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Search indexed NASA NTRS and DOE OSTI research on propulsion, heat transfer, battery materials and energy systems. Follow report and document links to the original sources.

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At least 325 records · Page 18
All sourcesNASA NTRSDOE OSTI
DOE OSTI2023

Structural and functional analyses of the echinomycin resistance conferring protein Ecm16 from Streptomyces lasalocidi

Echinomycin is a natural product DNA bisintercalator antibiotic. The echinomycin biosynthetic gene cluster in Streptomyces lasalocidi includes a gene encoding the self-resistance protein Ecm16. Here, we present the 2.0 Å resolution crystal structure of Ecm16 bound to adenosine diphosphate. The structure of Ecm16 closely resembles that of UvrA, the DNA damage sensor component of the prokaryotic nucleotide excision repair system, but Ecm16 lacks the UvrB-binding domain and its associated zinc-binding module found in UvrA. Mutagenesis study revealed that the insertion domain of Ecm16 is required for DNA binding. Furthermore, the specific amino acid sequence of the insertion domain allows Ecm16 to distinguish echinomycin-bound DNA from normal DNA and link substrate binding to ATP hydrolysis activity. Expression of ecm16 in the heterologous host Brevibacillus choshinensis conferred resistance against echinomycin and other quinomycin antibiotics, including thiocoraline, quinaldopeptin, and sandramycin. Our study provides new insight into how the producers of DNA bisintercalator antibiotics fend off the toxic compounds that they produce.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2022

Biomolecular assembly processes in the design of novel functional materials

Nature admits innumerable examples where efficient, remarkably parallelized, and precise organization of modular building blocks (e.g., molecules, particles) leads to diverse, complex, and functional structures. Unraveling such processes in order to mimic Nature’s design strategies remains the Holy Grail in establishing a multiscale paradigm for programmable materials production. Success in this endeavor would revolutionize the efficiency and precision with which complex materials are designed and synthesized, and would spawn novel, functional structures tailored precisely for applications. Among promising approaches to this bottom-up strategy is the use of particle-tethered, complementary single-stranded DNA (ssDNA) for programming particle assembly mediated by DNA hybridization into complex structures. The overall goal of our work was to develop a comprehensive computational and theoretical strategy aimed at overcoming current barriers in self-assembly of DNA-functionalized particles (DFPs).

36 MATERIALS SCIENCE↗
DOE OSTI2022

Electronic Structure-Based Descriptors for Oxide Properties and Functions

The transition from fossil fuels to renewable energy requires the development of efficient and cost-effective energy storage technologies. A promising way forward is to harness the energy of intermittent renewable sources, such as solar and wind, to perform (electro)catalytic reactions to generate fuels, thus storing energy in the form of chemical bonds. Furthermore, current catalysts rely on the use of expensive, rare, or geographically localized elements, such as platinum. Widespread adoption of new (electro)catalytic technologies hinges on the discovery and development of materials containing earth-abundant elements, which can efficiently catalyze an array of (electro)chemical reactions.

Adsorption↗
NASA NTRS1998

Functional and structural mapping of human cerebral cortex: solutions are in the surfaces

The human cerebral cortex is notorious for the depth and irregularity of its convolutions and for its variability from one individual to the next. These complexities of cortical geography have been a chronic impediment to studies of functional specialization in the cortex. In this report, we discuss ways to compensate for the convolutions by using a combination of strategies whose common denominator involves explicit reconstructions of the cortical surface. Surface-based visualization involves reconstructing cortical surfaces and displaying them, along with associated experimental data, in various complementary formats (including three-dimensional native configurations, two-dimensional slices, extensively smoothed surfaces, ellipsoidal representations, and cortical flat maps). Generating these representations for the cortex of the Visible Man leads to a surface-based atlas that has important advantages over conventional stereotaxic atlases as a substrate for displaying and analyzing large amounts of experimental data. We illustrate this by showing the relationship between functionally specialized regions and topographically organized areas in human visual cortex. Surface-based warping allows data to be mapped from individual hemispheres to a surface-based atlas while respecting surface topology, improving registration of identifiable landmarks, and minimizing unwanted distortions. Surface-based warping also can aid in comparisons between species, which we illustrate by warping a macaque flat map to match the shape of a human flat map. Collectively, these approaches will allow more refined analyses of commonalities as well as individual differences in the functional organization of primate cerebral cortex.

Review↗
DOE OSTI2023

Reducing warpage in a hybrid large-scale additive manufacturing and compression molding process

In recent years, a hybrid manufacturing process, developed by combining extrusion-based large-scale additive manufacturing (AM) and compression molding (CM) techniques, has shown promising outcomes for producing structurally functional parts. The process can be used with both short fiber-reinforced composites and neat polymers and hence, even multi-material parts can be manufactured easily. This process offers the advantages of structural enhancement by having a desired fiber orientation using a large-scale AM process, as well as rapid manufacturing capability using a CM process. In the large-scale AM process, the alignment of fibers in the deposition direction enables significant improvement in the mechanical properties of the manufactured parts. However, the anisotropy resulting from the directional arrangement of fibers also introduces challenges related to warpage in the produced parts. This study aims to identify the causes of warpage and propose strategies to mitigate it. The research involves the use of preforms manufactured through the large-scale AM, which are then combined with the neat resin for CM manufacturing. A finite element-based numerical simulation model is developed, employing a sequentially coupled thermomechanical approach. Through a parametric study using the simulation models, optimization of printing direction and preform geometry is performed to minimize warpage. This contributes to the advancement and wider adoption of AM/CM hybrid manufacturing to produce structurally functional parts.

Jo, Eonyeon↗
DOE OSTI2020

Structure and function of a malaria transmission blocking vaccine targeting Pfs230 and Pfs230-Pfs48/45 proteins

Proteins Pfs230 and Pfs48/45 are Plasmodium falciparum transmission-blocking (TB) vaccine candidates that form a membrane-bound protein complex on gametes. The biological role of Pfs230 or the Pfs230-Pfs48/45 complex remains poorly understood. Here, we present the crystal structure of recombinant Pfs230 domain 1 (Pfs230D1M), a 6-cysteine domain, in complex with the Fab fragment of a TB monoclonal antibody (mAb) 4F12. We observed the arrangement of Pfs230 on the surface of macrogametes differed from that on microgametes, and that Pfs230, with no known membrane anchor, may exist on the membrane surface in the absence of Pfs48/45. 4F12 appears to sterically interfere with Pfs230 function. Combining mAbs against different epitopes of Pfs230D1 or of Pfs230D1 and Pfs48/45, significantly increased TB activity. These studies elucidate a mechanism of action of the Pfs230D1 vaccine, model the functional activity induced by a polyclonal antibody response and support the development of TB vaccines targeting Pfs230D1 and Pfs230D1-Pfs48/45.

60 APPLIED LIFE SCIENCES↗
DOE OSTI2021

Accurate Thermochemistry of Complex Lignin Structures via Density Functional Theory, Group Additivity, and Machine Learning

A molecular-level understanding of lignin structures and bond dissociation energies could facilitate depolymerization technologies. Still, this information is currently limited due to the lack of databases and the simplification of surrogate models. Here, substitution effects on seven common linkages in lignin polymers are systematically investigated. An automated reaction network generator is employed to create a database of structures. A new group additivity (GA) model based on principal component analysis (PCA) descriptors is introduced and trained on gas-phase density functional theory data of 4100 species at the M06-2X/6-311++G(d,p) level. Hydrogen bonds, local steric, and nonaromatic ring contributions are also incorporated. Lastly, we improve the accuracy of the group additivity model to reach the G4 theory by computing a data set of 770 species at this level and using a data fusion approach.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
DOE OSTI2023

Complete lowest order radiative corrections in semi-inclusive scattering of polarized particles

For this work, the lowest order radiative corrections to the cross section and asymmetries measured in experiments on semi-inclusive deep inelastic scattering of polarized particles were calculated. Both exact and leading log expressions were presented and discussed for the total correction that include the contributions from the processes of i) real photon emission with semi-inclusive processes, ii) loop diagrams, and iii) real photon emission with exclusive processes. Radiative corrections to the Sivers and Collins asymmetries in $\pi^+$ electroproduction were studied numerically within the kinematical conditions of modern experimental environments at Jefferson Laboratory (JLab). The Wandzura-Wilczek approximation for the semi-inclusive structure functions and MAID2007 parameterization for the six amplitudes of exclusive processes were used in numeric analyses. The results show that i) radiative effects can generate a correction comparable to the size of Sivers and Collins asymmetries at the Born level, ii) there is good agreement between the exact and leading-order corrections, iii) external functions (that is, other than the Sivers and Collins functions in the respective asymmetries) can generate a contribution to the radiative correction up to 20%, and iv) there exists a strong dependence of the radiative correction on the models for semi-inclusive and exclusive structure functions.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗
DOE OSTI2026

Metamaterials as a Platform for the Development of Novel Materials for Energy Applications

To explore the fundamental properties of metamaterials (MMs) / metasurfaces and their potential for control of energy at the sub‐wavelength scale in support of the mission of the Department of Energy and the office of Basic Energy Sciences. Electromagnetic metamaterials provide a platform for the discovery and design of new materials with novel structures, functions, and properties. The PI proposes to advance the knowledge base of these materials through fundamental investigations of the experimental and theoretical properties of metamaterials for the discovery, prediction and design of new materials with novel structures, functions, and properties. The proposed research activities emphasize a complete basic research program including the conceptual / computational design, fabrication / synthesis of the materials, and the characterization and analysis of their electromagnetic properties. The proposed project explores the fundamental properties of metamaterials / metasurfaces and their potential for energy applications. There are three main topics which will be investigated: 1) Dispersion engineering with metamaterials and metasurfaces, 2) Epsilon near zero metamaterial absorbers and emitters, and 3) All dielectric metamaterials. The program implements a complete basic research program consisting of theory / design, modeling, characterization, and analysis, in order to fully characterize metamaterials and metasurfaces, while at the same time minimizing iterations necessary to achieve the proposal goals.

36 MATERIALS SCIENCE↗
DOE OSTI2025

Global QCD analysis of spin PDFs in the proton with high-𝑥 and lattice constraints

We perform a comprehensive global QCD analysis of spin-dependent parton distribution functions (PDFs), combining all available data on inclusive and semi-inclusive deep-inelastic scattering (DIS), as well as inclusive weak boson and jet production in polarized 𝑝⁢𝑝 collisions, simultaneously extracting spin-averaged PDFs and fragmentation functions. Including recent Jefferson Lab DIS data at high 𝑥, together with subleading power corrections to the leading-twist framework, allows us to verify the stability of the PDFs for 𝑊 2 ≥ 4 GeV 2 and quantify the uncertainties on the spin structure functions more reliably. We explore the use of new lattice QCD data on gluonic pseudo-Ioffe time distributions, which, together with jet production and high-𝑥 DIS data, improve the constraints on the polarized gluon PDF. The expanded kinematic reach afforded by the data into the high-𝑥 region allows us to refine the bounds on higher-twist contributions to the spin structure functions, and test the validity of the Bjorken sum rule.

Perturbative QCD↗
DOE OSTI2024

Exploring the Mineral Composition, Structure, and Function of a Freshwater Bivalve Adhesive

Abstract Etheria elliptica is a freshwater oyster that produces an adhesive that hardens underwater, allowing them to attach to other oysters, rocks, wood, and other natural substrates, producing complex oyster bed communities. Despite the importance of the adhesive in oyster bed formation, little is known about its chemical composition, structure, or mechanical properties. Through a combination of scanning electron microscopy (SEM), x‐ray photoemission electron microscopy (X‐PEEM), infrared (IR) spectroscopy, microhardness testing, and nanoindentation, it is found that the oyster adhesive consists entirely of aragonite nanoparticles that clump together into crystallites of varied shape, size, and orientation. The crystallite clumping density varies from the exterior of the adhesive to the interior, with the adhesive closest to the prismatic layer generally being denser. With this variation in density comes a variation in material properties with the exterior adhesive layer being softer and more flexible and the interior adhesive layer being harder and less elastic, or more similar to the prismatic and nacre shell structures produced by the E. elliptica . The resultant material exhibits varied materials properties, despite similar mineral composition.

Chemistry↗
DOE OSTI2021

Structure and Function of REP34 Implicates Carboxypeptidase Activity in Francisella tularensis Host Cell Invasion

Francisella tularensis is the etiological agent of tularemia, or rabbit fever. Although F. tularensis is a recognized biothreat agent with broad and expanding geographical range, its mechanism of infection and environmental persistence remain poorly understood. Previously, we identified seven F. tularensis proteins that induce a rapid encystment phenotype (REP) in the free-living amoeba, Acanthamoeba castellanii. Encystment is essential to the pathogen's long term intracellular survival in the amoeba. Here, we characterize the cellular and molecular function of REP34, a REP protein with a mass of 34 kDa. A REP34 knock-out strain of F. tularensis has a reduced ability to both induce encystment in A. castellanii and invade human macrophages. We determined the crystal structure of REP34 to 2.05-Å resolution and demonstrate robust carboxypeptidase B-like activity for the enzyme. REP34 is a zinc-containing monomeric protein with close structural homology to the metallocarboxypeptidase family of peptidases. REP34 possesses a novel topology and substrate binding pocket that deviates from the canonical funnelin structure of carboxypeptidases, putatively resulting in a catalytic role for a conserved tyrosine and distinct S1' recognition site. Taken together, these results identify REP34 as an active carboxypeptidase, implicate the enzyme as a potential key F. tularensis effector protein, and may help elucidate a mechanistic understanding of F. tularensis infection of phagocytic cells.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2023

Structural and functional insights into δ-poly-L-ornithine polymer biosynthesis from Acinetobacter baumannii

Cationic homo-polyamino acid (CHPA) peptides containing isopeptide bonds of diamino acids have been identified from Actinomycetes strains. However, none has been reported from other bacteria. Here, we report a δ-poly-L-ornithine synthetase from Acinetobacter baumannii, which we name PosA. Surprisingly, structural analysis of the adenylation domain and biochemical assay shows L-ornithine as the substrate for PosA. The product from the enzymatic reaction was purified and identified as poly-L-ornithine composed of 7-12 amino acid units. Chemical labeling of the polymer confirmed the isopeptide linkage of δ-poly-L-ornithine. We examine the biological activity of chemically synthesized 12-mer δ-poly-L-ornithine, illustrating that the polymer may act as an anti-fungal agent. Structures of the isolated adenylation domain from PosA are presented with several diamino acids and biochemical assays identify important substrate binding residues. Structurally-guided genome-mining led to the identification of homologs with different substrate binding residues that could activate additional substrates. A homolog from Bdellovibrionales sp. shows modest activity with L-arginine but not with any diamino acids observed to be substrates for previously examined CHPA synthetases. Our study indicates the possibility that additional CHPAs may be produced by various microbes, supporting the further exploration of uncharacterized natural products.

59 BASIC BIOLOGICAL SCIENCES↗
NASA NTRS1989

The effect of spatial and temporal wet-troposphere fluctuations on connected element interferometry

Numerical integrations of the structure function of tropospheric inhomogeneities have been performed to assess the impact of water vapor fluctuations on connected element interferometry (CEI). The expectation value of the RMS troposphere error for a differential spacecraft-quasar observation is derived by integrating the spatial refractivity structure function along raypaths to both the spacecraft and quasar from two spatially separated sites. Correlations between the tropospheric conditions at the two sites, which can become significant for short baseline observations, are fully accounted for in this calculation. Temporal effects are treated by assuming a frozen-flow model in which a fixed spatial distribution blows over both sites. Two nominal observation scenarios are considered, along with variations to study the dependence of the resultant differential troposphere errors on baseline length, observation time, source separation angle, and elevation. Consecutive differential observations are found to be almost completely uncorrelated, implying that averaging many repeated differential observations can quickly reduce the troposphere error.

Edwards, C. D.↗
NASA NTRS2001

The Effect of Cytidine on the Structure and Function of an RNA Ligase Ribozyme

A cytidine-free ribozyme with RNA ligase activity was obtained by in vitro evolution, starting from a pool of random- sequence RNAs that contained only guanosine, adenosine, and uridine. This ribozyme contains 74 nt and catalyzes formation of a 3',5' -phosphodiester linkage with a catalytic rate of 0.016/min. The RNA adopts a simple secondary structure based on a three-way junction motif, with ligation occurring at the end of a stem region located several nucleotides away from the junction. Cytidine was introduced to the cytidine-free ribozyme in a combinatorial fashion and additional rounds of in vitro evolution were carried out to allow the molecule to adapt to this added component. The resulting cytidine-containing ribozyme formed a 3',5' linkage with a catalytic rate of 0.32/min. The improved rate of the cytidine-containing ribozyme was the result of 12 mutations, including seven added cytidines, that remodeled the internal bulge loops located adjacent to the three-way junction and stabilized the peripheral stem regions.

Rogers, Jeff↗
DOE OSTI2026

Small-𝑥 behavior in QCD from maximal entanglement and conformal invariance

Recent evidence suggests that, at small Bjorken 𝑥, QCD evolution drives the proton into a state of maximal entanglement. If the evolution kernel is assumed to be conformally invariant—as is the case for the Balitsky-Fadin-Kuraev-Lipatov equation—we can describe it by a conformal field theory. Moreover, the central charge 𝑐 of the corresponding conformal field theory emerges as the key parameter governing the 𝑥 dependence of both the entanglement entropy and the structure function. Here we apply the exact Bethe ansatz methods to the quantum spin chain dual to Lipatov’s high energy effective action to extract the central charge of the theory, and find that 𝑐 = 1. This implies the ∼𝑥 −1/3 small 𝑥 behavior for the structure function—the prediction that can be tested at the forthcoming Electron-Ion Collider.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗
NASA NTRS2005

The Flora Mission for Ecosystem Composition, Disturbance and Productivity

Global land use and climate variability alter ecosystem conditions - including structure, function, and biological diversity - at a pace that requires unambiguous observations from satellite vantage points. Current global measurements are limited to general land cover, some disturbances, vegetation leaf area index, and canopy energy absorption. Flora is a pathfinding mission that provides new measurements of ecosystem structure, function, and diversity to understand the spatial and temporal dynamics of human and natural disturbances, and the biogeochemical and physiological responses of ecosystems to disturbance. The mission relies upon high-fidelity imaging spectroscopy to deliver full optical spectrum measurements (400-2500 nm) of the global land surface on a monthly time step at 45 meter spatial resolution for three years. The Flora measurement objectives are: (i) fractional cover of biological materials, (ii) canopy water content, (iii) vegetation pigments and light-use efficiency, (iv) plant functional types, (v) fire fuel load and fuel moisture content, and (vi) disturbance occurrence, type and intensity. These measurements are made using a multi-parameter, spectroscopic analysis approach afforded by observation of the full optical spectrum. Combining these measurements, along with additional observations from multispectral sensors, Flora will far advance global studies and models of ecosystem dynamics and change.

Asner, Gregory P.↗
DOE OSTI2021

Structure and function of aerotolerant, multiple-turnover THI4 thiazole synthases

Plant and fungal THI4 thiazole synthases produce the thiamin thiazole moiety in aerobic conditions via a single-turnover suicide reaction that uses an active-site Cys residue as sulfur donor. Multiple-turnover (i.e. catalytic) THI4s lacking an active-site Cys (non-Cys THI4s) that use sulfide as sulfur donor have been biochemically characterized -- but only from archaeal methanogens that are anaerobic, O 2 -sensitive hyperthermophiles from sulfide-rich habitats. These THI4s prefer iron as cofactor. A survey of prokaryote genomes uncovered non-Cys THI4s in aerobic mesophiles from sulfide-poor habitats, suggesting that multiple-turnover THI4 operation is possible in aerobic, mild, low-sulfide conditions. This was confirmed by testing 23 representative non-Cys THI4s for complementation of an Escherichia coli ΔthiG thiazole auxotroph in aerobic conditions. Sixteen were clearly active, and more so when intracellular sulfide level was raised by supplying Cys, demonstrating catalytic function in the presence of O 2 at mild temperatures and indicating use of sulfide or a sulfide metabolite as sulfur donor. Comparative genomic evidence linked non-Cys THI4s with proteins from families that bind, transport, or metabolize cobalt or other heavy metals. The crystal structure of the aerotolerant bacterial Thermovibrio ammonificans THI4 was determined to probe the molecular basis of aerotolerance. The structure suggested no large deviations compared with the structures of THI4s from O 2 -sensitive methanogens, but is consistent with an alternative catalytic metal. Together with complementation data, use of cobalt rather than iron was supported. We conclude that catalytic THI4s can indeed operate aerobically and that the metal cofactor inserted is a likely natural determinant of aerotolerance.

59 BASIC BIOLOGICAL SCIENCES↗