1,897 research outputs found
JAIL: a structure-based interface library for macromolecules
The increasing number of solved macromolecules provides a solid number of 3D interfaces, if all types of molecular contacts are being considered. JAIL annotates three different kinds of macromolecular interfaces, those between interacting protein domains, interfaces of different protein chains and interfaces between proteins and nucleic acids. This results in a total number of about 184 000 database entries. All the interfaces can easily be identified by a detailed search form or by a hierarchical tree that describes the protein domain architectures classified by the SCOP database. Visual inspection of the interfaces is possible via an interactive protein viewer. Furthermore, large scale analyses are supported by an implemented sequential and by a structural clustering. Similar interfaces as well as non-redundant interfaces can be easily picked out. Additionally, the sequential conservation of binding sites was also included in the database and is retrievable via Jmol. A comprehensive download section allows the composition of representative data sets with user defined parameters. The huge data set in combination with various search options allow a comprehensive view on all interfaces between macromolecules included in the Protein Data Bank (PDB). The download of the data sets supports numerous further investigations in macromolecular recognition. JAIL is publicly available at http://bioinformatics.charite.de/jail
Level splittings in exchange-biased spin tunneling
The level splittings in a dimer with the antiferromagnetic coupling between
two single-molecule magnets are calculated perturbatively for arbitrary spin.
It is found that the exchange interaction between two single-molecule magnets
plays an important role in the level splitting. The results are discussed in
comparison with the recent experiment.Comment: 12 pages, to be published in Phys. Rev.
Macroscopic Quantum Tunneling and Dissipation of Domain Wall in Ferromagnetic Metals
The depinning of a domain wall in ferromagentic metal via macroscopic quantum
tunneling is studied based on the Hubbard model. The dynamics of the
magnetization verctor is shown to be governed by an effective action of
Heisenberg model with a term non-local in time that describes the dissipation
due to the conduction electron. Due to the existence of the Fermi surface there
exists Ohmic dissipation even at zero temperature, which is crucially different
from the case of the insulator. Taking into account the effect of pinning and
the external magnetic field the action is rewritten in terms of a collective
coordinate, the position of the wall, . The tunneling rate for is
calculated by use of the instanton method. It is found that the reduction of
the tunneling rate due to the dissipation is very large for a thin domain wall
with thickness of a few times the lattice spacing, but is negligible for a
thick domain wall. Dissipation due to eddy current is shown to be negligible
for a wall of mesoscopic size.Comment: of pages 26, to appear in "Quantum Tunneling of Magnetization, ed. B.
Barbara and L. Gunther (Kluwer Academic Pub.), Figures available by FAX
(81-48-462-4649
Early-Onset and Robust Amyloid Pathology in a New Homozygous Mouse Model of Alzheimer's Disease
BACKGROUND: Transgenic mice expressing mutated amyloid precursor protein (APP) and presenilin (PS)-1 or -2 have been successfully used to model cerebral beta-amyloidosis, one of the characteristic hallmarks of Alzheimer's disease (AD) pathology. However, the use of many transgenic lines is limited by premature death, low breeding efficiencies and late onset and high inter-animal variability of the pathology, creating a need for improved animal models. Here we describe the detailed characterization of a new homozygous double-transgenic mouse line that addresses most of these issues. METHODOLOGY/PRINCIPAL FINDINGS: The transgenic mouse line (ARTE10) was generated by co-integration of two transgenes carrying the K670N/M671L mutated amyloid precursor protein (APP(swe)) and the M146V mutated presenilin 1 (PS1) both under control of a neuron-specific promoter. Mice, hemi- as well as homozygous for both transgenes, are viable and fertile with good breeding capabilities and a low rate of premature death. They develop robust AD-like cerebral beta-amyloid plaque pathology with glial inflammation, signs of neuritic dystrophy and cerebral amyloid angiopathy. Using our novel image analysis algorithm for semi-automatic quantification of plaque burden, we demonstrate an early onset and progressive plaque deposition starting at 3 months of age in homozygous mice with low inter-animal variability and 100%-penetrance of the phenotype. The plaques are readily detected in vivo by PiB, the standard human PET tracer for AD. In addition, ARTE10 mice display early loss of synaptic markers and age-related cognitive deficits. By applying a gamma-secretase inhibitor we show a dose dependent reduction of soluble amyloid beta levels in the brain. CONCLUSIONS: ARTE10 mice develop a cerebral beta-amyloidosis closely resembling the beta-amyloid-related aspects of human AD neuropathology. Unifying several advantages of previous transgenic models, this line particularly qualifies for the use in target validation and for evaluating potential diagnostic or therapeutic agents targeting the amyloid pathology of AD
Constructing living buildings: a review of relevant technologies for a novel application of biohybrid robotics
Biohybrid robotics takes an engineering approach to the expansion and exploitation of biological behaviours for application to automated tasks. Here, we identify the construction of living buildings and infrastructure as a high-potential application domain for biohybrid robotics, and review technological advances relevant to its future development. Construction, civil infrastructure maintenance and building occupancy in the last decades have comprised a major portion of economic production, energy consumption and carbon emissions. Integrating biological organisms into automated construction tasks and permanent building components therefore has high potential for impact. Live materials can provide several advantages over standard synthetic construction materials, including self-repair of damage, increase rather than degradation of structural performance over time, resilience to corrosive environments, support of biodiversity, and mitigation of urban heat islands. Here, we review relevant technologies, which are currently disparate. They span robotics, self-organizing systems, artificial life, construction automation, structural engineering, architecture, bioengineering, biomaterials, and molecular and cellular biology. In these disciplines, developments relevant to biohybrid construction and living buildings are in the early stages, and typically are not exchanged between disciplines. We, therefore, consider this review useful to the future development of biohybrid engineering for this highly interdisciplinary application.publishe
Colour reconnection in e+e- -> W+W- at sqrt(s) = 189 - 209 GeV
The effects of the final state interaction phenomenon known as colour
reconnection are investigated at centre-of-mass energies in the range sqrt(s) ~
189-209 GeV using the OPAL detector at LEP. Colour reconnection is expected to
affect observables based on charged particles in hadronic decays of W+W-.
Measurements of inclusive charged particle multiplicities, and of their angular
distribution with respect to the four jet axes of the events, are used to test
models of colour reconnection. The data are found to exclude extreme scenarios
of the Sjostrand-Khoze Type I (SK-I) model and are compatible with other
models, both with and without colour reconnection effects. In the context of
the SK-I model, the best agreement with data is obtained for a reconnection
probability of 37%. Assuming no colour reconnection, the charged particle
multiplicity in hadronically decaying W bosons is measured to be (nqqch) =
19.38+-0.05(stat.)+-0.08 (syst.).Comment: 30 pages, 9 figures, Submitted to Euro. Phys. J.
Scaling violations of quark and gluon jet fragmentation functions in e+e- annihilations at sqrt(s) = 91.2 and 183-209 GeV
Flavour inclusive, udsc and b fragmentation functions in unbiased jets, and
flavour inclusive, udsc, b and gluon fragmentation functions in biased jets are
measured in e+e- annihilations from data collected at centre-of-mass energies
of 91.2, and 183-209 GeV with the OPAL detector at LEP. The unbiased jets are
defined by hemispheres of inclusive hadronic events, while the biased jet
measurements are based on three-jet events selected with jet algorithms.
Several methods are employed to extract the fragmentation functions over a wide
range of scales. Possible biases are studied in the results are obtained. The
fragmentation functions are compared to results from lower energy e+e-
experiments and with earlier LEP measurements and are found to be consistent.
Scaling violations are observed and are found to be stronger for the
fragmentation functions of gluon jets than for those of quarks. The measured
fragmentation functions are compared to three recent theoretical
next-to-leading order calculations and to the predictions of three Monte Carlo
event generators. While the Monte Carlo models are in good agreement with the
data, the theoretical predictions fail to describe the full set of results, in
particular the b and gluon jet measurements.Comment: 46 pages, 17 figures, Submitted to Eur. Phys J.
Search for Yukawa Production of a Light Neutral Higgs Boson at LEP
Within a Two-Higgs-Doublet Model (2HDM) a search for a light Higgs boson in
the mass range of 4-12 GeV has been performed in the Yukawa process e+e- -> b
bbar A/h -> b bbar tau+tau-, using the data collected by the OPAL detector at
LEP between 1992 and 1995 in e+e- collisions at about 91 GeV centre-of-mass
energy. A likelihood selection is applied to separate background and signal.
The number of observed events is in good agreement with the expected
background. Within a CP-conserving 2HDM type II model the cross-section for
Yukawa production depends on xiAd = |tan beta| and xihd = |sin alpha/cos beta|
for the production of the CP-odd A and the CP-even h, respectively, where tan
beta is the ratio of the vacuum expectation values of the Higgs doublets and
alpha is the mixing angle between the neutral CP-even Higgs bosons. From our
data 95% C.L. upper limits are derived for xiAd within the range of 8.5 to 13.6
and for xihd between 8.2 to 13.7, depending on the mass of the Higgs boson,
assuming a branching fraction into tau+tau- of 100%. An interpretation of the
limits within a 2HDM type II model with Standard Model particle content is
given. These results impose constraints on several models that have been
proposed to explain the recent BNL measurement of the muon anomalous magnetic
moment.Comment: 24 pages, 9 figures, Submitted to Euro. Phys. J.
Market Hegemony and Economic Theory
It is central to standard economic theory that people act on their interests. People are interested in a variety of things, so a range of values should influence market behavior. When engaged in commerce, however, people generally act for personal gain; the influence of other values usually just disappears in the marketplace. What is missing from the standard account is that people often act on proper subsets of their interests. Economics can, however, be extended to capture this insight.Yeshttps://us.sagepub.com/en-us/nam/manuscript-submission-guideline
Measurement of triple gauge boson couplings from WW production at LEP energies up to 189 GeV
A measurement of triple gauge boson couplings is presented, based on W-pair
data recorded by the OPAL detector at LEP during 1998 at a centre-of-mass
energy of 189 GeV with an integrated luminosity of 183 pb^-1. After combining
with our previous measurements at centre-of-mass energies of 161-183 GeV we
obtain k_g=0.97 +0.20 -0.16, g_1^z=0.991 +0.060 -0.057 and lambda_g=-0.110
+0.058 -0.055, where the errors include both statistical and systematic
uncertainties and each coupling is determined by setting the other two
couplings to their SM values. These results are consistent with the Standard
Model expectations.Comment: 28 pages, 8 figures, submitted to Eur. Phys. J.
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