Symmetry breaking and structural polymorphism in a bacterial microcompartment shell protein for chol
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Ochoa, Jessica M.↗
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Advanced optical measuring systems for measuring the properties of fluids and structures
Four advanced optical models are reviewed for the measurement of visualization of flow and structural properties. Double-exposure, diffuse-illumination, holographic interferometry can be used for three-dimensional flow visualization. When this method is combined with optical heterodyning, precise measurements of structural displacements or fluid density are possible. Time-average holography is well known as a method for displaying vibrational mode shapes, but it also can be used for flow visualization and flow measurements. Deflectometry is used to measure or visualize the deflection of light rays from collimation. Said deflection occurs because of refraction in a fluid or because of reflection from a tilted surface. The moire technique for deflectometry, when combined with optical heterodyning, permits very precise measurements of these quantities. The rainbow schlieren method of deflectometry allows varying deflection angles to be encoded with colors for visualization.
Decker, A. J.↗
Two and three-dimensional near infrared subcutaneous structure imager using realtime nonlinear video processing
A method includes placing an imaging device in contact with a sample, irradiating the sample via an illuminator such that radiation scatters off of the structure, and providing the scattered radiation to a detector to generate a digital video signal. A processor then performs various operations including subtracting a sum of a black state value and a user-defined black level clamping value from the digital video signal to create subtracted image data, substituting negative values in the subtracted image data with a reference value to create modified image data, and amplifying the modified image data by a user-defined gain to create contrast enhanced image data.
Krasowski, Michael J.↗
CryoEM structure of the low-complexity domain of hnRNPA2 and its conversion to pathogenic amyloid
hnRNPA2 is a human ribonucleoprotein (RNP) involved in RNA metabolism. It forms fibrils both under cellular stress and in mutated form in neurodegenerative conditions. Previous work established that the C-terminal low-complexity domain (LCD) of hnRNPA2 fibrillizes under stress, and missense mutations in this domain are found in the disease multisystem proteinopathy (MSP). However, little is known at the atomic level about the hnRNPA2 LCD structure that is involved in those processes and how disease mutations cause structural change. Here we present the cryo-electron microscopy (cryoEM) structure of the hnRNPA2 LCD fibril core and demonstrate its capability to form a reversible hydrogel in vitro containing amyloid-like fibrils. Whereas these fibrils, like pathogenic amyloid, are formed from protein chains stacked into β-sheets by backbone hydrogen bonds, they display distinct structural differences: the chains are kinked, enabling non-covalent cross-linking of fibrils and disfavoring formation of pathogenic steric zippers. Both reversibility and energetic calculations suggest these fibrils are less stable than pathogenic amyloid. Moreover, the crystal structure of the disease-mutation-containing segment (D290V) of hnRNPA2 suggests that the replacement fundamentally alters the fibril structure to a more stable energetic state. These findings illuminate how molecular interactions promote protein fibril networks and how mutation can transform fibril structure from functional to a pathogenic form.
59 BASIC BIOLOGICAL SCIENCES↗
Ionized carbon in side-illuminated molecular clouds
The C II fine-structure line has been observed in five sources for which the ionization front/molecular cloud interface is viewed approximately edge-on. The LSR velocity of the C II emission is generally in good agreement with that observed for molecular species such as CO. However, the observed linewidths of 3-14 km/s are typically wider than those of molecular lines and often show rapid spatial variations in the observed regions. The C II brightness temperature are typically equal to or slightly higher than the dust temperature at all locations observed. In the optically thin approximation, C II excitation temperatures are 100 K or more and column densities are 10 to the 18th/sq cm for all sources except M17, which has a more intense and complicated line profile with a larger spatial extent than any other source observed.
Boreiko, R. T.↗
Spectroscopic Insight on Neodymium Solvation in Lithium Borohydride-Supported Electrolyte
Borohydride-based electrolytes have recently emerged as promising media for the electrodeposition of electropositive metals, including rare earth (RE) elements. While the presence of supporting alkali metal cations and RE counteranions provides essential electrochemical conductivity for achieving fast metal electrodeposition, interactions between the host ligand and solvated neodymium (Nd) complexes remain unclear. This study provides insights into the coordination structure of a concentrated and directly solvated Nd salt in a lithium borohydride-supported electrolyte. Our spectroscopic results indicate that the RE coordination environment is significantly influenced by the solvation mechanism, which can vary between metathesis and complexation pathways, primarily dictated by stoichiometric factors. Under dilute conditions, nearly complete metathesis of anions leads to a high coordination number for the host ligand (borohydride), consistent with the previously reported solvated Nd speciation in chlorine-free electrolytes. In contrast, concentrated dissolution of the Nd salt in the supported electrolyte is dominated by a complexation pathway featuring a Li-ion-paired complex with a low coordination number of the host ligand. Density functional theory (DFT) calculations indicated that the observed blue shift in the borohydride vibration was the result of an increase in electron density drawn into the terminal B–H interbond region from the hydride as the coordination changed from Li to Nd. In conjunction with DFT results, vibrational analyses allowed correlation of the experimental shifts associated with changes in Nd ligation and coordination spheres, further consolidating the prevalence of highly chloride-coordinated species under concentrated conditions. In conclusion, the outcomes of this work illuminate the distinctive and heterogeneous coordination structures that the electroactive RE species can adopt at high concentrations in lithium borohydride-supported electrolytes, as a key step to comprehend the reported metal electrodeposition performance in these media.
37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
Fluorescent Applications to Crystallization
By covalently modifying a subpopulation, less than or equal to 1%, of a macromolecule with a fluorescent probe, the labeled material will add to a growing crystal as a microheterogeneous growth unit. Labeling procedures can be readily incorporated into the final stages of purification, and tests with model proteins have shown that labeling u to 5 percent of the protein molecules does not affect the X-ray data quality obtained . The presence of the trace fluorescent label gives a number of advantages. Since the label is covalently attached to the protein molecules, it "tracks" the protein s response to the crystallization conditions. The covalently attached probe will concentrate in the crystal relative to the solution, and under fluorescent illumination crystals show up as bright objects against a darker background. Non-protein structures, such as salt crystals, do not show up under fluorescent illumination. Crystals have the highest protein concentration and are readily observed against less bright precipitated phases, which under white light illumination may obscure the crystals. Automated image analysis to find crystals should be greatly facilitated, without having to first define crystallization drop boundaries as the protein or protein structures is all that shows up. Fluorescence intensity is a faster search parameter, whether visually or by automated methods, than looking for crystalline features. Preliminary tests, using model proteins, indicates that we can use high fluorescence intensity regions, in the absence of clear crystalline features or "hits", as a means for determining potential lead conditions. A working hypothesis is that more rapid amorphous precipitation kinetics may overwhelm and trap more slowly formed ordered assemblies, which subsequently show up as regions of brighter fluorescence intensity. Experiments are now being carried out to test this approach using a wider range, of proteins. The trace fluorescently labeled crystals will also emit with sufficient intensity to aid in the automation of crystal alignment using relatively low cost optics, further increasing throughput at synchrotrons.
Pusey, Marc L.↗
Geologic and mineral and water resources investigations in western Colorado using ERTS-1 data
The author has identified the following significant results. Geologic interpretation of ERTS-1 imagery is dependent on recognition of the distribution, continuity, trend, and geometry of key surface features. In the examination of ERTS-1 imagery, lithology must be interpreted largely from the geomorphic expression of the terrain. ERTS-1 imagery is extremely useful in detecting local structures. Most mapped structures are topographically-expressed. Consequently, ERTS-1 imagery acquired during mid-winter, when the solar illumination angle is low, provides the largest amount of structural information. Stereoscopic analyses of ERTS-1 images significantly aid geologic interpretation. Positive transparencies of ERTS-1 images (1:1,000,000) commonly contain more geologic information than can be adequately annotated during geologic interpretation.
Knepper, D. H., Jr.↗
Serial femtosecond crystallography on in vivo-grown crystals drives elucidation of mosquitocidal Cyt1Aa bioactivation cascade
Cyt1Aa is the one of four crystalline protoxins produced by mosquitocidal bacterium Bacillus thuringiensis israelensis (Bti) that has been shown to delay the evolution of insect resistance in the field. Limiting our understanding of Bti efficacy and the path to improved toxicity and spectrum has been ignorance of how Cyt1Aa crystallizes in vivo and of its mechanism of toxicity. Here, we use serial femtosecond crystallography to determine the Cyt1Aa protoxin structure from sub-micron-sized crystals produced in Bti. Structures determined under various pH/redox conditions illuminate the role played by previously uncharacterized disulfide-bridge and domain-swapped interfaces from crystal formation in Bti to dissolution in the larval mosquito midgut. Biochemical, toxicological and biophysical methods enable the deconvolution of key steps in the Cyt1Aa bioactivation cascade. We additionally show that the size, shape, production yield, pH sensitivity and toxicity of Cyt1Aa crystals grown in Bti can be controlled by single atom substitution.
37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
Molecular mechanism for the interaction between human CPSF30 and hFip1
Most eukaryotic pre-mRNAs must undergo 3'-end cleavage and polyadenylation prior to their export from the nucleus. A large number of proteins in several complexes participate in this 3'-end processing, including cleavage and polyadenylation specificity factor (CPSF) in mammals. The CPSF30 subunit contains five CCCH zinc fingers (ZFs), with ZF2–ZF3 being required for the recognition of the AAUAAA poly(A) signal. ZF4–ZF5 recruits the hFip1 subunit of CPSF, although the details of this interaction have not been characterized. Here we report the crystal structure of human CPSF30 ZF4–ZF5 in complex with residues 161–200 of hFip1 at 1.9 Å resolution, illuminating the molecular basis for their interaction. Unexpectedly, the structure reveals one hFip1 molecule binding to each ZF4 and ZF5, with a conserved mode of interaction. Our mutagenesis studies confirm that the CPSF30–hFip1 complex has 1:2 stoichiometry in vitro. Mutation of each binding site in CPSF30 still allows one copy of hFip1 to bind, while mutation of both sites abrogates binding. Our fluorescence polarization binding assays show that ZF4 has higher affinity for hFip1, with a K d of 1.8 nM. We also demonstrate that two copies of the catalytic module of poly(A) polymerase (PAP) are recruited by the CPSF30–hFip1 complex in vitro, and both hFip1 binding sites in CPSF30 can support polyadenylation.
59 BASIC BIOLOGICAL SCIENCES↗
Quantum Monte Carlo calculation of 𝛿 NS in 10 C using an effective field theory approach
Here, we compute radiative corrections to the superallowed 𝛽 decay of 10 C in an effective field theory approach using nuclear matrix elements obtained from quantum Monte Carlo calculations. These corrections are an important ingredient in the extraction of the Cabibbo-Kobayashi-Masakawa quark mixing matrix element 𝑉 𝑢𝑑 , and the role of this work is to illuminate the uncertainties arising from nuclear structure. Our results provide good agreement with both the traditional extraction of 𝑉 𝑢𝑑 , as well as with a more recent evaluation performed using the no-core shell model and a dispersion formalism. The dominant uncertainty in this approach is the presence of two unknown low-energy constants that enter into the relevant nuclear matrix elements. Future determinations of these low-energy constants—either from QCD or modeling them with two nucleon amplitudes—would improve the precision of the extraction in this formalism.
beta decay↗
Seismic Tomographic Modeling of the Crust and Upper Mantle beneath Israel and the Middle East: Improved Resolution through Optimized Model Parameterization
Accurate regional seismic travel-time (RSTT) predictions rely on regional phases (e.g., Pg, Lg, Pn, Sn ) to account for 3D effects in the crust and upper mantle that are not captured by 1D models traditionally used for real-time location. The RSTT prediction model accounts for regional-scale crust and upper mantle structure globally by incorporating regional seismic phases into its travel-time calculations. Previous versions of the RSTT model have used a constant grid cell size of 1°. To improve the tomographic accuracy of recovering velocity structure at regional scales, we, in this study, perform data-driven grid refinement on the RSTT model down to a 0.125° grid (~14 km) in pursuit of two main goals: (1) to test the limits of RSTT capability and accuracy of determined velocity structure through variable grid refinement and (2) to image smaller structures in Israel and the Middle East and illuminate upper mantle dynamics operating in this complex tectonic area. We investigate the effects of model parameterization as grid cell size decreases and the trade-offs between recovered velocity structures. Our final dataset includes 4751 events and 499 stations that recorded 79,344 Pn and 7489 Pg . The variable grid refinement method allows recovery of finer-scale velocity structures and reduces travel-time residuals in areas with the highest data coverage. At smaller grid cell sizes, longer paths need to be upweighted to stabilize the inversion. Results illuminate tectonic features undefined in coarser grid-size models; in particular, we observe mantle perturbations related to the subduction zone around the Cyprian arc and crustal anomalies near the Dead Sea fault and throughout the Anatolian plate.
58 GEOSCIENCES↗
Solar concentrator/absorber
Collector/energy converter, consisting of dual-slope optical concentrator and counterflow thermal energy absorber, is attached to multiaxis support structure. Efficient over wide range of illumination levels, device may be used to generate high temperature steam, serve as solar powered dryer, or power absorption cycle cooler.
Von Tiesenhausen, G. F.↗
Photoelectrochemical etching of silicon carbide (SiC) and its characterization
Silicon carbide (SiC) is an attractive semiconductor material for high speed, high density, and high temperature device applications due to its wide bandgap (2.2-3.2 eV), high thermal conductivity, and high breakdown electric field (4 x 10(exp 6) V/cm). An instrumental process in the fabrication of semiconductor devices is the ability to etch in a highly controlled and selective manner for direct patterning techniques. A novel technique in etching using electrochemistry is described. This procedure involves the ultraviolet (UV) lamp-assisted photoelectrochemical etching of n-type 3C- and 6H-SiC to enhance the processing capability of device structures in SiC. While under UV illumination, the samples are anodically biased in an HF based aqueous solution since SiC has photoconductive properties. In order for this method to be effective, the UV light must be able to enhance the production of holes in the SiC during the etching process thus providing larger currents with light from the photocurrents generated than those currents with no light. Otherwise dark methods would be used as in the case of p-type 3C-SiC. Experiments have shown that the I/V characteristics of the SiC-electrolyte interface reveal a minimum etch voltage of 3 V and 4 V for n- and p-type 3C-SiC, respectively. Hence it is possible for etch-stops to occur. Etch rates calculated have been as high as 0.67 micrometer/min for p-type, 1.4 micrometer/min for n-type, and 1.1 micrometer/min for pn layer. On n-type 3C- SiC, an oxide formation is present where after etching a yellowish layer corresponds to a low Si/C ratio and a white layer corresponds to a high Si/C ratio. P-type 3C-SiC shows a grayish layer. Additionally, n-type 6H-SiC shows a brown layer with a minimum etch voltage of 3 V.
Collins, D. M.↗
High Resolution, Single-Step Patterning of Silica Aerogels
Three-dimensional metallic structures are fabricated with high spatial resolution in silica aerogels. In our method, silica hydrogels are prepared with a standard base-catalyzed route, and exchanged with an aqueous solution typically containing Ag' ions (1 M) and 2-propanol (0.2 M). The metal ions are reduced photolytically with a table-top ultraviolet lamp, or radiolytically, with a focused X-ray beam. We fabricated dots and lines as small as 30 x 70 km, protruding for several mm into the bulk of the materials. The hydrogels are eventually supercritically dried to yield aerogels, without any measurable change in the shape and spatial resolution of the lithographed structures. Transmission electron microscopy shows that illuminated regions are composed of Ag clusters with a size of several pm, separated by thin layers of silica.
Bertino, M. F.↗
Controlling Amphiphilic Polymer Folding beyond the Primary Structure with Protein-Mimetic Di(Phenylalanine)
While methods for polymer synthesis have proliferated, their functionality pales in comparison to natural biopolymers–strategies are limited for building the intricate network of noncovalent interactions necessary to elicit complex, protein-like functions. Using a bioinspired di(phenylalanine) acrylamide (FF) monomer, we explored the impact of various noncovalent interactions in generating ordered assembled structures. Amphiphilic copolymers were synthesized that exhibit β-sheet-like local structure upon collapsing into single-chain assemblies in aqueous environments. Here, the systematic analysis of a series of amphiphilic copolymers illustrated that the global collapse is primarily driven by hydrophobic forces. Hydrogen-bonding and aromatic interactions stabilize local structure, as β-sheet-like interactions were identified via circular dichroism and thioflavin T fluorescence. Similar analysis of phenylalanine (F) and alanine-phenylalanine acrylamide (AF) copolymers found that distancing the aromatic residue from the polymer backbone is sufficient to induce β-sheet-like local structure akin to the FF copolymers; however, the interactions between AF subunits are less stable than those formed by FF. Further, hydrogen-bond donating hydrophilic monomers disrupt internal structure formed by FF within collapsed assemblies. Collectively, these results illuminate design principles for the facile incorporation of multiple facets of protein-mimetic, higher-order structure within folded synthetic polymers.
37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
A new electric field effect in silicon solar cells.
The phenomenon of high-resistivity silicon solar cells manifesting high open-circuit voltages previously observed only for cells made from low-resistivity silicon is shown to be caused by the presence of a shallow diffused region at the back surface of the cell. The basic cell structure is either n+, p, p+ or p+, n, n+. The high open-circuit voltage arises from the injection and accumulation of excess majority carriers in the bulk upon illumination or application of forward bias to the structure. A working model for the cell, designated a back surface field (BSF) cell, is described, and recent developments are cited.
Mandelkorn, J.↗
Spaceborne radar observations: A guide for Magellan radar-image analysis
Geologic analyses of spaceborne radar images of Earth are reviewed and summarized with respect to detecting, mapping, and interpreting impact craters, volcanic landforms, eolian and subsurface features, and tectonic landforms. Interpretations are illustrated mostly with Seasat synthetic aperture radar and shuttle-imaging-radar images. Analogies are drawn for the potential interpretation of radar images of Venus, with emphasis on the effects of variation in Magellan look angle with Venusian latitude. In each landform category, differences in feature perception and interpretive capability are related to variations in imaging geometry, spatial resolution, and wavelength of the imaging radar systems. Impact craters and other radially symmetrical features may show apparent bilateral symmetry parallel to the illumination vector at low look angles. The styles of eruption and the emplacement of major and minor volcanic constructs can be interpreted from morphological features observed in images. Radar responses that are governed by small-scale surface roughness may serve to distinguish flow types, but do not provide unambiguous information. Imaging of sand dunes is rigorously constrained by specific angular relations between the illumination vector and the orientation and angle of repose of the dune faces, but is independent of radar wavelength. With a single look angle, conditions that enable shallow subsurface imaging to occur do not provide the information necessary to determine whether the radar has recorded surface or subsurface features. The topographic linearity of many tectonic landforms is enhanced on images at regional and local scales, but the detection of structural detail is a strong function of illumination direction. Nontopographic tectonic lineaments may appear in response to contrasts in small-surface roughness or dielectric constant. The breakpoint for rough surfaces will vary by about 25 percent through the Magellan viewing geometries from low to high Venusian latitudes. Examples of anomalies and system artifacts that can affect image interpretation are described.
Ford, J. P.↗