Structural information on the light-harvesting complex II of green plants that can be depichered from polarized absorption characteristics.

The atomic model of light-harvesting complex II of green plants (LHCII) reveals a densely packed arrangement of 12 chlorophylls and two carotenoids. At the current resolution of 3.4 Angstrom chlorophylls can only be modeled as ''naked'' tetrapyrrole rings. Consequently, definitive assignments of the identities of the chlorophylls (chlorophyll a or chlorophyll b) and the directions of the transition dipole moments are obstructed. These uncertainties lead to a large number of possible configurations, and a detailed understanding of the structure-function relationship is obscured. It is demonstrated that a large reduction in the number of possible configurations and a considerable amount of additional structural information can be obtained by deciphering global features of the polarized absorption spectra within the context of exciton calculations. It is shown that only a limited number of configurations are able to explain the global features of the linear and circular dichroism spectra of LHCII. Assuming that the preliminary assignment of the identities of the 12 chlorophylls by Kuhlbrandt and co-workers is correct, it is possible to deduce the most likely orientations for most of the chlorophylls. The information presented in this study on the most likely orientations will be important for a detailed understanding of the relation between the structure and spectroscopy

Yang-Yang thermodynamics on an atom chip

We investigate the behavior of a weakly interacting nearly one-dimensional (1D) trapped Bose gas at finite temperature. We perform in situ measurements of spatial density profiles and show that they are very well described by a model based on exact solutions obtained using the Yang-Yang thermodynamic formalism, in a regime where other, approximate theoretical approaches fail. We use Bose-gas focusing [Shvarchuck etal., Phys. Rev. Lett. 89, 270404 (2002)] to probe the axial momentum distribution of the gas, and find good agreement with the in situ results.Comment: extended introduction and conclusions, and minor changes throughout; accepted for publication in Phys. Rev. Let

MVA-based H5N1 vaccine affords cross-clade protection in mice against influenza A/H5N1 viruses at low doses and after single immunization.

Human infections with highly pathogenic avian influenza viruses of the H5N1 subtype, frequently reported since 2003, result in high morbidity and mortality. It is feared that these viruses become pandemic, therefore the development of safe and effective vaccines is desirable. MVA-based H5N1 vaccines already proved to be effective when two immunizations with high doses were used. Dose-sparing strategies would increase the number of people that can be vaccinated when the amount of vaccine preparations that can be produced is limited. Furthermore, protective immunity is induced ideally after a single immunization. Therefore the minimal requirements for induction of protective immunity with a MVA-based H5N1 vaccine were assessed in mice. To this end, mice were vaccinated once or twice with descending doses of a recombinant MVA expressing the HA gene of influenza virus A/Vietnam/1194/04. The protective efficacy was determined after challenge infection with the homologous clade 1 virus and a heterologous virus derived from clade 2.1, A/Indonesia/5/05 by assessing weight loss, virus replication and histopathological changes. It was concluded that MVA-based vaccines allowed significant dose-sparing and afford cross-clade protection, also after a single immunization, which are favorable properties for an H5N1 vaccine candidate

Time-resolved, multi-color photometry and spectroscopy of Virgo 4 (OU Vir): a high orbital inclination, short orbital period dwarf nova

We present multi-color photometry and time resolved spectroscopy of OU Vir. The analysis of the quiescent light curve shows that OU Vir is characterized by i) strong cycle-to-cycle brightness variations, and ii) hot spot modulated light curve with grazing eclipse of the impact region. Colors are derived both in- and out- of eclipse. The time-resolved spectroscopy allows us to produce the radial velocity curve from the H$\alpha$ accretion disk emission line which possibly reveals only weak evidence for hot spot line emission. The hot spot is believed to be a turbulent optically thick region, producing mostly continuum emission.Comment: 8 pages (including figures), 7 figures. To Be published in A&

Aperiodic optical variability of intermediate polars - cataclysmic variables with truncated accretion disks

We study the power spectra of the variability of seven intermediate polars containing magnetized asynchronous accreting white dwarfs, XSS J00564+4548,IGR J00234+6141, DO Dra, V1223 Sgr, IGR J15094-6649, IGR J16500-3307 and IGR J17195-4100, in the optical band and demonstrate that their variability can be well described by a model based on fluctuations propagating in a truncated accretion disk. The power spectra have breaks at Fourier frequencies, which we associate with the Keplerian frequency of the disk at the boundary of the white dwarfs' magnetospheres. We propose that the properties of the optical power spectra can be used to deduce the geometry of the inner parts of the accretion disk, in particular: 1) truncation radii of the magnetically disrupted accretion disks in intermediate polars, 2) the truncation radii of the accretion disk in quiescent states of dwarf novaeComment: Accepted for publication in A&

A Study Of A New Class Of Discrete Nonlinear Schroedinger Equations

A new class of 1D discrete nonlinear Schr${\ddot{\rm{o}}}$dinger Hamiltonians with tunable nonlinerities is introduced, which includes the integrable Ablowitz-Ladik system as a limit. A new subset of equations, which are derived from these Hamiltonians using a generalized definition of Poisson brackets, and collectively refered to as the N-AL equation, is studied. The symmetry properties of the equation are discussed. These equations are shown to possess propagating localized solutions, having the continuous translational symmetry of the one-soliton solution of the Ablowitz-Ladik nonlinear Schr${\ddot{\rm{o}}}$dinger equation. The N-AL systems are shown to be suitable to study the combined effect of the dynamical imbalance of nonlinearity and dispersion and the Peierls-Nabarro potential, arising from the lattice discreteness, on the propagating solitary wave like profiles. A perturbative analysis shows that the N-AL systems can have discrete breather solutions, due to the presence of saddle center bifurcations in phase portraits. The unstaggered localized states are shown to have positive effective mass. On the other hand, large width but small amplitude staggered localized states have negative effective mass. The collison dynamics of two colliding solitary wave profiles are studied numerically. Notwithstanding colliding solitary wave profiles are seen to exhibit nontrivial nonsolitonic interactions, certain universal features are observed in the collison dynamics. Future scopes of this work and possible applications of the N-AL systems are discussed.Comment: 17 pages, 15 figures, revtex4, xmgr, gn

A non-symmetric Yang-Baxter Algebra for the Quantum Nonlinear Schr\"odinger Model

We study certain non-symmetric wavefunctions associated to the quantum nonlinear Schr\"odinger model, introduced by Komori and Hikami using Gutkin's propagation operator, which involves representations of the degenerate affine Hecke algebra. We highlight how these functions can be generated using a vertex-type operator formalism similar to the recursion defining the symmetric (Bethe) wavefunction in the quantum inverse scattering method. Furthermore, some of the commutation relations encoded in the Yang-Baxter equation for the relevant monodromy matrix are generalized to the non-symmetric case.Comment: 31 pages; added some references; minor corrections throughou

Electronic Structure and Dynamics of Higher-Lying Excited States in Light Harvesting Complex 1 from Rhodobacter sphaeroides

Light harvesting in photosynthetic organisms involves efficient transfer of energy from peripheral antenna complexes to core antenna complexes, and ultimately to the reaction center where charge separation drives downstream photosynthetic processes. Antenna complexes contain many strongly coupled chromophores, which complicates analysis of their electronic structure. Two-dimensional electronic spectroscopy (2DES) provides information on energetic coupling and ultrafast energy transfer dynamics, making the technique well suited for the study of photosynthetic antennae. Here, we present 2DES results on excited state properties and dynamics of a core antenna complex, light harvesting complex 1 (LH1), embedded in the photosynthetic membrane of Rhodobacter sphaeroides. The experiment reveals weakly allowed higher-lying excited states in LH1 at 770 nm, which transfer energy to the strongly allowed states at 875 nm with a lifetime of 40 fs. The presence of higher-lying excited states is in agreement with effective Hamiltonians constructed using parameters from crystal structures and atomic force microscopy (AFM) studies. The energy transfer dynamics between the higher- and lower-lying excited states agree with Redfield theory calculations

Ab-Initio Calculation of Molecular Aggregation Effects: a Coumarin-343 Case Study

We present time-dependent density functional theory (TDDFT) calculations for single and dimerized Coumarin-343 molecules in order to investigate the quantum mechanical effects of chromophore aggregation in extended systems designed to function as a new generation of sensors and light-harvesting devices. Using the single-chromophore results, we describe the construction of effective Hamiltonians to predict the excitonic properties of aggregate systems. We compare the electronic coupling properties predicted by such effective Hamiltonians to those obtained from TDDFT calculations of dimers, and to the coupling predicted by the transition density cube (TDC) method. We determine the accuracy of the dipole-dipole approximation and TDC with respect to the separation distance and orientation of the dimers. In particular, we investigate the effects of including Coulomb coupling terms ignored in the typical tight-binding effective Hamiltonian. We also examine effects of orbital relaxation which cannot be captured by either of these models

Outbursts of EX Hydrae Revisited

We present optical spectroscopy of EX Hya during its 1991 outburst. This outburst is characterised by strong irradiation of the front face of the secondary star by the white dwarf, an overflowing stream which is seen strongly in HeII and by a dip in the light curves, which extends from 0.1-0.6 in the binary and spin phases. Strong irradiation of the accretion curtain and that of the inner regions of the disc led to strong emission of HeII and to the suppression of the Hg and Hb emission. Disc overflow was observed in quiescence in earlier studies, where the overflow stream material was modulated at high velocities close to 1000 km/s. In outburst, the overflowing material is modulated at even higher velocities (~1500 km/s). These are streaming velocities down the field lines close to the white dwarf. Evidence for material collecting near the outer edge of the disc and corotating with the accretion curtain was observed. In decline, this material and the accretion curtain obscured almost all the emission near binary phase 0.4, causing a dip. The dip minimum nearly corresponds with spin pulse minimum. This has provided additional evidence for an extended accretion curtain, and for the corotation of material with the accretion curtain at the outer edge of the disc. From these observations we suggest that a mechanism similar to that of Spruit & Taam, where outbursts result due to the storage and release of matter outside the magnetosphere, triggers the outbursts of EX Hya. This is followed by the irradiation of the secondary star due to accretion induced radiation.Comment: 12 pages, 14 figures, 1 table. Figures 6, 7, 8 and 11 at low resolution. Paper accepted by the Monthly Notices of the Royal Astronomical Societ