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All sourcesNASA NTRSDOE OSTI
DOE OSTI2022

PDB‐101: Molecular Explorations through Biology and Medicine

PDB‐101 is an online portal for teachers, students, and the general public to promote exploration of the structural biology of proteins and nucleic acids ( pdb101.rcsb.org ). Learning about the diverse shapes and functions of these biological macromolecules helps to understand all aspects of biomedicine and agriculture, from protein synthesis to health and disease to biological energy. Why PDB‐101? Researchers around the world are studying these molecules at the atomic level. These 3D structures are freely available at the Protein Data Bank (PDB), the central storehouse of biomolecular structures. This website builds introductory materials to help beginners get started in the basics of biomolecular structure and function (“101”, as in an entry level course) as well as resources for extended learning. Since 2011, PDB‐101 has been developed by the RCSB PDB , a global resource for the advancement of research and education in biology and medicine. Along with our Worldwide PDB collaborators, RCSB PDB curates, annotates, and makes publicly available the PDB data deposited by scientists around the globe. The RCSB PDB then provides a window to these data through a rich online resource with powerful searching, reporting, and visualization tools for researchers. This information is then streamlined for students and teachers at PDB‐101. Features include the ongoing Molecule of the Month series, educational materials such as paper models, posters, molecular animations, educational curricula and more. The section “Guide to Understanding PDB Data” is a primer for detailed PDB‐specific information: PDB Data, Visualizing Structures, Reading Coordinate Files, scientific methods for structure determination, and more. PDB‐101 also runs annual Video Challenges for high school students. Participants create short videos that tell molecular stories that connect structural biology and medicine. Previous topics have included HIV/AIDS, diabetes, and antimicrobial resistance. The 2022 challenge will focus on Molecular Mechanisms of Cancer. PDB‐101 activities are evaluated using user surveys, feedback from in‐person activities, and website analytics. In 2020, PDB‐101 hosted >850,000 users and >2.6 million page views.

Zardecki, Christine↗
DOE OSTI2023

Wealth inequality in the prehispanic northern US Southwest: from Malthus to Tyche

Persistent differences in wealth and power among prehispanic Pueblo societies are visible from the late AD 800s through the late 1200s, after which large portions of the northern US Southwest were depopulated. In this paper we measure these differences in wealth using Gini coefficients based on house size, and show that high Ginis (large wealth differences) are positively related to persistence in settlements and inversely related to an annual measure of the size of the unoccupied dry-farming niche. We argue that wealth inequality in this record is due first to processes inherent in village life which have internally different distributions of the most productive maize fields, exacerbated by the dynamics of systems of balanced reciprocity; and second to decreasing ability to escape village life owing to shrinking availability of unoccupied places within the maize dry-farming niche as villages get enmeshed in regional systems of tribute or taxation. We embed this analytical reconstruction in the model of an ‘Abrupt imposition of Malthusian equilibrium in a natural-fertility, agrarian society’ proposed by Puleston et al. (Puleston C, Tuljapurkar S, Winterhalder B. 2014 PLoS ONE 9, e87541 (doi:10.1371/journal.pone.0087541)), but show that the transition to Malthusian dynamics in this area is not abrupt but extends over centuries. This article is part of the theme issue ‘Evolutionary ecology of inequality’.

99 GENERAL AND MISCELLANEOUS↗
DOE OSTI2025

Singly occupied 4⁢𝑓 antiferromagnetic insulators: CePO 4 and CeVO 4

Rare-earth containing wide band gap oxides, which provide spin-photon interface and narrow linewidth optical emission, are getting significant attention as the most promising candidate materials in advancing quantum transduction and memories. Here, in this work, from ab initio calculations, we identify antiferromagnetic ground states in structurally preferred monoclinic CePO 4 and tetragonal CeVO 4 exhibiting localized occupied and unoccupied Ce 4⁢𝑓 states with 4⁢𝑓−4⁢𝑓 transition characteristics. Interestingly, in CePO 4 , O 2⁢𝑝 and P 3⁢𝑝 states hybridize negligibly with Ce 4⁢𝑓 states, while in CeVO 4 , V 3⁢𝑑 and O 2⁢𝑝 states hybridize and appear as extended states in between the occupied and unoccupied Ce 4⁢𝑓 states. Here, phonon calculations and analysis identify and differentiate Raman active phonon modes along with the spin phonon coupling of Ce in both CePO 4 and CeVO 4 that ultimately lead to different 4⁢𝑓 ground-state crystal-field multiplets, which are critical to accurately describe electronic transitions for foundational quantum transduction and memories. Further, the identified 𝐶 1 site symmetry of Ce, lacking inversion symmetry in CePO 4 , is relevant for quantum memories and 𝐷 2⁢𝑑 site symmetry of Ce exhibiting inversion symmetry in CeVO 4 is relevant for quantum transduction.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗
DOE OSTI2026

SPT-3G D1: Axion early dark energy with CMB experiments and DESI observations

We present the most up-to-date constraints on axion early dark energy (AEDE) from cosmic microwave background (CMB) and baryon acoustic oscillation (BAO) measurements. In particular, we assess the impact of data from ground-based CMB experiments, the South Pole Telescope (SPT) and the Atacama Cosmology Telescope (ACT)—both with and without Planck—on constraints on AEDE. We also highlight the impact that BAO information from the Dark Energy Spectroscopic Instrument (DESI) has on these constraints. From CMB data alone, we do not find statistically significant evidence for the presence of AEDE, and we find only moderate reduction in the Hubble tension. From the latest SPT data alone, we find the maximal fractional contribution of AEDE to the cosmic energy budget is f EDE < 0.12 at 95% confidence level (CL), and the Hubble tension between the SPT and Supernovae, H0, for the Equation of State of Dark Energy (SH0ES) results is reduced to the 2.3 σ level. When combining the latest SPT, ACT, and Planck datasets, we find f EDE < 0.070 at 95% CL and the Hubble tension at the 3.6 σ level. In contrast, adding DESI data to the CMB datasets results in mild preference for AEDE and, in some cases, non-negligible reduction in the Hubble tension. From SPT + DESI , we find f EDE = 0.08 1 - 0.052 + 0.037 at 68% CL, and the Hubble tension reduces to 1.5 σ . From the combination of DESI with all three CMB experiments, we get f EDE = 0.05 5 - 0.047 + 0.024 at 68% CL and a weak preference for AEDE over Λ CDM . This data combination, in turn, reduces the Hubble tension to 2.6 σ . We highlight that this shift in parameters when adding the DESI dataset is a manifestation of the discrepancy currently present between DESI and CMB experiments in the concordance model Λ CDM .

Khalife, A. R. [Paris, Inst. Astrophys.] (ORCID:00↗
DOE OSTI2025

Fundamental limit of jet tagging

Identifying the origin of high-energy hadronic jets (jet tagging) has been a critical benchmark problem for machine learning in particle physics. Jets are ubiquitous at colliders and are complex objects that serve as prototypical examples of collections of particles to be categorized. Over the last decade, machine learning-based classifiers have replaced classical observables as the state of the art in jet tagging. Increasingly complex machine learning models are leading to increasingly more effective tagger performance. Our goal is to address the question of convergence—are we getting close to the fundamental limit on jet tagging or is there still potential for computational, statistical, and physical insights for further improvements? We address this question using state-of-the-art generative models to create a realistic, synthetic dataset with a known jet tagging optimum. Various state-of-the-art taggers are deployed on this dataset, showing that there is a significant gap between their performance and the optimum. Our dataset and software are made public to provide a benchmark task for future developments in jet tagging and other areas of particle physics.

Artificial intelligence↗
DOE OSTI2021

Success of digital adiabatic simulation with large Trotter step

The simulation of adiabatic evolution has deep connections with adiabatic quantum computation, the quantum approximate optimization algorithm, and adiabatic state preparation. Here we address the error analysis problem in quantum simulation of adiabatic process using Trotter formulas. Here we show that with additional conditions, the circuit depth can be linear in simulation time T. The improvement comes from the observation that the fidelity error here can't be estimated by the norm distance between evolution operators. This phenomenon is termed the robustness of discretization in digital adiabatic simulation. It can be explained in three steps, from analytical and numerical evidence: (1) The fidelity error should be estimated by applying adiabatic theorem on the effective Hamiltonian instead. (2) Because of the specialty of Riemann-Lebesgue lemma, most adiabatic process is naturally robust against discretization. (3) As the Trotter step gets larger, the spectral gap of effective Hamiltonian tends to close, which results in the failure of digital adiabatic simulation.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗
DOE OSTI2022

Photoionization branching ratios of spin-orbit doublets far above thresholds: Interchannel and relativistic effects in the noble gases

Photoionization branching ratios of all of the spin-orbit doublets in the noble gas atoms Ne, Ar, Kr, and Xe have been investigated theoretically at energies well above the thresholds. The results confirm in all cases that the general behavior of the branching ratios is to decrease monotonically below their statistical value with increasing photon energy. Here, this effect gets more pronounced with increasing Z. In addition, the branching ratios can be strongly affected by interchannel coupling with inner shell photoionization channels. Although these effects are strongest in the neighborhood of the inner shell thresholds, they can persist over a broad range of energies,

74 ATOMIC AND MOLECULAR PHYSICS↗
DOE OSTI2025

Cheaper and more noise-resilient quantum state preparation using eigenvector continuation

Subspace methods are powerful, noise-resilient methods that can effectively prepare ground states on quantum computers. The challenge is to get a subspace with a small condition number that spans the states of interest using minimal quantum resources. In this work, we will use eigenvector continuation to build a subspace from the low-lying states of a set of Hamiltonians. The basis vectors are prepared using truncated versions of standard state preparation methods such as imaginary-time evolution (ITE), adiabatic state preparation (ASP), and variational quantum eigensolver. By using these truncated methods combined with eigenvector continuation, we can directly improve upon them, obtaining more accurate ground-state energies at a reduced cost. We use several spin systems to demonstrate convergence even when methods like ITE and ASP fail, such as ASP in the presence of level crossings and ITE with vanishing energy gaps. We also showcase the noise resilience of this approach beyond the gains already made by having shallower quantum circuits. Furthermore, our findings suggest that eigenvector continuation can be used to improve existing state preparation methods in the near term.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗
DOE OSTI2020

Electron Tunneling and X-Ray Photoelectron Spectroscopy Studies of the Superconducting Properties of Nitrogen-Doped Niobium Resonator Cavities

Scanning tunneling microscopy and spectroscopy and X-ray photoelectron spectroscopy (XPS) have been used to investigate the differences between the surface electronic structures and chemical structure of typically prepared and N-doped Nb cutouts from superconducting radio frequency (SRF) cavities. The goal of this work is to get insights into the fundamental physics and materials mechanisms behind the striking decrease of the surface resistance with the radiofrequency magnetic field, which has been observed by many groups on N-doped Nb cavities. In particular, we address the effects of N-doping on the superconducting properties at the surface of SRF cavities. XPS measurements reveal a significantly more oxidized Nb 3d states on the N-doped Nb surfaces which is confirmed by tunneling spectroscopy measurements. Analysis of the tunneling spectra in the framework of a recent model (A. Gurevich and T. Kubo Phys. Rev. B 96, 184515 (2017)) shows that the N-doping greatly reduces local distribution of superconducting properties on the surface, causes a significant shrinkage of the metallic suboxide and changes the contact resistance between the metallic suboxide and the bulk niobium toward an optimum value, resulting in a lower surface resistance. Combination of these factors enables one to effectively tune the density of states at the surface and to reveal the decrease of the surface resistance with the radio frequency field which follows from the BCS theory. A slightly reduced average gap and a smaller coherence length, revealed by tunneling spectroscopy in the vortex cores, have been found in the N-doped Nb samples compared to typically prepared Nb samples, indicating a stronger impurity scattering caused by nitrogen doping in a moderately disordered material.

Lechner, Eric M.↗
DOE OSTI2020

Nonlinear dynamics and dissipation of a curvilinear vortex driven by a strong time-dependent Meissner current

Here, we report numerical simulations of large-amplitude oscillations of a trapped vortex line under a strong ac magnetic field $\textit{H(t) = H}$ sin$\textit{ωt}$ parallel to the surface. The power dissipated by an oscillating vortex segment driven by the surface ac Meissner currents was calculated by taking into account the nonlinear vortex line tension, vortex mass, and a nonlinear Larkin-Ovchinnikov (LO) viscous drag coefficient $\textit{η(v)}$. We show that the LO decrease of $\textit{η(v)}$ with the vortex velocity $\textit{v}$ can radically change the field dependence of the surface resistance R i ( H ) caused by trapped vortices. At low frequencies, $R_i(H)$ exhibits a conventional increase with $\textit{H}$, but as $\textit{ω}$ increases, the surface resistance becomes a nonmonotonic function of $\textit{H}$ which decreases with $\textit{H}$ at higher fields. The effects of frequency, pin spacing, and the mean-free path $l_i$ on the field dependence of $R_i(H)$ were calculated. It is shown that, as the surface gets dirtier and $l_i$ decreases, the anomalous drop of $R_i(H)$ with $\textit{H}$ shifts to lower fields which can be much smaller than the lower critical magnetic field. Our numerical simulations also show that the LO decrease of $\textit{η(v)}$ with $\textit{v}$ can cause a vortex bending instability at high field amplitudes and frequencies, giving rise to the formation of dynamic kinks along the vortex. Measurements of $R_i(H)$ caused by sparse vortices trapped perpendicular to the surface can offer opportunities to investigate an extreme nonlinear dynamics of vortices driven by strong current densities up to the depairing limit at low temperatures. The behavior of $R_i(H)$, which can be tuned by varying the rf frequency or concentration of nonmagnetic impurities, is not masked by strong heating effects characteristic of dc or pulse transport measurements.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗
DOE OSTI2021

Alloying vanadium in Mn Bi 2 Te 4 for robust ferromagnetic coupling and quantum anomalous Hall effect

The intrinsic antiferromagnetic (AFM) interlayer coupling in the two-dimensional magnetic topological insulator MnBi 2 Te 4 places a restriction on realizing a stable quantum anomalous Hall effect (QAHE) [Y. Deng et al., Science 367, 895 (2020)]. Through density functional theory calculations, we demonstrate the possibility of tuning the AFM coupling to the ferromagnetic coupling in Mn Bi 2 Te 4 films by alloying about 50% V with Mn. As a result, the QAHE can be achieved without alternation with the even or odd septuple layers. This provides a practical strategy to get a robust QAHE in ultrathin Mn Bi 2 Te 4 films, rendering them attractive for technological innovations.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗
DOE OSTI2021

Iterated projected position algorithm for constructing exponentially localized generalized Wannier functions for periodic and nonperiodic insulators in two dimensions and higher

Localized bases play an important role in understanding electronic structure. In periodic insulators, a natural choice of localized basis is given by the Wannier functions which depend on a choice of unitary transform known as a gauge transformation. Over the past few decades, there have been many works that have focused on optimizing the choice of the gauge so that the corresponding Wannier functions are maximally localized or reflect some symmetry of the underlying system. In this work, we consider fully nonperiodic materials where the usual Wannier functions are not well defined and gauge optimization is impractical. To tackle the problem of calculating exponentially localized generalized Wannier functions in both periodic and nonperiodic systems, we discuss the ‘iterated projected position (IPP)” algorithm. Here, the IPP algorithm is based on matrix diagonalization and therefore unlike optimization-based approaches, it does not require initialization and cannot get stuck at a local minimum. Furthermore, the IPP algorithm is guaranteed by a rigorous analysis to produce exponentially localized functions under certain mild assumptions. We numerically demonstrate that the IPP algorithm can be used to calculate exponentially localized bases for the Haldane model, the Kane-Mele model (in both Z 2 invariant even and Z 2 invariant odd phases), and the p x + ip y model on a quasicrystal lattice.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗
DOE OSTI2021

Quantum system dynamics with a weakly nonlinear Josephson junction bath

Here, we investigate the influence of a weakly nonlinear Josephson bath consisting of a chain of Josephson junctions on the dynamics of a small quantum system (LC oscillator). Focusing on the regime where the charging energy is the largest energy scale, we perturbatively calculate the correlation function of the Josephson bath to the leading order in the Josephson energy divided by the charging energy while keeping the cosine potential exactly. When the variation of the charging energy along the chain ensures fast decay of the bath correlation function, the dynamics of the LC oscillator that is weakly and capacitively coupled to the Josephson bath can be solved through the Markovian master equation. We establish a duality relation for the Josephson bath between the regimes of large charging and Josephson energies, respectively. The results can be applied to cases where the charging energy either is nonuniformly engineered or disordered in the chain. Furthermore, we find that the Josephson bath may become non-Markovian when the temperature is increased beyond the zero-temperature limit in that the bath correlation function gets shifted by a constant and does not decay with time.

1-dimensional systems↗
DOE OSTI2021

Dimerization and spin decoupling in a two-leg Heisenberg ladder with frustrated trimer rungs

We study the antiferromagnetic spin-half Heisenberg ladder in the presence of an additional frustrating rung spin which is motivated and relevant also for the description of real two-dimensional materials such as the two-dimensional trimer magnet Ba 4 Ir 3 O 10 . We study the zero-temperature phase diagram, where we combine numerical and analytical methods into an overall consistent description. All numerical simulations are also accompanied by studies of the dynamical spin structure factor obtained via the density matrix renormalization group. Overall, we find in the regime of strong rung coupling a gapped dimerized phase related to competing symmetry sectors in Hilbert space that ultimately results in frustration-driven spin-Peierls transition. In the weak rung-coupling regime, the system is uniform, yet shows a gapped spinon continuum together with a sharp coherent low-energy branch which renders the system critical overall. In either case, the additional rung spin quickly get sidelined and nearly decouple in the regime when their bare coupling to the ladder is weakened

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗
DOE OSTI2021

Witnessing entanglement in quantum magnets using neutron scattering

We demonstrate how quantum entanglement can be directly witnessed in the quasi-1D Heisenberg antiferromagnet KCuF 3 . We apply three entanglement witnesses—one tangle, two tangle, and quantum Fisher information—to its inelastic neutron spectrum and compare with spectra simulated by finite-temperature density matrix renormalization group (DMRG) and classical Monte Carlo methods. We find that each witness provides direct access to entanglement. Of these, quantum Fisher information is the most robust experimentally and indicates the presence of at least bipartite entanglement up to at least 50 K, corresponding to around 10% of the spinon zone-boundary energy. We apply quantum Fisher information to higher spin-S Heisenberg chains and show theoretically that the witnessable entanglement gets suppressed to lower temperatures as the quantum number increases. Finally, we outline how these results can be applied to higher dimensional quantum materials to witness and quantify entanglement.

1-dimensional systems↗
DOE OSTI2021

Crystalline solutions of the Kohn-Sham equations in the fractional quantum Hall regime

A Kohn-Sham density functional approach has recently been developed for the fractional quantum Hall effect, which maps the strongly interacting electrons into a system of weakly interacting composite fermions subject to an exchange correlation potential as well as a density dependent gauge field that mimics the "flux quanta" bound to composite fermions. To get a feel for the role of various terms, we study the behavior of the self-consistent solution as a function of the strength of the exchange correlation potential, which is varied through an ad hoc multiplicative factor. Here, we find that a crystal phase is stabilized when the exchange correlation interaction is sufficiently strong relative to the composite-fermion cyclotron energy. Various properties of this crystal are examined.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗
DOE OSTI2021

Bound state dynamics in the long-range spin- 1 2 XXZ model

Experimental platforms based on trapped ions, cold molecules, and Rydberg atoms have made possible the investigation of highly nonlocal spin-1 / 2 Hamiltonians with long-range couplings. Here, we study the effects of such nonlocal couplings in the long-range spin-1 / 2 XXZ Heisenberg Hamiltonian. Here, we calculate explicitly the two-spin energy spectrum, which describes all possible energetic configurations of two spins pointing in a specific direction embedded in a background of spins with opposite orientation. For fast decay of the spin-spin couplings, we find that the two-spin energy spectrum is characterized by well-defined discrete values, corresponding to bound states, separated by a set of continuum states describing the scattering region. In the deep long-range regime instead, the bound states disappear as they get incorporated by the scattering region. The presence of two-spin bound states results to be crucial to determine both two- and many-spin dynamics. On one hand, radically different two-spin spreadings can be observed by tuning the decay of the spin couplings. On the other hand, two-spin bound states enable the dynamical stabilization of effective antiferromagnetic states in the presence of ferromagnetic couplings. Finally, we propose a novel scheme based on a trapped-ion quantum simulator to experimentally realize the long-range XXZ model and to study its out-of-equilibrium properties.

74 ATOMIC AND MOLECULAR PHYSICS↗
DOE OSTI2022

Discretized evolution of solitons in the achiral stripe phase of a Fe/Gd thin film

Understanding magnetic phase transitions from stripe to skyrmion textures provide fundamental scientific insights into the details of the intermediate topologies through which the system evolves. The solitonic nature of spin texture in both stripe and skyrmion phases has been observed in materials with Dzyaloshinskii-Moriya interaction. In this study we show that the field evolution in a dipolar interaction mediated Fe/Gd multilayer that exhibits achiral stripe textures behaves similar to a finite-sized chiral soliton lattice. As a function of magnetic field, the stripes exhibit discrete jumps in periodicity indicative of intermediate topologies as the stripes get wound into skyrmions.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗