735 research outputs found
Theory for Phase Transitions in Insulating Vanadium Oxide
We show that the recently proposed S=2 bond model with orbital degrees of
freedom for insulating VO not only explains the anomalous magnetic
ordering, but also other mysteries of the magnetic phase transition. The model
contains an additional orbital degree of freedom that exhibits a zero
temperature quantum phase transtion in the Ising universality class.Comment: 5 pages, 2 figure
X-Ray Resonant Scattering as a Direct Probe of Orbital Ordering in Transition-Metal Oxides
X-ray resonant scattering at the K-edge of transition metal oxides is shown
to measure the orbital order parameter, supposed to accompany magnetic ordering
in some cases. Virtual transitions to the 3d-orbitals are quadrupolar in
general. In cases with no inversion symmetry, such as VO, treated in
detail here, a dipole component enhances the resonance. Hence, we argue that
the detailed structure of orbital order in VO is experimentally
accessible.Comment: LaTex using RevTex, 4 pages and two included postscript figure
Experimental library screening demonstrates the successful application of computational protein design to large structural ensembles
The stability, activity, and solubility of a protein sequence are determined by a delicate balance of molecular interactions in a variety of conformational states. Even so, most computational protein design methods model sequences in the context of a single native conformation. Simulations that model the native state as an ensemble have been mostly neglected due to the lack of sufficiently powerful optimization algorithms for multistate design. Here, we have applied our multistate design algorithm to study the potential utility of various forms of input structural data for design. To facilitate a more thorough analysis, we developed new methods for the design and high-throughput stability determination of combinatorial mutation libraries based on protein design calculations. The application of these methods to the core design of a small model system produced many variants with improved thermodynamic stability and showed that multistate design methods can be readily applied to large structural ensembles. We found that exhaustive screening of our designed libraries helped to clarify several sources of simulation error that would have otherwise been difficult to ascertain. Interestingly, the lack of correlation between our simulated and experimentally measured stability values shows clearly that a design procedure need not reproduce experimental data exactly to achieve success. This surprising result suggests potentially fruitful directions for the improvement of computational protein design technology
Orbitally Degenerate Spin-1 Model for Insulating V2O3
Motivated by recent neutron, X-ray absorption and resonant scattering
experiments, we revisit the electronic structure of V2O3. We propose a model in
which S=1 V3+ ions are coupled in the vertical V-V pairs forming two-fold
orbitally degenerate configurations with S=2. Ferro-orbital ordering of the V-V
pairs gives a description which is consistent with all experiments in the
antiferromagnetic insulating phase.Comment: 4 pages, including three figure
Ground State and Excitations of Spin Chain with Orbital Degeneracy
The one dimensional Heisenberg model in the presence of orbital degeneracy is
studied at the SU(4) symmetric viewpoint by means of Bethe ansatz. Following
Sutherland's previous work on an equivalent model, we discuss the ground state
and the low-lying excitations more extensively in connection to the spin
systems with orbital degeneracy. We show explicitly that the ground state is a
SU(4) singlet. We study the degeneracies of the elementary excitations and the
spectra of the generalized magnons consisting of these excitations. We also
discuss the complex 2-strings in the context of the Bethe ansatz solutions.Comment: Revtex, 9 pages, 3 figures; typos correcte
MolProbity: all-atom structure validation for macromolecular crystallography
MolProbity structure validation will diagnose most local errors in macromolecular crystal structures and help to guide their correction
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Evaluation of dredged material proposed for ocean disposal from Buttermilk Channel, New York
Buttermilk Channel was one of seven waterways that was sampled and evaluated for dredging and sediment disposal. Sediment samples were collected and analyses were conducted on sediment core samples. The evaluation of proposed dredged material from the channel included bulk sediment chemical analyses, chemical analyses of site water and elutriate, water column and benthic acute toxicity tests, and bioaccumulation studies. Individual sediment core samples were analyzed for grain size, moisture content, and total organic carbon. A composite sediment samples, representing the entire area proposed for dredging, was analyzed for bulk density, polynuclear aromatic hydrocarbons, and 1,4-dichlorobenzene. Site water and elutriate were analyzed for metals, pesticides, and PCBs
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Evaluation of dredged material proposed for ocean disposal from Hudson River, New York
The Hudson River (Federal Project No. 41) was one of seven waterways that the U.S. Army Corps of Engineers-New York District (USACE-NYD) requested the Battelle Marine Sciences Laboratory (MSL) to sample and evaluate for dredging and disposal in March 1994. Sediment samples were collected from the Hudson River. Tests and analyses were conducted on Hudson River sediment core samples. The evaluation of proposed dredged material from the Hudson River included bulk sediment chemical analyses, chemical analyses of site water and elutriate, water-column and benthic acute toxicity tests, and bioaccumulation studies. Individual sediment core samples collected from Hudson River were analyzed for grain size, moisture content, and total organic carbon (TOC). A composite sediment sample, representing the entire area proposed for dredging, was analyzed for bulk density, specific gravity, metals, chlorinated pesticides, polychlorinated biphenyl (PCB) congeners, polynuclear aromatic hydrocarbons (PAH), and 1,4-dichlorobenzene. Site water and elutriate water, prepared from the suspended-particulate phase (SPP) of Hudson River sediment, were analyzed for metals, pesticides, and PCBS. Water-column or SPP toxicity tests were performed with three species. Benthic acute toxicity tests were performed. Bioaccumulation tests were also conducted
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Evaluation of dredged material proposed for ocean disposal from South Brother Island Channel, New York
South Brother Island Channel was one of seven waterways that the US Army Crops of Engineers-New York District requested the Battelle/Marine Sciences Laboratory to sample and evaluate for dredging and disposal. Tests and analyses were conducted on South Brother Island Channel sediment core samples and evaluations were performed. The evaluation of proposed dredged material from South Brother Island Channel included bulk sediment chemical analyses, chemical analyses of site water and elutriate, water-column and benthic acute toxicity tests, and bioaccumulation studies. Individual sediment core samples collected from Souther Brother Island Channel were analyzed for grain size, moisture content, and total organic carbon. a composite sediment sample, representing the entire area proposed for dredging, was analyzed for bulk density, specific gravity, metals, chlorinated pesticides, polychlorinated biphenyl congers, polynuclear aromatic hydrocarbons, and 1,4- dichlorobenzene. Site water and elutriate water, prepared from the suspended-particle phase of South Brother Island Channel sediment, were analyzed for metals, pesticides, and PCBs
Computation of protein geometry and its applications: Packing and function prediction
This chapter discusses geometric models of biomolecules and geometric
constructs, including the union of ball model, the weigthed Voronoi diagram,
the weighted Delaunay triangulation, and the alpha shapes. These geometric
constructs enable fast and analytical computaton of shapes of biomoleculres
(including features such as voids and pockets) and metric properties (such as
area and volume). The algorithms of Delaunay triangulation, computation of
voids and pockets, as well volume/area computation are also described. In
addition, applications in packing analysis of protein structures and protein
function prediction are also discussed.Comment: 32 pages, 9 figure
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