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Dual Effect of Structure and Hydration on Magnesium-Ion Insertion into Electrodeposited V 2 O 5 Thin Films
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Idealized Simulations of a Squall Line from the MC3E Field Campaign Applying Three Bin Microphysics Schemes: Dynamic and Thermodynamic Structure
The squall line event on May 20, 2011, during the Midlatitude Continental Convective Clouds (MC3E) field campaign has been simulated by three bin (spectral) microphysics schemes coupled into the Weather Research and Forecasting (WRF) model. Semi-idealized three-dimensional simulations driven by temperature and moisture profiles acquired by a radiosonde released in the pre-convection environment at 1200 UTC in Morris, Oklahoma show that each scheme produced a squall line with features broadly consistent with the observed storm characteristics. However, substantial differences in the details of the simulated dynamic and thermodynamic structure are evident. These differences are attributed to different algorithms and numerical representations of microphysical processes, assumptions of the hydrometeor processes and properties, especially ice particle mass, density, and terminal velocity relationships with size, and the resulting interactions between the microphysics, cold pool, and dynamics. This study shows that different bin microphysics schemes, designed to be conceptually more realistic and thus arguably more accurate than bulk microphysics schemes, still simulate a wide spread of microphysical, thermodynamic, and dynamic characteristics of a squall line, qualitatively similar to the spread of squall line characteristics using various bulk schemes. Future work may focus on improving the representation of ice particle properties in bin schemes to reduce this uncertainty and using the similar assumptions for all schemes to isolate the impact of physics from numerics.
Assessment of impinged flame structure in high-pressure direct diesel injection
Spray impingement often occurs during cold-start in direct-injection diesel engines, affecting the subsequent combustion process by altering the local flow condition. This work has investigated the impinged flame structure by examining local expansion distance and planar curvature of the boundary in details. The experiments were carried out in a constant volume combustion chamber. The injection pressure and ambient density were varied from 120 to 180 MPa and 14.8 to 30.0 kg/m 3 under non-vaporizing conditions, respectively. For reacting conditions, the injection pressure and ambient density were fixed at 150 MPa and 22.8 kg/m 3 but with different ambient temperatures from 800 to 1000 K. Unlike orthogonal spray impingement, the profile of expansion distance along the radial direction at the 60° impinging angle is non-uniform but the profile is comparable between the non-vaporizing and reacting conditions under the same injection pressure and ambient density. With the help of Intensity-aXial-Time method, the most intensive soot luminosity region and Mie scattering intensity region are identified and the region has been found to be along the impinged spray axial direction. Outmost boundary of an impinged flame is found to have wrinkles attributed to air entrainment. The temporal level of flame wrinkles is higher in reacting conditions than in non-vaporizing conditions. The scatter distribution of the boundary curvature and near-field soot formation illustrates an inverted “S” shape correlation with time. High flame luminosity is found to be formed in concave regions while less soot is formed in convex regions. This inverted S-shape is a new finding of the state relationship at the solid–liquid–gas impinged flame propagation. Finally, heat flux measurement through the plate is examined.
Structures of neurexophilin–neurexin complexes reveal a regulatory mechanism of alternative splicing
Neurexins are presynaptic, cell-adhesion molecules that specify the functional properties of synapses via interactions with trans-synaptic ligands. Neurexins are extensively alternatively spliced at six canonical sites that regulate multifarious ligand interactions, but the structural mechanisms underlying alternative splicing-dependent neurexin regulation are largely unknown. Here, we determined high-resolution structures of the complex of neurexophilin-1 and the second laminin/neurexin/sex-hormone-binding globulin domain (LNS2) of neurexin-1 and examined how alternative splicing at splice site #2 (SS2) regulates the complex. Our data reveal a unique, extensive, neurexophilin–neurexin binding interface that extends the jelly-roll β-sandwich of LNS2 of neurexin-1 into neurexophilin-1. The SS2A insert of LNS2 augments this interface, increasing the binding affinity of LNS2 for neurexophilin-1. Taken together, our data reveal an unexpected architecture of neurexophilin–neurexin complexes that accounts for the modulation of binding by alternative splicing, which in turn regulates the competition of neurexophilin for neurexin binding with other ligands.
Electronic Structure and Spin Correlations in Novel Magnetic Structures
The research has advanced understanding of the interrelation between the crystal structure and magnetism in several materials which are or can be of interest for the development of improved, specialized or more cost-effective permanent magnets, as well as in selected materials for biomedical and catalytic applications. Fundamental aspects of ferromagnetism were investigated for Mn-Ge, Co-V and Co-Ge nanoclusters and for melt-spun Co-Sn alloys. New solution-chemistry synthesis methods were designed and tested for Fe-Pt, Fe3C and Fe3O4 nanoparticles. Off-stoichiometric Laves phases in the Fe-Si-Zr, Fe-Nb and Fe-Ta systems, as well as Fe5(Si,Ge)B2 compounds were assessed as new rare-earth-free permanent magnet materials; all except the Fe-Si-Zr Laves phases were found to be promising enough to merit a further exploration. A new method for manufacturing rare-earth-free magnets based on the MnBi compound was developed; by purposely avoiding oxidation-sensitive fine single-crystalline powders, the new method yields magnets with a 50% larger energy storage capacity. Studies of rare-earth-lean permanent-magnet materials (lean compared to the currently predominant Nd-Fe-B materials) were focused on the tetragonal compound of the ThMn12 structure type and included both discovery and characterization of new formulations and exploration of new fabrication/processing techniques. Among the most significant achievements were successful preparation of a vanadium-lean SmFe11V compound, the first observation of thermomechanically induced texture in nanocrystalline Sm(Fe,V)12 alloys, and a breakthrough reduction-diffusion synthesis of Sm1-xZrx(Fe0.8Co0.2)11.2Ti0.8 single-crystal particles with a coercivity as high as 12.6 kOe. Several experiments aimed at improvement of the Nd-Fe-B magnet have also been undertaken including a five-fold increase of the coercivity through a grain-boundary diffusion treatment of a Nd10Fe84B6 nanocrystalline alloy.
A Structural engineering Graduate Degree Program with specialization in structural health monitoring & non-destructive evaluation [Slides]
The promotional presentation discusses the graduate degree program at the University of California, San Diego, Jacobs School of Engineering, related to structural engineering. Structural Health Monitoring (SHM) encompasses the integration of a broad range of technologies from sensing/actuating, data interrogation, and statistical modeling to enable system-level or component-level health assessment and predictive modeling. The course is available via distance learning to Los Alamos National Laboratory engineers.
Structures via Reasoning - Applying AI to Cryo Electron Microscopy to Reveal Structural Variability
There have been breakthroughs of latest cryo electron microscopy (cryo-EM) data analysis algorithms to classify cryo-EM image data. However, most of these cryo-EM reconstruction methods have focused on classifying distinctly different biomolecule structures. Here, we present our approaches of deep learning to differentiate homologous structures that are distinguishable only with inner morphological differences. We succeeded supervised classification of these subtly different homologues. However, we could not differentiate them with unsupervised methods. Here we discuss what further approaches are likely needed for successful unsupervised classification.
Supplementary material for Structure-performance relationships in lignin-based transesterification vitrimers: The role of lignin structural features
Structure-performance relationships in lignin-based transesterification vitrimers: The role of lignin structural features
CSGID Solves Structures and Identifies Phenotypes for Five Enzymes in Toxoplasma gondii
Toxoplasma gondii, an Apicomplexan parasite, causes significant morbidity and mortality, including severe disease in immunocompromised hosts and devastating congenital disease, with no effective treatment for the bradyzoite stage. To address this, we used the Tropical Disease Research database, crystallography, molecular modeling, and antisense to identify and characterize a range of potential therapeutic targets for toxoplasmosis. Phosphoglycerate mutase II (PGMII), nucleoside diphosphate kinase (NDK), ribulose phosphate 3-epimerase (RPE), ribose-5-phosphate isomerase (RPI), and ornithine aminotransferase (OAT) were structurally characterized. Crystallography revealed insights into the overall structure, protein oligomeric states and molecular details of active sites important for ligand recognition. Literature and molecular modeling suggested potential inhibitors and druggability. The targets were further studied with vivoPMO to interrupt enzyme synthesis, identifying the targets as potentially important to parasitic replication and, therefore, of therapeutic interest. Targeted vivoPMO resulted in statistically significant perturbation of parasite replication without concomitant host cell toxicity, consistent with a previous CRISPR/Cas9 screen showing PGM, RPE, and RPI contribute to parasite fitness. PGM, RPE, and RPI have the greatest promise for affecting replication in tachyzoites. These targets are shared between other medically important parasites and may have wider therapeutic potential.
Acetylation of cell wall is required for structural integrity of the leaf surface and exerts a global impact on plant stress responses
The epidermis on leaves protects plants from pathogen invasion and provides a waterproof barrier. It consists of a layer of cells that is surrounded by thick cell walls, which are partially impregnated by highly hydrophobic cuticular components. We show that the Arabidopsis T-DNA insertion mutants of REDUCED WALL ACETYLATION 2 (rwa2), previously identified as having reduced O-acetylation of both pectins and hemicelluloses, exhibit pleiotrophic phenotype on the leaf surface. The cuticle layer appeared diffused and was significantly thicker and underneath cell wall layer was interspersed with electron-dense deposits. A large number of trichomes were collapsed and surface permeability of the leaves was enhanced in rwa2 as compared to the wild type. A massive reprogramming of the transcriptome was observed in rwa2 as compared to the wild type, including a coordinated up-regulation of genes involved in responses to abiotic stress, particularly detoxification of reactive oxygen species and defense against microb ial pathogens (e.g., lipid transfer proteins, peroxidases). In accordance, peroxidase activities were found to be elevated in rwa2 as compared to the wild type. These results indicate that cell wall acetylation is essential for maintaining the structural integrity of leaf epidermis, and that reduction of cell wall acetylation leads to global stress responses in Arabidopsis.
Vertical distribution of structural components in corn stover
In the United States, corn ( Zea mays L.) stover has been targeted for second generation fuel production and other bio-products. Our objective was to characterize sugar and structural composition as a function of vertical distribution of corn stover (leaves and stalk) that was sampled at physiological maturity and about three weeks later from multiple USA locations. A small subset of samples was assessed for thermochemical composition. Concentrations of lignin, glucan, and xylan were about 10% greater at grain harvest than at physiological maturity, but harvestable biomass was about 25% less due to stalk breakage. Gross heating density above the ear averaged 16.3 ± 0.40 MJ kg⁻¹, but with an alkalinity measure of 0.83 g MJ⁻¹, slagging is likely to occur during gasification. Assuming a stover harvest height of 10 cm, the estimated ethanol yield would be >2500 L ha⁻¹, but it would be only 1000 L ha⁻¹ if stover harvest was restricted to the material from above the primary ear. Vertical composition of corn stover is relatively uniform; thus, decision on cutting height may be driven by agronomic, economic and environmental considerations.
Impulsively Generated Wave Trains in Coronal Structures. I. Effects of Transverse Structuring on Sausage Waves in Pressureless Tubes
The behavior of the axial group speeds of trapped sausage modes plays an important role in determining impulsively generated wave trains, which have often been invoked to account for quasi-periodic signals with quasi-periods of the order of seconds in a considerable number of coronal structures. We conduct a comprehensive eigenmode analysis, both analytically and numerically, on the dispersive properties of sausage modes in pressureless tubes with three families of continuous radial density profiles. We find a rich variety of the dependence on the axial wavenumber k of the axial group speed v{sub gr}. Depending on the density contrast and profile steepness as well as on the detailed profile description, the v{sub gr}--k curves either possess or do not possess cutoff wavenumbers, and they can behave in either a monotonical or non-monotonical manner. With time-dependent simulations, we further show that this rich variety of the group speed characteristics heavily influences the temporal evolution and Morlet spectra of impulsively generated wave trains. In particular, the Morlet spectra can look substantially different from the “crazy tadpoles” found for the much-studied discontinuous density profiles. We conclude that it is necessary to re-examine available high-cadence data to look for the rich set of temporal and spectral features that can be employed to discriminate between the unknown forms of the density distributions transverse to coronal structures.
tRNA ligase structure reveals kinetic competition between non-conventional mRNA splicing and mRNA decay
Yeast tRNA ligase (Trl1) is an essential trifunctional enzyme that catalyzes exon-exon ligation during tRNA biogenesis and the non-conventional splicing of HAC1 mRNA during the unfolded protein response (UPR). The UPR regulates the protein folding capacity of the endoplasmic reticulum (ER). ER stress activates Ire1, an ER-resident kinase/RNase, which excises an intron from HAC1 mRNA followed by exon-exon ligation by Trl1. The spliced product encodes for a potent transcription factor that drives the UPR. Here we report the crystal structure of Trl1 RNA ligase domain from Chaetomium thermophilum at 1.9 Å resolution. Structure-based mutational analyses uncovered kinetic competition between RNA ligation and degradation during HAC1 mRNA splicing. Incompletely processed HAC1 mRNA is degraded by Xrn1 and the Ski/exosome complex. We establish cleaved HAC1 mRNA as endogenous substrate for ribosome-associated quality control. We conclude that mRNA decay and surveillance mechanisms collaborate in achieving fidelity of non-conventional mRNA splicing during the UPR.
Influence of structure and material research on advanced launch systems weight, performance, and cost. Phase 3 - Design synthesis of recoverable launch vehicle structures
Structural design synthesis of recoverable launch vehicle structures
Structural analysis of the Injun 5 spacecraft structure
Structural analysis of Injun 5 spacecraft structure