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At least 631 records · Page 35

An unusual Co–S bond links B 12 chaperones in an interprotein complex

Chaperones in trafficking pathways ensure specificity of transition metal loading and protection against adventitious side reactions. In B 12 , an essential cofactor for humans, a cobalt ion is coordinated to a >1.3 kDa tetrapyrrolic scaffold, posing logistical challenges for its translocation. In this study, we report the 3.4 Å crystal structure of the human MMACHC and MMADHC B 12 chaperones, tethered via a rarely seen covalent cobalt–sulfur bond. B 12 is bound in the base-off state to MMACHC, with Cys-261 on MMADHC serving as the upper axial ligand; the lower-axial position is vacant. The propensity of thiolato-cobalamin derivatives bound to MMACHC to undergo spontaneous decomposition via general acid catalysis or reduction/oxidation chemistry is averted in the interprotein complex with MMADHC. An exposed face in the complex suggests an exit route for B 12 . No known clinical variants localize to the interprotein interface, consistent with the cobalt–sulfur bond being key to forming the high-affinity complex.

Science & Technology - Other Topics↗

Relevance of E × B drifts for particle and heat transport in divertors

Radial electric fields up to ~4 kV m –1 are observed in the boundary between the private flux region (PFR) and the scrape-off layer (SOL) driving E × B drifts between the inner and outer targets at speeds up to 2.8 km s –1 in the Tokamak à configuration variable divertor. The resulting E × B fluxes, located in a narrow region ($\Delta {\rho _\Psi } < 0.012$ in normalized radius or $\Delta $ R – R sep <4 mm mapped to the outer midplane) are equivalent to around 20% of the total heat and particle flux to the divertor targets (inner + outer). At the peak E r , the E × B poloidal transport is equivalent to parallel flows with M ∥ ~ 3. In the snowflake divertor with a second X-point in the outer SOL, the drifts in the PFR-SOL boundary were equivalent to around 30% of the total heat and particle flux to the divertor targets and cover a region ~50% wider than in the single null ($\Delta {\rho _\Psi }$ ~ 0.018, $\Delta $R – R sep ~ 6 mm). Furthermore, the location of the PFR-SOL boundary drift shifts radially in the E ∥ × B direction when reversing the toroidal field direction. Peaks in density and electron pressure have been identified near the primary X-point along with large gradients in density, temperature, and potential, the latter resulting in a local electric field ~2.7 kV m –1 which drives a drift (1.9 km s –1 ) upwards towards the closed flux surfaces. Floating potential (V f ) magnitudes up to 75 V (~2 kT e ) were measured, indicating that V f and parallel currents should not be neglected when estimating plasma potential.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

Importance of $\delta B_{\|}$ on ETG stability, turbulence, and transport in NSTX

This study employs electron-scale gyrokinetic simulations to investigate the electron temperature gradient (ETG) driven instabilities, turbulence, and transport in the pedestal region of the National Spherical Torus Experiment, comparing non-lithiated (narrow pedestal) and lithiated (wide pedestal) scenarios. Our findings reveal that, in the non-lithiated case, a branch of strongly unstable ETG modes exhibiting finite parallel magnetic field fluctuations ($\delta B_{\parallel} \neq 0$) emerges at the pedestal top and upper density pedestal region. This branch is uncovered only when $\delta B_{\parallel}$ is retained in the simulations and is associated with substantial electrostatic electron heat flux. This region of strong ETG transport corresponds to the only region in the plasma where the pressure gradient is far below the critical gradient for kinetic ballooning modes. We investigated the origin of this finite $\delta B_{\parallel}$ ETG branch by analyzing the gyrokinetic field equations. Nonlinear saturation is also analyzed and contrasted for simulations with and without $\delta B_{\parallel}$. In contrast with the nonlithiated case, ETG modes in the lithiated case produce substantial transport in the steep gradient region, but are negligible at the pedestal top.

ETG↗

A Pn magnitude scale m b ( Pn ) for earthquakes along the equatorial Mid-Atlantic Ridge

We developed a short-period Pn magnitude scale m b (Pn) for earthquakes along the equatorial Mid-Atlantic Ridge. Due to low signal-to-noise ratios, teleseismic body wave magnitude and long-period surface wave magnitude cannot be confidently determined for small earthquakes of m b < 4. Local magnitude scales are also not useful for these events because the oceanic environment does not allow the propagation of crustal phases. However, regional high-frequency Pn waves from these small- to moderate-size (m b 3–6) earthquakes are well recorded in the equatorial Atlantic region and can be used to assign magnitudes. We measured over 2041 Pn peak amplitudes on vertical records from about 21 stations in northeastern Brazil and 11 stations in western Africa in the distance range of 700–3700 km. We analysed data from 189 events from the global centroid moment tensor catalogue to tie our m b (Pn) scale to M w so that seismic moments can be readily estimated. Pn arrivals show apparent group velocity between 7.9 km s –1 at short ranges (~1000 km) and up to 9.1 km s –1 at 3500 km. The measured peak amplitudes have a frequency between 0.8 and 3 Hz at 1000–1800 km, but at greater distances, 1800–3700 km, they show a remarkably consistent frequency of about 0.8 Hz. The peak amplitude attenuates at a higher rate at short distances (~0.65 magnitude units between 700 and 2000 km) but attenuates at a lower rate at long distances (~0.35 magnitude units between 2000 and 3700 km). The low rate of amplitude decay with distance and nearly constant frequency content of the peak amplitudes suggest that Pn waves propagate efficiently in the lower part of the upper mantle in the equatorial Atlantic Ocean basins. Furthermore, these are important attributes of oceanic Pn waves that can be used to assign magnitude for small- to moderate-size earthquakes in the equatorial mid-Atlantic region. The estimated station corrections correlate well with upper mantle low-velocity anomalies, especially in Brazil.

58 GEOSCIENCES↗

Evidence for $CP$ violation and measurement of $CP$-violating parameters in B$^0_\mathrm{s}$ $\to$ J/$\psi\,\phi$(1020) decays in pp collisions at $\sqrt{s} =$ 13 TeV

A pioneering machine-learning-based flavor-tagging algorithm combining same-side and opposite-side tagging is used to obtain the equivalent of 27$\,$000 tagged B$^0_\mathrm{s}$$\to$ J/$\psi\, \phi$(1020) decays from pp collisions at $\sqrt{s} =$ 13 TeV, collected by the CMS experiment and corresponding to an integrated luminosity of 96.5 fb$^{-1}$. A time- and flavor-dependent angular analysis of the $\mu^+\mu^-$K$^+$K$^-$ final state is used to measure parameters of the $\mathrm{B}^0_\mathrm{s}$-$\overline{\mathrm{B}}^0_\mathrm{s}$ system. The weak phase is measured to be $\phi_\mathrm{s}$ = $-$73 $\pm$ 23 (stat) $\pm$ 7 (syst) mrad, which, combined with a $\sqrt{s}$ = 8 TeV CMS result, gives $\phi_\mathrm{s}$ = $-$74 $\pm$ 23 mrad. This value differs from zero by 3.2 standard deviations, providing evidence for $CP$ violation in B$^0_\mathrm{s}$$\to$ J/$\psi\,\phi$(1020) decays. All measured physics parameters are found to agree with standard model predictions where available.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Observable CMB B -modes from cosmological phase transitions

A B -mode polarization signal in the cosmic microwave background (CMB) is widely regarded as smoking gun evidence for gravitational waves produced during inflation. Here, we demonstrate that tensor perturbations sourced during noninflationary epochs can yield non-negligible B -mode signals, which can in principle complicate the interpretation of future observational data. As a case study, we consider tensor perturbations sourced in the bubble collision stage of a first-order cosmological phase transition occurring in a secluded dark sector. Although phase transitions arise from causal subhorizon physics, they nevertheless exhibit a white noise power spectrum on superhorizon scales. Power is suppressed on the large scales relevant for CMB B -mode polarization, but it is not necessarily negligible. We show that for appropriately chosen phase transition parameters, the maximal B -mode amplitude can compete with inflationary predictions that can be tested with current and future experiments. These scenarios can be differentiated by performing measurements on multiple angular scales, since the phase transition signal predicts peak power on smaller scales.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Effects of magnetic and structural phase transitions on the normal and anomalous Hall effects in Ni-Mn-In-B Heusler alloys

In this work, magnetization, electrical resistivity, magnetoresistance, and Hall resistivity of Ni 50 Mn 35 In 14.25 B 0.75 and Ni 50 Mn 35 In 14.5 B 0.5 Heusler alloys were studied in a temperature range $\textit{T}$ = 80–400 K in magnetic fields up to 20 kOe. Both alloys exhibit a martensitic transformation from a high-temperature ferromagnetic austenite phase to a low-temperature, low-magnetization martensitic phase. The electrical resistivity nearly doubles as a result of the martensitic transformation, reaching 180 and 100 µΩ cm in the martensitic states of Ni 50 Mn 35 In 14.25 B 0.75 and Ni 50 Mn 35 In 14.5 B 0.5 , respectively. The temperature dependence of the electrical resistivity does not corresponded with the Mooij correlation. The magnetoresistance is negative with a narrow negative peak at the martensitic transition. Normal and anomalous Hall effect coefficients were determined by fitting the field dependences of the Hall resistivity using magnetization data. The coefficients of the normal Hall effect for both compositions were found to decrease with temperature from positive values in the austenite to negative values in the martensite phase. None of the known correlations between the anomalous Hall effect coefficient and resistivity were satisfied. Significant changes in the values of the anomalous Hall coefficients during the martensitic transformation are explained by the difference in spin-up and spin-down state occupations in the martensite and austenite phases. First-principles calculations of the electronic structures confirm this explanation.

32 ENERGY CONSERVATION, CONSUMPTION, AND UTILIZATI↗

Near-threshold resonances in C 11 and the B 10 ( p , α ) Be 7 aneutronic reaction

The nucleus 11 C plays an important role in the boron-proton fusion reactor environment as a catalyzer of the 10 B(p,α) 7 Be reaction which, by producing a long-lived isotope of 7 Be, poisons the aneutronic fusion process 11 B(p,2α) 4 He. The low-energy cross section of 10 B(p,α) 7 Be depends on the near-threshold states 7/2$^{+}_{1}$, 5/2$^{+}_{2}$, 5/2$^{+}_{3}$ in 11 C whose properties are primarily known from the indirect measurements. Here we investigate the continuum-coupling induced collectivization of these resonances in the shell model embedded in the continuum. We predict a significant enhancement of the 10 B(p,α) 7 Be cross section at energies accessible to the laser-driven hot plasma facilities.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗

Simons Observatory: Constraining inflationary gravitational waves with multitracer B-mode delensing

We introduce and validate a delensing framework for the Simons Observatory (SO), which will be used to improve constraints on inflationary gravitational waves by reducing the lensing noise in measurements of the B modes in CMB polarization. SO will initially observe CMB by using three small aperture telescopes and one large-aperture telescope. While polarization maps from small-aperture telescopes will be used to constrain inflationary gravitational waves, the internal CMB lensing maps used to delens will be reconstructed from data from the large-aperture telescope. Since lensing maps obtained from the SO data will be noise dominated on subdegree scales, the SO lensing framework constructs a template for lensing-induced B modes by combining internal CMB lensing maps with maps of the cosmic infrared background from Planck as well as galaxy density maps from the LSST survey. We construct a likelihood for constraining the tensor-to-scalar ratio r that contains auto and cross spectra between observed B modes and the lensing B-mode template. We test our delensing analysis pipeline on map-based simulations containing survey nonidealities, but that, for this initial exploration, does not include contamination from Galactic and extragalactic foregrounds. We find that the SO survey masking and inhomogeneous and atmospheric noise have very little impact on the delensing performance, and the r constraint becomes σ(r)≈0.0015 which is close to that obtained from the idealized forecasts in the absence of the Galactic foreground and is nearly a factor of 2 tighter than without delensing. We also find that uncertainties in the external large-scale structure tracers used in our multitracer delensing pipeline lead to bias much smaller than the 1σ statistical uncertainties.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

The ICF syndrome protein CDCA7 harbors a unique DNA binding domain that recognizes a CpG dyad in the context of a non-B DNA

CDCA7, encoding a protein with a carboxyl-terminal cysteine-rich domain (CRD), is mutated in immunodeficiency, centromeric instability, and facial anomalies (ICF) syndrome, a disease related to hypomethylation of juxtacentromeric satellite DNA. How CDCA7 directs DNA methylation to juxtacentromeric regions is unknown. Here, we show that the CDCA7 CRD adopts a unique zinc-binding structure that recognizes a CpG dyad in a non-B DNA formed by two sequence motifs. CDCA7, but not ICF mutants, preferentially binds the non-B DNA with strand-specific CpG hemi-methylation. The unmethylated sequence motif is highly enriched at centromeres of human chromosomes, whereas the methylated motif is distributed throughout the genome. At S phase, CDCA7, but not ICF mutants, is concentrated in constitutive heterochromatin foci, and the formation of such foci can be inhibited by exogenous hemi-methylated non-B DNA bound by the CRD. Binding of the non-B DNA formed in juxtacentromeric regions during DNA replication provides a mechanism by which CDCA7 controls the specificity of DNA methylation.

Science & Technology - Other Topics↗

Structure-function analysis of the FCRL5–IgG1 Fc complex reveals an unappreciated pathway for B cell modulation by Fc-attenuated IgG

The Fc region of therapeutic IgG antibodies is often engineered to remove or “silence” Fc effector functions, but it remains unclear whether these mutations eliminate all Fc-mediated effector activity. Human Fc receptor-like 5 (FCRL5/FcRH5) is a low-affinity IgG Fc receptor expressed on B cells and is an actively pursued antibody target in multiple myeloma. Here, we show that common Fc function-silencing mutations do not impair FCRL5-mediated activity and therefore attenuate, rather than eliminate, Fc effector function. The crystal structure of the FCRL5-IgG1 Fc complex, solved at 3.4 Å resolution, revealed that FCRL5 binds IgG1 Fc in a 1:1 complex through a binding mode distinct from that of classical Fcγ receptors, explaining why mutations that attenuate Fc effector function spare FCRL5 binding. Fc-engineered antibodies that selectively engage FCRL5 inhibited B cell receptor-induced Ca 2+ flux in FCRL5-expressing B cells. These findings demonstrate that Fc-attenuated therapeutic IgG retains the ability to engage FCRL5, identifying an unappreciated pathway for B cell modulation.

Herpers, Bart M. [Department of Biomedical Enginee↗

Pleiotropic Effects of Influenza H1, H3, and B Baloxavir-Resistant Substitutions on Replication, Sensitivity to Baloxavir, and Interferon Expression

Baloxavir is an anti-influenza endonuclease inhibitor that targets the polymerase acidic (PA) protein of influenza A and B viruses. Our knowledge regarding the pleiotropic effects of baloxavir resistance-associated substitutions is limited. We generated recombinant A/California/04/09 (H1N1)-, A/Hong Kong/218849/2006 (H3N2)-, and B/Victoria/504/2000-like viruses that contained PA substitutions identified in baloxavir clinical trials and surveillance that could potentially be associated with baloxavir resistance. We characterized their susceptibility to baloxavir, impact on polymerase activity, viral growth, and ability to induce interferon (IFN) and IFN-stimulated genes expression in vitro. Four PA substitutions, H1N1 I38L/T, E199D, and B G199R, significantly reduced the sensitivity of the recombinant viruses to baloxavir (14.1-fold). We confirmed our findings by using the luciferase-based ribonucleoprotein minigenome assay and by using virus yield reduction assay in Calu-3 and normal human bronchial epithelial (NHBE) cells. We observed that I38L and E199D resulted in decreased viral replication of the H1N1 wild-type virus (1.4-fold) but the H1N1 I38T and B G199R substitutions did not significantly alter replication capacity in Calu-3 cells. In addition, H1N1 variants with PA I38L/T and E199D induced significantly higher levels of IFNB1 gene expression compared to the wild-type virus (4.2-fold). In contrast, the B variant, G199R, triggered the lowest levels of IFN genes in Calu-3 cells (1.6-fold). Because baloxavir is a novel anti-influenza therapeutic agent, identifying and characterizing substitutions associated with reduced sensitivity to baloxavir, as well as the impact of these substitutions on viral fitness, is paramount to the strategic implementation of this novel countermeasure.

54 ENVIRONMENTAL SCIENCES↗

Expression of interest for the CODEX-b detector

Abstract This document presents the physics case and ancillary studies for the proposed CODEX-b long-lived particle (LLP) detector, as well as for a smaller proof-of-concept demonstrator detector, CODEX- $$\beta $$ β , to be operated during Run 3 of the LHC. Our development of the CODEX-b physics case synthesizes ‘top-down’ and ‘bottom-up’ theoretical approaches, providing a detailed survey of both minimal and complete models featuring LLPs. Several of these models have not been studied previously, and for some others we amend studies from previous literature: In particular, for gluon and fermion-coupled axion-like particles. We moreover present updated simulations of expected backgrounds in CODEX-b’s actively shielded environment, including the effects of shielding propagation uncertainties, high-energy tails and variation in the shielding design. Initial results are also included from a background measurement and calibration campaign. A design overview is presented for the CODEX- $$\beta $$ β demonstrator detector, which will enable background calibration and detector design studies. Finally, we lay out brief studies of various design drivers of the CODEX-b experiment and potential extensions of the baseline design, including the physics case for a calorimeter element, precision timing, event tagging within LHCb, and precision low-momentum tracking.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Oxygen torus and its coincidence with EMIC wave in the deep inner magnetosphere: Van Allen Probe B and Arase observations

We investigate the longitudinal structure of the oxygen torus in the inner magnetosphere for a specific event found on 12 September 2017, using simultaneous observations from the Van Allen Probe B and Arase satellites. It is found that Probe B observed a clear enhancement in the average plasma mass (M) up to 3–4 amu at L = 3.3–3.6 and magnetic local time (MLT) = 9.0 h. In the afternoon sector at MLT ~ 16.0 h, both Probe B and Arase found no clear enhancements in M. This result suggests that the oxygen torus does not extend over all MLT but is skewed toward the dawn. Since a similar result has been reported for another event of the oxygen torus in a previous study, a crescent-shaped torus or a pinched torus centered around dawn may be a general feature of the O + density enhancement in the inner magnetosphere. We newly find that an electromagnetic ion cyclotron (EMIC) wave in the H + band appeared coincidently with the oxygen torus. From the lower cutoff frequency of the EMIC wave, the ion composition of the oxygen torus is estimated to be 80.6% H + , 3.4% He + , and 16.0% O + . According to the linearized dispersion relation for EMIC waves, both He + and O + ions inhibit EMIC wave growth and the stabilizing effect is stronger for He + than O + . Therefore, when the H + fraction or M is constant, the denser O + ions are naturally accompanied by the more tenuous He + ions, resulting in a weaker stabilizing effect (i.e., larger growth rate). From the Probe B observations, we find that the growth rate becomes larger in the oxygen torus than in the adjacent regions in the plasma trough and the plasmasphere.

79 ASTRONOMY AND ASTROPHYSICS↗

Evaluation of the Change in Uranium Mobility in Sediments from the Hanford 300-FF-5 Stage B Polyphosphate Field Injection

The purpose of this study was to evaluate the change in uranium mobility in the periodically re-wetted zone (PRZ) and upper unconfined aquifer of the Hanford Site’s 300-FF-5 operable unit as a result of Stage B polyphosphate (PO 4 ) injections. These 300 Area sediments are beneath or near the former North Process Pond, which has previously been shown to contain metatorbernite [Cu(UO 2 ) 2 (PO 4 ) 2 •8H 2 O] and uranophane [Ca(UO 2 ) 2 (SiO 3 OH) 2 •5H 2 O], along with aqueous and adsorbed uranium (U), and small amounts of U in calcite as a result of acidic disposal with a significant number of co-contaminants. Previous laboratory-scale studies have identified multiple mechanisms that decrease uranium mobility with polyphosphate injection: (a) precipitation of a low-solubility uranium-phosphate mineral (autunite); (b) precipitation of a Ca-phosphate solid that incorporates U; (c) precipitation of Ca-phosphate mineral (apatite group minerals) that coats existing uranium phases (i.e., U in calcite, U in Fe-oxides), reducing uranium leaching; and (d) aqueous Ca-U-carbonate species adsorption onto apatite. Given the significant amount of apatite precipitation, other U phases such as carbonates could also coprecipitate with apatite. To quantify differences in solubility, leachability, and phases of uranium between pre- and post-PO 4 -treated sediments, different types of analyses were conducted, including analysis of uranium in (a) a carbonate solution extraction from sediment over 1000 h (41.67 days), (b) six sequential liquid extractions from sediment over approximately 1 week, (c) leaching of uranium from sediments in one dimensional (1-D) column experiments over 2 months, and (d) solid phase characterization of select sediments. An additional extraction and solid phase measurements were conducted to evaluate phosphate precipitate formation. Metals were also analyzed in sequential liquid extractions as indicators of (a) amendment injection delivery, (b) co-contaminant movement, and (c) changes in solid phases. Aqueous and solid phase carbonate measurements were also conducted to evaluate changes in carbonates.

12 MANAGEMENT OF RADIOACTIVE AND NON-RADIOACTIVE W↗

Vadose Zone Model for B Plant Area for Composite Analysis

The objectives of the vadose modeling for the updated Hanford Site composite analysis (CA) are to simulate the flow and transport of water and radionuclide releases from the surface to the water table and to provide radionuclide transfer rates for the plateau to river (P2R) model, version 8.3. Water additions include natural recharge and water discharged to the ground as a result of industrial processes associated with Hanford Site operations. Contaminant sources include radionuclides in water discharged to the ground during operations and radionuclides disposed “dry” in solid waste burial grounds or other means. The simulation time starts in 1943 and ends at 12070, which is 10,000 years after assumed Hanford Site closure in 2070. The scope of this ECF is to document the development and results of the B Plant Area vadose zone model. The B Plant Area model encompasses the region around B Plant (221-B) in the western part of 200 East Area. The plant was used to separate plutonium from irradiated fuel using the bismuth-phosphate process from 1945 to 1956, and for strontium and cesium recovery from 1968 to 1985.

12 MANAGEMENT OF RADIOACTIVE AND NON-RADIOACTIVE W↗

Vadose Zone Model for B-3 Pond for Composite Analysis

The objectives of the vadose modeling for the updated Hanford Site composite analysis (CA) are to simulate the flow and transport of water and radionuclide releases from the surface to the water table and to provide radionuclide transfer rates for the plateau to river (P2R) model, version 8.3. Water additions include natural recharge and water discharged to the ground as a result of industrial processes associated with Hanford Site operations. Contaminant sources include radionuclides in water discharged to the ground during operations and radionuclides disposed “dry” in solid waste burial grounds or other means. The simulation time starts in 1943 and ends at 12070, which is 10,000 years after assumed Hanford Site closure in 2070. The scope of this ECF is to document the development and results of the B-3 Pond vadose zone model. The B-3 Pond model covers the main lobe of the 216-B-3 Pond System located in a topographic low east of the 200 East Area. The pond system operated from 1945 to 1997 and received effluents from the Plutonium Uranium Extraction Plant, B Plant, 284-E Powerhouse, and other 200 East Area facilities.

12 MANAGEMENT OF RADIOACTIVE AND NON-RADIOACTIVE W↗

Structure-Function and Nearest Neighbor Interactions of the Cytochrome b 6 f Complex

Test prediction from our (i) high resolution (2.5 Å) structure of cyanobacterial cytochrome b 6 f complex (Structure, 22, 1008-1015, 2014), and (ii) analysis of quinone/quinol traffic within the b 6 f complex (Biophys. J., 107, 1620-1628, 2014) concerning the rate-limiting step in the linear (non-cyclic) electron transport chain. It was concluded that it arises from access of plastoquinol, the electron/proton donor, to the high potential electron carriers, i. e., the Fe 2 S 2 and cytochrome f proteins. The directed motion of the quinol proceeds via a narrow channel on the lumen or electrochemically positive, p- (lumen) side of the b 6 f complex which was defined by crystal structures of the b 6 f complex with quinol analogue inhibitors (J. Mol. Biol., 370, 39-52, 2007).

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗