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At least 685 records · Page 38
All sourcesNASA NTRSDOE OSTI
DOE OSTI2013

Three-dimensional reconstruction and morphologic characteristics of porous metal fiber sintered sheet

This paper presents an approach to achieve morphological characterizing for complex porous materials based on micro X-ray tomography images, with an example of a novel porous metal fiber sheet produced through solid-state sintering method. The geometrical reconstruction was performed after selection of volume of interest and image processing of anisotropic diffusion smooth. The reconstructed gray level images were then transferred into binary images by adjusting binarization threshold according to the actual porosity. Taking into account the tubular structural feature of the fibers, skeleton extraction algorithm based on the distance transform function was applied and further improved by the scale axis transform method. The skeleton was later pruned and segmented according to the contact points to perform morphological characterizing. Compared with actual manufacturing parameters, the style, length, radius, orientation and tortuosity of fiber segments were discussed. The results show that our proposed method can well describe the actual geometrical and morphological characteristics, which will provide a promising method for the structural description of fibrous networks. - Highlights: • Micro-CT technology was used to achieve the 3D geometrical reconstruction. • Skeleton extraction algorithm was modified to get the medial skeleton. • Skeleton filter operation was adopted to deal with the segmented skeleton. • Useful morphological statistics was obtained through skeleton segments. • Relationship between structure and manufacturing processes was discussed.

36 MATERIALS SCIENCE↗
DOE OSTI2023

Fragment-based drug nanoaggregation reveals drivers of self-assembly

Drug nanoaggregates are particles that can deleteriously cause false positive results during drug screening efforts, but alternatively, they may be used to improve pharmacokinetics when developed for drug delivery purposes. The structural features of molecules that drive nanoaggregate formation remain elusive, however, and the prediction of intracellular aggregation and rational design of nanoaggregate-based carriers are still challenging. We investigate nanoaggregate self-assembly mechanisms using small molecule fragments to identify the critical molecular forces that contribute to self-assembly. We find that aromatic groups and hydrogen bond acceptors/donors are essential for nanoaggregate formation, suggesting that both π-π stacking and hydrogen bonding are drivers of nanoaggregation. We apply structure-assembly-relationship analysis to the drug sorafenib and discover that nanoaggregate formation can be predicted entirely using drug fragment substructures. We also find that drug nanoaggregates are stabilized in an amorphous core-shell structure. These findings demonstrate that rational design can address intracellular aggregation and pharmacologic/delivery challenges in conventional and fragment-based drug development processes.

77 NANOSCIENCE AND NANOTECHNOLOGY↗
DOE OSTI2022

Materials design, synthesis, and transport properties of disordered rare-earth Zintl bismuthides with the anti -Th 3 P 4 structure type

The synthesis, structural elucidation, and transport properties of the extended series Ca 4–x RE x Bi 3 (RE = Y, La–Nd, Sm, Gd–Tm, and Lu; x ≈ 1) and Ca 4–x RE x Bi 3–δ Sb δ (RE = La, Ho, Er, and Lu; x ≈ 1, δ ≈ 1.5) are presented. Structural elucidation is based on single-crystal X-ray diffraction data and confirms the chemical drive of Ca4Bi3 with the cubic anti-Th 3 P 4 structure type (space group I4 ¯3d, no. 220, Z = 4) into a Zintl phase by the introduction of trivalent rare-earth atoms. The structure features complex bonding, heavy elements, and electron count akin to that of valence-precise semiconductors, making it an ideal target for thermoelectrics development. Introducing crystallographic site disorders at the cation site for the Ca 4–x RE x Bi 3 phase and both the cation and anion sites for the Ca 4–x RE x Bi 3–δ Sb δ phase brings about additional desirable characteristics for thermoelectric materials in the context of tuning knobs for lowering thermal conductivity. Electronic structure calculations of idealized Ca 3 YBi 3 and Ca 3 LaBi 3 compounds indicate the opening of indirect bandgaps at the Fermi level with magnitudes Eg = 0.38 eV and 0.57 eV, respectively. The electrical resistivity ρ(T) of some of the investigated phases measured on single crystals evolve in a metallic manner with magnitudes of order 1.4 mΩ cm near 500 K, thus supporting the notion of a degenerate semiconducting state, with the temperature dependence of the Seebeck coefficient α(T) suggesting the p-type behavior. Furthermore, the low electrical resistivity and the realization of a degenerate semiconducting state in the title phases present a window of opportunity for optimizing their carrier concentrations for enhanced thermoelectric performance.

36 MATERIALS SCIENCE↗
DOE OSTI2025

Combining coordination and chelation moieties to engineer a new linker for lanthanide coordination chemistry

Organic linkers play a crucial role in constructing lanthanide (Ln) coordination polymers (CPs), influencing structural topologies and physicochemical properties. Herein, we introduce 6-oxo-1,6-dihydro-2,5-pyridinedicarboxylic acid (2,5-H 3 PODC) as a new ligand for constructing lanthanide coordination polymers that integrates the structural features of terephthalic acid with the chelation capabilities of pyridinone-based functional groups. Six lanthanide-based coordination polymers were synthesized with 2,5-H 3 PODC, forming two types of CPs – type 1: [Ln(HPODC)(Ox) 0.5 (H 2 O) 2 ] (where (Ox) = oxalic acid and Ln = Pr 3+ (1), Nd 3+ (2)) and type 2: [Ln(H 2 PODC)(HPODC)(H 2 O)] (Ln = Eu 3+ (3), Gd 3+ (4), Dy 3+ (5), Er 3+ (6)). All compounds were structurally characterized by single-crystal and powder X-ray diffraction, and both compound types are 2D ladder-like networks with cem topologies where the trivalent metal centers are bridged via HPODC 2− and Ox 2− ligands in type 1 structures and H 2 PODC − and HPODC 2− linkers in type 2 structures. Thermogravimetric analysis (TGA) demonstrated that the metal–organic networks of type 1 and type 2 compounds exhibit distinct decomposition patterns, and the photoluminescent properties of 3 were also examined, revealing efficient ligand based sensitization and characteristic emission bands for Eu(III).

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
DOE OSTI2017

Conservation and divergence of C-terminal domain structure in the retinoblastoma protein family

The retinoblastoma protein (Rb) and the homologous pocket proteins p107 and p130 negatively regulate cell proliferation by binding and inhibiting members of the E2F transcription factor family. Here, the structural features that distinguish Rb from other pocket proteins have been unclear but are critical for understanding their functional diversity and determining why Rb has unique tumor suppressor activities. We describe here important differences in how the Rb and p107 C-terminal domains (CTDs) associate with the coiled-coil and marked-box domains (CMs) of E2Fs. We find that although CTD–CM binding is conserved across protein families, Rb and p107 CTDs show clear preferences for different E2Fs. A crystal structure of the p107 CTD bound to E2F5 and its dimer partner DP1 reveals the molecular basis for pocket protein–E2F binding specificity and how cyclin-dependent kinases differentially regulate pocket proteins through CTD phosphorylation. Our structural and biochemical data together with phylogenetic analyses of Rb and E2F proteins support the conclusion that Rb evolved specific structural motifs that confer its unique capacity to bind with high affinity those E2Fs that are the most potent activators of the cell cycle.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2019

Bismuth as a Reactive Solvent in the Synthesis of Multicomponent Transition-Metal-Bearing Bismuthides

Employment of liquid bismuth (Bi) allows the facile single-crystal growth of compounds containing elements with high melting points, provided that these elements have reasonably high solubility in Bi. Utilization of the Bi flux approach yielded two new ternary bismuthides, SrNi 0.17(1) Bi 2 [a defect variant of the BaCuSn 2 type, space group Cmcm , α = 4.879(2) Å, b = 17.580(6) Å, and c = 4.696(2) Å] and CaTi 3 Bi 4 [NdTi 3 (Sn 0.1 Sb 0.9 ) 4 structure type, space group Fmmm , a = 5.6295(7) Å, b = 9.8389(1) Å, and c = 23.905(3) Å]. In addition, the ternary antimonide CaV3Sb4, isostructural with CaTi 3 Bi 4 , was synthesized from antimony (Sb) flux, and analyzed with the goal of validating structural assessment of the bismuthide analogue, where the X-ray crystallographic work proved to be very challenging. All synthesized compounds exhibit complex crystal structures featuring quasi-two-dimensional building blocks of different topologies. First-principle calculations reveal hypervalent bonding in the homoatomic Bi subunits. Lastly, physical property measurements indicate metallic conductivity and the absence of localized magnetism in the studied compounds.

36 MATERIALS SCIENCE↗
DOE OSTI2019

Cryo-EM structure of OSCA1.2 from Oryza sativa elucidates the mechanical basis of potential membrane hyperosmolality gating

Sensing and responding to environmental water deficiency and osmotic stresses are essential for the growth, development, and survival of plants. Recently, an osmolality-sensing ion channel called OSCA1 was discovered that functions in sensing hyperosmolality in Arabidopsis . In this paper, we report the cryo-electron microscopy (cryo-EM) structure and function of an OSCA1 homolog from rice ( Oryza sativa ; OsOSCA1.2), leading to a model of how it could mediate hyperosmolality sensing and transport pathway gating. The structure reveals a dimer; the molecular architecture of each subunit consists of 11 transmembrane (TM) helices and a cytosolic soluble domain that has homology to RNA recognition proteins. The TM domain is structurally related to the TMEM16 family of calcium-dependent ion channels and lipid scramblases. The cytosolic soluble domain possesses a distinct structural feature in the form of extended intracellular helical arms that are parallel to the plasma membrane. These helical arms are well positioned to potentially sense lateral tension on the inner leaflet of the lipid bilayer caused by changes in turgor pressure. Computational dynamic analysis suggests how this domain couples to the TM portion of the molecule to open a transport pathway. Hydrogen/deuterium exchange mass spectrometry (HDXMS) experimentally confirms the conformational dynamics of these coupled domains. These studies provide a framework to understand the structural basis of proposed hyperosmolality sensing in a staple crop plant, extend our knowledge of the anoctamin superfamily important for plants and fungi, and provide a structural mechanism for potentially translating membrane stress to transport regulation.

59 BASIC BIOLOGICAL SCIENCES↗
NASA NTRS1988

Structural relations of charnockites of South India

The structural features of the Peninsular gneisses were discussed and compared with those in the charnockitic rocks. On this basis, three types of charnockite occurrences can be recognized: those involved in isoclinal folds that were later boudinaged and refolded, those affected by migmatization synkinematic with early isoclinal folding, and incipient charnockites formed in low-pressure zones of fold-hinges and boudin-necks (e.g., Kabbaldurga). It was concluded that at least two, if not three, stages of charnockite formation are required by these structural data.

Naha, K.↗
DOE OSTI2018

Lithium Intercalation in Anatase Titanium Vacancies and the Role of Local Anionic Environment

The structure of bulk and nondefective compounds is generally described with crystal models built from well mastered techniques such the analysis of an X-ray diffractogram. The presence of defects, such as cationic vacancies, locally disrupt the long-range order, with the appearance of local structures with order extending only a few nanometers. To probe and describe the electrochemical properties of cation-deficient anatase, we investigated a series of materials having different concentrations of vacancies, i.e., Ti 1–x–y $\square$ x+y O 2–4(x+y) F 4x (OH) 4y , and compared their properties with respect to defect-free stoichiometric anatase TiO2. At first, we characterized the series of materials Ti 1–x–y $\square$ x+y O 2–4(x+y) F 4x (OH) 4y by means of pair distribution function (PDF), 19 F nuclear magnetic resonance (NMR), Raman and X-ray photoelectron spectroscopies, to probe the compositional and structural features. Second, we characterized the insertion electrochemical properties vs metallic lithium where we emphasized the beneficial role of the vacancies on the cyclability of the electrode under high C-rate, with performances scaling with the concentration of vacancies. The improved properties were explained by the change of the lithium insertion mechanism due to the presence of the vacancies, which act as host sites and suppress the phase transition typically observed in pure TiO 2 , and further favor diffusive transport of lithium within the structure. NMR spectroscopy performed on lithiated samples provides evidence for the insertion of lithium in vacancies. By combining electrochemistry and DFT-calculations, we characterized the electrochemical signatures of the lithium insertion in the vacancies. Importantly, we found that the insertion voltage largely depends on the local anionic environment of the vacancy with a fluoride and hydroxide-rich environments, yielding high and low insertion voltages, respectively. Lastly, this work further supports the beneficial use of defects engineering in electrodes for batteries and provides new fundamental knowledge in the insertion chemistry of cationic vacancies as host sites.

36 MATERIALS SCIENCE↗
DOE OSTI2024

Exploring dielectric properties in atomistic models of amorphous boron nitride

Abstract We report a theoretical study of dielectric properties of models of amorphous Boron Nitride, using interatomic potentials generated by machine learning. We first perform first-principles simulations on small (about 100 atoms in the periodic cell) sample sizes to explore the emergence of mid-gap states and its correlation with structural features. Next, by using a simplified tight-binding electronic model, we analyse the dielectric functions for complex three dimensional models (containing about 10.000 atoms) embedding varying concentrations of sp 1 , sp 2 and sp 3 bonds between B and N atoms. Within the limits of these methodologies, the resulting value of the zero-frequency dielectric constant is shown to be influenced by the population density of such mid-gap states and their localization characteristics. We observe nontrivial correlations between the structure-induced electronic fluctuations and the resulting dielectric constant values. Our findings are however just a first step in the quest of accessing fully accurate dielectric properties of as-grown amorphous BN of relevance for interconnect technologies and beyond.

Materials Science↗
DOE OSTI2020

The Coordination Behaviour of Cu I Photosensitizers Bearing Multidentate Ligands Investigated by X-ray Absorption Spectroscopy

A systematic series of four novel homo- and heteroleptic CuI photosensitizers based on tetradentate 1,10-phenanthroline ligands of the type X^N^N^X containing two additional donor moieties in the 2,9-position (X=SMe or OMe) were designed. Their solid-state structures were assessed by X-ray diffraction. Cyclic voltammetry, UV-vis absorption, emission and X-ray absorption spectroscopy were then used to determine their electrochemical, photophysical and structural features in solution. Following, time-resolved X-ray absorption spectroscopy in the picosecond time scale, coupled with time-dependent density functional theory calculations, provided in-depth information on the excited state electron configurations. For the first time, a significant shortening of the Cu–X distance and a change in the coordination mode to a pentacoordinated geometry is shown in the excited states of the two homoleptic complexes. These findings are important with respect to a precise understanding of the excited state structures and a further stabilization of this type of photosensitizers.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
DOE OSTI2024

Prediction of photodynamics of 200 nm excited cyclobutanone with linear response electronic structure and ab initio multiple spawning

Simulations of photochemical reaction dynamics have been a challenge to the theoretical chemistry community for some time. In an effort to determine the predictive character of current approaches, we predict the results of an upcoming ultrafast diffraction experiment on the photodynamics of cyclobutanone after excitation to the lowest lying Rydberg state (S 2 ). A picosecond of nonadiabatic dynamics is described with ab initio multiple spawning. Herein we use both time dependent density functional theory (TDDFT) and equation-of-motion coupled cluster singles and doubles (EOM-CCSD) theory for the underlying electronic structure theory. We find that the lifetime of the S 2 state is more than a picosecond (with both TDDFT and EOM-CCSD). The predicted ultrafast electron diffraction spectrum exhibits numerous structural features, but weak time dependence over the course of the simulations.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
DOE OSTI2021

Topological origin of phase separation in hydrated gels

Depending on their composition, hydrated gels can be homogeneous or phase-separated, which, in turn, affects their dynamical and mechanical properties. However, the nature of the structural features, if any, that govern the propensity for a given gel to phase-separate remains largely unknown. Here, we argue that the propensity for hydrated gels to phase-separate is topological in nature. We employ reactive molecular dynamics simulations to model the early-age precipitation of calcium–alumino–silicate–hydrate (Csingle bondAsingle bondSsingle bondH) gels with varying compositions, i.e., (CaO) 1.7 (Al 2 O 3 ) x (SiO 2 ) 1 – x (H 2 O) 3.7 + x . By adopting topological constraint theory, we investigate the structural origin of phase separation in hydrated gels. We report the existence of a homogeneous-to-phase-separated transition, wherein Si-rich (x ≤ 0.10) Csingle bondAsingle bondSsingle bondH gels are homogeneous, whereas Al-rich (x > 0.10) Csingle bondAsingle bondSsingle bondH gels tend to phase-separate. Furthermore, we demonstrate that this transition is correlated to a topological flexible-to-rigid transition within the atomic network. Finally, we reveal that the propensity for topologically-overconstrained gels to phase-separate arises from the existence of some internal stress within their atomic network, which acts as an energy penalty that drives phase separation.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
DOE OSTI2019

Low-Dimensional Magnetic Semimetal Cr 0.65 Al 1.35 Se 3

While exploring novel magnetic semiconductors, the new phase Cr 0.65 Al 1.35 Se 3 was discovered and characterized by both structural and physical properties. Cr 0.65 Al 1.35 Se 3 was found to crystallize into orthorhombic CrGeTe 3 -type structure with space group Pnma (no. 62). Vacancies and mixed occupancies were tested, and the results show that one of the 4 c sites accommodates a mixture of Cr and Al atoms, while the other 4 c site is fully occupied by Al atoms. Unique structural features include a T-shaped channel network created from the edge-sharing Cr/Al@Se 6 and Al@Se 4 polyhedra and a zipper effect of the puckered Se atoms inside the columnar channels. The round peak observed in the temperature-dependent magnetic susceptibility (χ g ) plot at ~8(1) K corresponds to the antiferromagnetic-type transition in Cr 0.65 Al 1.35 Se 3 . Yet, the positive θ CW indicates an additional ferromagnetic interaction, which is highly likely due to the complex magnetic structure arising from the mixed Cr/Al occupancies on the 4 c site. Electrical resistivity measurements confirm that Cr 0.65 Al 1.35 Se 3 is a semimetal with a positive magnetoresistance. In this work, we present the characterization and determination of the crystal structure and physical properties for this new material.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
DOE OSTI2024

p14 ARF forms meso-scale assemblies upon phase separation with NPM1

NPM1 is an abundant nucleolar chaperone that, in addition to facilitating ribosome biogenesis, contributes to nucleolar stress responses and tumor suppression through its regulation of the p14 Alternative Reading Frame tumor suppressor protein (p14 ARF ). Oncogenic stress induces p14 ARF to inhibit MDM2, stabilize p53 and arrest the cell cycle. Under non-stress conditions, NPM1 stabilizes p14 ARF in nucleoli, preventing its degradation and blocking p53 activation. However, the mechanisms underlying the regulation of p14 ARF by NPM1 are unclear because the structural features of the p14 ARF -NPM1 complex were elusive. Here we show that p14 ARF assembles into a gel-like meso-scale network upon phase separation with NPM1. This assembly is mediated by intermolecular contacts formed by hydrophobic residues in an α-helix and β-strands within a partially folded N-terminal portion of p14 ARF . These hydrophobic interactions promote phase separation with NPM1, enhance p14 ARF nucleolar partitioning, restrict NPM1 diffusion within condensates and nucleoli, and reduce cellular proliferation. Our structural analysis provides insights into the multifaceted chaperone function of NPM1 in nucleoli by mechanistically linking the nucleolar localization of p14 ARF to its partial folding and meso-scale assembly upon phase separation with NPM1.

59 BASIC BIOLOGICAL SCIENCES↗
NASA NTRS1987

Preliminary results of geologic and remote sensing studies of Rima Mozart

In order to better understand the processes responsible for the formation of lunar sinuous rilles, a study of Rima Mozart was conducted using a variety of geologic, photographic, and remote sensing data. The apparent source of this rille is located in a highlands unit of known composition and it is hypothesized that thermal and mechanical erosion played an important role in the formation of Rima Mozart. Excellent photographic, topographic, multispectral, and radar data exist for this rille. The preliminary results of an analysis of this data are presented. Photographic data indicates the presence of two volcanic source vents for Rima Mozart: Kathleen and Ann. It is suggested that Rima Mozart, like many other lunar sinuous rilles, was most likely formed by a combination of events. Rima Mozart does follow a pre-existing, dominant NW/SE structural trend suggesting the influence of structural features on the rille, however, the tectonic influence is not the sole source for the formation of the rille, as suggested by the presence of the two source vents and the spatter around Ann. It is suggested that the rille formation began with an explosive eruption at Kathleen which later calmed down to a pulsating, high volume, low-viscosity lava flow. The rapid effusion rate of the magma as well as its high temperature and turbid nature helped carve the sinuous rille into the fractured and structurally weak Apennine Bench Formation underneath. Similar eruptions and subsequent flows were also created at Ann and joined to the main channel by a NE-trending secondary rille.

Coombs, C. R.↗
DOE OSTI2021

Effect of static local distortions vs. dynamic motions on the stability and band gaps of cubic oxide and halide perovskites

Ternary ABX 3 perovskites made of corner-sharing BX 6 octahedra have long featured prominently in solid-state chemistry and condensed matter physics. Still, the joint understanding of their two main subgroups—halides and oxides—has not been fully developed. Indeed, unlike the case in simpler compounds having a single, robust repeated motif (“monomorphous”), certain cubic perovskites can manifest a non-thermal (= intrinsic) distribution of local motifs (“polymorphous networks”). Such static deformations can include positional degrees of freedom (e.g., atomic displacements and octahedral tilting) or magnetic moment degrees of freedom in paramagnets. Unlike thermal motion, such static distortions do not time-average to zero, being an expression of the intrinsic symmetry breaking preference of the chemical bonding. Here, the present study compares electronic structure features of oxide and halide perovskites starting from the static polymorphous distribution of motifs described by Density Functional Theory (DFT) minimization of the internal energy, continuing to finite temperature thermal disorder modeled via finite temperature DFT molecular dynamics. We find that (i) different oxide vs. halide ABX 3 compounds adopt different energy-lowering symmetry-breaking modes. The calculated pair distribution function (PDF) of SrTiO 3 from the first-principles agrees with recently measured PDF. (ii) In both oxides and halides, such static distortions lead to band gap blueshifts with respect to undistorted cubic Pm-3m structure. (iii) For oxide perovskites, high-temperature molecular dynamics simulations initiated from the statically distorted polymorphous structures reveal that the thermally-induced distortions can lead to a band gap redshift. (iv) In contrast, for cubic halide perovskite CsPbI 3 , both the intrinsic distortions and the thermal distortions contribute in tandem to band gap blueshift, the former, intrinsic effect being dominant. (v) In the oxide SrTiO 3 and CaTiO 3 (but not in halide) perovskites, octahedral tilting leads to the emergence of a distinct Γ–Γ direct band gap component as a secondary valley minimum to the well-known indirect R–Γ gap. Understanding such intrinsic vs. thermal effects on oxide vs. halide perovskites holds the potential for designing target electronic properties.

36 MATERIALS SCIENCE↗