Geometrical and sequence characteristics of alpha-helices in globular proteins

Understanding the sequence-structure relationships in globular proteins is important for reliable protein structure prediction and de novo design. Using a database of 1131 alpha-helices with nonidentical sequences from 205 nonhomologous globular protein chains, we have analyzed structural and sequence characteristics of alpha-helices. We find that geometries of more than 99% of all the alpha-helices can be simply characterised as being linear, curved, or kinked. Only a small number of alpha-helices ( approximately 4%) show sharp localized bends in their middle regions, and thus are classified as kinked. Approximately three-fourths (approximately 73%) of the alpha-helices in globular proteins show varying degrees of smooth curvature, with a mean radius of curvature of 65 +/- 33 A; longer helices are less curved. Computation of helix accessibility to the solvent indicates that nearly two-thirds of the helices ( approximately 66%) are largely buried in the protein core, and the length and geometry of the helices are not correlated with their location in the protein globule. However, the amino acid compositions and propensities of individual amino acids to occur in alpha-helices vary with their location in the protein globule, their geometries, and their lengths. In particular, Gln, Glu, Lys, and Arg are found more often in helices near the surface of globular proteins. Interestingly, kinks often seem to occur in regions where amino acids with low helix propensities (e.g., beta-branched and aromatic residues) cluster together, in addition to those associated with the occurrence of proline residues. Hence the propensities of individual amino acids to occur in a given secondary structure depend not only on conformation but also on its length, geometry, and location in the protein globule.     

Establishment of human parotid pleomorphic adenoma cells in culture: morphological and biochemical characterization

This study reports the establishment of alpha-amylase-producing human parotid pleomorphic adenoma cell lines (2HP and 2HP1) which have been maintained in culture for over 1 yr. The procedures required preparation of cellular clumps from tumor tissue and plating them on plasma clot or precoated dishes. During the initial phase of growth they required modified MCDB-153 medium without serum. When cells showed signs of degeneration they were changed to MCDB-153 medium containing first 2% and then 10% heat inactivated fetal bovine serum. Although cells grew well in MCDB-153 containing 10% serum, the epithelial cell morphology was not distinct. Therefore, the growth and morphology of cells grown in MCDB-10% serum were compared with those in RPMI growth medium containing 10% fetal bovine serum and F12 containing 10% agammaglobulin newborn bovine serum. Although the growth of cells was a little slower in F12 medium than those in MCDB and RPMI, the epithelial cell morphology was maintained better than in other growth media. The cells of 2HP and 2HP1 produce low levels of alpha-amylase and relatively high levels of alpha-amylase mRNAs of 1176 and 702 bp and contain neurofilament-160, a neuronal-specific marker. The cells of 2HP1 are tumorigenic when tested in athymic mice, but the cells of 2HP are not. The establishment of amylase-producing human parotid adenoma cell lines of different characteristics in culture provides a new opportunity to study the mechanisms of differentiation and transformation, and regulation of alpha-amylase in these cells.     

Study of automatic text summarization approaches in different languages

Artificial Intelligence Review - Nowadays we see huge amount of information is available on both, online and offline sources. For single topic we see hundreds of articles are available, containing...     

Noise analysis of double gate composite InAs based HEMTs for high frequency applications

Microsystem Technologies - The quantitative analysis of microwave noise available in the double gate (DG) high electron transistors of mobility (HEMT) is reported in this paper. For this analysis,...     

Preface

Microsystem Technologies -     

A novel dynamic pricing scheme for contributing peers in the VoD system

In this paper we have proposed a dynamic pricing scheme for the contributing peers in the Video on Demand (VoD) system. The scheme provides an effective mechanism to maximize the profit through the residual resources of the contributing peers. A utilization function is executed for each contributing peer to estimate the utility factor based on the parameters such as initial setup cost, holding cost, chaining cost and salvage cost. In this paper, we urge an effective dynamic pricing algorithm that efficiently utilizes a range of parameters with a varying degree of complexity. The key findings of the algorithm are (i) each contributing peers are benefitted by the monetary based on its resource contributions to the VoD system and (ii) a high degree of social optimum is established by proficiently aggregating the contributing peer’s resources with the overall resources of the VoD system. We validate our claim by simulating the proposed dynamic pricing scheme with other standard pricing schemes such as altruism, cost model and game theory perspective. The result of our dynamic pricing scheme shows the best utility factor than other standard pricing schemes.     

Measurements and analysis of transmitted spectra from LOTUS fission-suppressed hybrid blanket driven by D-T neutrons

The neutron spectra transmitted across a fission-suppressed hybrid blanket and its components, driven by a low intensity 14 MeV Haefely neutron generator, were measured with a 2×2 NE213 detector at LOTUS facility. These experiments have been analyzed with 2D and 3D codes DOT3.5 and MCNP, respectively. The spectral integrals between 15 to 1 MeV show good agreement among the 2D, the 3D, and the NE213 for 15 cm lead, 18 cm beryllium, and 25 cm graphite slabs. However, there are large discrepancies for 6.2 cm stainless steel and 15 cm lithium carbonate slabs. The assemblies involving two or more of these slabs reflect these tendencies. We observe also considerable disagreement over pointwise spectra for a number of assemblies.Work done while on visiting assignment to Institut de Génie Atomique, E.P.F.L.     

Extensive Study of Underlap Length Effect for 3-D SOI FinFET to Achieve High Switching Ratio and Low Power

Silicon - The primary purpose of this work is to study the effect of symmetric and asymmetric variation of underlap regions both on source and drain side of 3D SOI n-FinFET. Underlap length is...     

Simulation Study of Dielectric Modulated Dual Material Gate TFET Based Biosensor by Considering Ambipolar Conduction

Silicon - In this paper, a dielectric modulated dual material gate TFET (DM-DMG_TFET)based biosensor is proposed. In order to detect various biomolecules, a nanogap cavity is formed by the...     

The design,analysis, and cost estimation of a generic adder and subtractor using the layered T (LT) logic reduction methodology with a quantum-dot cellular-automata-based approach

The quantum-dot cellular automata (QCA) is considered to be one of the ground-breaking nanotechnologies developed over the last two decades. A layered T (LT) logic cell library is constructed herein, and the methodology is extended to generic adder and subtractor module designs. The two proposed algorithms lead to more efficient QCA layout designs for an n-bit ripple carry adder (RCA) and subtractor based on an effective clock zone assignment approach. The suggested one-, four-, and eight-bit RCAs and subtractors surpass most of their existing counterparts by offering lower effective area and cell complexity. A comparative analysis is presented regarding the complexity, irreversible power dissipation, and Cost_α of the proposed n-bit layouts from a cost estimation purview.