83 research outputs found
Surface-reconstructed Icosahedral Structures for Lead Clusters
We describe a new family of icosahedral structures for lead clusters. In
general, structures in this family contain a Mackay icosahedral core with a
reconstructed two-shell outer-layer. This family includes the anti-Mackay
icosahedra, which have have a Mackay icosahedral core but with most of the
surface atoms in hexagonal close-packed positions. Using a many-body glue
potential for lead, we identify two icosahedral structures in this family which
have the lowest energies of any known structure in the size range from 900 to
15000 lead atoms. We show that these structures are stabilized by a feature of
the many-body glue part of the interatomic potential.Comment: 9 pages, 8 figure
Molecular dynamics simulations of lead clusters
Molecular dynamics simulations of nanometer-sized lead clusters have been
performed using the Lim, Ong and Ercolessi glue potential (Surf. Sci. {\bf
269/270}, 1109 (1992)). The binding energies of clusters forming crystalline
(fcc), decahedron and icosahedron structures are compared, showing that fcc
cuboctahedra are the most energetically favoured of these polyhedral model
structures. However, simulations of the freezing of liquid droplets produced a
characteristic form of ``shaved'' icosahedron, in which atoms are absent at the
edges and apexes of the polyhedron. This arrangement is energetically favoured
for 600-4000 atom clusters. Larger clusters favour crystalline structures.
Indeed, simulated freezing of a 6525-atom liquid droplet produced an imperfect
fcc Wulff particle, containing a number of parallel stacking faults. The
effects of temperature on the preferred structure of crystalline clusters below
the melting point have been considered. The implications of these results for
the interpretation of experimental data is discussed.Comment: 11 pages, 18 figues, new section added and one figure added, other
minor changes for publicatio
X-ray Absorption Studies of Ceria with Trivalent Dopants
Peer Reviewedhttp://deepblue.lib.umich.edu/bitstream/2027.42/65899/1/j.1151-2916.1991.tb04328.x.pd
Effect of Dopants on Zirconia Stabilization—An X-ray Absorption Study: I, Trivalent Dopants
Peer Reviewedhttp://deepblue.lib.umich.edu/bitstream/2027.42/65562/1/j.1151-2916.1994.tb06964.x.pd
Biochemical and structural studies of a L-haloacid dehalogenase from the thermophilic archaeon Sulfolobus tokodaii
addresses: Henry Wellcome Building for Biocatalysis, School of Biosciences, University of Exeter, Stocker Road, Exeter EX4 4QD, UK.types: Journal Article; Research Support, Non-U.S. Gov'tThis a post-print, author-produced version of an article accepted for publication in Extremophiles. Copyright © 2009 Springer Verlag. The definitive version is available at http://link.springer.com/article/10.1007%2Fs00792-008-0208-0Haloacid dehalogenases have potential applications in the pharmaceutical and fine chemical industry as well as in the remediation of contaminated land. The L: -2-haloacid dehalogenase from the thermophilic archaeon Sulfolobus tokodaii has been cloned and over-expressed in Escherichia coli and successfully purified to homogeneity. Here we report the structure of the recombinant dehalogenase solved by molecular replacement in two different crystal forms. The enzyme is a homodimer with each monomer being composed of a core-domain of a beta-sheet bundle surrounded by alpha-helices and an alpha-helical sub-domain. This fold is similar to previously solved mesophilic L: -haloacid dehalogenase structures. The monoclinic crystal form contains a putative inhibitor L: -lactate in the active site. The enzyme displays haloacid dehalogenase activity towards carboxylic acids with the halide attached at the C2 position with the highest activity towards chloropropionic acid. The enzyme is thermostable with maximum activity at 60 degrees C and a half-life of over 1 h at 70 degrees C. The enzyme is relatively stable to solvents with 25% activity lost when incubated for 1 h in 20% v/v DMSO
when history teaching turns into parrhesia the case of italian colonial crimes
The aim of this chapter was to highlight the importance and the consequentiality of a specific kind of history education that happens when teachers decide to openly narrate to their students the crimes committed by previous generations of their own group—crimes so far kept silenced and literally denied in the general social discourse. According to Foucault's categorization of different kinds of truth's speaking, we propose to call parrhesia this history teaching. After reviewing theoretical stances on consequences expected for young people receiving this kind of history education, empirical evidence is discussed referring to recent researches conducted on chosen case studies. Data suggest that knowledge conveyed by parrhesiastic historical teaching on previously silenced ingroup crimes allow young students to morally distance themselves from wrongdoings of older generations
Computational Treatment of Metalloproteins
Metalloproteins present a considerable challenge for modeling, especially when the starting point is far from thermodynamic equilibrium. Examples include formidable problems such as metalloprotein folding and structure prediction upon metal addition, removal, or even just replacement; metalloenzyme design, where stabilization of a transition state of the catalyzed reaction in the specific binding pocket around the metal needs to be achieved; docking to metal-containing sites and design of metalloenzyme inhibitors. Even more conservative computations, such as elucidations of the mechanisms and energetics of the reaction catalyzed by natural metalloenzymes, are often nontrivial. The reason is the vast span of time and length scales over which these proteins operate, and thus the resultant difficulties in estimating their energies and free energies. It is required to perform extensive sampling, properly treat the electronic structure of the bound metal or metals, and seamlessly merge the required techniques to assess energies and entropies, or their changes, for the entire system. Additionally, the machinery needs to be computationally affordable. Although a great advancement has been made over the years, including some of the seminal works resulting in the 2013 Nobel Prize in chemistry, many aforementioned exciting applications remain far from reach. We review the methodology on the forefront of the field, including several promising methods developed in our lab that bring us closer to the desired modern goals. We further highlight their performance by a few examples of applications
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