Detecting Repetitions and Periodicities in Proteins by Tiling the Structural Space

The notion of energy landscapes provides conceptual tools for understanding the complexities of protein folding and function. Energy Landscape Theory indicates that it is much easier to find sequences that satisfy the "Principle of Minimal Frustration" when the folded structure is symmetric (Wolynes, P. G. Symmetry and the Energy Landscapes of Biomolecules. Proc. Natl. Acad. Sci. U.S.A. 1996, 93, 14249-14255). Similarly, repeats and structural mosaics may be fundamentally related to landscapes with multiple embedded funnels. Here we present analytical tools to detect and compare structural repetitions in protein molecules. By an exhaustive analysis of the distribution of structural repeats using a robust metric we define those portions of a protein molecule that best describe the overall structure as a tessellation of basic units. The patterns produced by such tessellations provide intuitive representations of the repeating regions and their association towards higher order arrangements. We find that some protein architectures can be described as nearly periodic, while in others clear separations between repetitions exist. Since the method is independent of amino acid sequence information we can identify structural units that can be encoded by a variety of distinct amino acid sequences

COLA. III. Radio Detection of Active Galactic Nucleus in Compact Moderate Luminosity Infrared Galaxies

We present results from 4.8 GHz Very Large Array (VLA) and global very long baseline interferometry (VLBI) observations of the northern half of the moderate FIR luminosity (median L_(IR) = 10^(11.01) L_☉) COLA sample of star-forming galaxies. VLBI sources are detected in a high fraction (20/90) of the galaxies observed. The radio luminosities of these cores (~10^(21) W Hz^(–1)) are too large to be explained by radio supernovae or supernova remnants and we argue that they are instead powered by active galactic nuclei (AGNs). These sub-parsec scale radio cores are preferentially detected toward galaxies whose VLA maps show bright 100-500 parsec scale nuclear radio components. Since these latter structures tightly follow the FIR to radio-continuum correlation for star formation, we conclude that the AGN-powered VLBI sources are associated with compact nuclear starburst environments. The implications for possible starburst-AGN connections are discussed. The detected VLBI sources have a relatively narrow range of radio luminosity consistent with models in which intense compact Eddington-limited starbursts regulate the gas supply onto a central supermassive black hole. The high incidence of AGN radio cores in compact starbursts suggests little or no delay between the starburst phase and the onset of AGN activity

Neutron-Diffraction Study of γ-Fe at High Pressure

Face-centered-cubic iron (γ-Fe) coherently precipitated in a single crystal of Cu has been studied by neutron diffraction at high pressures up to 0.9 GPa and in the temperature range from about 5 to 110 K. It undergoes antiferromagnetic ordering at 67±2 K at ambient pressure. The ordering temperature TN monotonically decreases with increasing pressure following a relation TN(K)=67-12.8p - 11.1p2 - 6.17p3, where p is in units of GPa. The change of TN in γ-Fe is discussed in terms of the volume change caused by pressurization or by alloying

Ion-scale turbulence in MAST: anomalous transport, subcritical transitions, and comparison to BES measurements

We investigate the effect of varying the ion temperature gradient (ITG) and toroidal equilibrium scale sheared flow on ion-scale turbulence in the outer core of MAST by means of local gyrokinetic simulations. We show that nonlinear simulations reproduce the experimental ion heat flux and that the experimentally measured values of the ITG and the flow shear lie close to the turbulence threshold. We demonstrate that the system is subcritical in the presence of flow shear, i.e., the system is formally stable to small perturbations, but transitions to a turbulent state given a large enough initial perturbation. We propose that the transition to subcritical turbulence occurs via an intermediate state dominated by low number of coherent long-lived structures, close to threshold, which increase in number as the system is taken away from the threshold into the more strongly turbulent regime, until they fill the domain and a more conventional turbulence emerges. We show that the properties of turbulence are effectively functions of the distance to threshold, as quantified by the ion heat flux. We make quantitative comparisons of correlation lengths, times, and amplitudes between our simulations and experimental measurements using the MAST BES diagnostic. We find reasonable agreement of the correlation properties, most notably of the correlation time, for which significant discrepancies were found in previous numerical studies of MAST turbulence.Comment: 67 pages, 37 figures. Submitted to PPC

Atividade diurna de adultos de Diabrótica speciosa na cultura do milho e de cerotoma arcuatus na cultura da soja.

Neste documento são apresentadas importantes informações sobre o ritmo de atividade diurna de adultos de D. speciosa, na cultura do milho, e de C. arcuatus na cultura da soja. Assim, as informações contidas neste trabalho são de grande valia, pois podem auxiliar na definição de táticas para o manejo dessas pragas.bitstream/item/38187/1/DOC200464.pd

Life table analysis of Diaphorina citri (Hemiptera: Psyllidae) infesting sweet orange (Citrus sinensis) in São Paulo

An ecological life table for eggs and nymphs of Diaphorina citri Kuwayama (Hemiptera: Psyllidae) was constructed with data obtained from orange orchards (Citrus sinensis Osbeck) in 2 regions of the State of São Paulo, over 4 generations in the period from XI-2006 to V-2007, comprising spring, summer, and fall seasons. Young growing shoots with D. citri eggs present were identifed, and live individuals were counted until adult emergence. No predatory arthropods were observed in association with D. citri eggs and nymphs during the study. The mean parasitism of fourth- and ffth-instar nymphs by Tamarixia radiata Waterston (Hymenoptera: Eulophidae) was 2.3%. The durations of the egg–adult period were similar among the 4 generations, ranging from 18.0 to 24.7 d (at mean temperatures ranging from 21.6 to 26.0 °C) and followed the temperature requirement models obtained in the laboratory for D. citri. However, survival from the egg to the adult stage for the same period varied considerably from 1.7 to 21.4%; the highest mortalities were observed in the egg and small nymphal (frst- to thirdinstar) stages, which were considered to be key phases for population growth of the pest.Uma tabela de vida ecológica foi construída para ovos e ninfas de Diaphorina citri Kuwayama (Hemiptera: Psyllidae) com dados obtidos em pomares de laranja (Citrus sinensis Osbeck) em 2 regiões do estado de São Paulo, com 4 gerações, no período de novembro de 2006 a maio de 2007, compreendendo as estações de primavera, verão e outono. Ramos jovens em crescimento com a presença de ovos de D. citri foram identificados e os indivíduos vivos foram contados até a emergência dos adultos. Nenhum predador foi observado associado a ovos e ninfas de D. citri durante o estudo. A taxa média de parasitismo de ninfas de quarto e quinto ínstares por Tamarixia radiata Waterson (Hymenoptera: Eulophidae) foi de 2.3%. A duração do período de ovo a adulto foi semelhante entre as quatro gerações, variando de 18.0 a 24.7 dias (com temperaturas médias de 21.6 a 26.0 °C) e seguiram os modelos de exigencias térmicas obtidas em laboratório para D. citri. Todavia, a sobrevivencia de ovo até o estágio adulto variou consideravelmente para o mesmo período, de 1.7 a 21.4%, sendo que as maiores mortalidades foram observadas nos estágios de ovos e ninfas pequenas (de primeiro a terceiro ínstares), as quais foram consideradas fases chaves para o crescimento populacional desta praga.info:eu-repo/semantics/publishedVersio

Adolescent Reactions to Maternal Responsiveness and Internalizing Symptomatology: A Daily Diary Investigation

A daily diary methodology was employed to gather teens’ perceptions of maternal responsiveness to daily stressful events and teens’ reactions to maternal responsiveness in a diverse sample (792 entries from 104 teens; 81% African American, mean age 13.7 years). Additionally, parents and teens completed baseline reports of internalizing symptoms. Diary findings were congruent with prior studies employing self-report measures of global maternal responses to emotion (e.g., higher probability of Accepting reactions to supportive responses, higher probabilities of Attack, Avoid-Withdraw reactions to non-supportive responses). Elevated baseline internalizing symptoms were related to perception of elevated Punish and Magnify responses during the week, and more Avoidant (Avoid-Withdraw and Avoid-Protect) reactions to responsiveness. Results are discussed in the context of reciprocal emotion socialization processes

Perpendicular momentum injection by lower hybrid wave in a tokamak

The injection of lower hybrid waves for current drive into a tokamak affects the profile of intrinsic rotation. In this article, the momentum deposition by the lower hybrid wave on the electrons is studied. Due to the increase in the poloidal momentum of the wave as it propagates into the tokamak, the parallel momentum of the wave increases considerably. The change of the perpendicular momentum of the wave is such that the toroidal angular momentum of the wave is conserved. If the perpendicular momentum transfer via electron Landau damping is ignored, the transfer of the toroidal angular momentum to the plasma will be larger than the injected toroidal angular momentum. A proper quasilinear treatment proves that both perpendicular and parallel momentum are transferred to the electrons. The toroidal angular momentum of the electrons is then transferred to the ions via different mechanisms for the parallel and perpendicular momentum. The perpendicular momentum is transferred to ions through an outward radial electron pinch, while the parallel momentum is transferred through collisions.Comment: 22 pages, 4 figure

Positivity and conservation of superenergy tensors

Two essential properties of energy-momentum tensors T_{\mu\nu} are their positivity and conservation. This is mathematically formalized by, respectively, an energy condition, as the dominant energy condition, and the vanishing of their divergence \nabla^\mu T_{\mu\nu}=0. The classical Bel and Bel-Robinson superenergy tensors, generated from the Riemann and Weyl tensors, respectively, are rank-4 tensors. But they share these two properties with energy momentum tensors: the Dominant Property (DP) and the divergence-free property in the absence of sources (vacuum). Senovilla defined a universal algebraic construction which generates a basic superenergy tensor T{A} from any arbitrary tensor A. In this construction the seed tensor A is structured as an r-fold multivector, which can always be done. The most important feature of the basic superenergy tensors is that they satisfy automatically the DP, independently of the generating tensor A. In a previous paper we presented a more compact definition of T{A} using the r-fold Clifford algebra. This form for the superenergy tensors allowed to obtain an easy proof of the DP valid for any dimension. In this paper we include this proof. We explain which new elements appear when we consider the tensor T{A} generated by a non-degree-defined r-fold multivector A and how orthogonal Lorentz transformations and bilinear observables of spinor fields are included as particular cases of superenergy tensors. We find some sufficient conditions for the seed tensor A, which guarantee that the generated tensor T{A} is divergence-free. These sufficient conditions are satisfied by some physical fields, which are presented as examples.Comment: 19 pages, no figures. Language and minor changes. Published versio