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At least 757 records · Page 42

Computational design of highly signalling-active membrane receptors through solvent-mediated allosteric networks

Abstract Protein catalysis and allostery require the atomic-level orchestration and motion of residues and ligand, solvent and protein effector molecules. However, the ability to design protein activity through precise protein–solvent cooperative interactions has not yet been demonstrated. Here we report the design of 14 membrane receptors that catalyse G protein nucleotide exchange through diverse engineered allosteric pathways mediated by cooperative networks of intraprotein, protein–ligand and –solvent molecule interactions. Consistent with predictions, the designed protein activities correlated well with the level of plasticity of the networks at flexible transmembrane helical interfaces. Several designs displayed considerably enhanced thermostability and activity compared with related natural receptors. The most stable and active variant crystallized in an unforeseen signalling-active conformation, in excellent agreement with the design models. The allosteric network topologies of the best designs bear limited similarity to those of natural receptors and reveal an allosteric interaction space larger than previously inferred from natural proteins. The approach should prove useful for engineering proteins with novel complex protein binding, catalytic and signalling activities.

Chemistry↗

Characterization of Deformational Isomerization Potential and Interconversion Dynamics with Ultrafast X-ray Solution Scattering

Dimeric complexes composed of d 8 square planar metal centers and rigid bridging ligands provide model systems to understand the interplay between attractive dispersion forces and steric strain in order to assist the development of reliable methods to model metal dimer complexes more broadly. [Ir 2 (dimen) 4 ] 2+ (dimen = para-diisocyanomenthane) presents a unique case study for such phenomena, as distortions of the optimal structure of a ligand with limited conformational flexibility counteract the attractive dispersive forces from the metal and ligand to yield a complex with two ground state deformational isomers. Here, in this work, we use ultrafast X-ray solution scattering (XSS) and optical transient absorption spectroscopy (OTAS) to reveal the nature of the equilibrium distribution and the exchange rate between the deformational isomers. The two ground state isomers have spectrally distinct electronic excitations that enable the selective excitation of one isomer or the other using a femtosecond duration pulse of visible light. We then track the dynamics of the nonequilibrium depletion of the electronic ground state population—often termed the ground state hole—with ultrafast XSS and OTAS, revealing a restoration of the ground state equilibrium in 2.3 ps. This combined experimental and theoretical study provides a critical test of various density functional approximations in the description of bridged d 8 –d 8 metal complexes. The results show that density functional theory calculations can reproduce the primary experimental observations if dispersion interactions are added, and a hybrid functional, which includes exact exchange, is used.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Integrated Ion-Exchange Membrane Resin Wafer Assemblies for Aromatic Organic Acid Separations Using Electrodeionization

Aromatic acids, such as p-coumaric acid, are valuable chemical intermediates that are used in the specialty chemical industries because they are precursors to phenylpropanoid compounds. The separation of p-coumaric acid from fermentation broths is a critical step in the biochemical production process and more broadly the circular carbon economy. Electrodeionization (EDI) has been applied toward separations of low-carbon chain acids, but purifying p-coumaric acid has been challenging due to fouling and irreversible binding with ion-exchange membranes and resins. Here, we report a new membrane wafer assembly (MWA) consisting of laminated ion exchange membranes to porous ionomer-binder resin wafers for EDI. The MWAs in an EDI stack showed a 7-fold increase in p-coumaric acid capture while also using 70% less specific energy consumption when benchmarked against state-of-the-art resin wafer EDI modules. The more efficient p-coumaric acid recovery was ascribed to (i) the 38% reduction in interfacial transport resistance between the membrane and resin wafer and (ii) using imidazolium anion exchange membranes and ionomer binders in the MWA. MD simulations revealed enhanced transport rates for p-coumarate in imidazolium ionomers through π–π interactions. As a result, adopting the new MWA significantly reduced the amount of ion-exchange membranes in EDI and may lead to drastic capital cost savings.

42 ENGINEERING↗

Charged multihadron systems in lattice QCD+QED

Systems with the quantum numbers of up to 12 charged and neutral pseudoscalar mesons, as well as one-, two-, and three-nucleon systems, are studied using dynamical lattice quantum chromodynamics and quantum electrodynamics (QCD+QED) calculations and effective field theory. QED effects on hadronic interactions are determined by comparing systems of charged and neutral hadrons after tuning the quark masses to remove strong isospin breaking effects. A nonrelativistic effective field theory, which perturbatively includes finite-volume Coulomb effects, is analyzed for systems of multiple charged hadrons and found to accurately reproduce the lattice QCD+QED results. QED effects on charged multihadron systems beyond Coulomb photon exchange are determined by comparing the two- and three-body interaction parameters extracted from the lattice QCD+QED results for charged and neutral multihadron systems.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Importance of Van der Waals Interactions in Hydrogen Adsorption on a Silicon-carbide Nanotube Revisited with vdW-DFT and Quantum Monte Carlo

Density functional theory (DFT) is a valuable tool for calculating adsorption energies toward designing materials for hydrogen storage. However, dispersion forces being absent from the local/semi-local theory, it remains unclear as to how the consideration of van der Waals (vdW) interactions affects such calculations. For the first time, we applied diffusion Monte Carlo (DMC) to evaluate the adsorption characteristics of a hydrogen molecule on a (5,5) armchair silicon-carbide nanotube (H 2 -SiCNT). Within the DFT framework, we benchmarked various exchange-correlation functionals, including those recently developed for treating dispersion or vdW interactions. We found that the vdW-corrected DFT methods agree well with DMC, whereas the local (semilocal) functional significantly over (under)-binds. Furthermore, we fully optimized the H 2 -SiCNT geometry within the DFT framework and investigated the correlation between the structure and charge density. The vdW contribution to the adsorption was found to be non-negligible at similar to 1 kcal/mol per hydrogen molecule, which amounts to 9-29% of the ideal adsorption energy required for hydrogen storage applications.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

The Relevance of Pion-Exchange Contributions Versus Contact Terms in the Chiral Effective Field Theory Description of Nucleon–Nucleon Scattering

The standard way to demonstrate the relevance of chiral symmetry for the NN interaction is to consider higher partial waves of NN scattering which are controlled entirely by chiral pion-exchanges (since contacts vanish). However, in applications of NN-potentials to nuclear structure and reactions, the lower partial waves are the important ones, making the largest contributions. Lower partial waves are sensitive to the short-range potential, and so, when the short-range contacts were to dominate over the chiral pion contributions in lower partial waves, then the predictions from chiral potentials would have little to do with chiral symmetry. To address this issue, we investigate systematically the role of the (chiral) one- and two-pion exchanges, on the one hand, and the effect of the contacts, on the other hand, in the lower partial waves of NN scattering. We are able to clearly identify the signature of chiral symmetry in lower partial waves. Furthermore, our study has also a pedagogical spinoff as it demonstrates in detail how the reproduction of the lower partial-wave phase shifts comes about from the various ingredients of the theory.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

The exact exchange–correlation potential in time-dependent density functional theory: Choreographing electrons with steps and peaks

The time-dependent exchange–correlation potential has the unusual task of directing fictitious non-interacting electrons to move with exactly the same probability density as true interacting electrons. This has intriguing implications for its structure, especially in the non-perturbative regime, leading to step and peak features that cannot be captured by bootstrapping any ground-state functional approximation. Here, we review what has been learned about these features in the exact exchange–correlation potential of time-dependent density functional theory in the past decade or so and implications for the performance of simulations when electrons are driven far from any ground state.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Restoring Symmetry and Enhancing Exchange via Chiral Molecular-Magnetic Hexagons

Modified behaviors of molecules, designed for device or energy applications, can occur due to lattice-molecule incompatibilities in point-group symmetries (PGS), long-range interactions between neighboring molecules, or latticemolecule charge transfer. Such sensitivities are prerequisite for the use of quantum molecules as devices, but removing certain broken symmetries is desirable from the standpoint of simplifying their behaviors. Here, we demonstrate symmetry restoration to molecular-magnetic lattices and show that it leads to strengthened exchange-coupling due to dipolar electrostatic interactions between neighboring molecules and due to manifestations of an earlier identification of a spin-sensitive slightly mobile electron by Hooshmand et al. Starting with a broken symmetry molecular magnet of current interest, we demonstrate a more robust structure composed of six molecular magnets on a h-BN-like surface. The broken point-group symmetry is healed by constructing interpenetrating equilateral triangular structures that are appropriately ratcheted to preserve three-fold rotational symmetry and inversion symmetry.

Pederson, Mark R.↗

Spin Waves and Magnetic Exchange Hamiltonian in CrSBr

Abstract CrSBr is an air‐stable two‐dimensional (2D) van der Waals semiconducting magnet with great technological promise, but its atomic‐scale magnetic interactions—crucial information for high‐frequency switching—are poorly understood. An experimental study is presented to determine the CrSBr magnetic exchange Hamiltonian and bulk magnon spectrum. The A ‐type antiferromagnetic order using single crystal neutron diffraction is confirmed here. The magnon dispersions are also measured using inelastic neutron scattering and rigorously fit the excitation modes to a spin wave model. The magnon spectrum is well described by an intra‐plane ferromagnetic Heisenberg exchange model with seven nearest in‐plane exchanges. This fitted exchange Hamiltonian enables theoretical predictions of CrSBr behavior: as one example, the fitted Hamiltonian is used to predict the presence of chiral magnon edge modes with a spin‐orbit enhanced CrSBr heterostructure.

2D materials↗

Examining the justification for the introduction of a fermion localization function

Becke and Edgecombe suggested in 1990 a theoretical tool to describe electron localization in atoms and molecules, an idea which was borrowed by a large number of nuclear theorists since 2011 to describe nucleon localization in nuclear systems. I argue here that these arguments are highly questionable and cannot be used in interacting systems where effects beyond the naive mean field or the simple Hartree-Fock framework are important and the inclusion of correlations induced by particle interactions is necessary in order to introduce such a localization function. Furthermore, I also describe several aspects of the exchange and irreducible two-body density matrices, which depend on the character and strength of the two-particle interaction and which can be useful in justifying the derivation of an appropriate energy density functional.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗

Simulating exotic phases of matter with bond-directed interactions with arrays of Majorana-Cooper pair boxes

It is suggested that networks of Majorana-Cooper pair boxes connected by metallic nanowirescan simulate various exotic states of matter. In this simulations Majorana-Cooper boxes play therole of effective spins S=1/2 and the metallic connections generate the Kondo screening and theRuderman-Kittel-Kasuya-Yosida (RKKY) interaction. Depending on what prevails - whether it isthe Kondo effect or the RKKY exchange, one will have either an effective spin model or a Kondolattice. The list of exotic stets includes the famous hexagonal Kitaev model, a generalization of thismodel for a Kondo lattice and various spin models with three-spin interactions. A special emphasizeis made on the discussion of the Kondo lattice scenario.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗

The Interstellar Mapping And Acceleration Probe High Energy (IMAP-Hi) Neutral Atom Imager

The IMAP-Hi Energetic Neutral Atom (ENA) Imager on NASA’s Interstellar Mapping and Acceleration Probe (IMAP) mission (McComas et al. 2018a, 2025) is designed to measure ENAs from the global interaction between the heliosphere and the local interstellar medium (LISM). These ENAs are initially plasma ions of solar wind origin that are neutralized by charge exchange with the cold neutral atoms of LISM that freely flow through the heliosphere-LISM interaction region. IMAP-Hi consists of two identical single-pixel sensors, each covering the ENA spectral range from 0.44 keV to 15.6 keV over nine contiguous energy passbands and having an approximately conical field-of-view (FOV) of 4.1o full width at half maximum (FWHM). The Hi-45 sensor points 45o relative to the spacecraft spin axis from the antisunward direction; each spacecraft spin, it measures ENA intensity over a circular swath with half-cone angle 45o centered on the ecliptic plane. The Hi-90 sensor points 90o relative to the spin axis; each spacecraft spin, it measures ENA intensity over a great circle in the sky, sampling both the north and south ecliptic poles. As the IMAP spin vector is re-pointed daily toward the Sun, the ecliptic longitude of the swaths moves daily by ∼1o such that a full sky map is acquired by Hi-90 every six months and a complete low latitude (−45o to +45o) map is acquired by Hi-45 annually. The IMAP-Hi sensor design has direct heritage from the IBEX-Hi imager on the Interstellar Boundary Explorer (IBEX) mission, with substantial improvements in energy range, energy resolution, angular resolution, signal-to-noise ratio, and, for ecliptic latitudes within ±45o, temporal resolution and exposure time. The global ENA maps acquired by IMAP-Hi partially overlap in energy and viewing with the ENA maps acquired by the IMAP-Lo and IMAP-Ultra ENA imagers, which we combine to answer fundamental questions about the structure and dynamics of the interaction of the heliosphere and the LISM.

79 ASTRONOMY AND ASTROPHYSICS↗

Dipole-Phonon Quantum Logic with Trapped Polar Molecular Ions

The interaction between the electric dipole moment of a trapped molecular ion and the phonon modes of the confined Coulomb crystal couples the orientation of the molecule to its motion. We consider the practical feasibility of harnessing this interaction to initialize, process, and read out quantum information encoded in molecular ion qubits without ever optically illuminating the molecules. We present two schemes wherein a molecular ion can be entangled with a cotrapped atomic ion qubit, providing, among other things, a means for molecular state preparation and measurement. Here, we also show that virtual phonon exchange can significantly boost the range of the intermolecular dipole-dipole interaction, allowing strong coupling between widely separated molecular ion qubits.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

Groundwater regulates interannual variations in evapotranspiration in a riparian semiarid ecosystem

Dryland ecosystems are an important component of Earth’s carbon, water, and energy budgets. Changes in hydroclimatic conditions can significantly alter land surface fluxes in these ecosystems. In regions with groundwater-river water exchange, land surface fluxes are strongly modulated by groundwater table fluctuations in response to river stage variations; however, interactions between fluxes and groundwater remain poorly understood in drylands. Here, we use eddy covariance data collected in paired upland and riparian semiarid ecosystems during two years with contrasting river flow conditions to examine interactions among river stage conditions, water table dynamics, meteorological drivers, and ecosystem fluxes. Elevated groundwater availability resulting from groundwater-surface water exchange at the riparian site enhanced the latent heat flux (LE, the energy form of evapotranspiration), which was sustained longer in the growing season during both years. At the upland site, mean LE during the dry season differed by less than 2% between the two years. In contrast, at the riparian site contrasting river flow conditions resulted in a 41% difference in peak monthly LE between the two years. The two-year mean LE in the summer at the riparian site was twice that at the upland site. Carbon uptake (NEP) and LE were well correlated at the upland site during both years, but at the riparian site enhanced summertime LE during the high river flow year did not correspond t enhanced NEP. Our results demonstrate that enhanced groundwater availability modulated by river stage variability is a critical driver of land surface fluxes in semiarid riparian ecosystems.

Missik, Justine E.↗

Apex hydrogen bonds in dendron assemblies modulate close-packed mesocrystal structures

The close-packed mesocrystal structures from soft-matter assemblies have recently received attention due to their structural similarity to atomic crystals, displaying various sphere-packing Frank–Kasper (FK) and quasicrystal structures. Herein, diverse mesocrystal structures are explored in second-generation dendrons (G2-X) designed with identical wedges, in which the terminal functionalities X = CONH 2 and CH 2 NH 2 represent two levels of the strong and weak hydrogen-bonding apexes, respectively. The cohesive interactions at the core apex, referred to as the core interactions, are effectively modulated by forming heterogeneous hydrogen bonds between these two functional units. For the dendron assemblies compositionally close to each pure component of G2-CONH 2 and G2-CH 2 NH 2 , their own FK A15 and C14 phases dominate other phases, respectively. We show the existence of the wide-range FK σ including the dodecagonal quasicrystal (DDQC) phases from the dendron mixtures between G2-CONH 2 and G2-CH 2 NH 2 , providing an experimental phase sequence of A15–σ–DDQC–C14 as the core interactions are alleviated. Intriguingly, the temperature dependence of particle sizes shows that the high plateau values of particle sizes are maintained equivalently until each threshold temperature (T th ), followed by a prompt decrease above the T th . A decrease in T th by alleviating the core interactions and its composition dependence suggest that the more size-dispersed particles, the more susceptibility to chain exchange with increasing temperature. Here our results on the formation of supramolecular dendron assemblies provide a guide to understand the core-interaction-dependent mesocrystal structures toward the fundamental principle underlying the temperature dependence of their particle sizes.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Universal Utility Data Exchange (UUDEX) – Protocol Design - Rev 1

This design document describes protocol related aspects of Universal Utility Data Exchange (UUDEX). The focus of the design is to describe the interactions between UUDEX Clients and UUDEX Servers in the UUDEX Infrastructure. This design is purposely transport and programming language agnostic.

97 MATHEMATICS AND COMPUTING↗

Light-induced ferromagnetism in moiré superlattices

Many-body interactions between carriers lie at the heart of correlated physics. The ability to tune such interactions would allow the possibility to access and control complex electronic phase diagrams. Recently, two-dimensional moiré superlattices have emerged as a promising platform for quantum engineering such phenomena. The power of the moiré system lies in the high tunability of its physical parameters by adjusting the layer twist angle, electrical field, moiré carrier filling and interlayer coupling. In this work, we report that optical excitation can highly tune the spin–spin interactions between moiré-trapped carriers, resulting in ferromagnetic order in WS 2 /WSe 2 moiré superlattices. Near the filling factor of v = 1/3 (that is, one hole per three moiré unit cells), as the excitation power at the exciton resonance increases, a well-developed hysteresis loop emerges in the reflective magnetic circular dichroism signal as a function of magnetic field, a hallmark of ferromagnetism. The hysteresis loop persists down to charge neutrality, and its shape evolves as the moiré superlattice is gradually filled, indicating changes of magnetic ground state properties. The observed phenomenon points to a mechanism in which itinerant photoexcited excitons mediate exchange coupling between moiré-trapped holes. This exciton-mediated interaction can be of longer range than direct coupling between moiré-trapped holes, and thus magnetic order arises even in the dilute hole regime. This discovery adds a dynamic tuning knob to the rich many-body Hamiltonian of moiré quantum matter.

36 MATERIALS SCIENCE↗