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At least 91 records · Page 5

The Conservation of Structure and Mechanism of Catalytic Action in a Family of Thiamin Pyrophosphate (TPP)-dependent Enzymes

Thiamin pyrophosphate (TPP)-dependent enzymes are a divergent family of TPP and metal ion binding proteins that perform a wide range of functions with the common decarboxylation steps of a -(O=)C-C(OH)- fragment of alpha-ketoacids and alpha- hydroxyaldehydes. To determine how structure and catalytic action are conserved in the context of large sequence differences existing within this family of enzymes, we have carried out an analysis of TPP-dependent enzymes of known structures. The common structure of TPP-dependent enzymes is formed at the interface of four alpha/beta domains from at least two subunits, which provide for two metal and TPP-binding sites. Residues around these catalytic sites are conserved for functional purpose, while those further away from TPP are conserved for structural reasons. Together they provide a network of contacts required for flip-flop catalytic action within TPP-dependent enzymes. Thus our analysis defines a TPP-action motif that is proposed for annotating TPP-dependent enzymes for advancing functional proteomics.

Dominiak, P.

C2 Fragmentation Energy of C60 Revisited: Theory Disagrees with Most Experiments

Following our earlier work on the subject, we have carried out density functional theory (DFT) and second-order Moller-Plesset perturbation theory (MP2) calculations of the dissociation energy of the reaction C60 yields C58 + C2 using polarized basis sets and geometries optimized with DFT methods. The present theoretical results support an electronic fragmentation energy D(sub e) around 10-11 eV in disagreement with most experimental results that place the dissociation energy D(sub o) (including zero point energy) around 7-8 eV. The plausible errors remaining in the theoretical calculations are unlikely to account for this big difference (2-4 eV).

Boese, A. Daniel

Study of Analytic Statistical Model for Decay of Light and Medium Mass Nuclei in Nuclear Fragmentation

The angular momentum independent statistical decay model is often applied using a Monte-Carlo simulation to describe the decay of prefragment nuclei in heavy ion reactions. This paper presents an analytical approach to the decay problem of nuclei with mass number less than 60, which is important for galactic cosmic ray (GCR) studies. This decay problem of nuclei with mass number less than 60 incorporates well-known levels of the lightest nuclei (A less than 11) to improve convergence and accuracy. A sensitivity study of the model level density function is used to determine the impact on mass and charge distributions in nuclear fragmentation. This angular momentum independent statistical decay model also describes the momentum and energy distribution of emitted particles (n, p, d, t, h, and a) from a prefragment nucleus.

Cucinotta, Francis A.

Characteristics of satellite breakups from radar cross section and plane change angle

A problem of considerable interest in orbital debris research is the determination of the cause of the fragmentation of a satellite from the observed radar cross section and orbital element data. In this paper, analytic representations of the observed distribution functions of the radar cross section and the orbital plane change angle are derived. This then allows for the extraction of a small number of features that describe the observed data. Based on the known cause of fragmentation of a subset of satellites, a linear classifier is trained on these derived features. The discriminant function derived from this training is used to determine the previously unknown cause of the satellite breakup. the technique developed is objective and has been applied to the study of the cause of a number of unknown satellite breakup events.

Badhwar, Gautam D.

Bohemian circular structure, Czechoslovakia: Search for the impact evidence

Test of the impact hypothesis for the origin of the circular, 260-km-diameter structure of the Bohemian Massif led to the discovery of glasses and breccias in the Upper Proterozoic sequence that can be compared to autogeneous breccias of larger craters. The black recrystallized glass contains small exsolution crystals of albite-oligoclase and biotite, regularly dispersed in the matrix recrystallized to quartz. The occurrence of these rocks is limited to a 1-sq-km area. It is directly underlain by the breccia of the pelitic and silty rocks cemented by the melted matrix, found on several tens of square kilometers. The melt has the same chemistry as rock fragments in major and in trace elements. It is slightly impoverished in water. The proportion of melted rocks to fragments varies from 1:5 to 10:1. The mineralogy of melt viens is the function of later, mostly contact metamorphism. On the contact of granitic plutons it abounds on sillimanite, cordierite, and small bullets of ilmenite. Immediately on the contact with syenodiorites it contains garnets. The metamorphism of the impact rock melt seems the most probable explanation of the mineralogy and the dry total fusion of rocks accompanied by the strong fragmentation. Other aspects of this investigation are discussed.

Rajlich, Petr

Emission line shapes produced by dissociative excitation of atmospheric gases

The spectral line shapes of the radiation emitted from O atoms produced by the dissociative excitation of O2, CO, CO2 and NO are investigated. Doppler line shapes are derived from time-of-flight spectra of O (5S0) atoms decaying by the emission of 1356-A radiation after being produced in electron impact experiments at incident electron energies from 25 to 300 eV. It is shown that the effective line width of the radiation is large compared with the Doppler absorption widths of ambient O atoms in both photoelectron and auroral excitation, and thus the dissociatively excited component of the O I 1304-A airglow will behave as though it were optically thin, exhibiting pronounced limb brightening effects and a scale height characteristic of the initial, local source function. It is found that the average kinetic energy of the dissociation fragments inferred from O I (5S) time-of-flight spectra is in good agreement with that of O I (3S) atoms in the electron impact dissociation of CO2, although not for O2. Finally, it is suggested that although electron impact dissociation of CO and CO2 contributes to the 1304-A emission in the upper atmosphere of Venus, it cannot be the dominant source of this radiation since the absolute cross sections for the reaction are too small.

Zipf, E. C.

Laboratory measurements of the cometary photochemical phenomena

Laboratory experiments are described that provide fundamental information about photochemical processes in comets. The yield of cometary radicals such as CN, OH, etc. can be determined as a function of photolyzing wavelength. Quantum state distributions of the internal energy of the cometary radicals can also be measured as a function of wavelength permitting one to define the recoil velocity of the fragments. This type of information supplies the data needed for more elaborate models to interpret the data being obtained on comets.

Jackson, W. M.

Isotopic Dependence of GCR Fluence behind Shielding

In this paper we consider the effects of the isotopic composition of the primary galactic cosmic rays (GCR), nuclear fragmentation cross-sections, and isotopic-grid on the solution to transport models used for shielding studies. Satellite measurements are used to describe the isotopic composition of the GCR. For the nuclear interaction data-base and transport solution, we use the quantum multiple-scattering theory of nuclear fragmentation (QMSFRG) and high-charge and energy (HZETRN) transport code, respectively. The QMSFRG model is shown to accurately describe existing fragmentation data including proper description of the odd-even effects as function of the iso-spin dependence on the projectile nucleus. The principle finding of this study is that large errors (+/-100%) will occur in the mass-fluence spectra when comparing transport models that use a complete isotopic-grid (approx.170 ions) to ones that use a reduced isotopic-grid, for example the 59 ion-grid used in the HZETRN code in the past, however less significant errors (<+/-20%) occur in the elemental-fluence spectra. Because a complete isotopic-grid is readily handled on small computer workstations and is needed for several applications studying GCR propagation and scattering, it is recommended that they be used for future GCR studies.

Cucinotta, Francis A.

Conservation of Fold and Topology of Functional Elements in Thiamin Pyrophosphate Enzymes

Thiamin pyrophosphate (TPP)-dependent enzymes are a highly divergent family of proteins binding both TPP and metal ions. They perform decarboxylation-hydroxyaldehydes. Prior -ketoacids and of a common - (O=)C-C(OH)- fragment of to knowledge of three-dimensional structures of these enzmes, the GDGY25-30NN sequence was used to identify these enzymes. Subsequently, a number of structural studies on those enzymes revealed multi-subunit organization and the features of the two duplicate cofactor binding sites. Analyzing the structures of 44 structurally known enzymes, we found that the common structure of these enzymes is reduced to 180-220 amino acid long fragments of two PP and two PYR domains that form the [PP:PYR]2 binding center of two cofactor molecules. The structures of PP and PYR are arranged in a similar fold-sheet with triplets of helices on both sides.Dconsisting of a six-stranded Residues surrounding the cofactors are not strictly conserved, but they provide the same interatomic contacts required for the catalytic functions that these enzymes perform while maintaining interactive structural integrity. These structural and functional amino acids are topological counterparts located in the same positions of the conserved fold of sets of PP and PYR domains. Additional parallels include short fragments of sequences that link these amino acids to the fold and function. This report on the structural commonalities amongst TPP dependent enzymes is thought to contribute new approaches to annotation that may assist in advancing the functional proteomics of TPP dependent enzymes, and trace their complexity within evolutionary context.

Dominiak, P.

Cellular track model for study of heavy ion beams

Track theory is combined with a realistic model of a heavy ion beam to study the effects of nuclear fragmentation on cell survival and biological effectiveness. The effects of secondary reaction products are studied as a function of depth in a water column. Good agreement is found with experimental results for the survival of human T-l cells exposed to monoenergetic carbon, neon, and argon beams under aerobic and hypoxia conditions. The present calculation, which includes the effect of target fragmentation, is a significant improvement over an earlier calculation because of the use of a vastly improved beam model with no change in the track theory or cellular response parameters.

Shinn, Judy L.

System evaluation from impulse response fragments

By use of rational approximation, a procedure was found which allows calculation of the z-transfer function from a restricted number of time sequence values. The order of the system need not be known. Transformation to the s-domain is easily provided.

Baumeister, J. K.

If walls could talk

The plant cell wall is very complex, both in structure and function. The wall components and the mechanical properties of the wall have been implicated in conveying information that is important for morphogenesis. Proteoglycans, fragments of polysaccharides and the structural integrity of the wall may relay signals that influence cellular differentiation and growth control. Furthering our knowledge of cell wall structure and function is likely to have a profound impact on our understanding of how plant cells communicate with the extracellular environment.

Review

Understanding the Response of Common Spacecraft Shields to Hypervelocity Impacts of Meteorite and Other Terrestrial Analog Materials

Micrometeoroid and orbital debris (MMOD) populations can vary significantly in composition, density, and homogeneity. Hypervelocity testing campaigns intended to design and optimize MMOD shields for spacecraft are recognizing the need to investigate shield response from different types of impactors that span the range of densities observed in the MMOD population, such as nylon, Al, Al 2 O 3 , steel, and Cu. These tests, however, still pre-dominantly employ spherical and homogenous projectiles. Adding any compositional or mineralogical complexity to the impactor, such as what would be expected from a polymineralic micrometeoroid, for ex-ample, will be concomitant with a more complex shockwave structure in the projectile after it impacts the outer surface of any type of MMOD shield. The magnitude of these complexities will depend on how varied the mineralogy of the projectile is, but in the case of a metal-bearing chondrite, the disparate shock impendence between adjacent metal and silicate grains will potentially create localized areas of shock focusing (local increase in nominal shock pressure), or shock shadowing (local decrease in nominal shock pressure). The response of a MMOD shield is generally predicted using a ballistic limit equation – a semiempirical curve, derived from hypervelocity testing data, that denotes a particle diameter (for a given set of impact conditions such as projectile density and impact angle) when a shield will fail as a function of impact speed. These curves exhibit inflection points as a function of impact speed that represent when the projectile experiences sufficient pressure to fragment, melt, or vaporize. The introduction of shock focusing and shadowing in a heterogenous projectile will add uncertainty to the predicted pressures needed to go through each transition, leading to increased uncertainty in the expected performance of the MMOD shield. Therefore, it is necessary to explore the performance of MMOD shields in hypervelocity tests against more complex, natural projectile materials. To this end we have conducted a comparative test series to begin investigating the impact damage caused by meteoritic and terrestrial-analog projectiles, to that of spherical Al projectiles of similar mass.

Impact testing

Cosmogenic rare gases and 10-Be in a cross section of Knyahinya

The concentrations of cosmogenic nuclides were studied as a function of shielding on samples from a cross section of the 293 kg main fragment of the L5 chondrite Knyahinya. The stone broke into two nearly symmetrical parts upon its fall in 1866. The planar cross section has diameters between 40 and 55 cm. He, Ne, and Ar were measured on about 20 samples by mass spectrometry and the 10-Be activities on aliquots of 10 selected samples were determined by AMS. The 10-Be data are presented and the abundances of spallogenic nuclides are compared with the model calculations reported by Reedy for spherical L chondrites. The 10-Be production rates in Knyahinya are shown versus the shielding parameter 22-Ne/21-Ne.

Wieler, R.

Statistical Approach on Utilizing Ground-based Experiments to Model Break-up Events

Two laboratory-based impact tests have been conducted to develop and extend the capability of NASA satellite breakup models. The first experiment, the Satellite Orbital Debris Characterization Impact Test (SOCIT), was conducted by the U.S. Department of Defense and NASA in 1992. It employed a fully functional U.S. Navy Transit spacecraft, fabricated from materials commonly used in the 1960s. SOCIT fragmentation data formed the basis of the current NASA Standard Satellite Breakup Model (SSBM). A second experiment, DebriSat, was conducted in 2014 by the DebriSat consortium: the NASA Orbital Debris Program Office; the United States Space Force Space Systems Command, formerly the Air Force Space and Missile Systems Center, the Air Force Arnold Engineering Development Complex, and the University of Florida. This impact test was performed on a high-fidelity mock-up satellite assembled from modern components. Data from both experiments are expected to contribute to the next-generation models for on-orbit breakup analyses, long-term environment predictions, and debris risk assessment. This paper uses the direct statistical sampling of the SOCIT and DebriSat data ensembles to model an on-orbit breakup event, rather than the analytic expressions estimated from the samples as with as with the NASA SSBM and its predecessor. This direct method involves drawing fragments (i.e., sampling with replacement) from each fragmentation data-subset containing mass, shape category, material density, characteristic length, mass, and cross-sectional area. As part of the sampling process, the properties of sampled fragment data (e.g., area-to-mass ratios) are numerically checked to ensure they do not contain unrealistic quantities. The process to simulate a breakup cloud composed of fragments from SOCIT and DebriSat datasets is discussed. The methodology for ensuring that conservation of overall mass of the sampled fragment cloud under this sampling approach is highlighted. Finally, the results are compared with simulated clouds generated from SSBM for specific historical breakup events.

Andrew Vavrin

Statistical Approach on Utilizing Ground-Based Experiments to Model Break-Up Events

Two laboratory-based impact tests have been conducted to develop and extend the capability of NASA satellite breakup models. The first experiment, the Satellite Orbital Debris Characterization Impact Test (SOCIT), was conducted by the U.S. Department of Defense and NASA in 1992. It employed a fully functional U.S. Navy Transit spacecraft, fabricated from materials commonly used in the 1960s. SOCIT fragmentation data formed the basis of the current NASA Standard Satellite Breakup Model (SSBM). A second experiment, DebriSat, was conducted in 2014 by the DebriSat consortium: the NASA Orbital Debris Program Office, the United States Space Force Space Systems Command, formerly the Air Force Space and Missile Systems Center, the Air Force Arnold Engineering Development Complex, and the University of Florida. This impact test was performed on a high-fidelity mock-up satellite assembled from modern components. Data from both experiments are expected to contribute to the next-generation models for on-orbit breakup analyses, long-term environment predictions, and debris risk assessment. This paper uses the direct statistical sampling of the SOCIT and DebriSat data ensembles to model an on-orbit breakup event, rather than the analytic expressions estimated from the samples in the SSBM and its predecessor. This direct method involves drawing fragments (i.e., sampling with replacement) from each fragmentation data-subset containing mass, shape category, material density, characteristic length, mass, and cross-sectional area. As part of the sampling process, the properties of sampled fragment data (e.g., area-to-mass ratios) are numerically checked to ensure they do not contain unrealistic quantities. The process to simulate a breakup cloud composed of fragments from SOCIT and DebriSat datasets is discussed. The methodology for ensuring that conservation of overall mass of the sampled fragment cloud under this sampling approach is highlighted. Finally, the results are compared with simulated clouds generated from SSBM for specific historical breakup events.

Andrew Vavrin

Assembly of catalytic complexes from randomized oligonucleotides

The early evolution of life relied on catalytic RNAs (ribozymes) for central functions. To test whether early catalysts could have assembled from multiple short nucleic acid fragments in random sequence environments, we performed an in vitro selection from a short RNA library in the presence of 256 different DNA 20-nucleotide oligomers. High-throughput sequencing and biochemical analysis showed that most of the selected 1331 RNA sequences required at least one DNA for activity. Representatives for four of six RNA clusters that depended on DNA cofactors were active even when the 256 DNAs were replaced by completely random DNA 20-nucleotide oligomers. The formation of these catalytic complexes and the recruitment of oligonucleotide cofactors from completely random libraries demonstrate an important principle for the emergence of the earliest oligonucleotide catalysts.

Xu Han

Integration of the QMSFRG Database into the HZETRN Code

Accurate nuclear interaction data bases are needed for describing the transport of space radiation in matter including space craft structures, atmospheres, and tissues. Transport models support the identification and development of new material concepts for human and electronic part protection. Quantum effects are manifested in nuclear reactions in several ways including interference effects between terms in the multiple scattering series, the many-body nuclear wave functions (for e.g. the roles of shell structure and Fermi momentum) and nuclear clustering. The quantum multiple scattering fragmentation model (QMSFRG) is a comprehensive model for generating nuclear interaction databases for galactic cosmic ray (GCR) transport. Other nuclear databases including the NUCFRG model and Monte-Carlo simulation codes such as FLUKA, LAHET, HETC, and GEANT ignore quantum effects. These codes fail to describe many important features of nuclear reactions and are thus inaccurate for the evaluation of materials for radiation protection. Previously we have shown that quantum effects are manifested through constructive interference in forward production spectra, the effects of Fermi momentum on production spectra, cluster nuclei knockout, and the nuclear response function. Quantum effects are especially important for heavy ions with mass numbers less than 20 that dominate radiation transport in human tissues and for the materials that are expected to be superior in space radiation protection. We describe the integration of the QMSFRG model into the HZETRN transport code. Integration milestones include proper treatment of odd-even charge-mass effects in nuclear fragmentation and the momentum distribution of nucleon production from GCR primary heavy ions. We have also modified the two-body amplitudes in the model to include nuclear medium effects. In order to include a comprehensive description of the GCR isotopic composition in materials, we have described the isotopic composition of the GCR by extending the 59-isotope version of HZETRN to an 120-isotope version. The isotopic composition of most primary GCR elements (including H, He, C, N, O, Ne, Mg, Si, Ar, Ca, Cr, and Fe) are included in the extended model. We discuss results for the high-energy neutron composition inside materials, and the charge and mass distribution for benchmark GCR problems.

Cucinotta, F. A.