Controlled levels of protein modification through a chromatography-mediated bioconjugation.

Synthetically modified proteins are increasingly finding applications as well-defined scaffolds for materials. In practice it remains difficult to construct bioconjugates with precise levels of modification because of the limited number of repeated functional groups on proteins. This article describes a method to control the level of protein modification in cases where there exist multiple potential modification sites. A protein is first tagged with a handle using any of a variety of modification chemistries. This handle is used to isolate proteins with a particular number of modifications via affinity chromatography, and then the handle is elaborated with a desired moiety using an oxidative coupling reaction. This method results in a sample of protein with a well-defined number of modifications, and we find it particularly applicable to systems like protein homomultimers in which there is no way to discern between chemically identical subunits. We demonstrate the use of this method in the construction of a protein-templated light-harvesting mimic, a type of system which has historically been difficult to make in a well-defined manner

Molecular Mechanics Simulations and Improved Tight-binding Hamiltonians for Artificial Light Harvesting Systems: Predicting Geometric Distributions, Disorder, and Spectroscopy of Chromophores in a Protein Environment

We present molecular mechanics {and spectroscopic} calculations on prototype artificial light harvesting systems consisting of chromophores attached to a tobacco mosaic virus (TMV) protein scaffold. These systems have been synthesized and characterized spectroscopically, but information about the microscopic configurations and geometry of these TMV-templated chromophore assemblies is largely unknown. We use a Monte Carlo conformational search algorithm to determine the preferred positions and orientations of two chromophores, Coumarin 343 together with its linker, and Oregon Green 488, when these are attached at two different sites (104 and 123) on the TMV protein. The resulting geometric information shows that the extent of disorder and aggregation properties, and therefore the optical properties of the TMV-templated chromophore assembly, are highly dependent on the choice of chromophores and protein site to which they are bound. We used the results of the conformational search as geometric parameters together with an improved tight-binding Hamiltonian to simulate the linear absorption spectra and compare with experimental spectral measurements. The ideal dipole approximation to the Hamiltonian is not valid since the distance between chromophores can be very small. We found that using the geometries from the conformational search is necessary to reproduce the features of the experimental spectral peaks

Presidential Report Card

Every four years we choose a president that has the responsibility of representing all of us, but many times each of the candidates do not come close to being anything we want them to be. The Presidential Report Card is a way to allow for us as the citizens to be the ones who determines what we want as our Commander in Chief. In this I explore the previous research done by others who looked at the greatness of former presidents, Presidential Acting that presidents do to remain in the presidency, and the partisanship that we have began to see as a growing issue in this country. Each president that is being talked about in this research has found themselves, in some manner, having to deal with these issues, but for them to be labeled as “Great” then we must put their work to the test. Being president is not the easiest job in the world, many people know that, but this role requires unwavering effort on many fronts, and this shows in the legislation, bills, the advocacy that they do, and overall, how they seek to stand in the gap for the American people. Presidential Greatness for a long time has been a very talked about topic because greatness varies depending on the times that a president was in that determined the responses that they made for the situation, but what really needs to be questioned 2 is whether someone who made the greatness scales used their own personal political affiliation to determine the ratings? If this was not the case, then we need to find more ways to continue the work in evaluating presidential greatness, but if there was some partisanship in determining the numbers, then we need to go back and question if all these surveys have been using a fair ranking policy

The orbits of the quadruple star system 88 Tau A from PHASES differential astrometry and radial velocity

We have used high precision differential astrometry from the Palomar High-precision Astrometric Search for Exoplanet Systems (PHASES) project and radial velocity measurements covering a time-span of 20 years to determine the orbital parameters of the 88 Tau A system. 88 Tau is a complex hierarchical multiple system comprising a total of six stars; we have studied the brightest 4, consisting of two short-period pairs orbiting each other with an 18-year period. We present the first orbital solution for one of the short-period pairs, and determine the masses of the components and distance to the system to the level of a few percent. In addition, our astrometric measurements allow us to make the first determination of the mutual inclinations of the orbits. We find that the sub-systems are not coplanar.Comment: Corrected Author Ordering; 12 Pages, Accepted for publication in Ap

Impact of Systematic Errors in Sunyaev-Zel'dovich Surveys of Galaxy Clusters

Future high-resolution microwave background measurements hold the promise of detecting galaxy clusters throughout our Hubble volume through their Sunyaev-Zel'dovich (SZ) signature, down to a given limiting flux. The number density of galaxy clusters is highly sensitive to cluster mass through fluctuations in the matter power spectrum, as well as redshift through the comoving volume and the growth factor. This sensitivity in principle allows tight constraints on such quantities as the equation of state of dark energy and the neutrino mass. We evaluate the ability of future cluster surveys to measure these quantities simultaneously when combined with PLANCK-like CMB data. Using a simple effective model for uncertainties in the cluster mass-SZ flux relation, we evaluate systematic shifts in cosmological constraints from cluster SZ surveys. We find that a systematic bias of 10% in cluster mass measurements can give rise to shifts in cosmological parameter estimates at levels larger than the $1\sigma$ statistical errors. Systematic errors are unlikely to be detected from the mass and redshift dependence of cluster number counts alone; increasing survey size has only a marginal effect. Implications for upcoming experiments are discussed.Comment: 12 pages, 6 figures; accepted to JCAP; revised to match submitted versio

A thylakoid membrane-bound and redox-active rubredoxin (RBD1) functions in de novo assembly and repair of photosystem II.

Photosystem II (PSII) undergoes frequent photooxidative damage that, if not repaired, impairs photosynthetic activity and growth. How photosynthetic organisms protect vulnerable PSII intermediate complexes during de novo assembly and repair remains poorly understood. Here, we report the genetic and biochemical characterization of chloroplast-located rubredoxin 1 (RBD1), a PSII assembly factor containing a redox-active rubredoxin domain and a single C-terminal transmembrane α-helix (TMH) domain. RBD1 is an integral thylakoid membrane protein that is enriched in stroma lamellae fractions with the rubredoxin domain exposed on the stromal side. RBD1 also interacts with PSII intermediate complexes containing cytochrome b 559 Complementation of the Chlamydomonas reinhardtii (hereafter Chlamydomonas) RBD1-deficient 2pac mutant with constructs encoding RBD1 protein truncations and site-directed mutations demonstrated that the TMH domain is essential for de novo PSII assembly, whereas the rubredoxin domain is involved in PSII repair. The rubredoxin domain exhibits a redox midpoint potential of +114 mV and is proficient in 1-electron transfers to a surrogate cytochrome c in vitro. Reduction of oxidized RBD1 is NADPH dependent and can be mediated by ferredoxin-NADP+ reductase (FNR) in vitro. We propose that RBD1 participates, together with the cytochrome b 559, in the protection of PSII intermediate complexes from photooxidative damage during de novo assembly and repair. This role of RBD1 is consistent with its evolutionary conservation among photosynthetic organisms and the fact that it is essential in photosynthetic eukaryotes

Improving Simulations of Spiking Neural P Systems in NVIDIA CUDA GPUs: CuSNP

Spiking neural P systems (in short, SN P systems) are parallel models of computations inspired by the spiking ( ring) of biological neurons. In SN P systems, neurons function as spike processors and are placed on nodes of a directed graph. Synapses, the connections between neurons, are represented by arcs or directed endges in the graph. Not only do SN P systems have parallel semantics (i.e. neurons operate in parallel), but their structure as directed graphs allow them to be represented as vectors or matrices. Such representations allow the use of linear algebra operations for simulating the evolution of the system con gurations, i.e. computations. In this work, we continue the implementations of SN P systems with delays, i.e. a delay is associated with the sending of a spike from a neuron to its neighbouring neurons. Our implementation is based on a modi ed representation of SN P systems as vectors and matrices for SN P systems without delays. We us massively parallel processors known as graphics processing units (in short, GPUs) from NVIDIA. For experimental validation, we use SN P systems implementing generalized sorting networks. We report a speedup, i.e. the ratio between the running time of the sequential over the parallel simulator, of up to approximately 51 times for a 512-size input to the sorting network

Improving Stellar and Planetary Parameters of Transiting Planet Systems: The Case of TrES-2

We report on a spectroscopic determination of the atmospheric parameters and chemical abundance of the parent star of the recently discovered transiting planet TrES-2. A detailed LTE analysis of a set of Fe I and Fe II lines from our Keck spectra yields T_(eff) = 5850 ± 50 K, log g = 4.4 ± 0.1, and [Fe/H] = -0.15 ± 0.10. Several independent checks (e.g., additional spectroscopy, line-depth ratios) confirm the reliability of our spectroscopic T_(eff) estimate. The mass and radius of the star, needed to determine the properties of the planet, are traditionally inferred by comparison with stellar evolution models using T_(eff) and some measure of the stellar luminosity, such as the spectroscopic surface gravity. We apply here a new method in which we use instead of log g the normalized separation a/R_* (related to the stellar density), directly measurabele from the light curves of transiting planets with much greater precision. With the a/R_* value from the light-curve analysis of Holman and coworkers and our T_(eff) estimate, we obtain M_* = 0.980 ± 0.062 M_☉ and R_* = 1.000^(+0.036)_(-0.033) R_☉, and an evolutionary age of 5.1^(+2.7)_(-2.3) Gyr, in good agreement with other constraints (Ca II H and K line cores, lithium abundance, and rotation). The new stellar parameters yield improved values for the planetary mass and radius of M_p = 1.198 ± 0.053 M_J and R_p = 1.220^(+0.045)_(-0.042) R_J, confirming that TrES-2 is the most massive among the currently known nearby (d ≲ 300 pc) transiting hot Jupiters. The surface gravity of the planet, log g_p = 3.299 ± 0.016, can be derived independently of the knowledge of the stellar parameters (i.e., directly from observations), and with a very high precision rivaling that of the best known double-lined eclipsing binaries