The Influence of High Renaissance Art on the Mannerist Movement: Examining Representative Works of Rosso Fiorentino, Pontormo, and Bronzino

This paper explores the impact of the High Renaissance, led by Leonardo da Vinci, Michelangelo, and Raphael, on the development of the Mannerist movement. Specifically, it examines the ways in which three prominent Mannerist artists, Pontormo, Rosso Fiorentino, and Bronzino, built upon the ideal art produced during the High Renaissance. Through a comparative analysis of works by the three greats of the High Renaissance and those of the three Mannerist artists, this paper identifies similarities and differences in style, composition, and subject matter. It also considers broader cultural influences that contributed to the development of Mannerism. The paper argues that the rules that Leonardo and Michelangelo broke, and the contributions they, along with Raphael, made to the rising status of the artist, paved the way for the innovations of the Mannerist phase. Ultimately, this paper demonstrates the ways in which the High Renaissance substantially changed art and made the Mannerist movement possible

Magnetic fields in barred galaxies. IV. NGC 1097 and NGC 1365

We present 3.5cm and 6.2cm radio continuum maps in total and polarized intensity of the barred galaxies NGC 1097 and NGC 1365. Both galaxies exhibit radio ridges roughly overlapping with the massive dust lanes in the bar region. The contrast in total intensity across the radio ridges is compatible with compression and shear of an isotropic random magnetic field. The contrast in polarized intensity is significantly smaller than that expected from compression and shearing of the regular magnetic field; this could be the result of decoupling of the regular field from the dense molecular clouds. The regular field in the ridge is probably strong enough to reduce significantly shear in the diffuse gas (to which it is coupled) and hence to reduce magnetic field amplification by shearing. This contributes to the misalignment of the observed field orientation with respect to the velocity vectors of the dense gas. Our observations, for the first time, indicate that magnetic forces can control the flow of the diffuse interstellar gas at kiloparsec scales. The total radio intensity reaches its maximum in the circumnuclear starburst regions, where the equipartition field strength is about 60\mu G, amongst the strongest fields detected in spiral galaxies so far. The regular field in the inner region has a spiral shape with large pitch angle, indicating the action of a dynamo. Magnetic stress leads to mass inflow towards the centre, sufficient to feed the active nucleus in NGC 1097. We detected diffuse X-ray emission, possibly forming a halo of hot gas around NGC 1097.Comment: 32 pages with 45 PostScript figures. Accepted for publication in A&A; Typos corrected 12/10/200

Selective prediction of interaction sites in protein structures with THEMATICS

<p>Abstract</p> <p>Background</p> <p>Methods are now available for the prediction of interaction sites in protein 3D structures. While many of these methods report high success rates for site prediction, often these predictions are not very selective and have low precision. Precision in site prediction is addressed using Theoretical Microscopic Titration Curves (THEMATICS), a simple computational method for the identification of active sites in enzymes. Recall and precision are measured and compared with other methods for the prediction of catalytic sites.</p> <p>Results</p> <p>Using a test set of 169 enzymes from the original Catalytic Residue Dataset (CatRes) it is shown that THEMATICS can deliver precise, localised site predictions. Furthermore, adjustment of the cut-off criteria can improve the recall rates for catalytic residues with only a small sacrifice in precision. Recall rates for CatRes/CSA annotated catalytic residues are 41.1%, 50.4%, and 54.2% for Z score cut-off values of 1.00, 0.99, and 0.98, respectively. The corresponding precision rates are 19.4%, 17.9%, and 16.4%. The success rate for catalytic sites is higher, with correct or partially correct predictions for 77.5%, 85.8%, and 88.2% of the enzymes in the test set, corresponding to the same respective Z score cut-offs, if only the CatRes annotations are used as the reference set. Incorporation of additional literature annotations into the reference set gives total success rates of 89.9%, 92.9%, and 94.1%, again for corresponding cut-off values of 1.00, 0.99, and 0.98. False positive rates for a 75-protein test set are 1.95%, 2.60%, and 3.12% for Z score cut-offs of 1.00, 0.99, and 0.98, respectively.</p> <p>Conclusion</p> <p>With a preferred cut-off value of 0.99, THEMATICS achieves a high success rate of interaction site prediction, about 86% correct or partially correct using CatRes/CSA annotations only and about 93% with an expanded reference set. Success rates for catalytic residue prediction are similar to those of other structure-based methods, but with substantially better precision and lower false positive rates. THEMATICS performs well across the spectrum of E.C. classes. The method requires only the structure of the query protein as input. THEMATICS predictions may be obtained via the web from structures in PDB format at: <url>http://pfweb.chem.neu.edu/thematics/submit.html</url></p

Magnetic fields in barred galaxies. II. Dynamo models

We study the generation and maintenance of large-scale magnetic fields in barred galaxies. We take a velocity field (with strong noncircular components) from a published gas dynamical simulation of Athanassoula (1992), and use this as input to a galactic dynamo calculation. Our work is largely motivated by recent high quality VLA radio observations of the barred galaxy NGC 1097, and we compare our results in detail with the regular magnetic fields deduced from these observations. We are able to reproduce most of the conspicuous large-scale features of the observed regular field, including the field structure in the central regions, by using a simple mean-field dynamo model in which the intensity of interstellar turbulence (more precisely, the turbulent diffusivity) is enhanced by a factor of 2-6 in the dust lanes and near the circumnuclear ring. We argue that magnetic fields can be dynamically important, and therefore should be included in models of gas flow in barred galaxies.Comment: 16 pages, 13 figures, submitted to Astronomy and Astrophysics. Revised version (changes shown in bold face

Identification of Functional Subclasses in the DJ-1 Superfamily Proteins

Genomics has posed the challenge of determination of protein function from sequence and/or 3-D structure. Functional assignment from sequence relationships can be misleading, and structural similarity does not necessarily imply functional similarity. Proteins in the DJ-1 family, many of which are of unknown function, are examples of proteins with both sequence and fold similarity that span multiple functional classes. THEMATICS (theoretical microscopic titration curves), an electrostatics-based computational approach to functional site prediction, is used to sort proteins in the DJ-1 family into different functional classes. Active site residues are predicted for the eight distinct DJ-1 proteins with available 3-D structures. Placement of the predicted residues onto a structural alignment for six of these proteins reveals three distinct types of active sites. Each type overlaps only partially with the others, with only one residue in common across all six sets of predicted residues. Human DJ-1 and YajL from Escherichia coli have very similar predicted active sites and belong to the same probable functional group. Protease I, a known cysteine protease from Pyrococcus horikoshii, and PfpI/YhbO from E. coli, a hypothetical protein of unknown function, belong to a separate class. THEMATICS predicts a set of residues that is typical of a cysteine protease for Protease I; the prediction for PfpI/YhbO bears some similarity. YDR533Cp from Saccharomyces cerevisiae, of unknown function, and the known chaperone Hsp31 from E. coli constitute a third group with nearly identical predicted active sites. While the first four proteins have predicted active sites at dimer interfaces, YDR533Cp and Hsp31 both have predicted sites contained within each subunit. Although YDR533Cp and Hsp31 form different dimers with different orientations between the subunits, the predicted active sites are superimposable within the monomer structures. Thus, the three predicted functional classes form four different types of quaternary structures. The computational prediction of the functional sites for protein structures of unknown function provides valuable clues for functional classification

GMRT 333 MHz observations of 6 nearby normal galaxies

We report Giant Meterwave Radio Telescope (GMRT) continuum observations of six nearby normal galaxies at 333 MHz. The galaxies are observed with angular resolutions better than ~20" (corresponding to a linear scale of about 0.4 - 1 kpc). These observations are sensitive to all the angular scales of interest, since the resolution of the shortest baseline in GMRT is greater than the angular size of the galaxies. Further, for five of these galaxies we show that at 333 MHz, the mean thermal fraction is less than 5%. Using archival data at about 1 GHz, we estimate the mean thermal fraction to be about 10% at that frequency. We also find that the nonthermal spectral index is generally steeper in regions with low thermal fraction and/or located in the outer parts of the galaxy. In regions of high thermal fraction, the nonthermal spectral index is flatter, and has a narrow distribution peaking at ~ -0.78 with a spread of 0.16, putting stringent constraints on the physical conditions for generation, diffusion and energy losses of cosmic ray electrons at scales of ~ 1 kpc.Comment: 18 pages, 11 figures, Accepted for publication in MNRA

Dark and luminous matter in the NGC 3992 group of galaxies, I. The large barred spiral NGC 3992

Detailed neutral hydrogen observations have been obtained of the large barred spiral galaxy NGC 3992 and its three small companion galaxies, UGC 6923, UGC 6940, and UGC 6969. For the main galaxy, the HI distribution is regular with a low level radial extension outside the stellar disc. However, at exactly the region of the bar, there is a pronounced central HI hole in the gas distribution. Likely gas has been transported inwards by the bar and because of the emptyness of the hole no large accretion events can have happened in recent galactic times. The gas kinematics is very regular and it is demonstrated that the influence of the bar potential on the velocity field is negligible. A precise and extended rotation curve has been derived showing some distinct features which can be explained by the non-exponential radial light distribution of NGC 3992. The decomposition of the rotation curve gives a slight preference for a sub maximal disc, though a range of disc contributions, up to a maximum disc situation fits nearly equally well. For such a maximum disc contribution, which might be expected in order to generate and maintain the bar, the required mass-to-light ratio is large but not exceptional.Comment: accepted for publication in Astronomy and Astrophysics. A copy with high resolution graphics will shortly become available at http://www.astro.rug.nl/Preprints/preprints.htm

Reintegrating Biology through the Nexus of Energy, Information, and Matter

Information, energy, and matter are fundamental properties of all levels of biological organization, and life emerges from the continuous flux of matter, energy, and information. This perspective piece defines and explains each of the three pillars of this nexus. We propose that a quantitative characterization of the complex interconversions between matter, energy, and information that compose this nexus will help us derive biological insights that connect phenomena across different levels of biological organization. We articulate examples from multiple biological scales that highlight how this nexus approach leads to a more complete understanding of the biological system. Metrics of energy, information, and matter can provide a common currency that helps link phenomena across levels of biological organization. The propagation of energy and information through levels of biological organization can result in emergent properties and system-wide changes that impact other hierarchical levels. Deeper consideration of measured imbalances in energy, information, and matter can help researchers identify key factors that influence system function at one scale, highlighting avenues to link phenomena across levels of biological organization and develop predictive models of biological systems

Magnetic fields in barred galaxies I. The atlas

The total and polarized radio continuum emission of 20 barred galaxies was observed with the Very Large Array (VLA) at 3, 6, 18 and 22 cm and with the Australia Telescope Compact Array (ATCA) at 6 cm and 13 cm. Maps at 30 arcsec angular resolution are presented here. Polarized emission (and therefore a large-scale regular magnetic field) was detected in 17 galaxies. Most galaxies of our sample are similar to non-barred galaxies with respect to the radio/far-infrared flux correlation and equipartition strength of the total magnetic field. Galaxies with highly elongated bars are not always radio-bright. We discuss the correlation of radio properties with the aspect ratio of the bar and other measures of the bar strength. We introduce a new measure of the bar strength, \Lambda, related to the quadrupole moment of the bar's gravitational potential. The radio surface brightness I of the barred galaxies in our sample is correlated with \Lambda, I \propto \Lambda^0.4+/-0.1, and thus is highest in galaxies with a long bar where the velocity field is distorted by the bar over a large fraction of the disc. In these galaxies, the pattern of the regular field is significantly different from that in non-barred galaxies. In particular, field enhancements occur upstream of the dust lanes where the field lines are oriented at large angles to the bar's major axis. Polarized radio emission seems to be a good indicator of large-scale non-axisymmetric motions.Comment: 29 pages with 66 PostScript figures. Accepted for publication in A&A. Figures 5-24 also available at http://www.mpifr-bonn.mpg.d