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At least 577 records · Page 32

The hypothetical protein P47 of Clostridium botulinum E1 strain Beluga has a structural topology similar to bactericidal/permeability-increasing protein

Botulinum neurotoxins (BoNTs) are causative agents of the life-threatening disease botulism. They are naturally produced by species of the bacteria Clostridium botulinum as stable and non-covalent complexes, in which the BoNT molecule is assembled with several auxiliary non-toxic proteins. Some BoNT serotypes, represented by the well-studied BoNT serotype A (BoNT/A), are produced by Clostridium strains that carry the ha gene cluster, which encodes four neurotoxin-associated proteins (NTNHA, HA17, HA33, and HA70) that play an important role to deliver and protect BoNTs in the gastrointestinal tract during oral intoxication. In contrast, BoNT/E- and BoNT/F-producing strains carry a distinct gene cluster that encodes five proteins (NTNHA, P47, OrfX1, OrfX2, and OrfX3, termed the $orfX$ cluster). The structures and functions of these proteins remain largely unknown. In this paper, we report the crystal structure of P47 resolved at 2.8 Å resolution. Surprisingly, P47 displays a structural topology that is similar to bactericidal/permeability-increasing (BPI) like proteins, which were previously identified only in eukaryotes. The similarity of a hydrophobic cleft of P47 with the phospholipid-binding groove of BPI suggests that P47 might be involved in lipid association to exert its function. Consistently, P47 associates and induces aggregation of asolectin-containing liposomes in a protein- and lipid-concentration dependent manner. These findings laid the foundation for future structural and functional studies of the potential roles of P47 and OrfX proteins in facilitating oral intoxication of BoNTs.

59 BASIC BIOLOGICAL SCIENCES↗

Protein model quality assessment using rotation–equivariant transformations on point clouds

Machine learning research concerning protein structure has seen a surge in popularity over the last years with promising advances for basic science and drug discovery. Working with macromolecular structure in a machine learning context requires an adequate numerical representation, and researchers have extensively studied representations such as graphs, discretized 3D grids, and distance maps. As part of CASP14, we explored a new and conceptually simple representation in a blind experiment: atoms as points in 3D, each with associated features. These features—initially just the basic element type of each atom—are updated through a series of neural network layers featuring rotation-equivariant convolutions. Starting from all atoms, we further aggregate information at the level of alpha carbons before making a prediction at the level of the entire protein structure. We find that this approach yields competitive results in protein model quality assessment despite its simplicity and despite the fact that it incorporates minimal prior information and is trained on relatively little data. As a result, its performance and generality are particularly noteworthy in an era where highly complex, customized machine learning methods such as AlphaFold 2 have come to dominate protein structure prediction.

59 BASIC BIOLOGICAL SCIENCES↗

The impact of radical loading and oxidation on the conformation of organic radical polymers by small angle neutron scattering

Electrodes comprised of organic polymeric materials containing stable radicals have become attractive for incorporation into organic radical batteries. Specifically, the radical polymer poly(2,2,6,6-tetramethylpeperidinyloxy-4-yl methacrylate) (PTMA) exhibits extremely rapid electron charge transport rates, comparable to traditional transition metal ions. However, the structural reorganization that the polymer undergoes during charging is not well understood. Using small angle neutron scattering, we have investigated the structural changes the PTMA polymer exhibits with variation of radical concentration or oxidation. The results indicate that as the radical concentration is increased, the polymer becomes more inflexible and begins to aggregate with neighboring polymer chains as the radicals on the polymer align with neighboring solvated chains. Additional studies monitor the conformational changes of the PTMA copolymers with oxidation to mimic the structural changes that the polymer undergoes during charging. These results show that polymers with low radical densities are more susceptible to reorientation with charging than a polymer that is fully saturated with radical moieties. This study therefore provides seminal fundamental information that identifies the relationship between radical density and molecular structure providing crucial insight that is needed to improve the performance of organic radical batteries.

36 MATERIALS SCIENCE↗

Data Integration Aggregated Model and Ontology for Nuclear Deployment (DIAMOND): Preliminary Model and Ontology

The data of a nuclear utility or plant are stored in various isolated forms in different systems. These data have different structures and tools and are, therefore, used independently. The integration of data sources is often performed manually and on an as-needed basis to achieve a targeted cost saving. A holistic approach to the integration of the data would enable creating a data warehouse for a single nuclear power plant (NPP) or multiple plants. A data warehouse results in direct and indirect cost saving because it automates the manual search for data, enables sharing and comparison of data from various tools of a single or multiple plants, enable digital transformation of data, increase frequencies of needed data that are sparse in nature (such as failures signatures), reduces the need for training on various tools for plant staff, enables a holistic staff perception of plant activities, reveals cost-saving opportunities, and improves the visual perception of all parts a plant necessary for operations and maintenance. One of the main challenges to deploy a data warehouse is associated with the integration of data sources into a consistent data model using a standard ontology that is developed by and for the nuclear power industry. This model is non-existent and is a necessity to enable the nuclear data warehouse role. A data model contains objects that make up a given domain along with their attributes and relationships. It provides domain standardization and maintainability, setting forth the objects, attributes, and relationships within that domain and acting as the guide by which the various applications within that domain will structure their data and interchange. An ontology is defined as “a set of concepts and categories in a subject area or domain that shows their properties and the relations between them”. Ontologies consist of a taxonomy or directed rooted tree. A survey of the models and ontologies available to support a data integration aggregated model and ontology for nuclear deployment (DIAMOND) was performed and different standards that address specific aspects of the needed model and ontology were leveraged and integrated in this effort. In specific, the Basic Formal Ontology (BFO) and Lifecycle Modeling Language (LML) were leveraged for the base ontology. The ISO 4224 and 15926 were leveraged in the development of the overlapping nuclear and fossil data aspects. The electric power research institute (EPRI) power distribution common information model (CIM) was also reviewed and the experience gained was leveraged in the power generation scope of DIAMOND. The initial aim targeted by this effort was to develop the ontology definitions and model structure. This report documents the resulting model and ontology to develop DIAMOND. The report describes the various elements of the model development based on a growing tree development approach, i.e. DIAMOND’s tree structure is established with the core data aspects and is populated with a preliminary level of details. Fifteen sources of data in a nuclear power plant were considered and incorporated into DIAMOND at this stage of development, representing the majority of operations data sources in nuclear power plants. Additional data sources, scope, and a higher level of fidelity will be incorporated into DIAMOND next in collaboration with the nuclear industry and relevant stakeholders.

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗

Introduction of an extra tryptophan fluorophore by cataract-associating mutations destabilizes βB2-crystallin and promotes aggregation

Highlights: • S31W and R145W introduce an extra fluorophore in βB2-crystallin. • S31W and R145W destabilize βB2-crystallin and promote thermal aggregation. • S31W accelerates but R145W retards UV-induced aggregation of βB2-crystallin. • The number of Trp fluorophores in β/γ-crystallin is evolutionarily optimized. β/γ-Crystallins are predominant structural proteins in vertebrate lens with unique properties of extremely high solubility, long-term stability and resistance to UV damage. Four conserved Trp residues in β/γ-crystallins account for UV absorbance and thereafter fluorescence quenching to avoid photodamage. Herein we found that βB2-crystallin Trp fluorescence was greatly enhanced by the introduction of an extra unquenched Trp fluorophore by cataract-associated mutations S31W and R145W. Both mutations impaired oligomerization, decreased stability and promote thermal aggregation, while S31W was more deleterious. S31W accelerated βB2-crystallin aggregation under UV damaging conditions, whereas R145W delayed. These observations suggested that the introduction of an extra Trp fluorophore had complicated effects on βB2-crystallin stability and aggregation against various stresses. Our findings highlight that the number of Trp fluorophores in β/γ-crystallin is evolutionarily optimized to exquisitely perform their structural roles in the lens.

60 APPLIED LIFE SCIENCES↗

Stabilization of Dinuclear Rhodium and Iridium Clusters on Layered Titanate and Niobate Supports

Atomically dispersed organometallic clusters can provide well-defined nuclearity of active sites for both fundamental studies as well as new regimes of activity and selectivity in chemical transformations. More recently, dinuclear clusters adsorbed onto solid surfaces have shown novel catalytic properties resulting from the synergistic effect of two metal centers to anchor different reactant species. Difficulty in synthesizing, stabilizing, and characterizing isolated atoms and clusters without agglomeration challenges allocating catalytic performance to atomic structure. Here, we explore the stability of dinuclear rhodium and iridium clusters adsorbed onto layered titanate and niobate supports using molecular precursors. Both systems maintain their nuclearity when Statistical analysis of HAADF-STEM images revealed that rhodium and iridium dimers had mean cluster-to-cluster distances very similar to what is expected from a random distribution of atoms over a large area, indicating that they are dispersed without aggregation. The stability of dinuclear rhodium clusters supported on titanate nanosheets was also investigated by X-ray absorption fine structure (EXAFS), DRIFTS, and first-principles calculations. Both X-ray absorption spectroscopy and HAADF-STEM simulations, guided by density functional theory (DFT)-optimized structure models, suggested that rhodium dimers adsorb onto the nanosheets in an end-on binding mode that is stable up to 100 degrees C under reducing conditions. Finally, this study highlights that crystalline nanosheets derived from layered metal oxides can be used as model supports to selectively stabilize dinuclear clusters, which could have implications for heterogeneous catalysis.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

High‐Speed Slot‐Die Coating with Donor‐Priority Rapid Aggregation Kinetics for Improved Morphology and Efficiency in Ecofriendly Organic Solar Cells

Abstract Solution‐processable organic solar cells (OSCs) represent a promising renewable photovoltaic technology with significant potential for eco‐compatible production. While high power conversion efficiencies (PCEs) have been achieved in OSCs, scaling this technology for high‐throughput manufacturing remains challenging. Key reason lies in the lack of efficient control strategies for the complex and long‐duration morphology evolution during high‐speed coating process with ecofriendly solvents. Here, a donor‐priority rapid aggregation process (DP‐RAP) scheme is proposed to solve this issue by adjusting the aggregation kinetics of donor and acceptor components. DP‐RAP enables blends with a nanoscale fiber network structure and favorable crystallinity, which contributes to balanced carrier transport and reduced recombination losses. As a result, the PCE is improved from 14.3% (reference) to 17.4% (DP‐RAP) for ultra‐high speed coated PM6:BTP‐eC9 devices in atmosphere, which is one of the highest values for non‐halogenated solvent‐processed solar cells at coating speeds of 500 mm s −1 . Moreover, the DP‐RAP based devices remain a stable PCE of approximately 17.4% across a broad range of coating speeds (20–500 mm s −1 ), illustrating its tolerance to the varied manufacturing conditions. This work highlights a promising avenue for the high‐speed, ecofriendly production of efficient OSCs, pushing the boundaries of practical manufacturing in renewable energy technologies.

Chemistry↗

Chalcocarbogels as High-Capacity and Cycle-Stable Electrode Materials for Lithium and Sodium Ion Batteries

The low capacities of commercial Li ion batteries and cycle instabilities of amorphous metal sulfide based batteries impose constraints on their utilization for large-scale energy storage. We report here the acid-free, room-temperature (RT), and solution-based synthesis of a chalcogenide–carbonaceous hybrid aerogel, termed as “chalcocarbogel”, comprising molybdenum sulfide (MoS x ) and graphene oxide (GO). The chalcocarbogel is a nanoparticle-aggregated, porous, amorphous gel consisting of Mo 3 S 13 and Mo 2 S 12 -like structures as determined by synchrotron X-ray PDF, XANES, and EXAFS. The MoS x -GO chalcocarbogel demonstrates high specific capacities of ~1215 and ~807 mAh g –1 for Li/MoS x -GO and Na/MoS x -GO cells, respectively, for a 50 mAg –1 discharge rate during the first cycle. After the activation cycles, the MoS x -GO chalcocarbogel stabilizes, maintaining high specific capacities of approximately ~700 mAh g –1 for Li/MoS x -GO and ~473 mAh g –1 for Na/MoS x -GO cells, while continuously cycling. Importantly, the MoS x -GO aerogel reported here serves as a promising platform to develop chalcocarbogels for applications spanning both Li and Na ion batteries.

25 ENERGY STORAGE↗

Microphysical properties of atmospheric soot and organic particles: measurements, modeling, and impacts

Atmospheric soot and organic particles from fossil fuel combustion and biomass burning modify Earth’s climate through their interactions with solar radiation and through modifications of cloud properties by acting as cloud condensation nuclei and ice nucleating particles. Recent advancements in understanding their individual properties and microscopic composition have led to heightened interest in their microphysical properties. This review article provides an overview of current advanced microscopic measurements and offers insights into future avenues for studying microphysical properties of these particles. To quantify soot morphology and ageing, fractal dimension ( D f ) is a commonly employed quantitative metric which allows to characterize morphologies of soot aggregates and their modifications in relation to ageing factors like internal mixing state, core-shell structures, phase, and composition heterogeneity. Models have been developed to incorporate D f and mixing diversity metrics of aged soot particles, enabling quantitative assessment of their optical absorption and radiative forcing effects. The microphysical properties of soot and organic particles are complex and they are influenced by particle sources, ageing process, and meteorological conditions. Furthermore, soluble organic particles exhibit diverse forms and can engage in liquid–liquid phase separation with sulfate and nitrate components. Primary carbonaceous particles such as tar balls and soot warrant further attention due to their strong light absorbing properties, presence of toxic organic constituents, and small size, which can impact human health. Future research needs include both atmospheric measurements and modeling approaches, focusing on changes in the mixing structures of soot and organic particle ensembles, their effects on climate dynamics and human health.

54 ENVIRONMENTAL SCIENCES↗

A molecular model for ice nucleation and growth, attachment 2

The central field empirical pair potential model is applied to studying the effects of kinks, ledges, and vacancies on the absorption of water molecules from the vapor. Molecular dynamics simulations indicate that cluster and/or surface modes play a primary role in the absorption process, the flexibility of the hydrogen bond serves to decrease the energy required for structural interconversion, and the rapid distribution of added energy in a hydrogen bonded system lead to aggregate stability which greatly exceeds that predicted by static energy calculations.

Hale, B. N.↗

Affinity Electrophoresis Using Ligands Attached To Polymers

In new technique, reduction of electrophoretic mobilities by addition of polyethylene glycol to ligands increases electrophoretic separabilities. In immuno-affinity electrophoresis, modification of ligands extends specificity of electrophoretic separation to particles having surface electric-charge structures otherwise making them electrophoretically inseparable. Modification of antibodies by polyethylene glycol greatly reduces ability to aggregate while enhancing ability to affect electrophoretic mobilities of cells. In hydrophobic-affinity electrophoresis, addition of polyethylene glycol reduces tendency toward aggregation of cells or macromolecules.

Van Alstine, James M.↗

Phase Diagrams of Electric-Fduced Aggregation in Conducting Colloids

Under the application of a sufficiently strong electric field, a suspension may undergo reversible phase transitions from a homogeneous random arrangement of particles into a variety of ordered aggregation patterns. The surprising fact about electric-field driven phase transitions is that the aggregation patterns, that are observed in very diverse systems of colloids, display a number of common structural features and modes of evolution thereby implying that a universal mechanism may exist to account for these phenomena. It is now generally believed that this mechanism emanates from the presence of the long-range anisotropic interactions between colloidal particles due to their polarization in an applied field. But, in spite of numerous applications of the electric-field-driven phenomena in biotechnology, separation, materials engineering, chemical analysis, etc. our understanding of these phenomena is far from complete. Thus, it is the purpose of the proposed research to develop a theory and then test experimentally, under normal- and low-gravity conditions, the accuracy of the theoretical predictions regarding the effect of the synergism of the interparticle electric and hydrodynamic interactions on the phase diagram of a suspension. The main results from our theoretical studies performed to-date enable one to trace how the variations of the electrical properties of the constituent materials influence the topology of the suspension phase diagram and then, by using an appropriate phase diagram, to evaluate how the electric-field-induced transformations will depend on the frequency and the strength of the applied field.

Khusid, B.↗

Shock Effects in the Metal-rich Chondrites QUE 94411, Hammadah al Hamra 237 and Bencubbin

We have studied the metal-rich chondrites QUE94411 (QUE), Hammadah al Hamra 237 (HH237) and Bencubbin with an emphasis on the petrographical and mineralogical effects of the shock processing that these meteorite assemblages have undergone. Iron-nickel metal and chondrule silicates are the main components in these meteorites. These high-temperature components are held together by shock melts consisting of droplets of dendritically intergrown FeNi metal/sulfide embedded in ferrous silicate glass. The silicate glass component of the shock melt is substantially more FeO-rich (FeO: 30 to 40 wt%) than the prevailing chondrule silicates (FeO less than 5 wt%). Fine-grained matrix material, which is a major component in most other chondritic assemblages, is extremely scarce in QUE4411 and HH237; it has not been observed in Bencubbin. This material occurs as rare, hydrated, and fine-grained matrix lumps with major and minor element abundances roughly similar to the ferrous silicate shock melts (and CI). We infer that hydrated, fine-grained material, compositionally similar to these matrix lumps, was originally present between the FeNi metal grains and chondrules, but was preferentially heated by the shock wave and melted. Other shock-related features in QUE94411, HH237, and Bencubbin include a distinct alignment and occasionally strong plastic deformation of metal and chondrule fragments. However, the existence of chemically zoned and metastable FeNi metal condensates condensates in direct contact with shock melts indicates that the shock did not substantially increase the average temperature of the aggregate. TEM analyses of the FeNi metal droplets embedded in the shock melts show martensitic crystal structures, indicating rapid cooling, essentially quenching, of the shock melts. These findings indicate that the preshock temperature of the assemblage was low. Because porphyritic olivine-pyroxene chondrules are absent in QUE94411, HH237, and Bencubbin, it is difficult to determine the precise shock stage of these meteorites, but the shock was probably relatively light (S2- S3; 5-20 GPa) consistent with a bulk temperature increase of the assemblages of less than 200 C. The higher pressures within this range (i.e. 15-20 GPa) are consistent with the findings of shock produced diamonds in Bencubbin. The many mineralogical, petrological and isotopic (e.g. O and N) similarities between Bencubbin, Weatherford, Gujba and QUE/HH237 have been used to argue for a common origin of these meteorites on a single asteroidal parent body. The findings of this study, which indicate similar shock processing, lend support to this view.

Meibom, A.↗

Comet Dust: The Diversity of "Primitive" Particles and Implications

Comet dust is primitive and shows significant diversity. Our knowledge of the properties of primitive particles has expanded significantly through microscale investigations of cosmic dust samples ( IDP's(Interplanetary Dust Particles) and AMM's (Antarctic Micrometeorites)) and of comet dust samples (Stardust and Rosetta's COSIMA), as well as through remote sensing (spectroscopy and imaging) via Spitzer and via spacecraft encounters with 103P/Hartley 2 and 67P/Churyumov-Gerasimenko. Microscale investigations show that comet dust and cosmic dust are particles of unequilibrated materials, including aggregates of materials unequilibrated at submicron scales. We call unequilibrated materials "primitive" and we deduce they were incorporated into ice-rich (H2O-, CO2-, and CO-ice) parent bodies that remained cold, i.e., into comets, because of the lack of aqueous or thermal alteration since particle aggregation; yet some Stardust olivines suggest mild thermal metamorphism. Primitive particles exhibit a diverse range of: structure and typology; size and size distribution of constituents; concentration and form of carbonaceous and organic matter; D-, N-, and O- isotopic enhancements over solar; Mg-, Fe-contents of the silicate minerals; the compositions and concentrations of sulfides, and of less abundant mineral species such as chondrules, CAIs and carbonates. The uniformity within a group of samples points to: aerodynamic sorting of particles and/or particle constituents; the inclusion of a limited range of oxygen fugacities; the inclusion or exclusion of chondrules; a selection of organics. The properties of primitive particles imply there were disk processes that resulted in different comets having particular selections of primitive materials. The diversity of primitive particles has implications for the diversity of materials in the protoplanetary disk present at the time and in the region where the comets formed.

Wooden, Diane H.↗

Comet Dust: The Diversity of Primitive Particles and Implications

Comet dust is primitive and shows significant diversity. Our knowledge of the properties of primitive particles has expanded significantly through microscale investigations of cosmic dust samples (IDPs and AMMs) and of comet dust samples (Stardust and Rosetta's COSIMA), as well as through remote sensing (spectroscopy and imaging) via Spitzer and via spacecraft encounters with 103P/Hartley 2 and 67P/Churyumov-Gerasimenko. Microscale investigations show that comet dust and cosmic dust are particles of unequilibrated materials, including aggregates of materials unequilibrated at submicron scales. We call unequilibrated materials "primitive" and we deduce they were incorporated into ice-­‐rich (H2O-, CO2-, and CO-ice) parent bodies that remained cold, i.e., into comets, because of the lack of aqueous or thermal alteration since particle aggregation; yet some Stardust olivines suggest mild thermal metamorphism. Primitive particles exhibit a diverse range of: structure and typology; size and size distribution of constituents; concentration and form of carbonaceous and organic matter; D-, N-, and O- isotopic enhancements over solar; Mg-, Fe-contentsof thesilicate minerals; the compositions and concentrations of sulfides, and of less abundant mineral species such as chondrules, CAIs and carbonates. The unifomity within a group of samples points to: aerodynamic sorting of particles and/or particle constituents; the inclusion of a limited range of oxygen fugacities; the inclusion or exclusion of chondrules; a selection of organics. The properites of primitive particles imply there were disk processes that resulted in different comets having particular selections of primitive materials. The diversity of primitive particles has implications for the diversity of materials in the protoplanetary disk present at the time and in the region where the comets formed.

Comet dust is primitive and shows significant dive↗

Image-based solar estimates

An example device is configured to determine, based on a sky image of a portion of sky over a power distribution network and using a convolutional neural network (CNN)-based image regression model, an estimated global horizontal irradiance (GHI) value and manage or control the power distribution network using the estimated GHI value. The device may also be configured to determine, based on GHI values and aggregate load values for at least a portion of the power distribution network, using a Bayesian Structural Time Series model, an estimated photovoltaic power output value for the at least a portion of the power distribution network. The device may manage or control the power distribution network using the estimated photovoltaic power output value.

Bernstein, Andrey↗

Understanding the Chemical Complexity of Multicomponent Systems: Uranium Polyoxometalates as Nanosorbents

The overarching objective of this project was to develop a molecular-scale understanding of chemical interactions of the transuranic (TRU) elements with uranyl-based polyoxometalate nanoclusters (UPOMs). The specific goals that supported this overarching objective were to: (i) quantify TRU interactions with UPOMs as a function of TRU, carbonate, and UPOM concentration, pH, and temperature; (ii) examine the molecular-level bonding environment of TRU-UPOM complexes; and (iii) develop a rate expression capable of describing the sorption and reduction of TRU by UPOMs. The published literature suggests several potential interactions can occur in TRU-UPOM systems: (i) encapsulation of TRU and coordination with the internal ‘-yl’ oxygens of the UPOM, (ii) coordination of TRU with the external ‘-yl’ oxygens of the UPOM, and (iii) coordination of TRU with the bridging ligands (e.g., peroxo, hydroxo, oxalate) of the UPOM. The latter two may induce aggregation of the UPOMs. The concept of encapsulation is demonstrated by the X-ray diffraction structure of crystallized U 20 , which reveals a Na + cation under each pentagonal face (Sigmon et al., 2009). Computational modeling shows that, while the negative charge of U 20 is spread among all the oxygen atoms, the internal ‘-yl’ oxygens host the most negative charge (Miro and Bo, 2012). This negative charge is reduced through the complexation of the templating sodium ions in the interior of the UPOM. Furthermore, Nyman et al. (2011) shows that cesium can exit through the pentagonal window of U 28 in the aqueous phase, suggesting that the TRU elements, which are smaller than cesium, may be capable of entering a UPOM through these windows in an exchange reaction. Under this project, we focused on hafnium, neptunium, and plutonium interactions with UPOMs.

38 RADIATION CHEMISTRY, RADIOCHEMISTRY, AND NUCLEA↗

Scattering Properties of Aggregate Particles

We are engaged in modeling the scattering and emitting properties of irregular particles with the goal of understanding the composition and structure of cometary dust particles.

discrete dipole approximation non-spherical monome↗