Assessment of conformational parameters as predictors of limited proteolytic sites in native protein structures

Despite the importance of limited proteolysis in biological systems it isoften difficult to rationalize why a proteinase hydrolyses a particularbond, given a simple sequence specificity alone. Understanding of thestructural properties limiting the proteolysis represents a first step onthe pathway to control and manipulation of this phenomena. An expanded setof nick-sites in proteins of known tertiary structure, cut by both narrowand broad specificity proteinases, has been generated yielding a robustdata set of strictly limited sites. A critical evaluation of an expandedset of conformational parameters revealed a strong correlation with limitedproteolytic sites, although they are only modest predictors in isolation.The overall predictive power is significantly improved when theconformational parameters are combined in a weighted predictive scheme thatpermits their relative importance to be compared via a Metropolis searchprotocol. A subset of the parameters performs equally well demonstratingthe key determinants of susceptibility. The derived predictive algorithmhas been made available via the internet. Its utility for predicting othersurface-correlated features is also discussed.     

Mast cell and basophil development

In human esophageal cancers, no ras gene mutations but a relatively high prevalence of p53 gene mutations have been reported. We found a high prevalence of point mutations in Ha-ras and p53 genes in N-nitrosomethylbenzylamine (NMBA)-induced esophageal tumors in two strains of rats (BD VI and F344). Our analysis showed the point mutation GGA-->GAA (expected from the known mechanisms of action of NMBA) at Ha-ras codon 12 in 22 of 46 (48%) and 22 of 38 (58%) papillomas from BD VI and F344 rats, respectively. There was no significant difference in the prevalence of ras mutations in tumors induced by high doses (5.0 mg/kg) and low doses (2.5 mg/kg) of NMBA. Eleven papillomas from each strain were analyzed for p53 mutations. The prevalent mutations found were G-->A and C-->T transitions. The frequency of p53 mutation was 36% (four of 11) for each strain. No apparent hot-spot codon or exon was found in the p53 gene, and two papillomas contained double mutations in this gene. The high prevalence of G-->A mutations in the rat Ha-ras gene contrasts with that in the human gene, in which no ras mutations have been found in primary tumors, and suggests either that the biology of esophageal carcinogenesis differs in humans and rats or that nitrosamines are not the major etiological risk factor for human esophageal cancers.     

Artificial intelligence-based speed control of DTC induction motor drives—A comparative study

The design of the speed controller greatly affects the performance of an electric drive. A common strategy to control an induction machine is to use direct torque control combined with a PI speed controller. These schemes require proper and continuous tuning and therefore adaptive controllers are proposed to replace conventional PI controllers to improve the drive's performance. This paper presents a comparison between four different speed controller design strategies based on artificial intelligence techniques; two are based on tuning of conventional PI controllers, the third makes use of a fuzzy logic controller and the last is based on hybrid fuzzy sliding mode control theory. To provide a numerical comparison between different controllers, a performance index based on speed error is assigned. All methods are applied to the direct torque control scheme and each control strategy has been tested for its robustness and disturbance rejection ability.     

Possible role of hydrogen sulphide gas in self-heating of pyrrhotite-rich materials

Self-heating of sulphides poses safety, environmental and economic concerns to the mining and metallurgical industries, especially when sulphide ores or concentrates have to be stored or transported. The first target of this investigation is the self-heating of pyrrhotite (Po), the most commonly suspected mineral to trigger the phenomenon because of its fast oxidation in moist air. Following a standard experimental protocol, self-heating was assessed on samples of Po mixed with sand as an inert material. With increasing Po content, self-heating rates progressively increased but the samples visually appeared less and less oxidized. A high Po content, it was hypothesized, may give a more reducing environment favouring formation of hydrogen sulphide (H₂S). The presence of this gas could be significant for self-heating for several reasons which are discussed. The hypothesis was tested by including copper pieces to detect the gas by forming copper sulphide, and adding copper sulphate in excess which suppressed self-heating, apparently by reacting with and removing the gas.     

Component-based end-user database design for ecologists

To solve today’s ecological problems, scientists need well documented, validated, and coherent data archives. Historically, however, ecologists have collected and stored data idiosyncratically, making data integration even among close collaborators difficult. Further, effective ecology data warehouses and subsequent data mining require that individual databases be accurately described with metadata against which the data themselves have been validated. Using database technology would make documenting data sets for archiving, integration, and data mining easier, but few ecologists have expertise to use database technology and they cannot afford to hire programmers. In this paper, we identify the benefits that would accrue from ecologists’ use of modern information technology and the obstacles that prevent that use. We describe our prototype, the Canopy DataBank, through which we aim to enable individual ecologists in the forest canopy research community to be their own database programmers. The key feature that makes this possible is domain-specific database components, which we call templates. We also show how additional tools that reuse these components, such as for visualization, could provide gains in productivity and motivate the use of new technology. Finally, we suggest ways in which communities might share database components and how components might be used to foster easier data integration to solve new ecological problems.     

Phonotactic influences on short-term memory

The impact of phonotactic probabilities on serial recall was investigated in a series of experiments. In Experiments 1A and 1B, 7 and 8 year olds were tested on their serial recall of monosyllabic words and of nonwords varying in phonotactic frequencies. A recall advantage to words over nonwords remained when stimuli were balanced for phonotactic probability, but nonword recall showed superior accuracy for high over low probability nonwords, as in Experiment 2. The nonword frequency effect appears to reflect the frequency of constituent syllables rather than biphones. Both lexicality and high phonotactic frequency led to increased proportions of full over partial recall of the memory stimuli. These findings indicate that decayed memory traces in phonological short-term memory can be reconstructed using either lexical or phonotactic knowledge.