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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 19 records
All sourcesNASA NTRSDOE OSTI
DOE OSTI2023

Sulfonamidoboronic Acids as “Cross-Class” Inhibitors of an Expanded-Spectrum Class C Cephalosporinase, ADC-33, and a Class D Carbapenemase, OXA-24/40: Strategic Compound Design to Combat Resistance in Acinetobacter baumannii

Acinetobacter baumannii is a Gram-negative organism listed as an urgent threat pathogen by the World Health Organization (WHO). Carbapenem-resistant A. baumannii (CRAB), especially, present therapeutic challenges due to complex mechanisms of resistance to β-lactams. One of the most important mechanisms is the production of β-lactamase enzymes capable of hydrolyzing β-lactam antibiotics. Co-expression of multiple classes of β-lactamases is present in CRAB; therefore, the design and synthesis of “cross-class” inhibitors is an important strategy to preserve the efficacy of currently available antibiotics. To identify new, nonclassical β-lactamase inhibitors, we previously identified a sulfonamidomethaneboronic acid CR167 active against Acinetobacter-derived class C β-lactamases (ADC-7). The compound demonstrated affinity for ADC-7 with a K i = 160 nM and proved to be able to decrease MIC values of ceftazidime and cefotaxime in different bacterial strains. Herein, we describe the activity of CR167 against other β-lactamases in A. baumannii: the cefepime-hydrolysing class C extended-spectrum β-lactamase (ESAC) ADC-33 and the carbapenem-hydrolyzing OXA-24/40 (class D). These investigations demonstrate CR167 as a valuable cross-class (C and D) inhibitor, and the paper describes our attempts to further improve its activity. Five chiral analogues of CR167 were rationally designed and synthesized. The structures of OXA-24/40 and ADC-33 in complex with CR167 and select chiral analogues were obtained. The structure activity relationships (SARs) are highlighted, offering insights into the main determinants for cross-class C/D inhibitors and impetus for novel drug design.

60 APPLIED LIFE SCIENCES↗
DOE OSTI2015

Crystallization and x-ray diffraction analysis of a putative bacterial class I labdane-related diterpene synthase [Crysallization and preliminary x-ray diffraction analysis of a bacterial class I labdane-related diterpene synthase]

Here, labdane-related diterpenoids are natural products with potential pharmaceutical applications that are rarely found in bacteria. Here, a putative class I labdane-related diterpene synthase (LrdC) identified by genome mining in a streptomycete was successfully crystallized using the microbatch method. Crystals of the LrdC enzyme were obtained in a holo form with its natural cofactor Mg 2+ (LrdC-Mg 2+ ) and in complex with inorganic pyrophosphate (PP i ) (LrdC-Mg 2+ –PP i ). Crystals of native LrdC-Mg 2+ diffracted to 2.50 Å resolution and belonged to the trigonal space group P3 2 21, with unit-cell parameters a = b = 107.1, c = 89.2 Å. Crystals of the LrdC-Mg 2+ –PP i complex grown in the same conditions as the native enzyme with PEG 8000 diffracted to 2.36 Å resolution and also belonged to the trigonal space group P3 2 21. Crystals of the LrdC-Mg 2+ –PP i complex grown in a second crystallization condition with PEG 3350 diffracted to 2.57 Å resolution and belonged to the monoclinic space group P2 1 , with unit-cell parameters a = 49.9, b = 104.1, c = 66.5 Å, β = 111.4°. The structure was determined by the single-wavelength anomalous dispersion (SAD) technique using the osmium signal from a potassium hexachloroosmate (IV) derivative.

36 MATERIALS SCIENCE↗
DOE OSTI2014

Spectral energy distribution analysis of class I and class II FU Orionis stars

FU Orionis stars (FUors) are eruptive pre-main sequence objects thought to represent quasi-periodic or recurring stages of enhanced accretion during the low-mass star-forming process. We characterize the sample of known and candidate FUors in a homogeneous and consistent way, deriving stellar and circumstellar parameters for each object. We emphasize the analysis in those parameters that are supposed to vary during the FUor stage. We modeled the spectral energy distributions of 24 of the 26 currently known FUors, using the radiative transfer code of Whitney et al. We compare our models with those obtained by Robitaille et al. for Taurus class II and I sources in quiescence periods by calculating the cumulative distribution of the different parameters. FUors have more massive disks: we find that ∼80% of the disks in FUors are more massive than any Taurus class II and I sources in the sample. Median values for the disk mass accretion rates are ∼10{sup –7} M {sub ☉} yr{sup –1} versus ∼10{sup –5} M {sub ☉} yr{sup –1} for standard young stellar objects (YSOs) and FUors, respectively. While the distributions of envelope mass accretion rates for class I FUors and standard class I objects are similar, FUors, on average, have higher envelope mass accretion rates than standard class II and class I sources. Most FUors (∼70%) have envelope mass accretion rates above 10{sup –7} M {sub ☉} yr{sup –1}. In contrast, 60% of the classical YSO sample has an accretion rate below this value. Our results support the current scenario in which changes experimented by the circumstellar disk explain the observed properties of these stars. However, the increase in the disk mass accretion rate is smaller than theoretically predicted, although in good agreement with previous determinations.

79 ASTRONOMY AND ASTROPHYSICS↗
DOE OSTI2015

THE Ch-CLASS ASTEROIDS: CONNECTING A VISIBLE TAXONOMIC CLASS TO A 3 μm BAND SHAPE

Asteroids belonging to the Ch spectral taxonomic class are defined by the presence of an absorption near 0.7 μm, which is interpreted as due to Fe-bearing phyllosilicates. Phyllosilicates also cause strong absorptions in the 3 μm region, as do other hydrated and hydroxylated minerals and H{sub 2}O ice. Over the past decade, spectral observations have revealed different 3 μm band shapes in the asteroid population. Although a formal taxonomy is yet to be fully established, the “Pallas-type” spectral group is most consistent with the presence of phyllosilicates. If Ch class and Pallas type are both indicative of phyllosilicates, then all Ch-class asteroids should also be Pallas-type. In order to test this hypothesis, we obtained 42 observations of 36 Ch-class asteroids in the 2 to 4 μm spectral region. We found that 88% of the spectra have 3 μm band shapes most consistent with the Pallas-type group. This is the first asteroid class for which such a strong correlation has been found. Because the Ch class is defined by the presence of an absorption near 0.7 μm, this demonstrates that the 0.7 μm band serves not only as a proxy for the presence of a band in the 3 μm region, but specifically for the presence of Pallas-type bands. There is some evidence for a correlation between band depth at 2.95 μm and absolute magnitude and/or albedo. However, we find only weak correlations between 2.95 μm band depth and semimajor axis. The connection between band depths in the 0.7 and 3 μm regions is complex and in need of further investigation.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
DOE OSTI2020

Development and Demonstration of a Class 6 Range-Extended Electric Vehicle for Commercial Pickup and Delivery Operation: Preprint

Range-extended hybrids are an attractive option for medium- and heavy-duty commercial vehicle fleets because they offer the efficiency of an electrified powertrain with the driving range of a conventional diesel powertrain. The vehicle essentially operates as if it was purely electric for most trips, while ensuring that all commercial routes can be completed in any weather conditions or geographic terrain. Fuel use and point-source emissions can be significantly reduced, and in some cases eliminated, as many shorter routes can be fully electrified with this architecture. Under a U.S. Department of Energy (DOE)-funded project for Medium- and Heavy-Duty Vehicle Powertrain Electrification, Cummins has developed a plug-in hybrid electric Class 6 truck with a range-extending engine designed for pickup and delivery application. The National Renewable Energy Laboratory (NREL) assisted by developing representative workday drive cycles for Class 6 operation and an adapted cycle to enable vehicle track testing. A novel, automated driving system was utilized by Southwest Research Institute (SwRI) to improve the repeatability of the track testing conducted to quantify vehicle energy consumption. Cummins used a drivetrain model to design the hybrid control system for increased fuel savings. The control system functionality and fuel savings objective of 50% or more were confirmed by track testing described in this paper.

ADVANCED PROPULSION SYSTEMS↗
DOE OSTI2016

Exploring the Mechanism of β-Lactam Ring Protonation in the Class A β-lactamase Acylation Mechanism Using Neutron and X-ray Crystallography

The catalytic mechanism of class A beta-lactamases is often debated due in part to the large number of amino acids that interact with bound beta-lactam substrates. The role and function of the conserved residue Lys 73 in the catalytic mechanism of class A type beta-lactamase enzymes is still not well understood after decades of scientific research. To better elucidate the functions of this vital residue, we used both neutron and high-resolution X-ray diffraction to examine both the structures of the ligand free protein and the acyl-enzyme complex of perdeuterated E166A Toho-1 beta-lactamase with the antibiotic cefotaxime. The E166A mutant lacks a critical glutamate residue that has a key role in the deacylation step of the catalytic mechanism, allowing the acyl-enzyme adduct to be captured for study. In our ligand free structures, Lys 73 is present in a single conformation, however in all of our acyl-enzyme structures, Lys 73 is present in two different conformations, in which one conformer is closer to Ser 70 while the other conformer is positioned closer to Ser 130, which supports the existence of a possible pathway by which proton transfer from Lys 73 to Ser 130 can occur. This and further clarifications of the role of Lys 73 in the acylation mechanism may facilitate the design of inhibitors that capitalize on the enzymes native machinery.

38 RADIATION CHEMISTRY, RADIOCHEMISTRY, AND NUCLEA↗
DOE OSTI2012

ON THE NATURE OF THE GAMMA-RAY SOURCE 2FGL J1823.8+4312: THE DISCOVERY OF A NEW CLASS OF EXTRAGALACTIC X-RAY SOURCES

One of the unsolved mysteries of gamma-ray astronomy concerns the nature of unidentified gamma-ray sources. Recently, using the Second Fermi LAT source catalog (2FGL) and the Wide-field Infrared Survey Explorer (WISE) archive, we discovered that the WISE counterparts of gamma-ray blazars, a class of active galactic nuclei, delineate a region (the WISE Gamma-ray Strip) in three-dimensional infrared color space well separated from the locus of other astronomical objects. Based on this result, we built an association procedure to recognize if there are WISE blazar candidates within the positional uncertainty region of the unidentified gamma-ray sources. Here we report on our analysis of 2FGL J1823.8+4312, a gamma-ray active galactic nucleus of uncertain type associated with the X-ray source 1RXS J182418.7+430954 according to the 2FGL, to verify whether it is a blazar. Applying our association method we found two sources with IR colors typical of gamma-ray blazars, located within the 99.9% confidence region of 2FGL J1823.8+4312: WISE J182352.33+431452.5 and WISE J182409.25+431404.7. We then searched in the Chandra, NVSS, and SDSS archival observations for their counterparts. We discovered that WISE J182352.33+431452.5, our preferred gamma-ray blazar candidate according to our WISE association procedure, is detected in the optical and in the X-rays but not in the radio, making it extremely unusual if it is a blazar. Given its enigmatic spectral energy distribution, we considered the possibility that it is a 'radio-faint blazar' or the prototype of a new class of extragalactic sources; our conclusion is independent of whether WISE J182352.33+431452.5 is the actual counterpart of 2FGL J1823.8+4312.

79 ASTRONOMY AND ASTROPHYSICS↗
DOE OSTI2018

Structures of the Mycobacterium tuberculosis GlpX protein (class II fructose-1,6-bisphosphatase): implications for the active oligomeric state, catalytic mechanism and citrate inhibition

The crystal structures of native class II fructose-1,6-bisphosphatase (FBPaseII) from Mycobacterium tuberculosis at 2.6 Å resolution and two active-site protein variants are presented. The variants were complexed with the reaction product fructose 6-phosphate (F6P). The Thr84Ala mutant is inactive, while the Thr84Ser mutant has a lower catalytic activity. The structures reveal the presence of a 222 tetramer, similar to those described for fructose-1,6/sedoheptulose-1,7-bisphosphatase from Synechocystis (strain 6803) as well as the equivalent enzyme from Thermosynechococcus elongatus . This homotetramer corresponds to a homologous oligomer that is present but not described in the crystal structure of FBPaseII from Escherichia coli and is probably conserved in all FBPaseIIs. The constellation of amino-acid residues in the active site of FBPaseII from M. tuberculosis ( Mt FBPaseII) is conserved and is analogous to that described previously for the E. coli enzyme. Moreover, the structure of the active site of the partially active (Thr84Ser) variant and the analysis of the kinetics are consistent with the previously proposed catalytic mechanism. The presence of metabolites in the crystallization medium (for example citrate and malonate) and in the corresponding crystal structures of Mt FBPaseII, combined with their observed inhibitory effect, could suggest the existence of an uncharacterized inhibition of this class of enzymes besides the allosteric inhibition by adenosine monophosphate observed for the Synechocystis enzyme. The structural and functional insights derived from the structure of Mt FBPaseII will provide critical information for the design of lead inhibitors, which will be used to validate this target for future chemical intervention.

Wolf, Nina M.↗
NASA NTRS1988

Spectral alteration effects in chondritic gas-rich breccias - Implications for S-Class and Q-Class asteroids

Reflection spectra were obtained from sawed or freshly broken surfaces of gas-rich matrix regions in a number of ordinary chondrites (Dubrovnik, Cangas de Onis, Olivenza, and Dimmitt) which are believed to represent lithified portions of asteroid regoliths that were once directly exposed to space, with the purpose of relating these chondrites to Class S asteroids. However, the observations did not detect curved red continuum characteristic for Class S asteroid spectra, suggesting that it is unlikely for any well-observed Class S asteroid to be a source of ordinary chondrites. It is suggested that the newly discovered spectral class 'Q', of which asteroid 1982 Apollo is the prototype, provides a viable alternative of a parent body.

Bell, Jeffrey F.↗
DOE OSTI2017

Incipient class II mixed valency in a plutonium solid-state compound

Electron transfer in mixed-valent transition-metal complexes, clusters and materials is ubiquitous in both natural and synthetic systems. The degree to which intervalence charge transfer (IVCT) occurs, dependent on the degree of delocalization, places these within class II or III of the Robin–Day system. In contrast to the d-block, compounds of f-block elements typically exhibit class I behaviour (no IVCT) because of localization of the valence electrons and poor spatial overlap between metal and ligand orbitals. Here, in this paper, we report experimental and computational evidence for delocalization of 5f electrons in the mixed-valent Pu III /Pu IV solid-state compound, Pu 3 (DPA) 5 (H 2 O) 2 (DPA = 2,6-pyridinedicarboxylate). The properties of this compound are benchmarked by the pure Pu III and Pu IV dipicolinate complexes, [Pu III (DPA)(H 2 O) 4 ]Br and Pu IV (DPA) 2 (H 2 O) 3 ·3H 2 O, as well as by a second mixed-valent compound, Pu III [Pu IV (DPA) 3 H 0.5 ] 2 , that falls into class I instead. Metal-to-ligand charge transfer is involved in both the formation of Pu 3 (DPA) 5 (H 2 O) 2 and in the IVCT.

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

Preparing an Incompressible-Flow Fluid Dynamics Code for Exascale-Class Wind Energy Simulations

The U.S. Department of Energy has identified exascale-class wind farm simulation as critical to wind energy scientific discovery. A primary objective of the ExaWind project is to build high-performance, predictive computational fluid dynamics (CFD) tools that satisfy these modeling needs. GPU accelerators will serve as the computational thoroughbreds of next-generation, exascale-class supercomputers. Here, we report on our efforts in preparing the ExaWind unstructured mesh solver, Nalu-Wind, for exascale-class machines. For computing at this scale, a simple port of the incompressible-flow algorithms to GPUs is insufficient. To achieve high performance, one needs novel algorithms that are application aware, memory efficient, and optimized for the latest-generation GPU devices. The result of our efforts are unstructured-mesh simulations of wind turbines that can effectively leverage thousands of GPUs. In particular, we demonstrate a first-of-its-kind, incompressible-flow simulation using Algebraic Multigrid solvers that strong scales to more than 4000 GPUs on the Summit supercomputer.

algebraic multigrid↗
DOE OSTI2023

New structures of Class II Fructose-1,6-Bisphosphatase from Francisella tularensis provide a framework for a novel catalytic mechanism for the entire class

Class II Fructose-1,6-bisphosphatases (FBPaseII) (EC: 3.1.3.11) are highly conserved essential enzymes in the gluconeogenic pathway of microorganisms. Previous crystallographic studies of FBPasesII provided insights into various inactivated states of the enzyme in different species. Presented here is the first crystal structure of FBPaseII in an active state, solved for the enzyme from Francisella tularensis (FtFBPaseII), containing native metal cofactor Mn 2+ and complexed with catalytic product fructose-6-phosphate (F6P). Another crystal structure of the same enzyme complex is presented in the inactivated state due to the structural changes introduced by crystal packing. Analysis of the interatomic distances among the substrate, product, and divalent metal cations in the catalytic centers of the enzyme led to a revision of the catalytic mechanism suggested previously for class II FBPases. We propose that phosphate-1 is cleaved from the substrate fructose-1,6-bisphosphate (F1,6BP) by T89 in a proximal α-helix backbone (G88-T89-T90-I91-T92-S93-K94) in which the substrate transition state is stabilized by the positive dipole of the $\langle$-helix backbone. Once cleaved a water molecule found in the active site liberates the inorganic phosphate from T89 completing the catalytic mechanism. Additionally, a crystal structure of Mycobacterium tuberculosis FBPaseII (MtFBPaseII) containing a bound F1,6BP is presented to further support the substrate binding and novel catalytic mechanism suggested for this class of enzymes.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗