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At least 631 records · Page 35

Resolving the Atomic Structure of Sequential Infiltration Synthesis Derived Inorganic Clusters

Sequential infiltration synthesis (SIS) is a route to the precision deposition of inorganic solids in analogy to atomic layer deposition but occurs within (vs upon) a soft material template. SIS has enabled exquisite nanoscale morphological complexity in various oxides through selective nucleation in block copolymers templates. However, the earliest stages of SIS growth remain unresolved, including the atomic structure of nuclei and the evolution of local coordination environments, before and after polymer template removal. We employed In K-edge extended X-ray absorption fine structure and atomic pair distribution function analysis of high-energy X-ray scattering to unravel (1) the structural evolution of InO x H y clusters inside a poly(methyl methacrylate) (PMMA) host matrix and (2) the formation of porous In 2 O 3 solids (obtained after annealing) as a function of SIS cycle number. Early SIS cycles result in InO x H y cluster growth with high aspect ratio, followed by the formation of a three-dimensional network with additional SIS cycles. That the atomic structures of the InO x H y clusters can be modeled as multinuclear clusters with bonding patterns related to those in In 2 O 3 and In(OH) 3 crystal structures suggests that SIS may be an efficient route to 3D arrays of discrete-atom-number clusters. As a result, annealing the mixed inorganic/polymer films in air removes the PMMA template and consolidates the as-grown clusters into cubic In 2 O 3 nanocrystals with structural details that also depend on SIS cycle number.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Structure, Dynamics, and Reactivity for Light Alkane Oxidation of Fe(II) Sites Situated in the Nodes of a Metal–Organic Framework

Metal organic frameworks (MOFs), with their crystalline, porous structures, can be synthesized to incorporate a wide range of catalytically active metals in tailored surroundings. These materials have potential as catalysts for conversion of light alkanes, feedstocks available in large quantities from shale gas that are changing the economics of manufacturing commodity chemicals. Mononuclear high-spin (S = 2) Fe(II) sites situated in the nodes of the MOF MIL-100(Fe) convert propane via dehydrogenation, hydroxylation, and overoxidation pathways in reactions with the atomic oxidant N 2 O. Pair distribution function analysis, N 2 adsorption isotherms, X-ray diffraction patterns, and infrared and Raman spectra confirm the single-phase crystallinity and stability of MIL-100(Fe) under reaction conditions (523 K in vacuo, 378–408 K C 3 H 8 + N 2 O). Density functional theory (DFT) calculations illustrate a reaction mechanism for the formation of 2-propanol, propylene, and 1-propanol involving the oxidation of Fe(II) to Fe(III) via a high-spin Fe(IV)$=$O intermediate. The speciation of Fe(II) and Fe(III) in the nodes and their dynamic interchange was characterized by in situ X-ray absorption spectroscopy and ex situ Mössbauer spectroscopy. Furthermore, the catalytic relevance of Fe(II) sites and the number of such sites were determined using in situ chemical titrations with NO. N 2 and C 3 H 6 production rates were found to be first-order in N 2 O partial pressure and zero-order in C3H8 partial pressure, consistent with DFT calculations that predict the reaction of Fe(II) with N 2 O to be rate determining. DFT calculations using a broken symmetry method show that Fe-trimer nodes affecting reaction contain antiferromagnetically coupled iron species, and highlight the importance of stabilizing high-spin (S = 2) Fe(II) species for effecting alkane oxidation at low temperatures (<408 K).

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

RAD51C-XRCC3 structure and cancer patient mutations define DNA replication roles

$RAD51C$ is an enigmatic predisposition gene for breast, ovarian, and prostate cancer. Currently, missing structural and related functional understanding limits patient mutation interpretation to homology-directed repair (HDR) function analysis. Here we report the RAD51C-XRCC3 (CX3) X-ray co-crystal structure with bound ATP analog and define separable RAD51C replication stability roles informed by its three-dimensional structure, assembly, and unappreciated polymerization motif. Mapping of cancer patient mutations as a functional guide confirms ATP-binding matching RAD51 recombinase yet highlights distinct CX3 interfaces. Analyses of CRISPR/Cas9-edited human cells with $RAD51C$ mutations combined with single-molecule, single-cell and biophysics measurements uncover discrete CX3 regions for DNA replication fork protection, restart and reversal, accomplished by separable functions in DNA binding and implied 5’ RAD51 filament capping. Collective findings establish CX3 as a cancer-relevant replication stress response complex, show how HDR-proficient variants could contribute to tumor development, and identify regions to aid functional testing and classification of cancer mutations.

59 BASIC BIOLOGICAL SCIENCES↗

The Prospect for Remote Sensing of Cirrus Clouds with a Submillimeter-Wave Spectrometer

Given the substantial radiative effects of cirrus clouds and the need to validate cirrus cloud mass in climate models, it is important to measure the global distribution of cirrus properties with satellite remote sensing. Existing cirrus remote sensing techniques, such as solar reflectance methods, measure cirrus ice water path (IWP) rather indirectly and with limited accuracy. Submillimeter/wave radiometry is an independent method of cirrus remote sensing based on ice particles scattering the upwelling radiance emitted by the lower atmosphere. A new aircraft instrument, the Far Infrared Sensor for Cirrus (FIRSC), is described. The FIRSC employs a Fourier Transform Spectrometer (FTS). which measures the upwelling radiance across the whole submillimeter region (0.1 1.0-mm wavelength). This wide spectral coverage gives high sensitivity to most cirrus particle sizes and allows accurate determination of the characteristic particle size. Radiative transfer modeling is performed to analyze the capabilities of the submillimeter FTS technique. A linear inversion analysis is done to show that cirrus IWP, particle size, and upper-tropospheric temperature and water vapor may be accurately measured, A nonlinear statistical algorithm is developed using a database of 20000 spectra simulated by randomly varying most relevant cirrus and atmospheric parameters. An empirical orthogonal function analysis reduces the 500-point spectrum (20 - 70/cm) to 15 "pseudo-channels" that are then input to a neural network to retrieve cirrus IWP and median particle diameter. A Monte Carlo accuracy study is performed with simulated spectra having realistic noise. The retrieval errors are low for IWP (rms less than a factor of 1.5) and for particle sizes (rins less than 30%) for IWP greater than 5 g/sq m and a wide range of median particle sizes. This detailed modeling indicates that there is good potential to accurately measure cirrus properties with a submillimeter FTS.

Evans, K. Franklin↗

Geosat crossover analysis in the tropical Pacific. II - Verification analysis of altimetric sea level maps with expendable bathythermograph and island sea level data

Altimetric sea level time series for the tropical Pacific have been generated from the Geosat crossover differences during the classified era of the Geosat mission from April 1985 to September 1986. These are compared with the expendable bathythermograph (XBT)-derived dynamic height and island sea level observations, yielding good agreement. A complex empirical orthogonal function analysis is also applied to the altimetric and XBT results. The analysis demonstrates the dominance of the annual signal in this relatively short time series and the westward propagation of major features away from the equator.

Tai, Chang-Kou↗

Low-compressibility and hard material carbon nitride imide C{sub 2}N{sub 2}(NH): First principles calculations

First principles calculations are performed to investigate the structural, mechanical, and electronic properties of C{sub 2}N{sub 2}(NH). Our calculated lattice parameters are in good agreement with the experimental data and previous theoretical values. Orthorhombic C{sub 2}N{sub 2}(NH) phase is found to be mechanically stable at an ambient pressure. Based on the calculated bulk modulus and shear modulus of polycrystalline aggregate, C{sub 2}N{sub 2}(NH) can be regarded as a potential candidate of ultra-incompressible and hard material. Furthermore, the elastic anisotropy and Debye temperatures are also discussed by investigating the elastic constants and moduli. Density of states and electronic localization function analysis show that the strong C-N covalent bond in CN{sub 4} tetrahedron is the main driving force for the high bulk and shear moduli as well as small Poisson's ratio of C{sub 2}N{sub 2}(NH). -- Graphical abstract: Contours of electronic localization function (ELF) of C{sub 2}N{sub 2}(NH) on the: (0 0 1) plane (a), (1 0 0) plane (b), an ELF of Si{sub 2}N{sub 2}(NH) on the: (0 0 1) plane (c) and (1 0 0) plane (d). Display Omitted Research highlights: The structural, mechanical, and electronic properties of C{sub 2}N{sub 2}(NH) have been studied. C{sub 2}N{sub 2}(NH) is a potential low compressible and hard material. Both C{sub 2}N{sub 2}(NH) and Si{sub 2}N{sub 2}(NH) are found to have insulating feature with large band gaps. The strong covalent C-N bonding in CN{sub 4} tetrahedrons play a key role in the incompressibility and hardness of C{sub 2}N{sub 2}(NH). The chemical bonding in these two solids is a complex mixture of covalent and ionic characters.

36 MATERIALS SCIENCE↗

Pulsed Phase Lock Loop Device for Monitoring Intracranial Pressure During Space Flight

We have developed an ultrasonic device to monitor ICP waveforms non-invasively from cranial diameter oscillations using a NASA-developed pulsed phase lock loop (PPLL) technique. The purpose of this study was to attempt to validate the PPLL device for reliable recordings of ICP waveforms and analysis of ICP dynamics in vivo. METHODS: PPLL outputs were recorded in patients during invasive ICP monitoring at UCSD Medical Center (n=10). RESULTS: An averaged linear regression coefficient between ICP and PPLL waveform data during one cardiac cycle in all patients is 0.88 +/- 0.02 (mean +/- SE). Coherence function analysis indicated that ICP and PPLL waveforms have high correlation in the lst, 2nd, and 3rd harmonic waves associated with a cardiac cycle. CONCLUSIONS: PPLL outputs represent ICP waveforms in both frequency and time domains. PPLL technology enables in vivo evaluation of ICP dynamics non-invasively, and can acquire continuous ICP waveforms during spaceflight because of compactness and non-invasive nature.

Ueno, Toshiaki↗

Paracrystalline Disorder from Phosphate Ion Orientation and Substitution in Synthetic Bone Mineral

Hydroxyapatite is an inorganic mineral closely resembling the mineral phase in bone. However, as a biological mineral, it is highly disordered, and its composition and atomistic structure remain poorly understood. Here, synchrotron X-ray total scattering and pair distribution function analysis methods provide insight into the nature of atomistic disorder in a synthetic bone mineral analogue, chemically substituted hydroxyapatite. By varying the effective hydrolysis rate and/or carbonate concentration during growth of the mineral, compounds with varied degrees of paracrystallinity are prepared. From advanced simulations constrained by the experimental pair distribution function and density functional theory, the paracrystalline disorder prevalent in these materials appears to result from accommodation of carbonate in the lattice through random displacement of the phosphate groups. Though many substitution modalities are likely to occur in concert, the most predominant substitution places carbonate into the mirror plane of an ideal phosphate site. Here, by understanding the mineralogical imperfections of a biologically analogous hydroxyapatite is important not only to potential bone grafting applications but also to biological mineralization processes themselves.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Soft-Chemical Synthesis, Structure Evolution, and Insulator-to-Metal Transition in Pyrochlore-like λ-RhO 2

λ-RhO 2 , a prototype 4d transition metal oxide, has been prepared by the oxidative delithiation of spinel LiRh 2 O 4 using ceric ammonium nitrate. Average-structure studies of this RhO 2 polytype, including synchrotron powder X-ray diffraction and electron diffraction, indicate the room-temperature structure to be tetragonal, in space group I4 1 /amd, with a first-order structural transition to cubic $Fd\bar{3}m$ at T = 345 K on warming. Synchrotron X-ray pair distribution function analysis and 7 Li solid-state nuclear magnetic resonance measurements suggest that the room-temperature structure displays local Rh-Rh bonding. The formation of these local dimers appears to be associated with a metal-to-insulator transition with a nonmagnetic ground state, as also supported by density functional theory-based electronic structure calculations. In conclusion, this contribution demonstrates the power of soft chemistry to kinetically stabilize a simple binary oxide compound.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Zero Thermal Expansion and Ferromagnetism in Cubic Sc 1-x M x F 3 (M = Ga, Fe) over a Wide Temperature Range

The rare physical property of zero thermal expansion (ZTE) is intriguing because neither expansion nor contraction occurs with temperature fluctuations. Most ZTE, however, occurs below room temperature. It is a great challenge to achieve isotropic ZTE at high temperatures. Here we report the unconventional isotropic ZTE in the cubic (Sc 1-x M x )F 3 (M = Ga, Fe) over a wide temperature range (linear coefficient of thermal expansion (CTE), α l = 2.34 × 10 -7 K -1 , 300-900 K). Such a broad temperature range with a considerably negligible CTE has rarely been documented. The present ZTE property has been designed using the introduction of local distortions in the macroscopic cubic lattice by heterogeneous cation substitution for the Sc site. Even though the macroscopic crystallographic structure of (Sc 0.85 Ga 0.05 Fe 0.1 )F 3 adheres to the cubic system (Pm3 - m) according to the results of Xray diffraction, the local structure exhibits a slight rhombohedral distortion. This is confirmed by pair distribution function analysis of synchrotron radiation Xray total scattering. This local distortion may weaken the contribution from the transverse thermal vibration of fluorine atoms to negative thermal expansion, and thus may presumably be responsible for the ZTE. In addition, the present ZTE compounds of (Sc 1-x M x )F 3 can be functionalized to exhibit high-T c ferromagnetism and a narrow-gap semiconductor feature. The present study shows the possibility of obtaining ZTE materials with multifunctionality in future work.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Electrochemical cofactor recycling of bacterial microcompartments

Bacterial microcompartments (BMCs) are prokaryotic organelles that consist of a protein shell which sequesters metabolic reactions in its interior. While most of the substrates and products are relatively small and can permeate the shell, many of the encapsulated enzymes require cofactors that must be regenerated inside. We have analyzed the occurrence of an enzyme previously assigned as a cobalamin (vitamin B 12 ) reductase and, curiously, found it in many unrelated BMC types that do not employ B 12 cofactors. We propose Nicotinamide adenine dinucleotide (NAD+) regeneration as the function of this enzyme and name it Metabolosome Nicotinamide Adenine Dinucleotide Hydrogen (NADH) dehydrogenase (MNdh). Its partner shell protein BMC-T SE (tandem domain BMC shell protein of the single layer type for electron transfer) assists in passing the generated electrons to the outside. We support this hypothesis with bioinformatic analysis, functional assays, Electron Paramagnetic Resonance spectroscopy, protein voltammetry, and structural modeling verified with X-ray footprinting. This finding represents a paradigm for the BMC field, identifying a new, widely occurring route for cofactor recycling and a new function for the shell as separating redox environments.

bacterial microcompartment↗

Thermal analysis of a functionally graded material subject to a thermal gradient using the boundary element method

The boundary element method is utilized in this study to conduct thermal analysis of functionally graded composites, materials in which the internal microstructure or properties are explicitly tailored in order to obtain an optimal response, on the micromechanical (constituent) scale. A unique feature of the boundary element formulations used here is the use of circular shape functions to convert the two-dimensional integrations of the composite fibers to one dimensional integrations. Using the computer code BEST-CMS, the through the thickness temperature profiles are computed for a representative material with varying numbers of fibers and fiber spacing in the thickness direction. The computed temperature profiles are compared to those obtained using an alternate analytical theory which explicitly couples the heterogeneous microstructure to the global analysis. The boundary element results compared favorably to the analytical calculations, with discrepancies that are explainable based on the boundary element formulation. The results serve both to demonstrate the ability of the boundary element method to analyze these types of materials, and to verify the accuracy of the analytical theory.

Goldberg, Robert K.↗

Limit cycle analysis of large space telescope with CMG nonlinearity

The existence and characteristics of self-sustained oscillations were studied in the Large Space Telescope (LST) system due to the presence of nonlinear gimbal friction in the control moment gyroscopes (CMG's). A continuous data single-axis model of the LST is considered. A solid friction model is used to represent CMG gimbal friction. A rigorous mathematical model is derived for use in a continuous describing function analysis. Conditions for self-sustained oscillations are then determined.

Seltzer, S. M.↗

Carbon/graphite fiber risk analysis and assessment study: Assessment of risk to the Lockheed Model L-1011 commercial transport aircraft

The risk associated with the accidental release of carbon/graphite fibers (CF) from fires on commercial transport aircraft incorporating composite materials was assessed. Data are developed to evaluate the potential for CF damage to electrical and electronic equipment, assess the cost risk, and evaluate the hazard to continued operation. The subjects covered include identification of susceptible equipments, determination of infiltration transfer functions, analysis of airport operations, calculation of probabilities of equipment failures, assessment of the cost risk, and evaluation of the hazard to continued operation. The results show the risks associated with CF contamination are negligible through 1993.

Daniledes, J.↗

Operational Forecasting Inundation Extents using REOF analysis (FIER) over Lower Mekong and its Economic Impact on Agriculture

In the Lower Mekong River Basin floodplains, rice cultivation is highly crucial for regional and global food security. However, prolonged flooding can pose damage to rice cultivation and other socio-economic aspects. Yet, there is no rapid operational inundation forecasting system that can help decision-makers proactively mitigate flood damages. Here, we integrated the so-called Forecasting Inundation Extents using Rotated empirical orthogonal function analysis (FIER) framework with an altimetry-based operational Mekong River level forecasting system and built an operational web application, FIER-Mekong, (https://fier-mekong.streamlit.app/) that generates daily skillful forecasted inundation extents (>70% of critical success index) and depths in about 3 and 30 s, respectively, with up to 18-day lead times. One of its applications, predicting flood-induced rice economic losses, is also presented. Had FIER-Mekong being adopted, we estimated that the rice damages, up to 87 and 53 million US dollars during the 2020 and 2021 harvest time, respectively, could have been avoided.

Chi-Hung Chang↗

Structural Basis of Response Regulator Dephosphorylation by Rap Phosphatases

Bacterial Rap family proteins have been most extensively studied in Bacillus subtilis, where they regulate activities including sporulation, genetic competence, antibiotic expression, and the movement of the ICEBs1 transposon. One subset of Rap proteins consists of phosphatases that control B. subtilis and B. anthracis sporulation by dephosphorylating the response regulator Spo0F. The mechanistic basis of Rap phosphatase activity was unknown. Here we present the RapH-Spo0F X-ray crystal structure, which shows that Rap proteins consist of a 3-helix bundle and a tetratricopeptide repeat domain. Extensive biochemical and genetic functional studies reveal the importance of the observed RapH-Spo0F interactions, including the catalytic role of a glutamine in the RapH 3-helix bundle that inserts into the Spo0F active site. We show that in addition to dephosphorylating Spo0F, RapH can antagonize sporulation by sterically blocking phosphoryl transfer to and from Spo0F. Our structure-function analysis of the RapH-Spo0F interaction identified Rap protein residues critical for Spo0F phosphatase activity. This information enabled us to assign Spo0F phosphatase activity to a Rap protein based on sequence alone, which was not previously possible. Finally, as the ultimate test of our newfound understanding of the structural requirements for Rap phosphatase function, a non-phosphatase Rap protein that inhibits the binding of the response regulator ComA to DNA was rationally engineered to dephosphorylate Spo0F. In addition to revealing the mechanistic basis of response regulator dephosphorylation by Rap proteins, our studies support the previously proposed T-loop-Y allostery model of receiver domain regulation that restricts the aromatic 'switch' residue to an internal position when the {beta}4-{alpha}4 loop adopts an active-site proximal conformation.

59 BASIC BIOLOGICAL SCIENCES↗

The Role of Phonons and Oxygen Vacancies in Non-Cubic SrVO 3

Combining neutron diffraction with pair distribution function analysis, we have uncovered hidden reduced symmetry in the correlated metallic d 1 perovskite, SrVO 3 . Specifically, we show that both the local and global structures are better described using a GdFeO 3 distorted (orthorhombic) model as opposed to the ideal cubic ABO 3 perovskite type. Recent reports of imaginary phonon frequencies in the density functional theory (DFT)-calculated phonon dispersion for cubic SrVO 3 suggest a possible origin of this observed non-cubicity. Namely, the imaginary frequencies computed could indicate that the cubic crystal structure is unstable at T = 0 K. However, our DFT calculations provide compelling evidence that point defects in the form of oxygen vacancies, and not an observable symmetry breaking associated with calculated imaginary frequencies, primarily result in the observed non-cubicity of SrVO 3 . These experimental and computational results are broadly impactful because they reach into the thin-film and theoretical communities who have shown that SrVO 3 is a technologically viable transparent conducting oxide material and have used SrVO 3 to develop theoretical methods, respectively.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Ensemble averaged structure–function relationship for nanocrystals: effective superparamagnetic Fe clusters with catalytically active Pt skin [Ensemble averaged structure-function relationship for composite nanocrystals: magnetic bcc Fe clusters with catalytically active fcc Pt skin]

Practical applications require the production and usage of metallic nanocrystals (NCs) in large ensembles. Besides, due to their cluster-bulk solid duality, metallic NCs exhibit a large degree of structural diversity. This poses the question as to what atomic-scale basis is to be used when the structure–function relationship for metallic NCs is to be quantified precisely. In this paper, we address the question by studying bi-functional Fe core-Pt skin type NCs optimized for practical applications. In particular, the cluster-like Fe core and skin-like Pt surface of the NCs exhibit superparamagnetic properties and a superb catalytic activity for the oxygen reduction reaction, respectively. We determine the atomic-scale structure of the NCs by non-traditional resonant high-energy X-ray diffraction coupled to atomic pair distribution function analysis. Using the experimental structure data we explain the observed magnetic and catalytic behavior of the NCs in a quantitative manner. Lastly, we demonstrate that NC ensemble-averaged 3D positions of atoms obtained by advanced X-ray scattering techniques are a very proper basis for not only establishing but also quantifying the structure–function relationship for the increasingly complex metallic NCs explored for practical applications.

36 MATERIALS SCIENCE↗