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At least 757 records · Page 42

Elucidation of the physical factors that control activated transport of penetrants in chemically complex glass-forming liquids

Understanding the activated transport of penetrant or tracer atoms and molecules in condensed phases is a challenging problem in chemistry, materials science, physics, and biophysics. Many angstrom- and nanometer-scale features enter due to the highly variable shape, size, interaction, and conformational flexibility of the penetrant and matrix species, leading to a dramatic diversity of penetrant dynamics. Based on a minimalist model of a spherical penetrant in equilibrated dense matrices of hard spheres, a recent microscopic theory that relates hopping transport to local structure has predicted a novel correlation between penetrant diffusivity and the matrix thermodynamic dimensionless compressibility, S 0 ( T ) (which also quantifies the amplitude of long wavelength density fluctuations), as a consequence of a fundamental statistical mechanical relationship between structure and thermodynamics. Moreover, the penetrant activation barrier is predicted to have a factorized/multiplicative form, scaling as the product of an inverse power law of S 0 ( T ) and a linear/logarithmic function of the penetrant-to-matrix size ratio. This implies an enormous reduction in chemical complexity that is verified based solely on experimental data for diverse classes of chemically complex penetrants dissolved in molecular and polymeric liquids over a wide range of temperatures down to the kinetic glass transition. The predicted corollary that the penetrant diffusion constant decreases exponentially with inverse temperature raised to an exponent determined solely by how S 0 ( T ) decreases with cooling is also verified experimentally. Our findings are relevant to fundamental questions in glassy dynamics, self-averaging of angstrom-scale chemical features, and applications such as membrane separations, barrier coatings, drug delivery, and self-healing.

Science & Technology - Other Topics↗

The Effect of Geometry, Spin, and Orbital Optimization in Achieving Accurate, Correlated Results for Iron–Sulfur Cubanes

Iron–sulfur clusters comprise an important functional motif in the catalytic centers of biological systems, capable of enabling important chemical transformations at ambient conditions. This remarkable capability derives from a notoriously complex electronic structure that is characterized by a high density of states that is sensitive to geometric changes. The spectral sensitivity to subtle geometric changes has received little attention from correlated, large active space calculations, owing partly to the exceptional computational complexity for treating these large and correlated systems accurately. Here, to provide insight into this aspect, we report the first Complete Active Space Self Consistent Field (CASSCF) calculations for different geometries of the [Fe(II/III) 4 S 4 (SMe) 4 ] -2 clusters using two complementary, correlated solvers: spin-pure Adaptive Sampling Configuration Interaction (ASCI) and Density Matrix Renormalization Group (DMRG). We find that the previously established picture of a double-exchange driven magnetic structure, with minute energy gaps (<1 mHa) between consecutive spin states, has a weak dependence on the underlying geometry. However, the spin gap between the singlet and the spin state 2S + 1 = 19, corresponding to a maximal number of Fe-d electrons being unpaired and of parallel spin, is strongly geometry dependent, changing by a factor of 3 upon slight deformations that are still within biologically relevant parameters. The CASSCF orbital optimization procedure, using active spaces as large as 86 electrons in 52 orbitals, was found to reduce this gap compared to typical mean-field orbital approaches. Our results show the need for performing large active space calculations to unveil the challenging electronic structure of these complex catalytic centers and should serve as accurate starting points for fully correlated treatments upon inclusion of dynamical correlation outside the active space.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

RbB 3 Si 3 : An Alkali Metal Borosilicide that is Metastable and Superconducting at 1 atm

The stability, electronic structure and potential superconductivity in AB 3 Si 3 (A = Na, K, Rb, and Cs) compounds that assume the clathrate-based sodalite structure whose frameworks consists of covalent B-Si bonds is investigated via first-principles calculations. This structure type has recently been predicted in a number of high temperature superconducting hydrides, but these are only stable under megabar pressures. Herein, we predict a novel superconducting phase, RbB 3 Si 3 , that could be synthesized under pressures that are a factor of ten smaller, ~10 GPa, and quenched to atmospheric conditions. Electron-phonon coupling calculations predict that RbB 3 Si 3 possesses a superconducting critical temperature, T c , of 14 K at 1 atm. Here, the dynamic stability of RbB 3 Si 3 and CsB 3 Si 3 at ambient pressure can be explained by considering the chemical pressure exerted on the B-Si framework that is caused by the size effect of the alkali metal atom.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Insights Into Nature-Based Climate Solutions: Managing Forests for Climate Resilience and Carbon Stability

Successful implementation of forest management as a nature-based climate solution is dependent on the durability of management-induced changes in forest carbon storage and sequestration. As forests face unprecedented stability risks in the face of ongoing climate change, much remains unknown regarding how management will impact forest stability, or how interactions with climate might shift the response of forests to management across spatiotemporal scales. Here, we used a process-based model to simulate multidecadal projections of forest dynamics in response to changes in management and climate. Simulations were conducted across gradients in forest type, edaphic factors, and management intensity under two alternate radiative forcing scenarios (RCP4.5 and RCP8.5). This allowed for the quantification of forest stability shifts in response to climate change, and the role of management in modulating that response, where ecosystem stability is characterized as the resilience and temporal stability of net primary production, aboveground biomass, and soil carbon. Our results indicate that forest structure is primarily shaped by management, but the same management strategy often produced divergent structures over time, due to interactions with regional climate change. We found that management can be used to increase stability and minimize the release of stored carbon by reducing mortality, but also highlight the regional dependency of management-induced changes in resilience to climate change.

54 ENVIRONMENTAL SCIENCES↗

A conformation-selective monoclonal antibody against a small molecule-stabilised signalling-deficient form of TNF

We have recently described the development of a series of small-molecule inhibitors of human tumour necrosis factor (TNF) that stabilise an open, asymmetric, signalling-deficient form of the soluble TNF trimer. Here, we describe the generation, characterisation, and utility of a monoclonal antibody that selectively binds with high affinity to the asymmetric TNF trimer–small molecule complex. The antibody helps to define the molecular dynamics of the apo TNF trimer, reveals the mode of action and specificity of the small molecule inhibitors, acts as a chaperone in solving the human TNF–TNFR1 complex crystal structure, and facilitates the measurement of small molecule target occupancy in complex biological samples. We believe this work defines a role for monoclonal antibodies as tools to facilitate the discovery and development of small-molecule inhibitors of protein–protein interactions.

59 BASIC BIOLOGICAL SCIENCES↗

Mechanistic studies of small molecule ligands selective to RNA single G bulges

Abstract Small-molecule RNA binders have emerged as an important pharmacological modality. A profound understanding of the ligand selectivity, binding mode, and influential factors governing ligand engagement with RNA targets is the foundation for rational ligand design. Here, we report a novel class of coumarin derivatives exhibiting selective binding affinity towards single G RNA bulges. Harnessing the computational power of all-atom Gaussian accelerated molecular dynamics simulations, we unveiled a rare minor groove binding mode of the ligand with a key interaction between the coumarin moiety and the G bulge. This predicted binding mode is consistent with results obtained from structure-activity relationship studies and transverse relaxation measurements by nuclear magnetic resonance spectroscopy. We further generated 444 molecular descriptors from 69 coumarin derivatives and identified key contributors to the binding events, such as charge state and planarity, by lasso (least absolute shrinkage and selection operator) regression. Our work deepened the understanding of RNA-small molecule interactions and integrated a new framework for the rational design of selective small-molecule RNA binders.

Biochemistry & Molecular Biology↗

CAVE3: A general transient heat transfer computer code utilizing eigenvectors and eigenvalues

The method of solution is a hybrid analytical numerical technique which utilizes eigenvalues and eigenvectors. The method is inherently stable, permitting large time steps even with the best of conductors with the finest of mesh sizes which can provide a factor of five reduction in machine time compared to conventional explicit finite difference methods when structures with small time constants are analyzed over long time periods. This code will find utility in analyzing hypersonic missile and aircraft structures which fall naturally into this class. The code is a completely general one in that problems involving any geometry, boundary conditions and materials can be analyzed. This is made possible by requiring the user to establish the thermal network conductances between nodes. Dynamic storage allocation is used to minimize core storage requirements. This report is primarily a user's manual for CAVE3 code. Input and output formats are presented and explained. Sample problems are included which illustrate the usage of the code as well as establish the validity and accuracy of the method.

Palmieri, J. V.↗

Parameter estimation of large flexible aerospace structures with application to the control of the Maypole Deployable Reflector

Systems such as the Maypole deployable reflector have a distributed parameter nature. The flexible column and hoop structure and the circular antenna of 30-100 meter diameter which it supports are described by partial, rather than ordinary, differential equations. Progress completed in reduced order modelling andd controller design and digital parameter estimation and control is summarized. Topics covered include depolyment and on-orbit operation; quasi-static (steady state) operation; dynamic distributed parameter system; autoregressive moving average identification; frequency domain procedures; direct or implicit active control; adaptive observers; parameter estimation using a linear reinforcement learning factor; feedback control; and reduced order modeling for nonlinear systems.

Balas, M. J.↗

An investigation of turbulence models

The accuracy to which a turbulent boundary layer or wake can be predicted numerically depends on the validity of the turbulence closure model used. The modeling of turbulence physics is one of the most difficult problems in computational fluid dynamics (CFD). In fact, it is one of the pacing factors in the development of CFD. In general, there are three main approaches to the description of trubulence physics. First is turbulence modeling in which the Reynolds averaged Navier-Stokes equations are used and some closure approximation is made for the Reynolds stresses. A second approach to turbulence is large eddy simulation (LES) in which the computational mesh is taken to be fine enough that the large scale structure of the turbulence can be calculated directly. An empirical assumption must be made for the small scale sub-grid turbulence. The third approach is direct simulation. In this technique the Navier-Strokes equations are solved directly on a mesh which if fine enough to resolve the smallest length scale of the turbulence. The Reynolds averaged equations are not used and no closure assumption is required. These last two approaches require extensive computer resources and as such are not engineering tools. The purpose of the work was to investigate the various engineering turbulence models for accuracy and ease of programming. This involved comparison of the models with each other and with experimental data.

Doria, Michael L.↗

Nonlinear and distributed parameter models of the mini-mast truss

Large spacecraft such as Space Station Freedom employ large trusses in their construction. The structural dynamics of such trusses often exhibit nonlinear behavior and little damping which can impact significantly the performance of control systems. The Mini-MAST truss was constructed to research such structural dynamics and control systems. The Mini-MAST truss is an object of study for the guest investigator program as part of NASA's controls-structures interaction program. The Mini-MAST truss is deployable and about 65 ft long. Although the bending characteristics of the Mini-MAST truss are essentially linear, the angular deflection under torsional loading has exhibited significant hysteresis and nonlinear stiffness. It is the purpose to develop nonlinear and distributed parameter models of the truss and to compare the model dynamics with actual measurements. Distributed parameter models have the advantage of requiring fewer model parameters. A tangent function is used to describe the nonlinear stiffness in torsion, partly because of the convenience of its easily expressed inverse. Hysteretic slip elements are introduced and extended to a continuum to account for the observed hysteresis in torsion. The contribution of slipping to the structural damping is analyzed and found to be strongly dependent on the applied loads. Because of the many factors which affect the damping and stiffness in a truss, it is risky to assume linearity.

Taylor, Lawrence W., Jr.↗

Soft factorisation and exponentiation from Schwinger-space geometry

Infrared divergences in Quantum Field Theory govern the low-energy dynamics of many physical theories, and their understanding is a crucial ingredient in predicting the outcomes of collider experiments. We present a novel approach to deriving the structure of these divergences by employing the Schwinger parametrization of Feynman integrals. After using tropical geometry to identify divergent limits, we study the all-orders asymptotic properties of Feynman diagrams via matrix manipulations of graph Laplacians, which allows us to analyse their IR behaviour systematically. We explicitly demonstrate the soft-hard factorization of the integrand for a broad class of diagrams, and reveal that when written in terms of worldline distances, topologically distinct diagrams asymptote to the same integrand at leading order in the soft limit. In particular, for the case of Quantum Electrodynamics (with massive fermions), we use this fact to show how ladder-type diagrams combine in Schwinger-parameter space to yield the correct exponentiated soft anomalous dimension. This framework provides a foundation for extending these methods to more complex theories like Quantum Chromodynamics and offers a pathway towards a systematic understanding of infrared divergences in perturbative amplitudes.

Factorization↗

Light mesons within the basis light-front quantization framework

In this work, we study the light-unflavored mesons as relativistic bound states in the nonperturbative Hamiltonian formalism of the basis light-front quantization approach. The dynamics for the valence quarks of these mesons is specified by an effective Hamiltonian containing the one-gluon exchange interaction and the confining potentials both introduced in our previous work on heavy quarkonia, supplemented additionally by a pseudoscalar contact interaction. We diagonalize this Hamiltonian in our basis function representation to obtain the mass spectrum and the light-front wave functions (LFWFs). Based on these LFWFs, we then study the structure of these mesons by computing the electromagnetic form factors, the decay constants, the parton distribution amplitudes, and the parton distribution functions. Our results are comparable to those from experiments and other theoretical models.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗

Mediation of Colloidal Encounter Dynamics by Surface Roughness

Rigorous understanding on the self-assembly of colloidal nanocrystals is crucial to develop tailored nanostructured materials for energy storage, sensing, and optical fields. Despite extensive studies on the self-assembly, a mechanistic understanding of self-assembly under an external field still remains an ongoing challenge. Here, in this work, we used optical tweezers that impose an external attractive force field, resulting in the self-assembly of alpha-phase sodium yttrium fluoride nanocrystals. The dynamic force that is strongly dependent on the surface roughness of the nanocrystals is shown to be a decisive factor for a direct contact between the nanocrystals, manifested by the roughness-dependent hydrodynamic resistivity and Langevin dynamic simulations. Our study provides direct evidence that the role of dynamics is equally important in understanding the self-assembly, which has been rarely observed in the self-assembly in contrast with many studies on the equilibrium forces. These results may have further impact in other fields, such as having explanatory power for the probability of nonclassical crystal growth or the structure of viral spike proteins that affect the probability of viruses binding with cells.

Felsted, Robert G. [Univ. of Washington, Seattle, ↗

Trapping of gas mixtures by amorphous water ice

Our studies on gas trapping in amorphous water ice at 24-100 K were extended, by using mixtures of CH4, CO, N2, and Ar, rather than single gases. In 1:1 gas:(water vapor) mixtures, the competition among these gases on the available sites in the ice showed that the trapping capacity for the various gases is determined not only by the structure and dynamics of the ice, but is also influenced by the gas itself. Whereas at 24-35 K all four gases are trapped in the ice indiscriminantly, at 50-75 K there is a clear enhancement, in the order of CH4 > CO > N2 > or approximately Ar. This order is influenced by the gas-water interaction energy, the size of the trapped gas atom or molecule, the type of clathrate-hydrate formed (I or II) and, possibly, other factors. It seems that the gas can be trapped in the amorphous ice in several different locations, each being affected in a different way by the deposition temperature and gas composition. Once a gas atom or molecule is trapped in a specific location, it is predestined to emerge in one of eight different temperature ranges, which are associated with changes in the ice. The experimentally observed enhancements, together with the findings on the gas composition of comet Halley, might enable an estimation of the gas composition in the region of comet formation.

NASA Discipline Number 52-10↗

Smart Structures for Vibration Control on Long-Term Space Exploration and Habitation Missions

The current vision for space exploration focuses on human missions to the Moon, Mars, and beyond. To support these goals, it is certain that new vehicles and intermediate bases will be developed, whether that means simply re-direction of the ISS as a "mission research facility" or construction of a lunar base. Since these facilities are expected to be constructed from inherently light-weight materials, this work examines some of the potential sources of vibration and noise as well as means for controlling these vibrations. Many of the operating components within these facilities, such as pumps, fans, and motors, will produce vibrations during operation. These vibrations become structure in which they are housed. Resonances can impact acoustic noise levels and noise quality within the environment, possibly affecting crew health and productivity. For long-term missions in particular, it is expected that crew members will spend significant portions of their time restrained in the structure, such as in seats. As a result, the general health and well-being of the crew can be improved by limiting the harmful effects of human exposure to long-term audible and tactile vibration input. Besides the human factor, this work also examines some operational considerations in which vibrations play an important role. Vibrations can impact the environment for science and in-situ manufacturing research within these vehicles. Since a benign vibratory environment is beneficial for most types of science experiments, there is a need for various forms of vibration control. Because the operational characteristics of a vehicle can change during a long-term mission, it is further expected that the characteristics of many of the vibratory excitations will change with time. Consequently, the form of vibration control needed to improve overall habitability and usefulness of the vehicle or element for exploration missions will rely to some degree on the vibration control system's ability to adapt. To address these needs, this work also examines the development and use of smart materials to tune the dynamic characteristics of the structure in a passive sense. One prime example is the use of an adaptive electrical shunt connected to a piezoelectric patch in order to provide tuned passive vibration damping. The work also examines the use of active vibration control, such as by applying power to that same piezoelectric patch. The overall goal is to examine the use of smart structures that can react to the environment thereby improving the overall living, working, and learning environment for these long-term missions.

Gattis, Christy B.↗

Rotational Dynamics of an Amphidynamic Zirconium Metal–Organic Framework Determined by Dielectric Spectroscopy

A zirconium metal–organic framework with a difluorophenylene rotator bearing a permanent electric dipole of ~3.2 D was synthesized, and its rotational motion was analyzed by temperature- and frequency-dependent broadband dielectric spectroscopy. While solid-state NMR confirms fast rotation qualitatively, the dissipation factors measured between 113 and 153 K suggested an activation energy E a = 2.6 kcal/mol, but deviations from a single Debye relaxation suggested a dynamic process that cannot be accounted for by a well-defined potential with a single activation barrier. The dynamic heterogeneity of the dipolar rotor was confirmed by analysis in terms of a Cole–Cole relaxation, which suggested a mean barrier of ~1.9 kcal/mol, with a heterogeneity that decreases as temperature increases. Based on the single-crystal structure, we propose that the kinetic heterogeneity results from a temperature-dependent potential where rotation motion is mediated by the escape of the rotator from an energy well created by a double Ph–H···F–Ph hydrogen bond.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Reduced Internal Friction by Osmolyte Interaction in Intrinsically Disordered Myelin Basic Protein

Urea is a strong denaturing osmolyte that disrupts noncovalent bonds in proteins. Here, we present a small-angle neutron scattering (SANS) and neutron spin–echo spectroscopy (NSE) study on the structure and dynamics of the intrinsically disordered myelin basic protein (MBP) denatured by urea. SANS results show that urea-denatured MBP is more compact than ideal polymers, while its secondary structure content is entirely lost. Additionally, NSE experiments reveal concomitantly an increase of the relaxation time and of the amplitude of internal motions in urea-denatured MBP as compared to native MBP. If interpreted in terms of the Zimm model including internal friction (ZIF), the internal friction parameter decreased by a factor of 6.5. Urea seems to not only smooth local energy barriers, reducing internal friction on a local scale, but also significantly reduces the overall depth of the global energy landscape. This leads to a nearly complete loss of restoring forces beyond entropic forces and in turn allows for larger motional amplitudes. Obviously, the noncovalent H-bonds are largely eliminated, driving the unfolded protein to be more similar to a synthetic polymer.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Understanding extreme fast charge limitations in carbonate mixtures

Charging large format lithium ion batteries within ten to fifteen minutes requires changes to the electrolyte composition in addition to modification of electrode and cell architectures. Several approaches to address this need have been proposed; but there is not a lot of clarity on understanding which factors limit the performance of existing electrolytes. Furthermore, this work takes a closer look at the solvated components of a mixture of LiPF 6 in ethylene carbonate (EC) and ethyl methyl carbonate (EMC) in the context of extreme fast charging and relates these findings to cell-level requirements. Molecular dynamics studies of the Gen-2 electrolyte compositions with increasing salt concentrations, have been performed to estimate transport properties like diffusivity, transference number and conductivity. Molecular-level differences in the structure of solvation shells under extreme LiPF 6 concentrations are probed here and some key aspects on solvent structure that help overcome barriers to Li + transport under extreme fast charge are discussed.

25 ENERGY STORAGE↗