Chandra Observations of the Optically Dark GRB030528

The X-ray-rich GRB030528 was detected by the HETE satellite and its localization was rapidly disseminated. However, early optical observations failed to detect a counterpart source. In a 2-epoch ToO observation with Chandra, we discovered a fading X-ray source likely counterpart to GRB030528. The source brightness was typical of X-ray afterglows observed at similar epochs. Other observers detected an IR source at a location consistent with the X-ray source. The X-ray spectrum is not consistent with a large absorbing column.Comment: 4 pages, 1 figures, to appear in Santa Fe GRB Conference Proceedings, 200

Previously Claimed(/Unclaimed) X-ray Emission Lines in High Resolution Afterglow Spectra

We review the significance determination for emission lines in the Chandra HETGS spectrum for GRB020813, and we report on a search for additional lines in high resolution Chandra spectra. No previously unclaimed features are found. We also discuss the significance of lines sets reportedly discovered using XMM data for GRB011211 and GRB030227. We find that these features are likely of modest, though not negligible, significance.Comment: 4 pages, 1 figures, to appear in Santa Fe GRB Conference Proceedings, 200

Imaging and burst location with the EXIST high-energy telescope

The primary instrument of the proposed EXIST mission is a coded mask high energy telescope (the HET), that must have a wide field of view and extremely good sensitivity. It will be crucial to minimize systematic errors so that even for very long total integration times the imaging performance is close to the statistical photon limit. There is also a requirement to be able to reconstruct images on-board in near real time in order to detect and localize gamma-ray bursts. This must be done while the spacecraft is scanning the sky. The scanning provides all-sky coverage and is key to reducing systematic errors. The on-board computational problem is made even more challenging for EXIST by the very large number of detector pixels. Numerous alternative designs for the HET have been evaluated. The baseline concept adopted depends on a unique coded mask with two spatial scales. Monte Carlo simulations and analytic analysis techniques have been used to demonstrate the capabilities of the design and of the proposed two-step burst localization procedure

Optical and X-ray Observations of the Afterglow to XRF030723

The X-ray-flash XRF030723 was detected by the HETE satellite and rapidly disseminated, allowing for an optical transient to be detected ~1 day after the burst. We discuss observations in the optical with Magellan, which confirmed the fade of the optical transient. In a 2-epoch ToO observation with Chandra, we discovered a fading X-ray source spatially coincident with the optical transient. We present spectral fits to the X-ray data. We also discuss the possibility that the source underwent a rebrightening in the X-rays, as was observed in the optical. We find that the significance of a possible rebrightening is very low (~1 sigma).Comment: 4 pages, 2 figures, to appear in Santa Fe GRB Conference Proceedings, 200

Structural compliance: A new metric for protein flexibility

Proteins are the active players in performing essential molecular activities throughout biology, and their dynamics has been broadly demonstrated to relate to their mechanisms. The intrinsic fluctuations have often been used to represent their dynamics and then compared to the experimental B-factors. However, proteins do not move in a vacuum and their motions are modulated by solvent that can impose forces on the structure. In this paper, we introduce a new structural concept, which has been called the structural compliance, for the evaluation of the global and local deformability of the protein structure in response to intramolecular and solvent forces. Based on the application of pairwise pulling forces to a protein elastic network, this structural quantity has been computed and sometimes is even found to yield an improved correlation with the experimental B-factors, meaning that it may serve as a better metric for protein flexibility. The inverse of structural compliance, namely the structural stiffness, has also been defined, which shows a clear anticorrelation with the experimental data. Although the present applications are made to proteins, this approach can also be applied to other biomolecular structures such as RNA. This present study considers only elastic network models, but the approach could be applied further to conventional atomic molecular dynamics. Compliance is found to have a slightly better agreement with the experimental B-factors, perhaps reflecting its bias toward the effects of local perturbations, in contrast to mean square fluctuations. The code for calculating protein compliance and stiffness is freely accessible at https://jerniganlab.github.io/Software/PACKMAN/Tutorials/compliance