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At least 685 records · Page 38

Local frustration around enzyme active sites

Conflicting biological goals often meet in the specification of protein sequences for structure and function. Overall, strong energetic conflicts are minimized in folded native states according to the principle of minimal frustration, so that a sequence can spontaneously fold, but local violations of this principle open up the possibility to encode the complex energy landscapes that are required for active biological functions. We survey the local energetic frustration patterns of all protein enzymes with known structures and experimentally annotated catalytic residues. In agreement with previous hypotheses, the catalytic sites themselves are often highly frustrated regardless of the protein oligomeric state, overall topology, and enzymatic class. At the same time a secondary shell of more weakly frustrated interactions surrounds the catalytic site itself. We evaluate the conservation of these energetic signatures in various family members of major enzyme classes, showing that local frustration is evolutionarily more conserved than the primary structure itself.

Maria I. Freiberger↗

In Situ Geologic Context Mapping Transect on the Floor of Jezero Crater From Mars 2020 Perseverance Rover Observations

In situ geologic context mapping based on rover and helicopter observations provides documentation of a nearly continuous record of geology and exposed surface structure over a 120 m-wide corridor along the traverse of the Mars 2020/Perseverance rover. The results record the geologic context of Mars 2020 campaign sites and sample sites, including the local extent of bedrock outcrops, stratigraphy, attitude, and structure from imaging and rover-based remote sensing, and outcrop lithology based on in situ proximity science. Mapping identifies a sequence of igneous lithologies including (a) early mafic, possibly intrusive, rocks; (b) pervasively fractured and deeply altered massive bedrock of undetermined protolith; (c) buried and exhumed lava flows with pahoehoe and aa textures; (d) several varieties of regolith; and (e) small impact craters.

Mars 2020↗

Experimental Dynamic Characterization of a Reconfigurable Adaptive Precision Truss

The dynamic behavior of a reconfigurable adaptive truss structure with non-linear joints is investigated. The objective is to experimentally examine the effects of the local non-linearities on the global dynamics of the structure. Amplitude changes in the frequency response functions are measured at micron levels of motion. The amplitude and frequency variations of a number of modes indicate a non-linear Coulomb friction response. Hysteretic bifurcation behavior is also measured at an amplitude approximately equal to the specified free-play in the joint. Under the 1 g pre-load, however, the non-linearity was dominantly characteristic of Coulomb friction with little evidence of free-play stiffening.

Hinkle, J. D.↗

Observations of Closed Structures at the Magnetopause: A Case for Multiple Reconnections

We further analyze a case of Interball LLBL crossing on the dusk flank of geomagnetosphere under southward magnetosheath magnetic field, previously categorized as an interval of highly structured LLBL. These conditions of highly structured LLBL include reconnection signatures. Observed ion velocity distributions with LLBL are quite variable. D-shaped distributions that are associated with the open reconnected flux tube are observed at the boundaries of LLBL transients and sometimes within the LLBL transients. In most cases the ion velocity distributions consist of two magnetosheath-type components with different velocities parallel to the magnetic field, or of three components one of which has nearly zero Vpar. The shapes of ion velocity distributions and their evolution with decreasing number density in LLBL indicate that most of LLBL is located on closed magnetic field lines. These observations strongly favor multiple reconnections between magnetosheath and magnetosphereric flux tubes, creating long spiral flux tube islands at the magnetopause. We report evidence for the simultaneous occurrence of magnetic reconnection at multiple points across the magnetopause, as has been proposed and found to occur in magnetopause simulations. The evidence is in the form of highly structured distributions of ions in velocity parallel to the local magnetic field direction, within the magnetopause and low latitude boundary layer region, from the Interball-Tall spacecraft. We interpret these distributions as a natural consequence of the formation of spiral magnetic flux tubes consisting of a mixture of alternating segments originating from the magnetosheath or interplanetary plasma and from the low latitude boundary layer or magnetospheric plasma. We further analyze a case of Interball LLBL crossing on the dusk flank of geomagnetosphere under southward magnetosheath magnetic field, previously categorized as an interval of highly structured LLBL. These conditions of highly structured LLBL include reconnection signatures. Observed ion velocity distributions with LLBL are quite variable. D-shaped distributions that are associated with the open reconnected flux tube are observed at the boundaries of LLBL transients and sometimes within the LLBL transients. In most cases the ion velocity distributions consist of two magnetosheath-type components with different velocities parallel to the magnetic field, or of three components one of which has nearly zero Vpar. The shapes of ion velocity distributions and their evolution with decreasing number density in LLBL indicate that most of LLBL is located on closed magnetic field lines. These observations strongly favor multiple reconnection between magnetosheath and magnetospheric flux tubes, creating long spiral flux tube islands at the magnetopause. We report evidence for the simultaneous occurrence of magnetic reconnection at multiple points across the magnetopause, as has been proposed and found to occur in magnetopause simulations. The evidence is in the form of highly structured distributions of ions in velocity parallel to the local magnetic field direction, within the magnetopause and low latitude boundary layer region, from the Interball-Tail spacecraft. We interpret these distributions as a natural consequence of the formation of spiral. We further analyze a case of Interball LLBL crossing on the dusk flank of geomagnetosphere under southward magnetosheath magnetic field, previously categorized as an interval of highly structured LLBL. These conditions of highly structured LLBL include reconnection signatures. Observed ion velocity distributions with LLBL are quite variable. D-shaped distributions that are associated with the open reconnected flux tube are observed at the boundaries of LLBL transients and sometimes within the LLBL transients. In most cases the ion velocity distributions consist of two magnetosheath-type components with different velocities parallel to the magnetic field, or of three components one of which has nearly zero Vpar.

Vaisberg, O. L.↗

Elastic Response and Failure Studies of Multi-Wall Carbon Nanotube Twisted Yarns

Experimental data on the stress-strain behavior of a polymer multiwall carbon nanotube (MWCNT) yarn composite are used to motivate an initial study in multi-scale modeling of strength and stiffness. Atomistic and continuum length scale modeling methods are outlined to illustrate the range of parameters required to accurately model behavior. The carbon nanotubes yarns are four-ply, twisted, and combined with an elastomer to form a single-layer, unidirectional composite. Due to this textile structure, the yarn is a complicated system of unique geometric relationships subjected to combined loads. Experimental data illustrate the local failure modes induced by static, tensile tests. Key structure-property relationships are highlighted at each length scale indicating opportunities for parametric studies to assist the selection of advantageous material development and manufacturing methods.

Gates, Thomas S.↗

Self-Organized Criticality, Multifractals, and Intermittent Turbulence in Earth's Magnetotail

We have achieved all the goals stated in our grant proposal in collaboration with Dr. C.C. Wu of the University of California at Los Angeles. Specifically, these include: The understanding of the complexity induced nonlinear spatiotemporal structures and the coexisting propagating modes. The development of plasma resonances and coherent structures in space plasmas. The study of fluctuation-induced nonlinear instabilities and their role in the reconfiguration of magnetic topologies in the magnetotail. The development of "anisotropic three-dimensional complexity" in the plasma sheet due to localized merging and interactions of the magnetic coherent structures and associated topological phase transitions. The understanding of the intermittent turbulence and energization process of the observed Bursty Bulk Flows (BBF's) in the Earth s magnetotail. The acceleration of ions due to the intermittent turbulence of propagating arid nonpropagating fluctuations In the following, we include lists of our published papers, invited talks, and professional activities. A detailed description of our accomplished research results is given in Section IV.

Chang, Tom↗

A Structural Model Decomposition Framework for Systems Health Management

Systems health management (SHM) is an important set of technologies aimed at increasing system safety and reliability by detecting, isolating, and identifying faults; and predicting when the system reaches end of life (EOL), so that appropriate fault mitigation and recovery actions can be taken. Model-based SHM approaches typically make use of global, monolithic system models for online analysis, which results in a loss of scalability and efficiency for large-scale systems. Improvement in scalability and efficiency can be achieved by decomposing the system model into smaller local submodels and operating on these submodels instead. In this paper, the global system model is analyzed offline and structurally decomposed into local submodels. We define a common model decomposition framework for extracting submodels from the global model. This framework is then used to develop algorithms for solving model decomposition problems for the design of three separate SHM technologies, namely, estimation (which is useful for fault detection and identification), fault isolation, and EOL prediction. We solve these model decomposition problems using a three-tank system as a case study.

Roychoudhury, Indranil↗

Probing the interstellar medium with pulsars on AU scales

We present a new technique, multiepoch observations of 21 cm absorption against high-velocity pulsars, to probe the properties of the cold neutral hydrogen gas (H I) in the interstellar medium (ISM) at AU scales. In three epochs, over a 1.7 yr interval, we find evidence for significant opacity variations toward all of the pulsars in our sample. Small-scale structure in the ISM is detected on a range of scales from 5 AU to 100 AU, over a wide range of distances (50-2600 pc), opacities (tau(sub max) = 0.1 - 2.5) and directions (anticenter, interarm, high latitude, and local ISM). It appears that small-scale structure is a general property of the ISM and is not confined to special lines of sight. A significant fraction (10%-15%) of the cold H I gas is in this form. These opacity variations do not show any strong correlations with such parameters as transverse distance or integrated opacity, and there is no obvious relation between these structures and those seen in the ionized phase of the ISM.

Frail, Dale A.↗

HST observations of 3C 66B - A double-stranded optical jet

The central region of the synchrotron jet in 3C 66B imaged with ultrahigh spatial resolution by the Faint Object Camera on the HST is discussed. A close correspondence between the general characteristics of the smoothed optical image and the radio map is observed, implying that the young and old relativistic particles occupy similar regions to within about 130 pc. Focus is placed on the double-stranded filamentary nature of the jet, and it is speculated that this could reflect edge-brightening effects due to enhanced radiation from a skinlike structure surrounding the jet. It is noted that the similarity of optical and radio morphologies points to the fact that localized particle acceleration occurs along the jet; however, the filamentary structure and a low filling factor of radiation agree with a model in which the electrons are accelerated within the nucleus and are transported along the jet in a channel having low magnetic field.

Macchetto, F.↗

Multiple Radially Aligned Plasmaspheric Structures as Evidence of Standing Hydromagnetic Waves: IMAGE EUV Observations and Forward Modeling

The IMAGE EUV imager has observed several instances where the outer plasmasphere is populated by multiple radially aligned structures resembling "plasmaspheric fingers". The observation of these plasmaspheric structures suggests the presence of an azimuthal standing hydromagnetic wave mode. Eiganmodes appear to explain finger-like. nearly radial density structures that sometimes divide into two structures with increasing radial distance. The implication is of boundaries at fixed local times, which results in a widening "box" in which standing waves are developed. The structures also suggest a single driving frequency for the source of the waves. We present EUV observations of plasmaspheric fingers observed on August 2000 as well as plasmaspheric modeling of azimuthal wave modes in an effort to quantify the origin of these observed structures

Gallagher, D. L.↗

Nanorice Particles: Hybrid Plasmonic Nanostructures

A new hybrid nanoparticle, i.e., a nanorice particle, which combines the intense local fields of nanorods with the highly tunable plasmon resonances of nanoshells, is described herein. This geometry possesses far greater structural tunability than previous nanoparticle geometries, along with much larger local field enhancements and far greater sensitivity as a surface plasmon resonance (SPR) nanosensor than presently known dielectric-conductive material nanostructures. In an embodiment, a nanoparticle comprises a prolate spheroid-shaped core having a first aspect ratio. The nanoparticle also comprises at least one conductive shell surrounding said prolate spheroid-shaped core. The nanoparticle has a surface plasmon resonance sensitivity of at least 600 nm RIU(sup.-1). Methods of making the disclosed nanorice particles are also described herein.

Wang, Hui↗

Simulation Study of Landau Damping Near the Persisting to Arrested Transition

A one-dimensional electrostatic filtered Vlasov-Poisson simulation study is discussed. The transition from persisting to arrested Landau damping that is produced by increasing the strength of a sinusoidal perturbation on a background Vlasov-Poisson equilibrium is explored. Emphasis is placed on observed features of the electron phase-space distribution when the perturbation strength is near the transition value. A single ubiquitous waveform is found perturbing the space-averaged phase-space distribution at almost any time in all of the simulations; the sole exception is the saturation stage that can occur at the end of the arrested damping scenario. This waveform contains relatively strong, very narrow structures in velocity bracketing (plus or minus velocity (sub res)) - the velocities at which electrons must move to traverse the dominant field mode wavelength in one of its oscillation periods - and propagating with (plus or minus velocity (sub res)) respectively. Local streams of electrons are found in these structures crossing the resonant velocities from low speed to high speed during Landau damping and from high speed to low speed during Landau growth. At the arrest time, when the field strength is briefly constant, these streams vanish. It is conjectured that the expected transfer of energy between electrons and field during Landau growth or damping has been visualized for the first time. No evidence is found in the phase-space distribution to support recent well-established discoveries of a second-order phase transition in the electric field evolution. While trapping is known to play a role for larger perturbation strengths, it is shown that trapping plays no role at any time in any of the simulations near the transition perturbation strength.

plasma simulation↗

Design for progressive fracture in composite shell structures

The load carrying capability and structural behavior of composite shell structures and stiffened curved panels are investigated to provide accurate early design loads. An integrated computer code is utilized for the computational simulation of composite structural degradation under practical loading for realistic design. Damage initiation, growth, accumulation, and propagation to structural fracture are included in the simulation. Progressive fracture investigations providing design insight for several classes of composite shells are presented. Results demonstrate the significance of local defects, interfacial regions, and stress concentrations on the structural durability of composite shells.

Minnetyan, Levon↗

Sensor for Monitoring Nanodevice-Fabrication Plasmas

The term plasma process diagnostics (PPD) refers to a spectroscopic technique and sensing hardware that have been proposed for monitoring plasma processes used to fabricate electronic devices that feature sizes as small as several nanometers. Nanometer dimensions are characteristic of the quantum level of miniaturization, where single impurity atoms or molecules can drastically change the local properties of the nanostructures. Such changes may be purposely used in nanoscale design but may also be extremely damaging or cause improper operation of the fabricated devices. Determination of temperature and densities of reactants near the developing features is important, since the structural synthesis is affected by characteristics of the local microenvironment. Consequently, sensors capable of nonintrusive monitoring with high sensitivity and high resolution are essential for real-time atomistic control of reaction kinetics and minimizing trace contamination in plasma processes used to fabricate electronic nanodevices. Such process-monitoring sensors are required to be compact, multiparametric, and immune to the harsh environments of processing plasmas. PPD is intended to satisfy these requirements. The specific technique used to implement plasma diagnostics with a PPD sensor would be an advanced version of continuous-wave cavity-ringdown spectroscopy (CW-CRDS) capable of profiling spectral line broadenings in order to derive both Doppler and Stark components. CRDS is based on measurements of the rate of absorption of laser light in an optical resonator. The ultimate sensitivity results from a very long absorption path length within the cavity and immunity to variations in incident laser intensity. The proposed version of this technique would involve the use of multiplexing tunable laser diodes and an actively modulated high-reflectivity optical resonator, thus offering a synergistic combination of simplicity, compactness, high sensitivity, and high resolution. The multiplexing capabilities of diode lasers could be utilized to make the PPD sensor a single, simple, compact, and inexpensive tool for the acquisition of multiparametric data. A PPD sensor would be capable of continuous measurement of such physical parameters as gas temperature, gas velocity, electron number density, and absolute densities of reacting chemical species. A laser beam can be easily adjusted to analyze the immediate vicinity of the growing nanostructures (or features etched down) in real time. The absorption enhancement in an optical cavity would afford the sensitivity needed for measurement of the temperature and densities of species at concentrations significantly lower than measurable by other nonintrusive techniques. It is anticipated that fully developed PPD sensors would enable simultaneous measurement of local temperature and determination of plasma species responsible for the synthesis and functionalization of nanodevices. These sensors would also enable tracking the pathways and origins of damaging contaminants, thereby providing feedback for adjustment of processes to optimize them and reduce contamination. The PPD sensors should also be useful for optimization of conventional microelectronics manufacturing plasma processes. Going beyond plasma processes for fabrication of electronic devices, PPD sensors could be used for monitoring of atoms, molecules, ions, radicals, clusters, and particles in a variety of other settings, including outer space. Because of their high sensitivity, such sensors could also prove useful for detecting traces of illegal drugs and explosives.

Bolshakov, Alexander↗

Investigation of the Dynamics of Coherent Structure, BBF, and Intermittent Turbulence in Earth's Magnetotail: A Study of Complexity in Nonlinear Space Plasmas

We have achieved all the goals stated in our grant proposal. Specifically, these include: 1. The understanding of the complexity induced nonlinear spatiotemporal coherent structures and the coexisting propagating modes. 2. The understanding of the intermittent turbulence and energization process of the observed Bursty Bulk Flows (BBF's) in the Earth s magnetotail. 3. The development of "anisotropic three-dimensional complexity" in the plasma sheet due to localized merging and interactions of the magnetic coherent structures. 4. The study of fluctuation-induced nonlinear instabilities and their role in the reconfiguration of magnetic topologies in the magnetotail based on the concepts of the dynamic renormalization group. 5. The acceleration of ions due to the intermittent turbulence of propagating and nonpropagating fluctuations. In the following, we include lists of our published papers, invited talks, and professional activities. A detailed description of our accomplished research results is given..

Chang, Tom↗

Turbulent structures in wall-bounded shear flows observed via three-dimensional numerical simulators

Three recent simulations of tubulent shear flow bounded by a wall using the Illiac computer are reported. These are: (1) vibrating-ribbon experiments; (2) study of the evolution of a spot-like disturbance in a laminar boundary layer; and (3) investigation of turbulent channel flow. A number of persistent flow structures were observed, including streamwise and vertical vorticity distributions near the wall, low-speed and high-speed streaks, and local regions of intense vertical velocity. The role of these structures in, for example, the growth or maintenance of turbulence is discussed. The problem of representing the large range of turbulent scales in a computer simulation is also discussed.

Leonard, A.↗

Particle and field stress balance within a planetary magnetosphere

A technique is developed for experimentally estimating the local tensor stresses within a planetary magnetic field configuration characterized by local spacecraft measurements. Key to the technique is the determination of the shapes of field lines using the symmetry properties of the system coupled with local and instantaneous measurements of the field line inclination angles. The technique is applied here to the inner and middle Saturnian magnetosphere using data returned by the Magnetic Field Experiment on the Voyager 1 spacecraft. It is concluded that the ring current has substantial radial structure, heretofore not shown. Outside about 13 R(s) the newly derived field stresses match remarkably well the funtional variation of the centrifugal corotation stresses of the cool particle population measured previously by the Plasma Science Experiment. Inside about 13 R(s) the key structure in the derived field stresses, a prominent local maximum, matches the approximate position of an apparent strong pressure gradient in the energetic particles characterized by the Low-Energy Charged Particle detectors.

Mauk, B. H.↗