Search results for "DOMAIN"

Theoretical study of phosphodiester hydrolysis in nucleotide pyrophosphatase/phosphodiesterase. Environmental effects on the reaction mechanism.

2010

We here present a theoretical study of the alkaline hydrolysis of methyl p-nitrophenyl phosphate (MpNPP(-)) in aqueous solution and in the active site of nucleotide pyrophosphatase/phosphodiesterase (NPP). The analysis of our simulations, carried out by means of hybrid quantum mechanics/molecular mechanics (QM/MM) methods, shows that the reaction takes place through different reaction mechanisms depending on the environment. Thus, while in aqueous solution the reaction occurs by means of an A(N)D(N) mechanism, the enzymatic process takes place through a D(N)A(N) mechanism. In the first case, we found associative transition-state (TS) structures, while in the enzyme TS structures have dissoc…

Enzyme Promiscuity in Enolase Superfamily. Theoretical Study of o-Succinylbenzoate Synthase Using QM/MM Methods

2015

The promiscuous activity of the enzyme o-succinylbenzoate synthase (OSBS) from the actinobacteria Amycolatopsis is investigated by means of QM/MM methods, using both density functional theory and semiempirical Hamiltonians. This enzyme catalyzes not only the dehydration of 2-succinyl-6R-hydroxy-2,4-cyclohexadiene-1R-carboxylate but also catalyzes racemization of different acylamino acids, with N-succinyl-R-phenylglycine being the best substrate. We investigated the molecular mechanisms for both reactions exploring the potential energy surface. Then, molecular dynamics simulations were performed to obtain the free energy profiles and the averaged interaction energies of enzymatic residues wi…

A Dynamic Reasoning Architecture for Computer Network Management

2005

This paper focuses on improving network management and monitoring by the adoption of Artificial Intelli- gence techniques. In order to allow automated reasoning on networking concepts, we defined an accurate ontologi- cal model capable of describing as better as possible the networking domain. The thorough representation of the do- main knowledge is used by a Logical Reasoner, which is an expert system capable of performing high-level manage- ment tasks.

The Proteoglycan NG2 Is Complexed with α-Amino-3-hydroxy-5-methyl-4-isoxazolepropionic Acid (AMPA) Receptors by the PDZ Glutamate Receptor Interactio…

2003

The proteoglycan NG2 is expressed by immature glial cells in the developing and adult central nervous system. Using the COOH-terminal region of NG2 as bait in a yeast two-hybrid screen, we identified the glutamate receptor interaction protein GRIP1, a multi-PDZ domain protein, as an interacting partner. NG2 exhibits a PDZ binding motif at the extreme COOH terminus which binds to the seventh PDZ domain of GRIP1. In addition to the published expression in neurons, GRIP1 is expressed by immature glial cells. GRIP1 is known to bind to the GluRB subunit of the AMPA glutamate receptor expressed by subpopulations of neurons and immature glial cells. In cultures of primary oligodendrocytes, cells c…

Opposite Role of Pro-Inflammatory Alleles in Acute Myocardial Infarction and Longevity: Results of Studies Performed in a Sicilian Population

2006

The major trait characterizing offspring in centenarians is a reduction in the prevalence of cardiovascular disease. Because a pro-inflammatory genotype seems to contribute significantly to the risk of coronary heart disease, alleles associated with disease susceptibility would not be included in the genetic background favoring longevity, as suggested by our previous studies on inflammatory cytokines. To confirm whether genotypes of inflammatory molecules play an opposite role in atherosclerosis and longevity, we are studying the role of other proinflammatory alleles, such as pyrin and CCR5, in acute myocardial infarction and longevity. The results support the hypothesis that the genetic ba…

The yeast putative transcriptional repressor RGM1 is a proline-rich zinc finger protein.

1991

Abstract I have cloned a yeast gene, RGM1, which encodes a proline-rich zinc, finger protein. rgm1 mutants do not show any obvious phenotype but overexpression of RGM1 gene greatly impairs cell growth. The proline-rich region of RGM1 attached to a heterologous DNA binding domain is able to repress the expression of the target gene. RGM1 shares similar zinc finger motifs with the mammalian Egr (early growth response) proteins as well as proline-rich sequences with a high serine and threonine content, suggesting that RGM1 and Egr proteins could have functional similarities.

G.O.2 Proteomic identification of the LIM domain protein FHL1 as the gene-product mutated in reducing body myopathy

2008

Tetrolet-based reduced reference image quality assessment approach

2014

In this paper, we propose a new reduced reference image quality assessment (RRIQA) scheme. For this purpose, we use a statistical-based method in a new adaptive Haar wavelet transform domain, called Tetrolet. Firstly, we decompose the reference and distorted images and we obtain the Tetrolet coefficients for each image. Secondly, we use a marginal Generalized Gaussian Density (GGD) to model each subband coefficients. Finally, the distortion measure is computed using the Kullback Leibler Divergence (KLD) between GGD Probability density function (PDFs). Experimental results show the efficiency of the proposed method when comparing to those reported in the literature.

Towards a Modelization of the elusive Concept of Wisdom using Fuzzy Techniques

2012

After having been a term of reflection in philosophy as well as psychology for ages, the fascination with human wisdom finally reaches the realms of computer science. In comparison to the first philosophical definition attempts, that date back to Aristotle (384 BC – 322BC), the efforts in information science during the late 1980s seem quite recent. Nevertheless have there been astonishing new insights provided by cognitive science since those first formal modelizations were designed – findings that strongly suggest a reconsideration of our current formalization of wisdom in the computer science domain. We suggest to establish a new, integrated view on the concept of wisdom, using the insigh…

On the stationarity of the horizontal to vertical noise spectral ratio

2015

The Horizontal to Vertical Noise Spectral Ratio (HVNSR) method is nowadays widely used to estimate the resonance frequencies of geological structures. In the HVNSR method, seismic noise is considered as a stationary stochastic process. However, especially in industrialized/urbanized area, this is a very strict assumption seldom occurred. Several sources of noise can generate non stationary and anisotropic microtremor fields. To investigate the stationarity of microtremor, we have carried out several long-term measures of seismic noise with broad-band seismic sensors, in areas where the main source of anthropogenic noise is well known. The signals acquired have been analyzed both in frequenc…