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At least 145 records · Page 8

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NASA NTRS1990

A kinematical/numerical analysis of rotor-stator interaction noise

In this study, the unsteady, thin-layer Navier-Stokes equations are solved using a system of patched grids for a rotor-stator configuration of an axial turbine. The study examines the plurality of spinning modes that are present in such an interaction. The propagation of these modes is analyzed and appropriate grid spacing chosen in the far upstream and downstream regions to attenuate reflections from the computational boundaries. In addition, radiating boundary conditions are implemented based on the farfield acoustical behavior of the flow field. Results in the form of pressure amplitudes and the spectra of turbine tones are presented. Numerical results and experimental data are compared wherever possible. The numerical results are also shown to conform with the predictions of a kinematical analysis of the flowfield.

Rangwalla, Akil A.↗

NASA NTRS1993

A numerical analysis of tonal acoustics in rotor-stator interactions

In this study, the unsteady, thin-layer, Navier-Stokes equations are solved using a system of patched grids for a rotor-stator configuration of an axial turbine. The study focuses on the plurality of spinning modes that are present in such an interaction. The propagation of these modes in the upstream and downstream regions is analyzed and compared with numerical results. It was found that the numerically calculated tonal acoustics could be affected by the type of numerical boundary conditions employed at the inlet and exit of the computational boundaries and the grid spacing in the upstream and downstream regions. Results in the form of surface pressure amplitudes and the spectra of turbine tones and their far field behavior are presented. Numerical results and experimental data are compared wherever possible. The 'mode-content' for different harmonics of blade-passage frequency is shown to conform with that predicted by a kinematical analysis.

Rangwalla, A. A.↗

NASA NTRS1992

Electromagnetic scattering and radiation from microstrip patch antennas and spirals residing in a cavity

A new hybrid method is presented for the analysis of the scattering and radiation by conformal antennas and arrays comprised of circular or rectangular elements. In addition, calculations for cavity-backed spiral antennas are given. The method employs a finite element formulation within the cavity and the boundary integral (exact boundary condition) for terminating the mesh. By virtue of the finite element discretization, the method has no restrictions on the geometry and composition of the cavity or its termination. Furthermore, because of the convolutional nature of the boundary integral and the inherent sparseness of the finite element matrix, the storage requirement is kept very low at O(n). These unique features of the method have already been exploited in other scattering applications and have permitted the analysis of large-size structures with remarkable efficiency. In this report, we describe the method's formulation and implementation for circular and rectangular patch antennas in different superstrate and substrate configurations which may also include the presence of lumped loads and resistive sheets/cards. Also, various modelling approaches are investigated and implemented for characterizing a variety of feed structures to permit the computation of the input impedance and radiation pattern. Many computational examples for rectangular and circular patch configurations are presented which demonstrate the method's versatility, modeling capability and accuracy.

Volakis, J. L.↗

DOE OSTI2021

Structural Characterization of the Reaction and Substrate Specificity Mechanisms of Pathogenic Fungal Acetyl-CoA Synthetases

Acetyl CoA synthetases (ACSs) are Acyl-CoA/NRPS/Luciferase (ANL) superfamily enzymes that couple acetate with CoA to generate acetyl CoA, a key component of central carbon metabolism in eukaryotes and prokaryotes. Normal mammalian cells are not dependent on ACSs, while tumor cells, fungi, and parasites rely on acetate as a precursor for acetyl CoA. Consequently, ACSs have emerged as a potential drug target. As part of a program to develop antifungal ACS inhibitors, we characterized fungal ACSs from five diverse human fungal pathogens using biochemical and structural studies. ACSs catalyze a two-step reaction involving adenylation of acetate followed by thioesterification with CoA. Our structural studies captured each step of these two half-reactions including the acetyl-adenylate intermediate of the first half-reaction in both the adenylation conformation and the thioesterification conformation and thus provide a detailed picture of the reaction mechanism. We also used a systematic series of increasingly larger alkyl adenosine esters as chemical probes to characterize the structural basis of the exquisite ACS specificity for acetate over larger carboxylic acid substrates. Consistent with previous biochemical and genetic data for other enzymes, structures of fungal ACSs with these probes bound show that a key tryptophan residue limits the size of the alkyl binding site and forces larger alkyl chains to adopt high energy conformers, disfavoring their efficient binding. Together, our analysis provides highly detailed structural models for both the reaction mechanism and substrate specificity that should be useful in designing selective inhibitors of eukaryotic ACSs as potential anticancer, antifungal, and antiparasitic drugs.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

DOE OSTI2024

Lattice realizations of topological defects in the critical (1+1)-d three-state Potts model

Topological/perfectly-transmissive defects play a fundamental role in the analysis of the symmetries of two dimensional conformal field theories (CFTs). In the present work, spin chain regularizations for these defects are proposed and analyzed in the case of the three-state Potts CFT. In particular, lattice versions for all the primitive defects are presented, with the remaining defects obtained from the fusion of the primitive ones. The defects are obtained by introducing modified interactions around two given sites of an otherwise homogeneous spin chain with periodic boundary condition. The various primitive defects are topological on the lattice except for one, which is topological only in the scaling limit. The lattice models are analyzed using a combination of exact diagonalization and density matrix renormalization group techniques. Low-lying energy spectra for different defect Hamiltonians as well as entanglement entropy of blocks located symmetrically around the defects are computed. The latter provides a convenient way to compute the g-function which characterizes various defects. Finally, the eigenvalues of the line operators in the “crossed channel” and fusion of different defect lines are also analyzed. The results are all in agreement with expectations from conformal field theory.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗

DOE OSTI2022

Structure of maize BZR1-type β-amylase BAM8 provides new insights into its noncatalytic adaptation

Plant β-amylase (BAM) proteins play an essential role in growth, development, stress response, and hormone regulation. Despite their typical (β/α) 8 barrel structure as active catalysts in starch breakdown, catalytically inactive BAMs are implicated in diverse yet elusive functions in plants. Further, the noncatalytic BAM7/8 contain N-terminal BZR1 domains and were shown to be involved in the regulation of brassinosteroid signaling and possibly serve as sensors of yet an uncharacterized metabolic signal. While the structures of several catalytically active BAMs have been reported, structural characterization of the catalytically inactive BZR1-type BAMs remain unknown. Here, we determine the crystal structure of β-amylase domain of Zea mays BAM8/BES1/BZR1-5 and provide comprehensive insights into its noncatalytic adaptation. Using structural-guided comparison combined with biochemical analysis and molecular dynamics simulations, we revealed conformational changes in multiple distinct highly conserved regions resulting in rearrangement of the binding pocket. Altogether, this study adds a new layer of understanding to starch breakdown mechanism and elucidates the acquired adjustments of noncatalytic BZR1-type BAMs as putative regulatory domains and/or metabolic sensors in plants.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2023

Exploring fingerprints of ultrafast structural dynamics in molecular solutions with an X-ray laser

We apply ultrashort x-ray laser pulses to track optically excited structural dynamics of [Ir 2 (dimen) 4 ] 2+ molecules in solution. In our exploratory study we determine angular correlations in the scattered x-rays, which comprise a complex fingerprint of the ultrafast dynamics. Model-assisted analysis of the experimental correlation data allows us to elucidate various aspects of the photoinduced changes in the excited molecular ensembles. We unambiguously identify that in our experiment the photoinduced transition dipole moments in [Ir 2 (dimen) 4 ] 2+ molecules are oriented perpendicular to the Ir-Ir bond. The analysis also shows that the ground state conformer of [Ir 2 (dimen) 4 ] 2+ with a larger Ir–Ir distance is mostly responsible for the formation of the excited state. We also reveal that the ensemble of solute molecules can be characterized with a substantial structural heterogeneity due to solvent influence. In conclusion, the proposed x-ray correlation approach offers an alternative path for studies of ultrafast structural dynamics of molecular ensembles in the liquid and gas phases.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

DOE OSTI2025

Observable-projected ensembles

Measurements in many-body quantum systems can generate non-trivial phenomena, such as preparation of long-range entangled states, dynamical phase transitions, or measurement-altered criticality. Here, we introduce a new measurement scheme that produces an ensemble of mixed states in a subsystem, obtained by measuring a local Hermitian observable on part of its complement. We refer to this as the observable-projected ensemble . Unlike standard projected ensembles-where pure states are generated by projective measurements on the complement-our approach involves projective partial measurements of specific observables. This setup has two main advantages: theoretically, it is amenable to analytical computations, especially within conformal field theories. Experimentally, it requires only a linear number of measurements, rather than an exponential one, to probe the properties of the ensemble. As a first step in exploring the observable-projected ensemble, we investigate its entanglement properties in conformal field theory and perform a detailed analysis of the free compact boson.

Milekhin, Alexey [California Institute of Technolo↗

NASA NTRS1976

Analysis of accelerated motion in the theory of relativity

Conventional treatments of accelerated motion in the theory of relativity have led to certain difficulties of interpretation. Certain reversals in the apparent gravitational field of an accelerated body may be avoided by simpler analysis based on the use of restricted conformal transformations. In the conformal theory the velocity of light remains constant even for experimenters in accelerated motion. The problem considered is that of rectilinear motion with a variable velocity. The motion takes place along the x or x' axis of two coordinate systems.

Jones, R. T.↗

NASA NTRS1978

Origin and modal petrography of Luna 24 soils

Petrographic modal analyses of polished grain mounts of fractions in the 20 to 250 micron size range from Luna 24 soil samples are presented and used to infer the nature and relative contributions of source rocks. It is found that more than 90% of the identifiable rock fragments are mare basalts, with about 11% of the soil consisting of the crystalline form. Soil breccias, which make up nearly 10% of the soil, are found to be immature. Electron probe analysis of glass particles reveals principle clusters conforming to anorthosite, anorthositic gabbro and mare basalts. More than half of the soil is composed of monomineralic particles, with pyroxene as the most abundant mineral. It is concluded that 85% of the regolith is derived from local mare basalts and gabbros and about 10% is derived from early cumulates of local mare basalt magma. Highland sources are considered to contribute not more than 3% of the regolith.

Basu, A.↗

DOE OSTI2021

Study of the Heater-Coil Electrical Insulation for the HL-LHC Low Beta Quadrupoles

In the framework of the HL-LHC project, the present LHC low-β superconducting quadrupoles will be substituted with higher performance Nb 3 Sn magnets (MQXF) with 11.4 T coil peak field. MQXF coils are impregnated with epoxy resin to reduce risk of stress concentration on the brittle conductor. The magnet quench protection is provided by CLIQ and quench heaters to ensure a redundant system. Quench heaters are impregnated with the coils in order to have suitable thermal contact with them, and to prevent the hot spot temperature from exceeding 350K during normal operation in case of a quench. Quench heaters are insulated from the coil by S-2 Glass and polyimide. Here, the test of the first MQXF prototype (4 m long) MQXFAP1 was stopped by a coil-to-ground short circuit triggered by a heater-to-coil short. This issue triggered a root analysis of the causes of this short. Here we prove that the use of a non-conforming cloth in coil impregnation, further weakened by non-conforming high voltage test, has triggered the shorts. Moreover, we present an analysis of the heater-to-coil insulation strength, showing the role of blistering phenomena and how they are triggered by a combination of magnet powering and heater firing.

43 PARTICLE ACCELERATORS↗

NASA NTRS2002

[High Pressure Gas Tanks]

Four high-pressure gas tanks, the basis of this study, were especially made by a private contractor and tested before being delivered to NASA Kennedy Space Center. In order to insure 100% reliability of each individual tank the staff at KSC decided to again submit the four tanks under more rigorous tests. These tests were conducted during a period from April 10 through May 8 at KSC. This application further validates the predictive safety model for accident prevention and system failure in the testing of four high-pressure gas tanks at Kennedy Space Center, called Continuous Hazard Tracking and Failure Prediction Methodology (CHTFPM). It is apparent from the variety of barriers available for a hazard control that some barriers will be more successful than others in providing protection. In order to complete the Barrier Analysis of the system, a Task Analysis and a Biomechanical Study were performed to establish the relationship between the degree of biomechanical non-conformities and the anomalies found within the system on particular joints of the body. This relationship was possible to obtain by conducting a Regression Analysis to the previously generated data. From the information derived the body segment with the lowest percentage of non-conformities was the neck flexion with 46.7%. Intense analysis of the system was conducted including Preliminary Hazard Analysis (PHA), Failure Mode and Effect Analysis (FMEA), and Barrier Analysis. These analyses resulted in the identification of occurrences of conditions, which may be becoming hazardous in the given system. These conditions, known as dendritics, may become hazards and could result in an accident, system malfunction, or unacceptable risk conditions. A total of 56 possible dendritics were identified. Work sampling was performed to observe the occurrence each dendritic. The out of control points generated from a Weighted c control chart along with a Pareto analysis indicate that the dendritics "Personnel not Wearing Proper Protective and Hose/tubing located in high-traffic area" which account for 59.18% of total dendritic frequency need to be addressed to reduce the chance of a hazard from occurring. However, the occurrences of some dendritics are more important than others. As a result immediate, from a Weighted c perspective, corrective action should be taken to ameliorate the cause of the Class A dendritic "Personnel located under suspended or moving loads" rather than just the most commonly occurring dendritics. In any case the vast majority of data obtained indicates that testing operations possess a relatively high degree of safety.

Quintana, Rolando↗

DOE OSTI2022

Broken-Symmetry Density Functional Theory Analysis of the Ω Intermediate in Radical S -Adenosyl- l -methionine Enzymes: Evidence for a Near-Attack Conformer over an Organometallic Species

Radical S-adenosyl-L-methionine (SAM) enzymes are found in all domains of life and catalyze a wide range of biochemical reactions. Recently, an organometallic intermediate, Ω, has been experimentally implicated in the 5'-deoxyadenosyl radical generation mechanism of the radical SAM superfamily. In this work, we employ broken-symmetry density functional theory to evaluate several structural models of Ω. The results show that the calculated hyperfine coupling constants (HFCCs) for the proposed organometallic structure of Ω are inconsistent with the experiment. In contrast, a near-attack conformer of SAM bound to the catalytic [4Fe–4S] cluster, in which the distance between the unique iron and SAM sulfur is ~3 Å, yields HFCCs that are all within 1 MHz of the experimental values. Furthermore, these results clarify the structure of the ubiquitous Ω intermediate and suggest a paradigm shift reversal regarding the mechanism of SAM cleavage by members of the radical SAM superfamily.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

DOE OSTI2023

Comparative Study of High-Resolution LysB29(Nε-myristoyl) des(B30) Insulin Structures Display Novel Dynamic Causal Interrelations in Monomeric-Dimeric Motions

The treatment of insulin-dependent diabetes mellitus is characterized by artificial supplementation of pancreatic β-cell ability to regulate sugar levels in the blood. Even though various insulin analogs are crucial for reasonable glycemic control, understanding the dynamic mechanism of the insulin analogs may help to improve the best-protracted insulin analog to assist people with type 1 diabetes (T1D) to live comfortably while maintaining tight glycemic control. Here, we present the high-resolution crystal structure of NN304, known as insulin detemir, to 1.7 Å resolution at cryogenic temperature. We computationally further investigated our crystal structure’s monomeric-dimeric conformation and dynamic profile by comparing it with a previously available detemir structure (PDB ID: 1XDA). Our structure (PDB ID: 8HGZ), obtained at elevated pH, provides electrostatically triggered minor movements in the equilibrium between alternate conformational substates compared to the previous structure, suggesting it might induce an intermediate state in the dissociation pathway of the insulin detemir’s hexamer:dihexamer equilibrium. Supplemented with orientational cross-correlation analysis by a Gaussian network model (GNM), this alternate oligomeric conformation offers the distinct cooperative motions originated by loose coupling of distant conformational substates of a protracted insulin analog that has not been previously observed.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2019

Initial Simulations of Empty Room Collapse and Reconsolidation at the Waste Isolation Pilot Plant

The Waste Isolation Pilot Plant (WIPP) is a geologic repository for defense-related nuclear waste. If left undisturbed, the virtually impermeable rock salt surrounding the repository will isolate the nuclear waste from the biosphere. If humans accidentally intrude into the repository in the future, then the likelihood of a radionuclide release to the biosphere will depend significantly on the porosity and permeability of the repository itself. Room ceilings and walls at the WIPP tend to collapse over time, causing rubble piles to form on floors of empty rooms. The surrounding rock formation will gradually compact these rubble piles until they eventually become solid salt, but the length of time for a rubble pile to reach a certain porosity and permeability is unknown. This report details the first efforts to build models to predict the porosity and permeability evolution of an empty room as it closes. Conventional geomechanical numerical methods would struggle to model empty room collapse and rubble pile consolidation, so three different meshless methods, the Immersed Isogeometric Analysis Meshfree, Reproducing Kernel Particle Method (RKPM), and the Conformal Reproducing Kernel method, were assessed. First, the meshless methods and the finite element method each simulated gradual room closure, without ceiling or wall collapse. All three methods produced equivalent room closure predictions with comparable computational speed. Second, the Immersed Isogeometric Analysis Meshfree method and RKPM simulated two-dimensional empty room collapse and rubble pile consolidation. Both methods successfully simulated large viscoplastic deformations, fracture, and rubble pile rearrangement to produce qualitatively realistic results. In addition to geomechanical simulations, the flow channels in damaged salt and crushed salt were measured using micro-computed tomography, and input into a computational fluid dynamics simulation to predict the salt's permeability. Although room for improvement exists, the current simulation approaches appear promising.

12 MANAGEMENT OF RADIOACTIVE AND NON-RADIOACTIVE W↗

DOE OSTI2024

Design of an Ara h 2 hypoallergen from conformational epitopes

Abstract Introduction Adverse reactions are relatively common during peanut oral immunotherapy. To reduce the risk to the patient, some researchers have proposed modifying the allergen to reduce IgE reactivity, creating a putative hypoallergen. Analysis of recently cloned human IgG from patients treated with peanut immunotherapy suggested that there are three common conformational epitopes for the major peanut allergen Ara h 2. We sought to test if structural information on these epitopes could indicate mutagenesis targets for designing a hypoallergen and evaluated the reduction in IgE binding via immunochemistry and a mouse model of passive cutaneous anaphylaxis (PCA). Methods X‐ray crystallography characterized the conformational epitopes in detail, followed by mutational analysis of key residues to modify monoclonal antibody (mAb) and serum IgE binding, assessed by ELISA and biolayer interferometry. A designed Ara h 2 hypoallergen was tested for reduced vascularization in mouse PCA experiments using pooled peanut allergic patient serum. Results A ternary crystal structure of Ara h 2 in complex with patient antibodies 13T1 and 13T5 was determined. Site‐specific mutants were designed that reduced 13T1, 13T5, and 22S1 mAbs binding by orders of magnitude. By combining designed mutations from the three major conformational bins, a hexamutant (Ara h 2 E46R, E89R, E97R, E114R, Q146A, R147E) was created that reduced IgE binding in serum from allergic patients. Further, in the PCA model where mice were primed with peanut allergic patient serum, reactivity upon allergen challenge was significantly decreased using the hexamutant. Conclusion These studies demonstrate that prior knowledge of common conformational epitopes can be used to engineer reduced IgE reactivity, an important first step in hypoallergen design.

Allergy↗

DOE OSTI2024

Non-averaged single-molecule tertiary structures reveal RNA self-folding through individual-particle cryo-electron tomography

Large-scale and continuous conformational changes in the RNA self-folding process present significant challenges for structural studies, often requiring trade-offs between resolution and observational scope. Here, we utilize individual-particle cryo-electron tomography (IPET) to examine the post-transcriptional self-folding process of designed RNA origami 6-helix bundle with a clasp helix (6HBC). By avoiding selection, classification, averaging, or chemical fixation and optimizing cryo-ET data acquisition parameters, we reconstruct 120 three-dimensional (3D) density maps from 120 individual particles at an electron dose of no more than 168 e - Å -2 , achieving averaged resolutions ranging from 23 to 35 Å, as estimated by Fourier shell correlation (FSC) at 0.5. Each map allows us to identify distinct RNA helices and determine a unique tertiary structure. Statistical analysis of these 120 structures confirms two reported conformations and reveals a range of kinetically trapped, intermediate, and highly compacted states, demonstrating a maturation folding landscape likely driven by helix-helix compaction interactions.

36 MATERIALS SCIENCE↗

DOE OSTI2023

Searching for Conformity Across Cosmic Time with Local Group and Local Volume Star Formation Histories

Conformity denotes the correlation of properties between pairs of galaxies as a function of separation. Correlations between properties such as the star formation rate (SFR), stellar mass, and specific star formation rate (sSFR) have implications for the impact of environment upon galaxy formation and evolution. Conformity between primary galaxies and satellites within the same dark matter halo has been well documented in simulations and observations. However, the existence of conformity at greater distances—known as two-halo conformity—remains uncertain. We investigate whether galaxies in the Local Volume to a distance of 4 Mpc show conformity by examining the SFR, sSFR, stellar mass, and quenched fraction as a function of physical separation. Making use of the star formation histories of these galaxies, we then extend this analysis back in time to offer the first probe of conformity inside our past light cone. At the present day, we find that the stellar mass or sSFR of a galaxy correlates with the median SFR of neighboring galaxies at a separation of 2–3 Mpc. At a lookback time of 1 Gyr, we find a correlation with the quenched fraction of neighboring galaxies, again at a 2–3 Mpc separation. These signals of conformity likely arise from the differences between the recent star formation histories of Local Group dwarf galaxies and those outside the Local Group. As current and future missions including JWST, Rubin, and Roman expand the sample of Local Volume galaxies, tests of conformity using star formation histories will provide an important tool for exploring spatiotemporal correlations between galaxies.

79 ASTRONOMY AND ASTROPHYSICS↗