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At least 1,279 records · Page 71

Inward open characterization of EmrD transporter with molecular dynamics simulation

EmrD is a member of the multidrug resistance exporter family. Up to now, little is known about the structural dynamics that underline the function of the EmrD protein in inward-facing open state and how the EmrD transits from an occluded state to an inward open state. For the first time the article applied the AT simulation to investigate the membrane transporter protein EmrD, and described the dynamic features of the whole protein, the domain, the helices, and the amino acid residues during an inward-open process from its occluded state. The gradual inward-open process is different from the current model of rigid-body domain motion in alternating-access mechanism. Simulation results show that the EmrD inward-open conformational fluctuation propagates from a C-terminal domain to an N-terminal domain via the linker region during the transition from its occluded state. The conformational fluctuation of the C-terminal domain is larger than that of the N-terminal domain. In addition, it is observed that the helices exposed to the surrounding membrane show a higher level of flexibility than the other regions, and the protonated E227 plays a key role in the transition from the occluded to the open state. -- Highlights: •This study described the dynamic features of the whole EmrD protein, during an inward-open process from its occluded state. •The EmrD inward-open conformational fluctuation propagates from a C-terminal domain to an N-terminal domain via the linker region during the transition from its occluded state. •The conformational fluctuation of the C-terminal domain is larger than that of the N-terminal domain. •The protonated E227 plays a key role in the transition from the occluded to the open state.

60 APPLIED LIFE SCIENCES↗

A robust and efficient finite volume method for compressible inviscid and viscous two-phase flows [A robust and efficient finite volume method for compressible viscous two-phase flows]

A robust and efficient density-based finite volume method is developed for solving the six-equation single pressure system of two-phase flows at all speeds on hybrid unstructured grids. Unlike conventional approaches where an expensive exact Riemann solver is normally required for computing numerical fluxes at the two-phase interfaces in addition to AUSM-type fluxes for single-phase interfaces in order to maintain stability and robustness in cases involving interactions of strong pressure and void-fraction discontinuities, a volume-fraction coupling term for the AUSM + -up fluxes is introduced in this work to impart the required robustness without the need of the exact Riemann solver. The resulting method is significantly less expensive in regions where otherwise the Riemann solver would be invoked. A transformation from conservative variables to primitive variables is presented and the primitive variables are then solved in the implicit method in order for the current finite volume method to be able to solve, effectively and efficiently, low Mach number flows in traditional multiphase applications, which otherwise is a great challenge for the standard density-based algorithms. Here, a number of benchmark test cases are presented to assess the performance and robustness of the developed finite volume method for both inviscid and viscous two-phase flow problems. The numerical results indicate that the current density-based method provides an attractive and viable alternative to its pressure-based counterpart for compressible two-phase flows at all speeds.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

Design and Characterization of Metal Nanoparticle Infiltrated Mesoporous Metal–Organic Frameworks

The infiltration of palladium and platinum nanoparticles (NPs) into the mesoporous metal–organic framework (MOF) CYCU-3 through chemical vapor infiltration (CVI) and incipient wetness infiltration (IWI) processes was systematically explored as a means to design novel NP@MOF composite materials for potential hydrogen storage applications. We employed a traditional CVI process and a new "green" IWI process using methanol for precursor infiltration and reduction under mild conditions. Transmission electron microscopy-based direct imaging techniques combined with synchrotron-based powder diffraction (SPD), energy-dispersive X-ray spectroscopy, and physisorption analysis reveal that the resulting NP@MOF composites combine key NP and MOF properties. Room temperature hydrogen adsorption capacities of 0.95 and 0.20 mmol/g at 1 bar and 2.9 and 1.8 mmol/g at 100 bar are found for CVI and IWI samples, respectively. Additionally, hydrogen spillover and/or physisorption are proposed as the dominating adsorption mechanisms depending on the NP infiltration method. Mechanistic insights were obtained through the crystallographic means using SPD-based difference envelope density analysis, providing previously underexplored details on NP@MOF preparations. Consequently, important host–guest correlations influencing the global hydrogen adsorption properties are discussed, and they demonstrate that employing MOFs as platforms for NPs is an alternative approach to the development of versatile materials for improving current hydrogen storage technologies.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Reducing the Cost of CCSD Basis Set Extrapolation in Ab Initio Computational Thermochemistry

Here, a series of approximations to CCSD contributions in computational model chemistries is presented in the context of kcal mol –1 , kJ mol –1 , and 20 cm –1 theoretical predictions of total atomization energies, benchmarked within the HEAT+CH 4 test suite. A specific set of circumstances where MP2, without empirical scaling, may be used as an effective intermediate in the first two of these accuracy ranges was determined. However, SDQ-MP4, a method long used in pursuit of kcal mol –1 accuracy but relatively unstudied in the subchemical accuracy community, offers significant improvement over the quality of MP2 as a basis-set intermediate at significantly reduced cost compared to CCSD. Given this, we argue for SDQ-MP4 as the de facto CCSD basis-set intermediate in sub-chemical accuracy calculations when CCSD in a desired basis set becomes unaffordable. We additionally report on a “CBS-like” scheme, where MP2 and SDQ-MP4 are used in conjunction to create a “cheap” three-part approximation of large CCSD basis set limits. The data for the CCSD approximation schemes are organized in such a way that model chemistry developers can locate an analog of their current approach for the CCSD basis set limit and explore alternative intermediates that either decrease computational cost or increase computational accuracy. We also show, for a handful of molecules, that SDQ-MP4 shows promise as an effective basis-set intermediate for harmonic and fundamental frequency computations, allowing for zero-point corrections of nearly CCSD(T)/ANO1 quality using simple composite methods that only require CCSD(T)/ANO0.

Thorpe, James H. [Argonne National Laboratory (ANL↗

Spin–orbit torque switching of a ferromagnet with picosecond electrical pulses

The development of approaches that can efficiently control the magnetization of magnetic materials is central to the creation of fast and low-power spintronic devices. Spin transfer torque can be used to electrically manipulate magnetic order in devices, but is typically limited to nanosecond timescales. Alternatively, spin–orbit torque can be employed, and switching with current pulses down to ~200 ps has been demonstrated. However, the upper limit to magnetization switching speed remains unestablished. Here, we show that photoconductive switches can be used to apply 6-ps-wide electrical pulses and deterministically switch the out-of-plane magnetization of a common thin cobalt film via spin–orbit torque. We probe the ultrafast magnetization dynamics due to spin–orbit torques with sub-picosecond resolution using the time-resolved magneto-optical Kerr effect (MOKE). We also estimate that the magnetization switching consumes less than 50 pJ in micrometre-sized devices.

42 ENGINEERING↗

Structure–property reduced order model for viscosity prediction in single-component CO 2 -binding organic liquids

CO2 capture from power generation with aqueous solvents remains energy intensive due to the high water content of the current technology, or the high viscosity of non-aqueous alternatives. Quantitative reduced models, connecting molecular structure to bulk properties, are key for developing structure-property relationships that enable molecular design. In this work, we describe such a model that quantitatively predicts viscosities of CO2 binding organic liquids (CO2BOLs) based solely on molecular structure and the amount of bound CO2. The functional form of the model correlates the viscosity with the CO2 loading and an electrostatic term describing the charge distribution between the CO2-bearing functional group and the proton-receiving amine. Molecular simulations identify the proton shuttle between these groups within the same molecule to be the critical indicator of low viscosity. The model, developed to allow for quick screening of solvent libraries, paves the way towards the rational design of low viscosity non-aqueous solvent systems for post-combustion CO2 capture. Following these theoretical recommendations, synthetic efforts of promising candidates and viscosity measurement provide experimental validation and verification.

Cantu, David C.↗

A novel chlorophyll protein complex in the repair cycle of photosystem II

In oxygenic photosynthetic organisms, photosystem II (PSII) is a unique membrane protein complex that catalyzes light-driven oxidation of water. PSII undergoes frequent damage due to its demanding photochemistry. It must undergo a repair and reassembly process following photodamage, many facets of which remain unknown. We have discovered a PSII subcomplex that lacks 5 key PSII core reaction center polypeptides: D1, D2, PsbE, PsbF, and PsbI. This pigment–protein complex does contain the PSII core antenna proteins CP47 and CP43, as well as most of their associated low molecular mass subunits, and the assembly factor Psb27. Immunoblotting, mass spectrometry, and ultrafast spectroscopic results support the absence of a functional reaction center in this complex, which we call the “no reaction center” complex (NRC). Analytical ultracentrifugation and clear native PAGE analysis show that NRC is a stable pigment–protein complex and not a mixture of free CP47 and CP43 proteins. NRC appears in higher abundance in cells exposed to high light and impaired protein synthesis, and genetic deletion of PsbO on the PSII luminal side results in an increased NRC population, indicative that NRC forms in response to photodamage as part of the PSII repair process. Our finding challenges the current model of the PSII repair cycle and implies an alternative PSII repair strategy. Formation of this complex may maximize PSII repair economy by preserving intact PSII core antennas in a single complex available for PSII reassembly, minimizing the risk of randomly diluting multiple recycling components in the thylakoid membrane following a photodamage event.

59 BASIC BIOLOGICAL SCIENCES↗

Neutrino topology reconstruction at DUNE and applications to searches for dark matter annihilation in the Sun

We consider a new technique for neutrino energy and topology reconstruction at DUNE. In particular, we show that when the direction of the incoming neutrino is known, one can use the measured directions of the outgoing leptonic and hadronic particles to reconstruct poorly-measured quantities, such as the hadronic cascade energy. We show that this alternative technique yields an energy resolution which is comparable to current reconstruction methods which sum measured energies. As a proof of concept we apply this new reconstruction method to a search for dark matter annihilation in the Sun. We show that the use of directional information from both the leptonic and hadronic interaction products allows one to effectively reject backgrounds and isolate the signal, giving competitive sensitivities.

79 ASTRONOMY AND ASTROPHYSICS↗

Assessing the difficulty of capturing the distribution function of neutrinos in neutron star merger simulations

The collision of two neutron stars is a rich source of information about nuclear physics. In particular, the kilonova signal following a merger can help us elucidate the role of neutron stars in nucleosynthesis, and informs us about the properties of matter above nuclear saturation. Approximate modeling of neutrinos remains an important limitation to our ability to make predictions for these observables. Part of the problem is the fermionic nature of neutrinos. By the exclusion principle, the expected value 𝑓 𝜈 for the number of neutrinos in a quantum state is at most 1. Any process producing neutrinos is suppressed by a blocking factor (1 −𝑓 𝜈 ). Recent simulations focused on neutrino physics mostly use a gray two-moment scheme to evolve neutrinos. This evolves integrals of 𝑓 𝜈 over momentum space, preventing direct calculations of blocking factors. Monte Carlo methods may be an attractive alternative, providing access to the full distribution of neutrinos. Their current implementation is, however, inadequate to estimate 𝑓 𝜈 : in our most recent simulations, a single Monte Carlo packet causes, in the worst cases, estimates of 𝑓 𝜈 to jump from 𝑓 𝜈 =0 to 𝑓 𝜈 ∼10 5 . While this is concerning, this brazen violation of the fermionic nature of neutrinos has been largely inconsequential, as the interactions used in simulations avoid direct calculations of 𝑓 𝜈 . We are, however, reaching a level of modeling at which this problem can no longer be ignored. Here, we discuss the relatively simple origin of this issue. We then show that very rough estimates of 𝑓 𝜈 can in theory be obtained in merger simulations, but that they will require a combination of unintuitive weighting schemes for Monte Carlo packets and smoothing of the neutrino distribution at coarser resolution than what the merger simulation uses.

79 ASTRONOMY AND ASTROPHYSICS↗

Inspection of plate weldments through an interposed layer of viscoelastic material using an elastic-electromagnetic scanning method

In this study, an elastic-microwave based non-destructive evaluation method is presented to inspect for cracks in weldments and thinning of coated steel plates. The approach uses a microwave interferometer operating at 94 GHz to record the total surface displacement of a coated steel plated as it is driven by an incident elastic field. These spatiotemporal data coupled with wavefield processing algorithms provide powerful detection and localization capabilities. From these wavefield data sets, a plate thickness mapping capability has been demonstrated that can detect thickness changes on the order of 0.79 mm (1/32 in.). It is also shown that a topological energy analysis of the wavefield data can detect and locate small flaws on the order of 5–10 mm (0.19–0.40 in.) in the welded joint. Note, all of these results are obtained through a 50.8 mm (2 in.) thick viscoelastic coating without disturbing the coating or the coating bond. At present the algorithm cannot resolve individual flaws within a grid space, just their cumulative effect. Even with the current limitations, this detection approach appears to be a promising alternative to traditional phased array imaging methods where the coating layer must be removed prior to inspection.

42 ENGINEERING↗

Assessment of a Hybrid Retrofit Gas Water Heater

This project completed a modeling evaluation of a hybrid gas water heater that combines a reduced capacity tankless unit with a downsized storage tank. This product would meet a significant market need by providing a higher efficiency gas water heater solution for retrofit applications while maintaining compatibility with the 1/2 inch gas lines and standard B vents found in most homes. The TRNSYS simulation tool was used to model a base case 0.60 EF atmospheric gas storage water, a 0.82 EF non-condensing gas tankless water heater, an existing (high capacity) hybrid unit on the market, and an alternative hybrid unit with lower storage volume and reduced gas input requirements. Simulations were completed under a 'peak day' sizing scenario with 183 gpd hot water loads in a Minnesota winter climate case. Full-year simulations were then completed in three climates (ranging from Phoenix to Minneapolis) for three hot water load scenarios (36, 57, and 96 gpd). Model projections indicate that the alternative hybrid offers an average 4.5% efficiency improvement relative to the 0.60 EF gas storage unit across all scenarios modeled. The alternative hybrid water heater evaluated does show promise, but the current low cost of natural gas across much of the country and the relatively small incremental efficiency improvement poses challenges in initially building a market demand for the product.

32 ENERGY CONSERVATION, CONSUMPTION, AND UTILIZATI↗

Assessment of a Hybrid Retrofit Gas Water Heater

This project completed a modeling evaluation of a hybrid gas water heater that combines a reduced capacity tankless unit with a downsized storage tank. This product would meet a significant market need by providing a higher efficiency gas water heater solution for retrofit applications while maintaining compatibility with the 1/2 inch gas lines and standard B vents found in most homes. The TRNSYS simulation tool was used to model a base case 0.60 EF atmospheric gas storage water, a 0.82 EF non-condensing gas tankless water heater, an existing (high capacity) hybrid unit on the market, and an alternative hybrid unit with lower storage volume and reduced gas input requirements. Simulations were completed under a 'peak day' sizing scenario with 183 gpd hot water loads in a Minnesota winter climate case. Full-year simulations were then completed in three climates (ranging from Phoenix to Minneapolis) for three hot water load scenarios (36, 57, and 96 gpd). Model projections indicate that the alternative hybrid offers an average 4.5% efficiency improvement relative to the 0.60 EF gas storage unit across all scenarios modeled. The alternative hybrid water heater evaluated does show promise, but the current low cost of natural gas across much of the country and the relatively small incremental efficiency improvement poses challenges in initially building a market demand for the product.

32 ENERGY CONSERVATION, CONSUMPTION, AND UTILIZATI↗

The CBETA Fractional Arc Test

As part of this development effort, the Cornell-BNL Energy recovery linac Test Accelerator (CBETA) [3], a 4-pass, 150 MeV energy recovery linac (ERL), utilizing a Non-scaling Fixed Field Alternating-gradient (NS-FFA) permanent magnet return loop, is currently under design and construction at Cornell University through the joint collaboration of Brookhaven National Lab (BNL) and the Cornell Laboratory for Accelerator based Sciences and Education (CLASSE). Building on the significant advancements in high-brightness photoelectron sources and SRF technology at Cornell, as well as the FFA magnet and lattice design expertise from BNL, CBETA will establish the operation of a multi-turn SRF based ERL utilizing a compact FFA return loop with large energy acceptance (a factor of roughly 3.6 in energy), and thus demonstrate one possible cost-reduction technology under consideration for the eRHIC design. Moreover, successful completion of the CBETA project requires the study and measurement of many critical phenomena relevant to designing the EIC: the Beam-Breakup (BBU) instability, halo-development and collimation, growth in energy spread from Coherent Synchrotron Radiation (CSR), and CSR micro bunching, and thus should provide valuable insight to the EIC and ERL communities. In order to demonstrate the viability of the CBETA design, the Fractional Arc Test (FAT) was added to the CBETA commissioning sequence.

43 PARTICLE ACCELERATORS↗

A novel approach to mitigating the potential release of radioisotopes under fire conditions - enhancing fire resiliency of radiological contamination fixatives during deactivation & decommissioning activities

Savannah River National Laboratory (SRNL), in close collaboration with the Florida International University Applied Research Center (FIU ARC), successfully executed a technology development activity on behalf of the Department of Energy, Office of Environmental Management (DOE EM). The purpose of the activity was to improve the capability of fixative technologies in immobilizing residual contamination when exposed to thermal stressors as postulated in accident scenarios in Basis for Interim Operations (BIO) documents across the DOE EM complex. The effort resulted in the test and evaluation of a down-selected, commercial-off-the-shelf (COTS) intumescent technology in a radioactive environment at the Savannah River Site (SRS) Building 235-F Plutonium Fuel Form (PuFF) Facility and highlighted the potential use of this technology as a stand-alone, fire retardant fixative. Furthermore, this activity highlighted significant shortfalls in common fixatives currently used to support decommissioning activities and brought to the forefront the need for a methodical, uniformed approach to certifying fixative technologies for operational use in Deactivation and Decommissioning (D&D) activities. An essential component of this research was to evaluate the state of industry fixatives currently in use and set the foundation for comparison to alternative technological solutions. A baseline of five (5) commonly used fixatives and decontamination gels (hereafter collectively referred to as fixatives) was conducted, and notable shortfalls and deficiencies were revealed, particularly when exposed to thermal, water, and other environmental stressors. At temperatures as low as 300 °F - 400 °F (148.89 °C – 204.44 °C), all commonly used fixatives melted from the substrates within 3-5 minutes of exposure, resulting in contaminant transport. Significant degradation in terms of mass loss, desiccation, and off-gassing occurred, and the chemical breakdown of the polymer was so complete researchers assessed there would likely have been a release of residual contamination. Additional vulnerabilities became evident when exposed to water immersion and high humidity; existing fixatives took up water, swelling and frequently delaminating from the substrate, once again increasing the likelihood of a contaminant release.

11 NUCLEAR FUEL CYCLE AND FUEL MATERIALS↗

Detector needs for STS instruments

This white paper contains an analysis of the requirements for the detectors for the initial suite of neutron scattering instruments at the Second Target Station, STS. The detector technologies proposed are compared with the instrument requirements, in-house proficiencies and strengths, and where appropriate, expertise at other facilities. Where relevant, alternative detector options are proposed. The performance gaps between the current state-of-the-art and the required characteristics are identified and projects within the R&D program are proposed in order to close these gaps. Further, neutron beam monitor needs are considered in a similar light.

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗

Conus-Wide Mapping of Water Availability and Cost

Background: New demands for water can be satisfied through a variety of source options. In some basins surface and/or groundwater may be available through permitting with the state water management agency (termed unappropriated water), alternatively water might be purchased and transferred out of its current use to another (termed appropriated water), or non-traditional water sources can be captured and treated (e.g., wastewater). The relative availability and cost of each source are key factors in the development decision. Unfortunately, these measures are location dependent with no consistent or comparable set of data available for evaluating competing water sources. With the help of water managers, water availability was mapped for over 2500 watersheds throughout CONUS. These values are unique in that they account for institutional factors (i.e., water rights, compacts, treaties, instream flows) that locally limit water use. Five water sources were individually examined, including unappropriated surface water, unappropriated groundwater, appropriated water, municipal wastewater and brackish groundwater. Associated costs to acquire, convey and treat the water, as necessary, for each of the five sources were estimated. These metrics were developed to support regional water planning and policy analysis with initial application to electric transmission planning in the western US. Problem: These data were originally developed in 20141 and updated in 20182. New datasets on which these data depend have been published. As such, there is need to update the water availability and cost data. There is also need to map this same data to a county resolution and to publish the data in a more accessible place. Organization of the dataset: Data are organized according to five primary water sources: • Unappropriated fresh surface water • Unappropriated fresh groundwater • Appropriated water • Recycled wastewater, and • Brackish water

Tidwell, Vincent [Pacific Northwest National Labor↗

High-Brightness Beam Technology Development for a Future Dynamic Mesoscale Materials Science Capability

A future capability in dynamic mesoscale materials science is needed to study the limitations of materials under irreversible and extreme conditions, where these limitations are caused by nonuniformities and defects in the mesoscale. This capability gap could potentially be closed with an X-ray free-electron laser (XFEL), producing 5 × 10 10 photons with an energy of 42 keV, known as the Matter–Radiation Interactions in Extremes (MaRIE) XFEL. Over the last few years, researchers at the Los Alamos National Laboratory have developed a preconceptual design for a MaRIE-class XFEL based on existing high-brightness beam technologies, including superconducting L-band cryomodules. However, the performance of a MaRIE-class XFEL can be improved and the risk of its operation reduced by investing in emerging high-brightness beam technologies, such as the development of high-gradient normal conducting radio frequency (RF) structures. Additionally, an alternative XFEL architecture, which generates a series of high-current microbunches instead of a single bunch with uniformly high current along it, may suppress the most important emittance degradation effects in the accelerator and in the XFEL undulator. In this paper, we describe the needed dynamic mesoscale materials science capability, a MaRIE-class XFEL, and the proposed microbunched XFEL accelerator architecture in detail.

47 OTHER INSTRUMENTATION↗

Towards Low-Temperature CVD Synthesis and Characterization of Mono- or Few-Layer Molybdenum Disulfide

Molybdenum disulfide (MoS 2 ) transistors are a promising alternative for the semiconductor industry due to their large on/off current ratio (>10 10 ), immunity to short-channel effects, and unique switching characteristics. MoS 2 has drawn considerable interest due to its intriguing electrical, optical, sensing, and catalytic properties. Monolayer MoS 2 is a semiconducting material with a direct band gap of ~1.9 eV, which can be tuned. Commercially, the aim of synthesizing a novel material is to grow high-quality samples over a large area and at a low cost. Although chemical vapor deposition (CVD) growth techniques are associated with a low-cost pathway and large-area material growth, a drawback concerns meeting the high crystalline quality required for nanoelectronic and optoelectronic applications. This research presents a lower-temperature CVD for the repeatable synthesis of large-size mono- or few-layer MoS 2 using the direct vapor phase sulfurization of MoO 3 . The samples grown on Si/SiO 2 substrates demonstrate a uniform single-crystalline quality in Raman spectroscopy, photoluminescence (PL), scanning electron microscopy (SEM), atomic force microscopy (AFM), X-ray photoelectron spectroscopy (XPS), and scanning transmission electron microscopy. These characterization techniques were targeted to confirm the uniform thickness, stoichiometry, and lattice spacing of the MoS 2 layers. The MoS 2 crystals were deposited over the entire surface of the sample substrate. With a detailed discussion of the CVD setup and an explanation of the process parameters that influence nucleation and growth, this work opens a new platform for the repeatable synthesis of highly crystalline mono- or few-layer MoS 2 suitable for optoelectronic application.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗