Protein sequence entropy is closely related to packing density and hydrophobicity

We investigated the correlation between the Shannon information entropy, ‘sequence entropy’, with respect to the local flexibility of native globular proteins as described by inverse packing density. These are determined at each residue position for a total set of 130 query proteins, where sequence entropies are calculated from each set of aligned residues. For the accompanying aggregate set of 130 alignments, a strong linear correlation is observed between the calculated sequence entropy and the corresponding inverse packing density determined at an associated residue position. This region of linearity spans the range of Cα packing densities from 12 to 25 amino acids within a sphere of 9 Å radius. Three different hydrophobicity scales all mimic the behavior of the sequence entropies. This confirms the idea that the ability to accommodate mutations is strongly dependent on the available space and on the propensity for each amino acid type to be buried. Future applications of these types of methods may prove useful in identifying both core and flexible residues within a protein

Imaging and burst location with the EXIST high-energy telescope

The primary instrument of the proposed EXIST mission is a coded mask high energy telescope (the HET), that must have a wide field of view and extremely good sensitivity. It will be crucial to minimize systematic errors so that even for very long total integration times the imaging performance is close to the statistical photon limit. There is also a requirement to be able to reconstruct images on-board in near real time in order to detect and localize gamma-ray bursts. This must be done while the spacecraft is scanning the sky. The scanning provides all-sky coverage and is key to reducing systematic errors. The on-board computational problem is made even more challenging for EXIST by the very large number of detector pixels. Numerous alternative designs for the HET have been evaluated. The baseline concept adopted depends on a unique coded mask with two spatial scales. Monte Carlo simulations and analytic analysis techniques have been used to demonstrate the capabilities of the design and of the proposed two-step burst localization procedure

Characterization of a POROS\u3csup\u3eTM\u3c/sup\u3e-fumonisin B1 Affinity Column for Isolating Ceramide Synthase from Rat Liver

Fumonisin B1 is a mycotoxin produced by fungi of the genus Fusarium, common pathogens of corn and other grain plants. Toxic effects associated with fumonisin B1 include equine leukoencephalomacia, porcine pulmonary edema, rat renal carcinoma, and murine hepatocellular carcinoma. Increased risk for esophageal cancer in humans has been epidemiologically associated with consumption of corn contaminated with Fusarium, suggesting that fumonisin B1 may be involved. The biological effects of fumonisin B1 exposure result primarily from disruption of de novo sphingolipid biosynthesis via inhibition of ceramide synthase. Exposure of animals or cultured cells to fumonisin B1 results in the characteristic accumulation of sphinganine, a toxic sphingolipid intermediate, concomitant with depletion of essential complex sphingolipids. Ceramide synthase has not been purified to homogeniety and characterized. We prepared crude ceramide synthase from detergent-extracted rat liver homogenates using PEG-precipitation and cation exchange chromatography. Ceramide synthase activity was then sequestered, using fumonisin B1 covalently coupled to POROS-NH particles, and eluted selectively. The observed 119-fold enrichment in specific activity demonstrates the utility of fumonisin-POROS affinity chromatography in the purification of ceramide synthase

Deep imaging of the field of the Z = 4.9 quasar PC 1247+3406, and faint galaxy counts in the K band with the Keck telescope

We present deep images in the K. band of the field of the quasar PC 1247 + 3406 at z = 4.897, obtained using the near-infrared camera on the W. M. Keck telescope. A number of faint sources have been detected, some of which appear to be quite red. Their nature and redshifts remain uncertain at this time. These data are combined with deep Keck infrared images of five additional fields and present galaxy counts reaching down to K_s = 22 mag, comparable to the deepest K-band surveys to date. The data presented here are in good agreement with the Hawaii Deep Survey and represent the first independent verification of those results. The slope of the log N-log S relation derived from these data agrees well with the Hawaii Deep Survey, while the counts are slightly higher, especially at the faintest levels probed here. This may be due to a presence of groups or clusters around the target objects at high redshifts

Schizophrenia-risk variant rs6994992 in the neuregulin-1 gene on brain developmental trajectories in typically developing children

The neuregulin-1 (NRG1) gene is one of the best-validated risk genes for schizophrenia, and psychotic and bipolar disorders. The rs6994992 variant in the NRG1 promoter (SNP8NRG243177) is associated with altered frontal and temporal brain macrostructures and/or altered white matter density and integrity in schizophrenic adults, as well as healthy adults and neonates. However, the ages when these changes begin and whether neuroimaging phenotypes are associated with cognitive performance are not fully understood. Therefore, we investigated the association of the rs6994992 variant on developmental trajectories of brain macro- and microstructures, and their relationship with cognitive performance. A total of 972 healthy children aged 3–20 years had the genotype available for the NRG1-rs6994992 variant, and were evaluated with magnetic resonance imaging (MRI) and neuropsychological tests. Age-by-NRG1-rs6994992 interactions and genotype effects were assessed using a general additive model regression methodology, covaried for scanner type, socioeconomic status, sex and genetic ancestry factors. Compared with the C-carriers, children with the TT-risk-alleles had subtle microscopic and macroscopic changes in brain development that emerge or reverse during adolescence, a period when many psychiatric disorders are manifested. TT-children at late adolescence showed a lower age-dependent forniceal volume and lower fractional anisotropy; however, both measures were associated with better episodic memory performance. To our knowledge, we provide the first multimodal imaging evidence that genetic variation in NRG1 is associated with age-related changes on brain development during typical childhood and adolescence, and delineated the altered patterns of development in multiple brain regions in children with the T-risk allele(s)

Isolated oxygen defects in 3C- and 4H-SiC: A theoretical study

Ab initio calculations in the local-density approximation have been carried out in SiC to determine the possible configurations of the isolated oxygen impurity. Equilibrium geometry and occupation levels were calculated. Substitutional oxygen in 3C-SiC is a relatively shallow effective mass like double donor on the carbon site (O-C) and a hyperdeep double donor on the Si site (O-Si). In 4H-SiC O-C is still a double donor but with a more localized electron state. In 3C-SiC O-C is substantially more stable under any condition than O-Si or interstitial oxygen (O-i). In 4H-SiC O-C is also the most stable one except for heavy n-type doping. We propose that O-C is at the core of the electrically active oxygen-related defect family found by deep level transient spectroscopy in 4H-SiC. The consequences of the site preference of oxygen on the SiC/SiO2 interface are discussed

Intoxicating entertainment? The influence of "Star Music Trek" on the drinking practices of Nigerian students

Sophisticated marketing strategies are increasingly used by transnational alcohol companies in Nigeria. While this facilitates alcohol availability and encourages alcohol consumption, there are no effective policies to regulate alcohol marketing. This study draws on qualitative interviews with 31 Nigerian university students (aged 19–23 years) to explore some of the ways in which “Star Music Trek” (SMT, a brewer-sponsored music concert) establishes spaces that facilitate alcohol consumption among Nigerian youths. The data were analyzed to generate themes with the aid of NVivo 10 software. The article argues that although the rationale for attending the SMT event is to be entertained by famous artists for a reduced entrance fee, the event creates conditions that influence young people to use alcohol in diverse ways. Among nondrinkers, SMT establishes conditions that influence alcohol initiation because purchasing “Star beer,” the brand that sponsors SMT, not only serves as a ticket or gate pass to some of the concerts, but it is also the only brand sold at the event. Among those who use alcohol, SMT creates spaces that encourage a culture of intoxication because of the easy availability and accessibility of Star beer and promotional activities in the form of price reductions, raffle draws, and free drinks. The participants also discussed the ways in which the sponsor uses its marketing representatives to promote brand allegiance by encouraging attendees to favor Star beer after the concert. Overall, the findings reveal that SMT is a sophisticated marketing strategy to promote the Star brand. The study discusses the implications of the findings and concludes that effective national alcohol control policies should be formulated and implemented in Nigeria.The doctoral research, from which this article was taken was funded by the Tertiary Education Trust Fund (TETFUND)