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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 289 records · Page 16
All sourcesNASA NTRSDOE OSTI
DOE OSTI2022

Poly(cyclosilane) Connectivity Tunes Optical Absorbance

We report herein the influence of skeletal connectivity on the conformation-dependent optical properties of cyclosilane homo- and copolymers. 1,3-Linked cyclosilanes were bathochromically shifted by 20 nm in solution relative to 1,4-linked cyclosilanes, an effect reproduced by quantum chemical calculations on oligomeric model systems. Polysilane optical properties are conformation-dependent, and 1,3-linked cyclosilanes were hypothesized to adopt a favorable conformation unavailable to 1,4-linked cyclosilanes constrained to an endocyclic gauche conformation. Copolymerization of the isomeric cyclosilanes 1,3Si 6 and 1,4Si 6 afforded linear statistical copolymers, as characterized by 1 H and 29 Si NMR spectroscopies. The distinct connectivity of each comonomer was found to give rise to tunable absorption spectra, where the position of the absorption band systematically increased with the increased corporation of 1,3Si 6 . Computational studies pointed to conformation-dependent changes in orbital symmetry in shifting the most intense transition from the low-energy highest occupied molecular orbital (HOMO) → lowest unoccupied molecular orbital (LUMO) transition to a higher-energy HOMO → LUMO + n transition. Here, the results of these studies demonstrate for the first time the role of silicon skeletal connectivity in controlling conformation and optoelectronic properties and provide new insight into the structure-based design of solution-processable silicon-based polymeric materials.

36 MATERIALS SCIENCE↗
DOE OSTI2023

Bayesian calibration of viscous anisotropic hydrodynamic simulations of heavy-ion collisions

Owing to large pressure gradients at early times, standard hydrodynamic model simulations of relativistic heavy-ion collisions do not become reliable until O(1) fm/c after the collision. To address this one often introduces a prehydrodynamic stage that models the early evolution microscopically, typically as a conformal, weakly interacting gas. In such an approach the transition from the prehydrodynamic to the hydrodynamic stage is discontinuous, introducing considerable theoretical model ambiguity. Alternatively, fluids with large anisotropic pressure gradients can be handled macroscopically using the recently developed viscous anisotropic hydrodynamics (VAH). In high-energy heavy-ion collisions VAH is applicable already at very early times, and at later times transitions smoothly into conventional second-order viscous hydrodynamics. Here we present a Bayesian calibration of the VAH model with experimental data for Pb-Pb collisions at the LHC at $\sqrt{^{S}NN}$ = 2.76 A TeV. We find that the VAH model has the unique capability of constraining the specific viscosities of the quark-gluon plasma at higher temperatures than other previously used models.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗
DOE OSTI2025

Molecular model of TFIIH recruitment to the transcription-coupled repair machinery

Transcription-coupled repair (TCR) is a vital nucleotide excision repair sub-pathway that removes DNA lesions from actively transcribed DNA strands. Binding of CSB to lesion-stalled RNA Polymerase II (Pol II) initiates TCR by triggering the recruitment of downstream repair factors. Yet it remains unknown how transcription factor IIH (TFIIH) is recruited to the intact TCR complex. Combining existing structural data with AlphaFold predictions, we build an integrative model of the initial TFIIH-bound TCR complex. We show how TFIIH can be first recruited in an open repair-inhibited conformation, which requires subsequent CAK module removal and conformational closure to process damaged DNA. In our model, CSB, CSA, UVSSA, elongation factor 1 (ELOF1), and specific Pol II and UVSSA-bound ubiquitin moieties come together to provide interaction interfaces needed for TFIIH recruitment. STK19 acts as a linchpin of the assembly, orienting the incoming TFIIH and bridging Pol II to core TCR factors and DNA. Molecular simulations of the TCR-associated CRL4CSA ubiquitin ligase complex unveil the interplay of segmental DDB1 flexibility, continuous Cullin4A flexibility, and the key role of ELOF1 for Pol II ubiquitination that enables TCR. Collectively, these findings elucidate the coordinated assembly of repair proteins in early TCR.

Paul, Tanmoy↗
DOE OSTI2024

Holography and Regge phases with U(1) charge

Abstract We use holography to study the large spinJlimit of the spectrum of low energy states with chargeQunder a U(1) conserved current in CFTs ind> 2 dimensions, with a focus ond= 3 andd= 4. ForQ= 2, the spectrum of such states is known to be universal and properly captured by the long-distance limit of holographic theories, regardless of whether the CFT itself is holographic. We study in detail the holographic description of such states atQ> 2, by considering the contribution to the energies ofQscalar particles coming from single photon and graviton exchange in the bulk of AdS; in some cases, scalar exchange and bulk contact terms are also included. For a range of finite values ofQandJ, we numerically diagonalize the Hamiltonian for such states and examine the resulting spectrum and wavefunctions as a function of the dimension ∆ of the charge-one operator and the central charges$$ {c}_{\mathcal{T}} $$ c T ,$$ {c}_{\mathcal{J}} $$ c J of the stress tensor and U(1) current, finding multiple regions in parameter space with qualitatively different behavior. We discuss the extension of these results to the regime of parametrically large chargeQ, as well as to what extent such results are expected to hold universally, beyond the limit of holographic CFTs. We compare our holographic computations to results from the conformal bootstrap for the 3dO(2) model atQ= 3 andQ= 4 and find excellent agreement.

Physics↗
DOE OSTI2020

Building bulk geometry from the tensor Radon transform

Using the tensor Radon transform and related numerical methods, we study how bulk geometries can be explicitly reconstructed from boundary entanglement entropies in the specific case of AdS 3 /CFT 2 . We find that, given the boundary entanglement entropies of a 2d CFT, this framework provides a quantitative measure that detects whether the bulk dual is geometric in the perturbative (near AdS) limit. In the case where a well-defined bulk geometry exists, we explicitly reconstruct the unique bulk metric tensor once a gauge choice is made. We then examine the emergent bulk geometries for static and dynamical scenarios in holography and in many-body systems. Apart from the physics results, our work demonstrates that numerical methods are feasible and effective in the study of bulk reconstruction in AdS/CFT.

79 ASTRONOMY AND ASTROPHYSICS↗
DOE OSTI2022

Revealing a Hidden Intermediate of Rotatory Catalysis with X-ray Crystallography and Molecular Simulations

The mechanism of rotatory catalysis in ATPhydrolyzing molecular motors remains an unresolved puzzle in biological energy transfer. Notwithstanding the wealth of available biochemical and structural information inferred from years of experiments, knowledge on how the coupling between the chemical and mechanical steps within motors enforces directional rotatory movements remains fragmentary. Even more contentious is to pinpoint the rate-limiting step of a multistep rotation process. Here, using vacuolar or V 1 -type hexameric ATPase as an exemplary rotational motor, we present a model of the complete 4-step conformational cycle involved in rotatory catalysis. First, using Xray crystallography, a new intermediate or “dwell” is identified, which enables the release of an inorganic phosphate (or P i ) after ATP hydrolysis. Using molecular dynamics simulations, this new dwell is placed in a sequence with three other crystal structures to derive a putative cyclic rotation path. Free-energy simulations are employed to estimate the rate of the hexameric protein transformations and delineate allosteric effects that allow new reactant ATP entry only after hydrolysis product exit. An analysis of transfer entropy brings to light how the side-chain-level interactions transcend into larger-scale reorganizations, highlighting the role of the ubiquitous arginine-finger residues in coupling chemical and mechanical information. An inspection of all known rates encompassing the 4-step rotation mechanism implicates the overcoming of the ADP interactions with V 1 -ATPase to be the rate-limiting step of motor action.

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

Improving resolution and resolvability of single-particle cryoEM structures using Gaussian mixture models

Cryogenic electron microscopy is widely used in structural biology, but its resolution is often limited by the dynamics of the macromolecule. Here, we developed a refinement protocol based on Gaussian mixture models that integrates particle orientation and conformation estimation, and improves the alignment for flexible domains of protein structures. We demonstrated this protocol on multiple datasets, resulting in improved resolution and resolvability, locally and globally, by visual and quantitative measures.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2025

Structure of the D1-Val185Asn mutated photosystem II complex with slow O–O bond formation reveals changes in the Cl1 water channel

During photosynthesis, the photosystem II (PSII) enzyme catalyzes the light-driven oxidation of water, fueling life on Earth by storing light energy and releasing O 2 as a byproduct. Determining the molecular mechanism for this water oxidation reaction has been of significant interest for the development of synthetic catalysts, but many details remain elusive. One of the open questions is how protons are strategically removed from the active site, a Mn 4 CaO 5 cluster called the oxygen-evolving complex (OEC), during the reaction cycle via conserved water channels, and how proton transfer contributes to O–O bond formation energetics. Site-directed mutagenesis studies have investigated the role of conserved amino acid side chains in facilitating proton transfer. One of the most influential mutations is the Val185Asn substitution on the D1 subunit, which substantially slows O 2 release kinetics without abolishing catalytic activity. Forming a molecular understanding of how this mutation affects the active site will provide insight into the water oxidation reaction mechanism. Here, we investigated the structural basis of the Val185Asn substitution by determining a 1.99 Å-resolution cryo-EM structure. We observed that Asn185 orients away from the OEC and donates a H-bond to Cl1, a conserved chloride ion. We furthermore observed an alternative D2-Glu312-facing conformation of the D2-Lys317 side chain in the Cl1 water channel, a conformation that is consistent with recent models for proton transfer. These changes also produce perturbations to the hydrogen-bonding network. Overall, these finding provide insight into proton transfer in the Cl1 channel and its effect on the water oxidation reaction mechanism.

cryo-EM↗
DOE OSTI2023

The DESI One-Percent survey: exploring the Halo Occupation Distribution of Emission Line Galaxies with AbacusSummit simulations

The One-Percent survey of the Dark Energy Spectroscopic Instrument collected ~ 270k emission line galaxies (ELGs) at 0.8 < z < 1.6. The high completeness of the sample allowed the clustering to be measured down to scales never probed before, 0.04 Mpc/h in rp for the projected 2-point correlation function (2PCF) and 0.17 Mpc/h in galaxy pair separation s for the 2PCF monopole and quadrupole. The most striking feature of the measurements is a strong signal at the smallest scales, below 0.2 Mpc/h in rp and 1 Mpc/h in s. We analyse these data in the halo occupation distribution framework. We consider different distributions for central galaxies, a standard power law for satellites with no condition on the presence of a central galaxy and explore several extensions of these models. For all considered models, the mean halo mass of the sample is found to be log10 $\langle$Mh$\rangle$ ~ 11.9. We obtain a satellite mean occupation function which agrees with physically motivated ELG models only if we introduce central-satellite conformity, meaning that the satellite occupation is conditioned by the presence of central galaxies of the same type. To achieve in addition a good modelling of the clustering between 0.1 and 1 Mpc/h in rp, we allow for ELG positioning outside of the halo virial radius and find 0.5% of ELGs residing in the outskirts of halos. Furthermore, the satellite velocity dispersion inside halos is found to be ~ 30% larger than that of the halo dark matter particles. These are the main findings of our work. Here we investigate assembly bias as a function of halo concentration, local density or local density anisotropies and observe no significant change in our results. We split the data sample in two redshift bins and report no significant evolution with redshift. Lastly, changing the cosmology in the modelling impacts only slightly our results.

79 ASTRONOMY AND ASTROPHYSICS↗
DOE OSTI2021

Consumption Patterns of a Generalist Omnivore: Eastern Box Turtle Diets in the Long Island Pine Barrens

Eastern Box Turtles (Terrapene carolina) are diet generalists and as such are predicted to have diverse diets in which familiar, low-quality foods are eaten consistently at low levels, and high-quality foods are rare but eaten whenever available. Previous work showed that they feed opportunistically on seasonally available plants (shoots, leaves, flowers, and fruit), invertebrates, mushrooms, and occasionally carrion. We used fecal samples to test optimal foraging predictions relevant to diet generalists and also whether the Eastern Box Turtle diets varied seasonally in a northeastern U.S. pine-oak habitat. We found that in-depth prey species consumption patterns of six different individuals were similar to those of the sampled population overall. Leaf and stem material was consumed by 100% of the turtles in all months despite being lower-quality than other prey available. Invertebrates were consumed by at least 80% of turtles in every study period; Coleopterans were found more commonly than other invertebrates. Snails were not eaten by more than 20% of the turtles in any study period, and mushroom consumption varied from 31–75% of samples in different study periods. Monthly diet overlap was measured using both Pianka’s Index of Overlap (PIO) and the Morisita–Horn Index (MH). The PIO method indicated that the prey consumption patterns were broadly similar from June–October, while the M–H method showed that only the July vs. August comparison was highly similar. The turtle diets changed only slightly between seasons, and they conform to predictions of diet generalist models usually applied to mammals.

54 ENVIRONMENTAL SCIENCES↗
NASA NTRS1975

System consideration, design approach and test of a low gain spherical coverage antenna for large space vehicles

A fixed beam array antenna approach is proposed to meet the omnidirectional receiving and transmitting requirements of LST (Large Space Telescope). The proposed method uses an antenna of known performance and scales the size and frequency to conform with the LST 1/5-th scale model. The simplification that the approach provides over switching antenna elements on board the LST or switching from the ground by frequency diversity makes it worthy of consideration against the factors of performance, cost, reliability, and operations complexity. For LST applications, the system capabilities, requirements, and margins are summarized. The areas to be covered by further investigations into the proposed LST antenna are noted.

Ferguson, R. E.↗
NASA NTRS1983

Contouring tunnel walls to achieve free-air flow over a transonic swept wing

The effects of wind-tunnel walls on the flow over a swept wing were greatly reduced by wall contouring. Significant reductions in spanwise pressure gradients were achieved by shaping all of the walls to conform to the streamlines over the model in free air. Surface pressure and oil-flow data were used to evaluate the effects of Mach and Reynolds numbers on the design. Comparisons of these data with inviscid calculations indicate that free-air flow is established at a Mach number of 0.74 and at Reynolds numbers above 4.7 million.

Mateer, G. G.↗
NASA NTRS1987

Prediction of vortex shedding from circular and noncircular bodies in subsonic flow

An engineering prediction method and associated computer code VTXCLD are presented which predict nose vortex shedding from circular and noncircular bodies in subsonic flow at angles of attack and roll. The axisymmetric body is represented by point sources and doublets, and noncircular cross sections are transformed to a circle by either analytical or numerical conformal transformations. The leeward vortices are modeled by discrete vortices in crossflow planes along the body; thus, the three-dimensional steady flow problem is reduced to a two-dimensional, unsteady, separated flow problem for solution. Comparison of measured and predicted surface pressure distributions, flowfield surveys, and aerodynamic characteristics are presented for bodies with circular and noncircular cross sectional shapes.

Mendenhall, Michael R.↗
NASA NTRS1994

Protein structure, electron transfer and evolution of prokaryotic photosynthetic reaction centers

Photosynthetic reaction centers from a variety of organisms have been isolated and characterized. The groups of prokaryotic photosynthetic organisms include the purple bacteria, the filamentous green bacteria, the green sulfur bacteria and the heliobacteria as anoxygenic representatives as well as the cyanobacteria and prochlorophytes as oxygenic representatives. This review focuses on structural and functional comparisons of the various groups of photosynthetic reaction centers and considers possible evolutionary scenarios to explain the diversity of existing photosynthetic organisms.

NASA Discipline Exobiology↗
NASA NTRSDate not supplied

Small Satellite-sized Hypersonic Inflatable Aerodynamic Decelerators for Interplanetary Science Missions

To make the most of ridesharing opportunities, small satellite (SmallSat) mission designers endeavor to pack as much payload into a SmallSat-class form factor as possible. The mass and volume constraints of this smaller vehicle class present a challenge for interplanetary mission sets that require a means of achieving orbit insertion at their destination of interest. For a fully propulsive orbit insertion design, this may translate to the propellant mass being a significant fraction of the overall vehicle mass and prolonged insertion time. Aerocapture is a single quick maneuver that can significantly reduce the required propellant mass for orbit insertion. Because aerocapture uses a planet’s atmosphere to achieve the necessary change in velocity, a protective aeroshell is needed. The constraints imposed on secondary payloads render traditional rigid aeroshells mass and space prohibitive for the SmallSat class of vehicles; thus, warranting consideration of deployable designs that can be stowed compactly until needed for atmospheric entry. The Hypersonic Inflatable Aerodynamic Decelerator (HIAD) is a deployable aeroshell that leverages inflatable toroids to achieve the large drag area needed for aerodynamic deceleration. While the technology is currently being analyzed for Mars human-scale missions, it has the potential applicability for interplanetary SmallSat-scale missions as well. This paper highlights a study conducted during an internship at NASA Langley Research Center to investigate the feasibility of using a scaled-down HIAD design in SmallSat aerocapture missions. Several scaling methodologies are investigated including use of parametric models and direct computer-aided design (CAD) model scaling. Candidate HIAD configurations that conform to secondary payload adapter requirements are identified. The Program to Optimize Simulated Trajectories II (POST2) is utilized to conduct orbit insertion performance and trajectory sensitivity studies using the candidate configurations at Earth, Venus, and Mars. The results of the study indicate that multiple SmallSat-sized HIAD designs, targeting a range of SmallSat payload classes, are feasible for planetary aerocapture missions to Mars and Venus as well as Earth-based aerocapture missions.

Shelly C. Mann↗
DOE OSTI2021

Translation of DNA Damage Response Inhibitors as Chemoradiation Sensitizers From the Laboratory to the Clinic

Combination therapies with agents targeting the DNA damage response (DDR) offer an opportunity to selectively enhance the therapeutic index of chemoradiation or eliminate use of chemotherapy altogether. The successful translation of DDR inhibitors to clinical use requires investigating both their direct actions as (chemo)radiosensitizers and their potential to stimulate tumor immunogenicity. Beginning with high-throughput screening using both viability and DNA damage-reporter assays, followed by validation in gold-standard radiation colony-forming assays and in vitro assessment of mechanistic effects on the DDR, we describe proven strategies and methods leading to the clinical development of DDR inhibitors both with radiation alone and in combination with chemoradiation. Beyond these in vitro studies, we discuss the impact of key features of human xenograft and syngeneic mouse models on the relevance of in vivo tumor efficacy studies, particularly with regard to the immunogenic effects of combined therapy with radiation and DDR inhibitors. Finally, we describe recent technological advances in radiation delivery (using the small animal radiation research platform) that allow for conformal, clinically relevant radiation therapy in mouse models. This overall approach is critical to the successful clinical development and ultimate Food and Drug Administration approval of DDR inhibitors as (chemo)radiation sensitizers.

62 RADIOLOGY AND NUCLEAR MEDICINE↗
NASA NTRS1978

Ames interactive molecular model building system - A 3-D computer modelling system applied to the study of the origin of life

The investigation of specific interactions among biological molecules must take into consideration the stereochemistry of the structures. Thus, models of the molecules are essential for describing the spatial organization of potentially interacting groups, and estimations of conformation are required for a description of spatial organization. Both the function of visualizing molecules, and that of estimating conformation through calculations of energy, are part of the molecular modeling system described in the present paper. The potential uses of the system in investigating some aspects of the origin of life rest on the assumption that translation of conformation from genetic elements to catalytic elements would have been required for the development of the first replicating systems subject to the process of biological evolution.

Coeckelenbergh, Y.↗