar charge of the filter and, bulk solution properties. It displays high selectivity between species coexisting with fast conductivity, and Coulomb blockade phenomena, and it fits well to data.

physics.bio-ph↗
arXiv2016

Calorimetric observation of single He2* excimers in a 100 mK He bath

We report the first calorimetric detection of individual He2* excimers within a bath of superfluid 4He. The detector used in this work is a single superconducting titanium transition edge sensor (TES) with an energy resolution of ~1 eV, immersed directly in the helium bath. He2* excimers are produced in the surrounding bath using an external gamma-ray source. These excimers exist either as short-lived singlet or long-lived triplet states. We demonstrate detection of both states: in the singlet case the calorimeter records the absorption of a prompt 15 eV photon, and in the triplet case the calorimeter records a direct interaction of the molecule with the TES surface, which deposits a distinct fraction of the 15 eV, released upon decay, into the surface. We also briefly discuss the detector fabrication and characterization.

cond-mat.other↗
arXiv2016

Statistical Theory of Selectivity and Conductivity in Biological Channels

We present an equilibrium statistical-mechanical theory of selectivity in biological ion channels. In doing so, we introduce a grand canonical ensemble for ions in a channel's selectivity filter coupled to internal and external bath solutions for a mixture of ions at arbitrary concentrations, we use linear response theory to find the current through the filter for small gradients of electrochemical potential, and we show that the conductivity of the filter is given by the generalized Einstein relation. We apply the theory to the permeation of ions through the potassium selectivity filter, and are thereby able to resolve the long-standing paradox of why the high selectivity of the filter brings no associated delay in permeation. We show that the Eisenman selectivity relation follows directly from the condition of diffusion-limited conductivity through the filter. We also discuss the effect of wall fluctuations on the filter conductivity.

physics.bio-ph↗
arXiv2015

Dissipation of Quasiclassical Turbulence in Superfluid $^4$He

We compare the decay of turbulence in superfluid $^4$He produced by a moving grid to the decay of turbulence created by either impulsive spin-down to rest or by intense ion injection. In all cases the vortex line density $L$ decays at late time $t$ as $L \propto t^{-3/2}$. At temperatures above 0.8 K, all methods result in the same rate of decay. Below 0.8 K, the spin-down turbulence maintains initial rotation and decays slower than grid turbulence and ion-jet turbulence. This may be due to a decoupling of the large-scale superfluid flow from the normal component at low temperatures, which changes its effective boundary condition from no-slip to slip.

physics.flu-dyn↗
arXiv2015

Regular Rather than Chaotic Origin of the Resonant Transport in Superlattices

We address the enhancement of electron drift in semiconductor superlattices of nanometre scale that occurs in combined electric and tilted magnetic fields if Bloch oscillations become resonant with cyclotron rotation in the transverse plane. We uncover the true dynamical mechanism of the phenomenon: the electron dynamics at relevant time-scales is regular or almost regular, contrary to the widespread belief that the enhancement arises through chaotic diffusion between collisions. The theory provides an accurate description of earlier numerical simulations, predicts new remarkable features verified by simulations, and suggests new ways of controlling resonant transport.

cond-mat.mes-hall↗
arXiv2014

Ionic Coulomb Blockade and Resonant Conduction in Biological Ion Channels

The conduction and selectivity of calcium/sodium ion channels are described in terms of ionic Coulomb blockade, a phenomenon based on charge discreteness and an electrostatic model of an ion channel. This novel approach provides a unified explanation of numerous observed and modelled conductance and selectivity phenomena, including the anomalous mole fraction effect and discrete conduction bands. Ionic Coulomb blockade and resonant conduction are similar to electronic Coulomb blockade and resonant tunnelling in quantum dots. The model is equally applicable to other nanopores.

physics.bio-ph↗
arXiv2013

Energetics of discrete selectivity bands and mutation-induced transitions in the calcium-sodium ion channels family

We use Brownian dynamics simulations to study the permeation properties of a generic electrostatic model of a biological ion channel as a function of the fixed charge $Q_f$ at its selectivity filter. We reconcile the recently-discovered discrete calcium conduction bands M0 ($Q_f$=1e), M1 (3e), M2 (5e) with the set of sodium conduction bands L0 (0.5-0.7e), L1 (1.5-2e) thereby obtaining a completed pattern of conduction and selectivity bands v $Q_f$ for the sodium-calcium channels family. An increase of $Q_f$ leads to an increase of calcium selectivity: L0 (sodium selective, non-blocking channel) -> M0 (non-selective channel) -> L1 (sodium selective channel with divalent block) -> M1 (calcium selective channel exhibiting the anomalous mole fraction effect). We create a consistent identification scheme where the L0 band is identified with the eukaryotic (DEKA) sodium channel, and L1/L2 (speculatively) with the bacterial NaChBac channel. The scheme created is able to account for the experimentally observed mutation-induced transformations between non-selective channels, sodium-selective channels, and calcium-selective channels, which we interpret as transitions between different rows of the identification table. By considering the potential energy changes during permeation, we show explicitly that the multi-ion conduction bands of calcium and sodium channels arise as the result of resonant barrier-less conduction. Our results confirm the crucial influence of electrostatic interactions on conduction and on the Ca/Na valence selectivity of calcium and sodium ion channels. The model and results could be also applicable to biomimetic nanopores with charged walls.

physics.bio-ph↗
arXiv2013

Excimers He2* as Tracers of Quantum Turbulence in 4He in the T=0 Limit

We have studied the interaction of metastable $^4$He$_2^*$ excimer molecules with quantized vortices in superfluid $^4$He in the zero temperature limit. The vortices were generated by either rotation or ion injection. The trapping diameter of the molecules on quantized vortices was found to be $96\pm6$\,nm at a pressure of 0.1\,bar and $27\pm5$\,nm at 5.0 bar. We have also demonstrated that a moving tangle of vortices can carry the molecules through the superfluid helium.

cond-mat.other↗
arXiv2013

Multi-ion conduction bands in a simple model of calcium ion channels

We report self-consistent Brownian dynamics simulations of a simple electrostatic model of the selectivity filters (SF) of calcium ion channels. They reveal regular structure in the conductance and selectivity as functions of the fixed negative charge Qf at the SF. This structure consists of distinct regions of high conductance (conduction bands) M0, M1, M2 separated by regions of zero-conductance (stop-bands). Two of these conduction bands, M1 and M2, demonstrate high calcium selectivity and prominent anomalous mole fraction effects and can be identified with the L-type and RyR calcium channels.

physics.bio-ph↗
arXiv2010

Comment on "Influence of Noise on Force Measurement" [arXiv:1004.0874]

In a recent Letter [arXiv:1004.0874], Volpe et al. describe experiments on a colloidal particle near a wall in the presence of a gravitational field for which they study the influence of noise on the measurement of force. Their central result is a striking discrepancy between the forces derived from experimental drift measurements via their Eq. (1), and from the equilibrium distribution. From this discrepancy they infer the stochastic calculus realised in the system. We comment, however: (a) that Eq. (1) does not hold for space-dependent diffusion, and corrections should be introduced; and (b) that the "force" derived from the drift need not coincide with the "force" obtained from the equilibrium distribution.

cond-mat.soft↗
arXiv2009

Intrinsic dynamics of heart regulatory systems on short time-scales: from experiment to modelling

We discuss open problems related to the stochastic modeling of cardiac function. The work is based on an experimental investigation of the dynamics of heart rate variability (HRV) in the absence of respiratory perturbations. We consider first the cardiac control system on short time scales via an analysis of HRV within the framework of a random walk approach. Our experiments show that HRV on timescales of less than a minute takes the form of free diffusion, close to Brownian motion, which can be described as a non-stationary process with stationary increments. Secondly, we consider the inverse problem of modeling the state of the control system so as to reproduce the experimentally observed HRV statistics of. We discuss some simple toy models and identify open problems for the modelling of heart dynamics.

physics.bio-ph↗
arXiv2009

Stochastic webs and quantum transport in superlattices: an introductory review

Stochastic webs were discovered, first by Arnold for multi-dimensional Hamiltonian systems, and later by Chernikov et al. for the low-dimensional case. Generated by weak perturbations, they consist of thread-like regions of chaotic dynamics in phase space. Their importance is that, in principle, they enable transport from small energies to high energies. In this introductory review, we concentrate on low-dimensional stochastic webs and on their applications to quantum transport in semiconductor superlattices subject to electric and magnetic fields. We also describe a recently-suggested modification of the stochastic web to enhance chaotic transport through it and we discuss its possible applications to superlattices. keywords: stochastic webs; quantum transport; superlattices; separatrix chaos

nlin.CD↗
arXiv2009

A New Approach To The Treatment Of Separatrix Chaos And Its Applications

We consider time-periodically perturbed 1D Hamiltonian systems possessing one or more separatrices. If the perturbation is weak, then the separatrix chaos is most developed when the perturbation frequency lies in the logarithmically small or moderate ranges: this corresponds to the involvement of resonance dynamics into the separatrix chaos. We develop a method matching the discrete chaotic dynamics of the separatrix map and the continuous regular dynamics of the resonance Hamiltonian. The method has allowed us to solve the long-standing problem of an accurate description of the maximum of the separatrix chaotic layer width as a function of the perturbation frequency. It has also allowed us to predict and describe new phenomena including, in particular: (i) a drastic facilitation of the onset of global chaos between neighbouring separatrices, and (ii) a huge increase in the size of the low-dimensional stochastic web.

nlin.CD↗