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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 235 records · Page 13
All sourcesNASA NTRSDOE OSTI
DOE OSTI2020

A bimodular PKS platform that expands the biological design space

Traditionally engineered to produce novel bioactive molecules, Type I modular polyketide synthases (PKSs) could be engineered as a new biosynthetic platform for the production of de novo fuels, commodity chemicals, and specialty chemicals. Previously, our investigations manipulated the first module of the lipomycin PKS to produce short chain ketones, 3-hydroxy acids, and saturated, branched carboxylic acids. Building upon this work, we have expanded to multi-modular systems by engineering the first two modules of lipomycin to generate unnatural polyketides as potential biofuels and specialty chemicals in Streptomyces albus. First, we produce 20.6 mg/L of the ethyl ketone, 4,6 dimethylheptanone through a reductive loop exchange in LipPKS1 and a ketoreductase knockouts in LipPKS2. Furthermore, we then show that an AT swap in LipPKS1 and a reductive loop exchange in LipPKS2 can produce the potential fragrance 3-isopropyl-6-methyltetrahydropyranone. Highlighting the challenge of maintaining product fidelity, in both bimodular systems we observed side products from premature hydrolysis in the engineered first module and stalled dehydration in reductive loop exchanges. Collectively, our work expands the biological design space and moves the field closer to the production of "designer" biomolecules.

09 BIOMASS FUELS↗
DOE OSTI2020

Covalent Linkage and Macrocylization Preserve and Enhance Synergistic Interactions in Catalytic Amyloids

The self-assembly of short peptides into catalytic amyloid-like nanomaterials has proven to be a powerful tool in both understanding the evolution of early proteins and identifying new catalysts for practically useful chemical reactions. Here we demonstrate that both parallel and antiparallel arrangements of beta-sheets can accommodate metal ions in catalytically productive coordination environments. Moreover, synergistic relationships, identified in catalytic amyloid mixtures, can be captured in macrocyclic and sheet-loop-sheet species, that offer faster rates of assembly and provide more complex asymmetric arrangements of functional groups, thus paving the way for future designs of amyloid-like catalytic proteins. Finally, our findings show how initial catalytic activity in amyloid assemblies can be propagated and improved in more-complex molecules, providing another link in a complex evolutionary chain between short, potentially abiotically produced peptides and modern-day enzymes.

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

Structural Basis of ALDH1A2 Inhibition by Irreversible and Reversible Small Molecule Inhibitors

Enzymes of the ALDH1A subfamily of aldehyde dehydrogenases are crucial in regulating retinoic acid (RA) signaling and have received attention as potential drug targets. ALDH1A2 is the primary RA-synthesizing enzyme in mammalian spermatogenesis and is therefore considered a viable drug target for male contraceptive development. However, only a small number of ALDH1A2 inhibitors have been reported, and information on the structure of ALDH1A2 was limited to the NAD-liganded enzyme void of substrate or inhibitors. Herein, we describe the mechanism of action of structurally unrelated reversible and irreversible inhibitors of human ALDH1A2 using direct binding studies and X-ray crystallography. All inhibitors bind to the active sites of tetrameric ALDH1A2. Compound WIN18,446 covalently reacts with the side chain of the catalytic residue Cys320, resulting in a chiral adduct in (R) configuration. The covalent adduct directly affects the neighboring NAD molecule, which assumes a contracted conformation suboptimal for the dehydrogenase reaction. The reversible inhibitors interact predominantly through direct hydrogen bonding interactions with residues in the vicinity of Cys320 without affecting NAD. Upon interaction with inhibitors, a large flexible loop assumes regular structure, thereby shielding the active site from solvent. We conclude the precise knowledge of the binding modes provides a new framework for the rational design of novel inhibitors of ALDH1A2 with improved potency and selectivity profiles.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2016

Development of an X-ray fluorescence holographic measurement system for protein crystals

Experimental procedure and setup for obtaining X-ray fluorescence hologram of crystalline metalloprotein samples are described. Human hemoglobin, an α{sub 2}β{sub 2} tetrameric metalloprotein containing the Fe(II) heme active-site in each chain, was chosen for this study because of its wealth of crystallographic data. A cold gas flow system was introduced to reduce X-ray radiation damage of protein crystals that are usually fragile and susceptible to damage. A χ-stage was installed to rotate the sample while avoiding intersection between the X-ray beam and the sample loop or holder, which is needed for supporting fragile protein crystals. Huge hemoglobin crystals (with a maximum size of 8 × 6 × 3 mm{sup 3}) were prepared and used to keep the footprint of the incident X-ray beam smaller than the sample size during the entire course of the measurement with the incident angle of 0°-70°. Under these experimental and data acquisition conditions, we achieved the first observation of the X-ray fluorescence hologram pattern from the protein crystals with minimal radiation damage, opening up a new and potential method for investigating the stereochemistry of the metal active-sites in biomacromolecules.

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗
DOE OSTI2013

Optical Frequency Stabilization and Optical Phase Locked Loops: Golden Threads of Precision Measurement

Stabilization of lasers through locking to optical cavities, atomic transitions, and molecular transitions has enabled the field of precision optical measurement since shortly after the invention of the laser. Recent advances in the field have produced an optical clock that is orders of magnitude more stable than those of just a few years prior. Phase locking of one laser to another, or to a frequency offset from another, formed the basis for linking stable lasers across the optical spectrum, such frequency chains exhibiting progressively finer precision through the years. Phase locking between the modes within a femtosecond pulsed laser has yielded the optical frequency comb, one of the most beautiful and useful instruments of our time. This talk gives an overview of these topics, from early work through to the latest 1E-16 thermal noise-limited precision recently attained for a stable laser, and the ongoing quest for ever finer precision and accuracy. The issues of understanding and measuring line widths and shapes are also studied in some depth, highlighting implications for servo design for sub-Hz line widths.

Golden Threads↗
DOE OSTI2018

Can Relaxor Ferroelectric Behavior Be Realized for Poly(vinylidene fluoride- co -chlorotrifluoroethylene) [P(VDF–CTFE)] Random Copolymers by Inclusion of CTFE Units in PVDF Crystals?

Relaxor ferroelectric (RFE) polymers are attractive for various electrical applications such as electrostrictive actuation, electromechanical sensors, electric energy storage, and electrocaloric cooling because of their high dielectric constants and low hysteresis loss. Current state-of-the-art RFE polymers include poly(vinylidene fluoride-co-trifluoroethylene) [P(VDF–TrFE)]-based random copolymers and terpolymers. However, the high costs due to a safety concern of TrFE make their near-term commercialization difficult. It is highly desirable to explore the opportunity of TrFE-free PVDF copolymers [e.g., P(VDF–CTFE); CTFE is chlorotrifluoroethylene] to achieve the RFE behavior by inclusion of CTFE in PVDF crystals (i.e., isomorphism). In this work, two strategies were employed to include CTFE in PVDF crystals. First, high-pressure crystallization was used to obtain extended-chain crystals via the pseudohexagonal paraelectric phase. Structural analyses indicated that CTFE units were largely excluded from the γ unit cells and ferroelectric domains of PVDF but located as kinks inside the extended-chain lamellae. As a result, no RFE behavior was observed because of large ferroelectric γ domains. The second strategy utilized mechanical stretching at low temperatures (–20 to 0 °C) to obtain oriented small β crystallites (ca. 5–7 nm). Structural analyses indicated that CTFE units were excluded from the β unit cells, locating at the crystal–amorphous interfaces. Although the hysteresis loops became somewhat slimmer as a result of small crystallite sizes, the RFE behavior with slim hysteresis loops was still not achieved. Furthermore, this study demonstrated that CTFE units were too large to be included in the tightly packed PVDF unit cells, whether the α, γ, or β phase. In the future, it is desirable to explore other PVDF copolymers with a smaller comonomer such as 1-chloro-1-fluoroethylene.

36 MATERIALS SCIENCE↗
DOE OSTI2020

Future material demand for automotive lithium-based batteries

The world is shifting to electric vehicles to mitigate climate change. Here, we quantify the future demand for key battery materials, considering potential electric vehicle fleet and battery chemistry developments as well as second-use and recycling of electric vehicle batteries. We find that in a lithium nickel cobalt manganese oxide dominated battery scenario, demand is estimated to increase by factors of 18–20 for lithium, 17–19 for cobalt, 28–31 for nickel, and 15–20 for most other materials from 2020 to 2050, requiring a drastic expansion of lithium, cobalt, and nickel supply chains and likely additional resource discovery. However, uncertainties are large. Key factors are the development of the electric vehicles fleet and battery capacity requirements per vehicle. If other battery chemistries were used at large scale, e.g. lithium iron phosphate or novel lithium-sulphur or lithium-air batteries, the demand for cobalt and nickel would be substantially smaller. Closed-loop recycling plays a minor, but increasingly important role for reducing primary material demand until 2050, however, advances in recycling are necessary to economically recover battery-grade materials from end-of-life batteries. Second-use of electric vehicles batteries further delays recycling potentials.

25 ENERGY STORAGE↗
DOE OSTI2018

Polarization Mechanisms in P(VDF-TrFE) Ferroelectric Thin Films

Ferroelectric polymers have amassed tremendous attention due to several attractive properties including high breakdown strength, low dielectric loss, relatively fast charge/discharge rates and greater flexibility than their ceramic counterparts. In order to achieve enhanced energy efficiency in high-energy storage capacitor applications, it is desirable to obtain slim polarization hysteresis loops for ferroelectric polymer films. Here, it has been demonstrated that promotion of large crystallites and γ phase content through thermal annealing provides a cost-effective way to obtain a quasi-linear polarization response in a PVDF co-polymer thin film. The polarization mechanisms underlying a thin hysteresis loop in the thermally annealed film are elucidated using direct experimental insights from in situ synchrotron diffraction with two-dimensional detection. It has been demonstrated that the susceptibility for electric-field-induced structural changes is higher in the defective ferroelectric γ phase than the polar phase β, due to a higher flexibility for accommodation of gauche bond along the carbon chain. In addition, the polymer chains in the γ phase also exhibit a range of different responses depending on their orientations with respect to the electric field. These conclusions are broadly significant as they provide a fundamental basis for rational design of phase assemblages to obtain tailor-made properties in ferroelectric polymer films.

36 MATERIALS SCIENCE↗
DOE OSTI2024

A full-scope, high-fidelity simulator-based hardware-in-the-loop testbed for comprehensive nuclear power plant cybersecurity research

Nuclear power plant (NPP) cybersecurity research often relies on hardware-in-the-loop (HIL) testbeds that integrate real hardware components into simulated environments. These testbeds allow researchers to identify vulnerabilities, evaluate attack impacts, and test security measures in a controlled setting. Furthermore, previous HIL testbeds lacked fidelity to accurately represent real nuclear systems, limiting the scope of cybersecurity analysis. This study presents the creation of a HIL testbed, devised upon a full-scope, high-fidelity NPP simulator, to facilitate realistic and comprehensive cybersecurity research. To demonstrate its capabilities, the control logic for the steam generator water level was migrated from the simulator to an external programmable logic controller. As a practical application of the developed testbed, supply chain attack scenarios were simulated by injecting malicious code into the controller logic, and the effects of manipulating sensor inputs and control commands were observed. While this HIL testbed provides more detailed simulations, enhanced realism, and wider applicability compared to other options utilizing a less complex simulator, it is also more intricate and costly. For this reason, we include a detailed comparison with some alternative architectures to aid fellow researchers and practitioners in the selection of a suitable HIL architecture based on specific research objectives.

47 OTHER INSTRUMENTATION↗
DOE OSTI2012

The neurogenic basic helix-loop-helix transcription factor NeuroD6 enhances mitochondrial biogenesis and bioenergetics to confer tolerance of neuronal PC12-NeuroD6 cells to the mitochondrial stressor rotenone

The fundamental question of how and which neuronal specific transcription factors tailor mitochondrial biogenesis and bioenergetics to the need of developing neuronal cells has remained largely unexplored. In this study, we report that the neurogenic basic helix-loop-helix transcription factor NeuroD6 possesses mitochondrial biogenic properties by amplifying the mitochondrial DNA content and TFAM expression levels, a key regulator for mitochondrial biogenesis. NeuroD6-mediated increase in mitochondrial biogenesis in the neuronal progenitor-like PC12-NEUROD6 cells is concomitant with enhanced mitochondrial bioenergetic functions, including increased expression levels of specific subunits of respiratory complexes of the electron transport chain, elevated mitochondrial membrane potential and ATP levels produced by oxidative phosphorylation. Thus, NeuroD6 augments the bioenergetic capacity of PC12-NEUROD6 cells to generate an energetic reserve, which confers tolerance to the mitochondrial stressor, rotenone. We found that NeuroD6 induces an adaptive bioenergetic response throughout rotenone treatment involving maintenance of the mitochondrial membrane potential and ATP levels in conjunction with preservation of the actin network. In conclusion, our results support the concept that NeuroD6 plays an integrative role in regulating and coordinating the onset of neuronal differentiation with acquisition of adequate mitochondrial mass and energetic capacity to ensure energy demanding events, such as cytoskeletal remodeling, plasmalemmal expansion, and growth cone formation. -- Highlights: Black-Right-Pointing-Pointer NeuroD6 induces mitochondrial biogenesis in neuroprogenitor-like cells. Black-Right-Pointing-Pointer NeuroD6 augments the bioenergetic reserve of the neuronal PC12-NeuroD6 cells. Black-Right-Pointing-Pointer NeuroD6 increases the mitochondrial membrane potential and ATP levels. Black-Right-Pointing-Pointer NeuroD6 confers tolerance to rotenone via an adaptive mitochondrial response.

60 APPLIED LIFE SCIENCES↗
DOE OSTI2024

USPAS Digital Low-Level RF firmware and software suite (uspas_llrf) v1.0

The USPAS Digital Low-Level RF firmware and software suite was originally developed for the USPAS 2023 LLRF course, for demonstrating the close loop RF control on the BerkeleyLab Marble FPGA carrier and Zest digitizer platform in controlling the RF field for various accelerators. The suite features Register-transfer level (RTL) designs for the board-support layer, digital signal processing and verification test benches, system-on-chip architecture, and Experimental Physics and Industrial Control System (EPICS) support, utilizing a open-source tool chain.

Du, Qiang↗
DOE OSTI2025

Resistance to oxyimino-cephalosporins conferred by an alternative mechanism of hydrolysis by the Acinetobacter -derived cephalosporinase-33 (ADC-33), a class C β-lactamase present in carbapenem-resistant Acinetobacter baumannii (CR Ab )

ABSTRACT Antimicrobial resistance inAcinetobacter baumanniiis partly mediated by chromosomal class C β-lactamases, theAcinetobacter-derived cephalosporinases (ADCs). Recently, a growing number of emerging variants were described, expanding this threat. Consistent with other β-lactamases, one of the main areas of variance exists in the Ω-loop region near the site of cephalosporin binding. Interestingly, a common alanine duplication (Adup) is found in this region. Herein, we studied specific Adup variants expressed in a uniformEscherichia coligenetic background that demonstrated high-level resistance to multiple oxyimino-cephalosporins. For ceftolozane and ceftazidime, the Adup ADCs significantly increased levels of resistance (minimum inhibitory concentration [MIC] ≥ 512 µg/mL and MIC ≥ 1,024 µg/mL, respectively). These observations were consistent with the increasedk cat /K M for ceftazidime. For cefiderocol, three Adup variants exhibited increased MICs and increasedk cat /K M for this compound. Timed electrospray ionization mass spectrometry demonstrated stable cephalosporin:ADC adducts with ADC-30 (non-Adup), but not with ADC-33 (Adup), consistent with turnover. The X-ray crystal structure of Adup variant ADC-33 in complex with ceftazidime was determined (1.57 Å resolution) and suggests that increased turnover is facilitated by conformational changes (shift in Tyr221 and orientation of the oxyimino portion of the R1 side chain) and repositioning of water in the active site. These changes appear to favor substrate-assisted catalysis as an alternative mechanism to base-assisted catalysis. These studies also provide unprecedented insight into the mechanism underlying oxyimino-cephalosporin hydrolysis by expanded-spectrum ADC β-lactamases and possibly other class C β-lactamases, which is of critical importance to future drug design. IMPORTANCE The characterization of emergingAcinetobacter-derived cephalosporinase (ADC) variants is necessary to understand the increasing resistance to β-lactam antibiotics inAcinetobacterspp. In this study, cefiderocol retains effectiveness against ADC variants with and without an Ω-loop alanine duplication (Adup). However, the presence of the Adup appears to introduce loop flexibility and structural alterations resulting in increased resistance and steady-state turnover of larger cephalosporins. Further characterization provides unprecedented insight into the mechanism of cephalosporin hydrolysis by ADC β-lactamases and supports a concomitant increase in ADC structural flexibility and cephalosporin affinity that leads to more efficient hydrolysis. In addition, the crystal structure of ADC-33 in complex with ceftazidime is consistent with a substrate-assisted catalysis mechanism. The structural differences in the ADC-33 active site leading to ceftazidime catalysis provide a better understanding of β-lactamase Adup variants and open important opportunities for future drug design and development.

Microbiology↗
DOE OSTI2022

Identification of $\mathrm{IOMA}$-class neutralizing antibodies targeting the $\mathrm{CD4}$-binding site on the $\mathrm{HIV}$-1 envelope glycoprotein

A major goal of current HIV-1 vaccine design efforts is to induce broadly neutralizing antibodies (bNAbs). The VH1-2-derived bNAb IOMA directed to the CD4-binding site of the HIV-1 envelope glycoprotein is of interest because, unlike the better-known VH1-2-derived VRC01-class bNAbs, it does not require a rare short light chain complementarity-determining region 3 (CDRL3). Here, we describe three IOMA-class NAbs, ACS101-103, with up to 37% breadth, that share many characteristics with IOMA, including an average-length CDRL3. Cryo-electron microscopy revealed that ACS101 shares interactions with those observed with other VH1-2 and VH1-46-class bNAbs, but exhibits a unique binding mode to residues in loop D. Analysis of longitudinal sequences from the patient suggests that a transmitter/founder-virus lacking the N276 glycan might have initiated the development of these NAbs. Together these data strengthen the rationale for germline-targeting vaccination strategies to induce IOMA-class bNAbs and provide a wealth of sequence and structural information to support such strategies.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2019

Magnetization-induced shape transformations in flexible ferromagnetic rings

Flexible ferromagnetic rings are spin-chain magnets, in which the magnetic and mechanical subsystems are coupled. The coupling is achieved through the tangentially oriented anisotropy axis. The possibility to operate the mechanics of the nanomagnets by controlling their magnetization is an important issue for the nanorobotics applications. A minimal model for the deformable curved anisotropic Heisenberg ferromagnetic wire is proposed. An equilibrium phase diagram is constructed for the closed loop geometry: (i) A vortex state with vanishing total magnetic moment is typical for relatively large systems; in this case, the wire has the form of a regular circle. (ii) A topologically trivial onion state with the planar magnetization distribution is realized in small enough systems; magnetic loop is elliptically deformed. By varying geometrical and elastic parameters, a phase transition between the vortex and onion states takes place. The detailed analytical description of the phase diagram is well confirmed by numerical simulations.

36 MATERIALS SCIENCE↗
DOE OSTI2020

Pre–T cell receptors topologically sample self-ligands during thymocyte β-selection

Self-discrimination, a critical but ill-defined molecular process programmed during thymocyte development, requires myriad pre–T cell receptors (preTCRs) and αβTCRs. Using x-ray crystallography, we show how a preTCR applies the concave β-sheet surface of its single variable domain (Vβ) to “horizontally” grab the protruding MHC α2-helix. By contrast, αβTCRs purpose all six complementarity-determining region (CDR) loops of their paired VαVβ module to recognize peptides bound to major histocompatibility complex molecules (pMHCs) in “vertical” head-to-head binding. Additionally, the preTCR topological fit ensures that CDR3β reaches the peptide’s featured C-terminal segment for pMHC sampling, establishing the subsequent αβTCR canonical docking mode. “Horizontal” docking precludes germline CDR1β- and CDR2β-MHC binding to broaden β-chain repertoire diversification before αβTCR-mediated selection refinement. Thus, one subunit successively attunes the recognition logic of related multicomponent receptors.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2023

Multiscale simulations reveal TDP-43 molecular-level interactions driving condensation

The RNA-binding protein TDP-43 is associated with mRNA processing and transport from the nucleus to the cytoplasm. TDP-43 localizes in the nucleus as well as accumulating in cytoplasmic condensates such as stress granules. Aggregation and formation of amyloid-like fibrils of cytoplasmic TDP-43 are hallmarks of numerous neurodegenerative diseases, most strikingly present in >90% of amyotrophic lateral sclerosis (ALS) patients. If excessive accumulation of cytoplasmic TDP-43 causes, or is caused by, neurodegeneration is presently not known. In this work, we use molecular dynamics simulations at multiple resolutions to explore TDP-43 self- and cross-interaction dynamics. A full-length molecular model of TDP-43, all 414 amino acids, was constructed from select structures of the protein functional domains (N-terminal domain, and two RNA recognition motifs, RRM1 and RRM2) and modeling of disordered connecting loops and the low complexity glycine-rich C-terminus domain. All-atom CHARMM36m simulations of single TDP-43 proteins served as guides to construct a coarse-grained Martini 3 model of TDP-43. The Martini model and a coarser implicit solvent Cα model, optimized for disordered proteins, were subsequently used to probe TDP-43 interactions; self-interactions from single-chain full-length TDP-43 simulations, cross-interactions from simulations with two proteins and simulations with assemblies of dozens to hundreds of proteins. Our findings illustrate the utility of different modeling scales for accessing TDP-43 molecular-level interactions and suggest that TDP-43 has numerous interaction preferences or patterns, exhibiting an overall strong, but dynamic, association and driving the formation of biomolecular condensates.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2015

Implementation of a new gamma spectrometer on the MERARG loop: Application to the volatile fission products release measurement

The MERARG facility initially aims at the annealing of irradiated fuel samples to study the gaseous fission products release kinetics. In order to complete the evaluation of the source term potentially released during accidental situation, the MERARG experimental circuit has been enhanced with a new gamma spectrometer. This one is directly sighting the fuel and is devoted to the fission products release kinetics. Because of the specificities of the fuel measurements, it has been dimensioned and designed to match the specific requirements. The acquisition chain and the collimation system have been optimized for this purpose and a first set of two experiments have shown the good functioning of this new spectrometry facility. (authors)

42 ENGINEERING↗
DOE OSTI2022

Implications of styrenic triblock copolymer gel mechanics on midblock bridging fraction

Triblock copolymer gels have garnered considerable scientific interest over the past few decades and are used in a variety of applications including consumer cushioning, pressure-sensitive adhesives, and ballistics gels. While many of their applications rely upon understanding mechanical properties, mechanical studies of block copolymer gels are relatively disjointed with each focusing on specific copolymers, which inherently have a fixed molecular weight and composition. Here, the present study examines the quasistatic mechanical response of styrenic triblock copolymer gels composed of seven unique triblock copolymers at various concentrations. Resultant stress-extension data is fitted with the slip-tube network (STN) theory that describes gel mechanics based upon crosslinked network (G c ) and chain entanglement (G e ) modulus contributions. Collectively, modulus contributions imply that midblock bridging is independent of copolymer identity (i.e., molecular weight and block fraction) and dependent on triblock copolymer concentration via F b ∝ φ ABA 0.91±0.39 over the concentration range examined (φ ABA = 0.05–0.39). Gels composed of a complementary diblock-triblock copolymer pair were subsequently analyzed to explore the influence of interlocking loop-loop and loop-bridge pairs within the effective midblock bridging population. These results point to the presence of a physically significant quantity of interlocked loops, but quantitative analysis was inconclusive.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗