Engineering Papers⌕ Search

SEARCH · Engineering Papers

Results for “alternative”

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.

Quote a phrase for an exact phrase match. Source license links do not imply unrestricted reuse.

At least 1,747 records · Page 97
All sourcesNASA NTRSDOE OSTI
DOE OSTI2021

A conserved epitope III on hepatitis C virus E2 protein has alternate conformations facilitating cell binding or virus neutralization

Epitope III, a highly conserved amino acid motif of 524 APTYSW 529 on the hepatitis C virus (HCV) E2 glycoprotein, resides in the critical loop that binds to the host receptor CD81, thus making it one of the most important antibody targets for blocking HCV infections. Here, we have determined the X-ray crystal structure of epitope III at a 2.0-Å resolution when it was captured by a site-specific neutralizing antibody, monoclonal antibody 1H8 (mAb1H8). The snapshot of this complex revealed that epitope III has a relatively rigid structure when confined in the binding grooves of mAb1H8, which confers the residue specificity at both ends of the epitope. Such a high shape complementarity is reminiscent of the “lock and key” mode of action, which is reinforced by the incompatibility of an antibody binding with an epitope bearing specific mutations. By subtly positioning the side chains on the three residues of Tyr 527 , Ser 528 , and Trp 529 while preserving the spatial rigidity of the rest, epitope III in this cocrystal complex adopts a unique conformation that is different from previously described E2 structures. With further analyses of molecular docking and phage display–based peptide interactions, we recognized that it is the arrangements of two separate sets of residues within epitope III that create these discrete conformations for the epitope to interact selectively with either mAb1H8 or CD81. These observations thus raise the possibility that local epitope III conformational dynamics, in conjunction with sequence variations, may act as a regulatory mechanism to coordinate “mAb1H8-like” antibody-mediated immune defenses with CD81-initiated HCV infections.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2024

Molecular-level design of alternative media for energy-saving pilot-scale fibrillation of nanocellulose

The outstanding mechanical properties, light weight, and biodegradability of cellulose nanofibrils (CNFs) make them promising components of renewable and sustainable next-generation reinforced composite biomaterials and bioplastics. Manufacturing CNFs at a pilot scale requires disc-refining fibrillation of dilute cellulose fibers in aqueous pulp suspensions to shear the fibers apart into their nanodimensional forms, which is, however, an energy-intensive process. Here, in this study, we used atomistic molecular dynamics (MD) simulation to examine media that might facilitate the reduction of interactions between cellulose fibers, thereby reducing energy consumption in fibrillation. The most suitable medium found by the simulations was an aqueous solution with 0.007:0.012 wt.% NaOH:urea, and indeed this was found in pilot-scale experiments to reduce the fibrillation energy by ~21% on average relative to water alone. The NaOH:urea-mediated CNFs have similar crystallinity, morphology, and mechanical strength to those formed in water. The NaOH and urea act synergistically on CNFs to aid fibrillation but at different length scales. NaOH deprotonates hydroxyl groups leading to mesoscale electrostatic repulsion between fibrils, whereas urea forms hydrogen bonds with protonated hydroxyl groups thus disrupting interfibril hydrogen bonds. This suggests a general mechanism in which an aqueous medium that contains a strong base and a small organic molecule acting as a hydrogen-bond acceptor and/or donor may be effectively employed in materials processes where dispersion of deprotonable polymers is required. The study demonstrates how atomic-detail computer simulation can be integrated with pilot-scale experiments in the rational design of materials processes for the circular bioeconomy.

36 MATERIALS SCIENCE↗
DOE OSTI2015

Alternative Binding Modes Identified for Growth and Differentiation Factor-associated Serum Protein (GASP) Family Antagonism of Myostatin

Myostatin, a member of the TGF-β family of ligands, is a strong negative regulator of muscle growth. As such, it is a prime therapeutic target for muscle wasting disorders. Similar to other TGF-β family ligands, myostatin is neutralized by binding one of a number of structurally diverse antagonists. Included are the antagonists GASP-1 and GASP-2, which are unique in that they specifically antagonize myostatin. However, little is known from a structural standpoint describing the interactions of GASP antagonists with myostatin. In this paper, we present the First low resolution solution structure of myostatin-free and myostatin-bound states of GASP-1 and GASP-2. Our studies have revealed GASP-1, which is 100 times more potent than GASP-2, preferentially binds myostatin in an asymmetrical 1:1 complex, whereas GASP-2 binds in a symmetrical 2:1 complex. Additionally, C-terminal truncations of GASP-1 result in less potent myostatin inhibitors that form a 2:1 complex, suggesting that the C-terminal domains of GASP-1 are the primary mediators for asymmetric complex formation. Overall, this study provides a new perspective on TGF-β antagonism, where closely related antagonists can utilize different ligand-binding strategies.

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

Two alternative binding mechanisms connect the protein translocation Sec71-Sec72 complex with heat shock proteins

The biosynthesis of many eukaryotic proteins requires accurate targeting to and translocation across the endoplasmic reticulum membrane. Post-translational protein translocation in yeast requires both the Sec61 translocation channel, and a complex of four additional proteins: Sec63, Sec62, Sec71, and Sec72. The structure and function of these proteins are largely unknown. This pathway also requires the cytosolic Hsp70 protein Ssa1, but whether Ssa1 associates with the translocation machinery to target protein substrates to the membrane is unclear. Here, we use a combined structural and biochemical approach to explore the role of Sec71-Sec72 subcomplex in post-translational protein translocation. To this end, we report a crystal structure of the Sec71-Sec72 complex, which revealed that Sec72 contains a tetratricopeptide repeat (TPR) domain that is anchored to the endoplasmic reticulum membrane by Sec71. We also determined the crystal structure of this TPR domain with a C-terminal peptide derived from Ssa1, which suggests how Sec72 interacts with full-length Ssa1. Surprisingly, Ssb1, a cytoplasmic Hsp70 that binds ribosome-associated nascent polypeptide chains, also binds to the TPR domain of Sec72, even though it lacks the TPR-binding C-terminal residues of Ssa1. We demonstrate that Ssb1 binds through its ATPase domain to the TPR domain, an interaction that leads to inhibition of nucleotide exchange. Taken together, our results suggest that translocation substrates can be recruited to the Sec71-Sec72 complex either post-translationally through Ssa1 or co-translationally through Ssb1.

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

Alternative pathways utilize or circumvent putrescine for biosynthesis of putrescine-containing rhizoferrin

The siderophore rhizoferrin (N 1 ,N 4 -dicitrylputrescine) is produced in fungi and bacteria to scavenge iron. Putrescine-producing bacterium Ralstonia pickettii synthesizes rhizoferrin and encodes a single nonribosomal peptide synthetase-independent siderophore (NIS) synthetase. From biosynthetic logic, we hypothesized that this single enzyme is sufficient for rhizoferrin biosynthesis. We confirmed this by expression of R. pickettii NIS synthetase in Escherichia coli, resulting in rhizoferrin production. This was further confirmed in vitro using the recombinant NIS synthetase, synthesizing rhizoferrin from putrescine and citrate. Heterologous expression of homologous lbtA from Legionella pneumophila, required for rhizoferrin biosynthesis in that species, produced siderophore activity in E. coli. Rhizoferrin is also synthesized by Francisella tularensis and Francisella novicida, but unlike R. pickettii or L. pneumophila, Francisella species lack putrescine biosynthetic pathways because of genomic decay. Francisella encodes a NIS synthetase FslA/FigA and an ornithine decarboxylase homolog FslC/FigC, required for rhizoferrin biosynthesis. Ornithine decarboxylase produces putrescine from ornithine, but we show here in vitro that FigA synthesizes N-citrylornithine, and FigC is an N-citrylornithine decarboxylase that together synthesize rhizoferrin without using putrescine. We co-expressed F. novicida figA and figC in E. coli and produced rhizoferrin. A 2.1 Å X-ray crystal structure of the FigC N-citrylornithine decarboxylase reveals how the larger substrate is accommodated and how active site residues have changed to recognize N-citrylornithine. FigC belongs to a new subfamily of alanine racemase-fold PLP-dependent decarboxylases that are not involved in polyamine biosynthesis. These data reveal a natural product biosynthetic workaround that evolved to bypass a missing precursor and re-establish it in the final structure.

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

Alternative Designs and Analyses for Destructive and Non-replicable Gauge R &R Studies

This article presents new designs and their analyses for destructive and non-replicable gauge R & R studies. Less restrictive assumptions about destructive measurements on “similar” parts and non-replicable measurements made over time or space than have been made previously in the literature are proposed; only couples of “nearly identical” parts are proposed for destructive measurements and quadruples involving two operators are proposed for non-replicable measurements that avoid having to estimate a common trend and removing it. In this work, these new designs based on balanced incomplete block designs and their analyses are illustrated with simulated examples that confirm that with them such measurements systems can be assessed.

42 ENGINEERING↗
DOE OSTI2018

A Framework for Assessing Alternate Proliferation Pathways In The Age Of Non-State Actors

While the nonproliferation community has long acknowledged the possibility of nuclear terrorism, its prevention has become a central focus area in recent years. For decades it has been assumed that, with access to special nuclear material (SNM), the steps to indigenously develop an improvised nuclear device are within the reach of non-state actors. At the same time, indigenous development of the SNM itself has generally been dismissed as it is perceived as an infeasible option. Recognizing how recent trends of technology democratization, the open exchange of information, and globalization have eroded certain barriers to proliferation by non-state actors, this research explores whether indigenous development of SNM is feasible given the current capabilities of non-state actors. In addition, methods were developed to screen which approaches should be further investigated to devise and enact general and non-state actor specific countermeasures.

11 NUCLEAR FUEL CYCLE AND FUEL MATERIALS↗
DOE OSTI2017

Evaluation of alternative filter media for particulate matter emission testing of residential wood heating devices

The performance of Teflon-coated glass fiber filter media (Pallflex Emfab TX40) is evaluated for particulate matter (PM) sampling of residential wood heating devices in a dilution tunnel. Thirty samples of varying duration and PM loading and concentration were collected from an U.S. Environmental Protection Agency (EPA) Method 28 dilution tunnel using dual Method 5G sample trains with untreated glass fiber and Emfab filters. Filters were weighed soon after the end of sampling and again the next day after equilibration at 35% relative humidity (RH). PM concentrations from both types of filters agreed very well with 1-day equilibration, demonstrating that Emfab filters are appropriate for use in measuring PM from residential wood burning appliances in a dilution tunnel and have performance equal to or better than the glass fiber filter media. Agreement between filter media without equilibration was erratic, with PM from glass fiber filter samples varying from slightly less than the Emfab samples to as much as 2.8 times higher. Some of the glass fiber filters lost substantial mass with equilibration, with the highest percent loss at lower filter mass loadings. Mass loss for Emfab samples was a small percentage of the mass and very consistent across the range of mass loadings. Taken together, these results may indicate water uptake on the glass fiber media that is readily removed with 1-day equilibration at moderate RH conditions. Implications: EPA regulations now allow the use of either glass fiber or Teflon filter media for wood appliance PM emission testing. Teflon filter media minimizes the potential for acid-gas PM artifacts on glass fiber filters; this is important as EPA moves toward the use of locally sourced cordwood for testing that may have higher sulfur content. This work demonstrates that the use of Teflon-coated glass fiber filters can give similar PM measurement results to glass fiber filters after 1 day of equilibration. With no equilibration, measured PM from glass fiber filters was usually higher than from Teflon-coated glass fiber filters.

29 ENERGY PLANNING, POLICY, AND ECONOMY↗
DOE OSTI2018

An Alternative to the Continued Accumulation of Separated Plutonium in Japan: Dry Cask Storage of Spent Fuel

As of the end of 2017, Japan had a stockpile of 48 tons of separated plutonium. It will take more than a decade for Japan to convert most of that plutonium into “mixed-oxide” (MOX) fuel and load it into power reactors licensed to use such fuel. This is a very costly program. Including the cost of reprocessing, MOX fuel costs about ten times more than the low-enriched-uranium fuel that otherwise would be used by these reactors. Yet Japan has a policy to start separating more plutonium from spent reactor fuel as soon as the Rokkasho Reprocessing Plant can be put into operation – currently projected for 2021 after 24 years of delay due to a variety of technical problems and upgrades in safety requirements. Japan’s government remains committed to this costly and troubled program primarily because, pending the availability of additional spent-fuel storage space on or off site, reprocessing is seen as the only way to get spent fuel out of reactor pools that are getting full. Because of concerns about the safety of dense-packed spent-fuel pools, however, the prefectures and towns hosting Japan’s power reactors are beginning to accept on-site storage of spent fuel in dry casks. This is the option the United States and many other countries chose after they cancelled their reprocessing programs and their powerplant pools filled up. Its increasing availability in Japan, if backed by a determined policy to accelerate its introduction, should make it possible to cancel reprocessing in Japan as well.

11 NUCLEAR FUEL CYCLE AND FUEL MATERIALS↗
DOE OSTI2015

OPTICALLY THICK H I DOMINANT IN THE LOCAL INTERSTELLAR MEDIUM: AN ALTERNATIVE INTERPRETATION TO ''DARK GAS''

Dark gas in the interstellar medium (ISM) is believed to not be detectable either in CO or H I radio emission, but it is detectable by other means including γ rays, dust emission, and extinction traced outside the Galactic plane at |b| > 5°. In these analyses, the 21 cm H I emission is usually assumed to be completely optically thin. We have reanalyzed the H I emission from the whole sky at |b| > 15° by considering temperature stratification in the ISM inferred from the Planck/IRAS analysis of the dust properties. The results indicate that the H I emission is saturated with an optical depth ranging from 0.5 to 3 for 85% of the local H I gas. This optically thick H I is characterized by spin temperature in the range 10 K-60 K, significantly lower than previously postulated in the literature, whereas such low temperature is consistent with emission/absorption measurements of the cool H I toward radio continuum sources. The distribution and the column density of the H I are consistent with those of the dark gas suggested by γ rays, and it is possible that the dark gas in the Galaxy is dominated by optically thick cold H I gas. This result implies that the average density of H I is 2-2.5 times higher than that derived on the optically thin assumption in the local ISM.

79 ASTRONOMY AND ASTROPHYSICS↗
DOE OSTI2015

Better alternatives to “astronomical silicate”: Laboratory-based optical functions of chondritic/solar abundance glass with application to HD 161796

“Astronomical” or “circumstellar” silicate optical functions (real and imaginary indices of refraction n(λ) and k(λ)) have previously been derived from compositionally and structurally disparate samples; past values were compiled from different sources in the literature, and are essentially kluges of observational, laboratory, and extrapolated or interpolated values. These synthetic optical functions were created because astronomers lack the quantitative data on amorphous silicates at all wavelengths needed for radiative transfer modeling. This paper provides optical functions that (1) are created with a consistent methodology, (2) use the same sample across all wavelengths, and (3) minimize interpolation and extrapolation wherever possible. We present electronic data tables of optical functions derived from mid-ultraviolet to far-infrared (FIR) laboratory transmission spectra for two materials: iron-free glass with chondritic/solar atmospheric abundances, and metallic iron. We compare these optical functions to other popular n, k data used to model amorphous silicates (e.g., “astronomical” or “circumstellar” silicate), both directly and in application to a simple system: the dust shell of the post-AGB star HD 161796. Using the new optical functions, we find that the FIR profile of model spectral energy distributions are significantly affected by the ratio of glass to iron. Our case study on HD 161796 shows that in modeling with our new optical functions, the mineralogy is markedly different from that derived using synthetic optical functions and suggests a new scenario of crystalline silicate formation.

79 ASTRONOMY AND ASTROPHYSICS↗
DOE OSTI2024

Inflation alternative via the gravitational field of a singularity

Abstract We explore the scenario that the observable Universe emerged from the vicinity of a negative mass ring singularity, and all content of the Universe travels at the same group velocity close to the speed of light on a geodesic trajectory along the axis of rotation of the singularity. In appropriate coordinate parametrization and evaluated on the trajectory, we find that the metric tensor in the vicinity of the trajectory exhibits a conformal scale factor a ( η ) with contraction and subsequent expansion properties that solve the horizon problem. We then introduce a static flow of gravitating radiation along the trajectory (perturbatively with respect to the mass scale of the singularity) to model a homogeneous radiation dominated Universe. Solving the Einstein field equations with a physically motivated ansatz of metric perturbation then reveals that the effective conformal scale factor indeed grows asymptotically with the same power law as expected in a conventional radiation dominated Universe.

Astronomy & Astrophysics↗