A distinct structural region of the prokaryotic ubiquitin-like protein (Pup) is recognized by the N-terminal domain of the proteasomal ATPase Mpa

AbstractThe mycobacterial ubiquitin-like protein Pup is coupled to proteins, thereby rendering them as substrates for proteasome-mediated degradation. The Pup-tagged proteins are recruited by the proteasomal ATPase Mpa (also called ARC). Using a combination of biochemical and NMR methods, we characterize the structural determinants of Pup and its interaction with Mpa, demonstrating that Pup adopts a range of extended conformations with a short helical stretch in its C-terminal portion. We show that the N-terminal coiled-coil domain of Mpa makes extensive contacts along the central region of Pup leaving its N-terminus unconstrained and available for other functional interactions.Structured summaryMINT-7262427: pup (uniprotkb:B6DAC1) binds (MI:0407) to mpa (uniprotkb:Q0G9Y7) by pull down (MI:0096) MINT-7262440: mpa (uniprotkb:Q0G9Y7) and pup (uniprotkb:B6DAC1) bind (MI:0407) by isothermal titration calorimetry (MI:0065

The [CII] 158 um Line Deficit in Ultraluminous Infrared Galaxies Revisited

We present a study of the [CII] 157.74 um fine-structure line in a sample of 15 ultraluminous infrared (IR) galaxies (L_IR>10^12 Lsun; ULIRGs) using the Long Wavelength Spectrometer (LWS) on the Infrared Space Observatory (ISO). We confirm the observed order of magnitude deficit (compared to normal and starburst galaxies) in the strength of the [CII] line relative to the far-IR dust continuum emission found in our initial report (Luhman et al. 1998), but here with a sample that is twice as large. This result suggests that the deficit is a general phenomenon affecting 4/5 ULIRGs. We present an analysis using observations of generally acknowledged photodissociation region (PDR) tracers ([CII], [OI] 63 and 145 um, and FIR continuum emission), which suggests that a high UV flux G_o incident on a moderate density n PDR could explain the deficit. However, comparisons with other ULIRG observations, including CO (1-0), [CI] (1-0), and 6.2 um polycyclic aromatic hydrocarbon (PAH) emission, suggest that high G_o/n PDRs alone cannot produce a self-consistent solution that is compatible with all of the observations. We propose that non-PDR contributions to the FIR continuum can explain the apparent [CII] deficiency. Here, unusually high G_o and/or n physical conditions in ULIRGs as compared to those in normal and starburst galaxies are not required to explain the [CII] deficit. Dust-bounded photoionization regions, which generate much of the FIR emission but do not contribute significant [CII] emission, offer one possible physical origin for this additional non-PDR component. Such environments may also contribute to the observed suppression of FIR fine-structure emission from ionized gas and PAHs, as well as the warmer FIR colors found in ULIRGs. The implications for observations at higher redshifts are also revisited.Comment: to be published in The Astrophysical Journal, 58 page

Ages for illustrative field stars using gyrochronology: viability, limitations and errors

We here develop an improved way of using a rotating star as a clock, set it using the Sun, and demonstrate that it keeps time well. This technique, called gyrochronology, permits the derivation of ages for solar- and late-type main sequence stars using only their rotation periods and colors. The technique is clarified and developed here, and used to derive ages for illustrative groups of nearby, late-type field stars with measured rotation periods. We first demonstrate the reality of the interface sequence, the unifying feature of the rotational observations of cluster and field stars that makes the technique possible, and extends it beyond the proposal of Skumanich by specifying the mass dependence of rotation for these stars. We delineate which stars it cannot currently be used on. We then calibrate the age dependence using the Sun. The errors are propagated to understand their dependence on color and period. Representative age errors associated with the technique are estimated at ~15% (plus possible systematic errors) for late-F, G, K, & early-M stars. Ages derived via gyrochronology for the Mt. Wilson stars are shown to be in good agreement with chromospheric ages for all but the bluest stars, and probably superior. Gyro ages are then calculated for each of the active main sequence field stars studied by Strassmeier and collaborators where other ages are not available. These are shown to be mostly younger than 1Gyr, with a median age of 365Myr. The sample of single, late-type main sequence field stars assembled by Pizzolato and collaborators is then assessed, and shown to have gyro ages ranging from under 100Myr to several Gyr, and a median age of 1.2Gyr. Finally, we demonstrate that the individual components of the three wide binaries XiBooAB, 61CygAB, & AlphaCenAB yield substantially the same gyro ages.Comment: 58 pages, 18 color figures, accepted for publication in The Astrophysical Journal; Age uncertainties slightly modified upon correcting an algebraic error in Section

Rotational velocities of low-mass stars in the Pleiades and Hyades

We have obtained high-resolution spectra of 89 M dwarf members of the Pleiades and Hyades and have derived radial velocities, H-alpha equivalent widths, and spectroscopic rotational velocities for these stars. Typical masses of the newly-observed Pleiades and Hyades stars are ~ 0.4 M_{\sun} and ~ 0.2 M_{\sun}, respectively. We combine our new observations with previously published data to explore the rotational evolution of young stars with M < 0.4 M_\sun. The average rotation rate in the Hyades (age 600 Myr) is about 0.4 that of the Pleiades (110 Myr), and the mean equivalent widths of H-alpha are also lower. As found in previous studies, the correlation between rotation and chromospheric activity is identical in both clusters, implying that the lower activity in the Hyades is a result of the lower rotation rates. We show that a simple scaling of the Pleiades rotational distribution for M \leq 0.4 M_{\sun}, corrected for the effects of structural evolution, matches that of the Hyades if the average angular momentum loss from the Pleiades to the Hyades age is factor of \approx 6. This suggests that the distribution of initial angular momenta and disk-locking lifetimes for the lowest mass stars was similar in both clusters. We argue that this result provides further evidence for a saturation of the angular momentum loss rate at high rotational velocities.Comment: 22 pages, 11 figures, accepted for publication in The Astronomical Journal, tentatively scheduled for March 200

Formation of PAHs and Carbonaceous Solids in Gas-Phase Condensation Experiments

Carbonaceous grains represent a major component of cosmic dust. In order to understand their formation pathways, they have been prepared in the laboratory by gas-phase condensation reactions such as laser pyrolysis and laser ablation. Our studies demonstrate that the temperature in the condensation zone determines the formation pathway of carbonaceous particles. At temperatures lower than 1700 K, the condensation by-products are mainly polycyclic aromatic hydrocarbons (PAHs), that are also the precursors or building blocks for the condensing soot grains. The low-temperature condensates contain PAH mixtures that are mainly composed of volatile 3-5 ring systems. At condensation temperatures higher than 3500 K, fullerene-like carbon grains and fullerene compounds are formed. Fullerene fragments or complete fullerenes equip the nucleating particles. Fullerenes can be identified as soluble components. Consequently, condensation products in cool and hot astrophysical environments such as cool and hot AGB stars or Wolf Rayet stars should be different and should have distinct spectral properties.Comment: 7 pages, 5 figure

The Extraordinary Mid-infrared Spectrum of the Blue Compact Dwarf Galaxy SBS0335-052

SBS0335-052 is a blue compact dwarf galaxy (BCD) with one of the lowest known metallicities, Z$\sim$Z_{\sun}/41, making it a local example of how primordial starburst galaxies and their precursors might appear. A spectrum obtained with the Infrared Spectrograph (IRS) on the Spitzer Space Telescope clearly shows silicate absorption features, emission lines of [SIV] and [NeIII], and puts strong upper limits on the PAH emission features. The observed low resolution spectrum (R~90) extends from 5.3 to 35microns and peaks at ~28microns. The spectrum is compared to IRS observations of the prototypical starburst nucleus NGC7714. SBS0335-052 is quite unlike normal starburst galaxies, which show strong PAH bands, low ionization emission lines, and a continuum peak near 80microns. The continuum difference for $\lambda >30 \mu$m implies a substantial reduction in the mass of cold dust. If the spectrum of this very low metallicity galaxy is representative of star forming galaxies at higher redshifts, it may be difficult to distinguish them from AGNs which also show relatively featureless flat spectra in the mid-IR.Comment: Accepted in ApJ Sup. Spitzer Special Issue, 4 pages, 2 figure

Isolated pseudo-RNA-recognition motifs of SR proteins can regulate splicing using a noncanonical mode of RNA recognition

Serine/arginine (SR) proteins, one of the major families of alternativesplicing regulators in Eukarya, have two types of RNA-recognition motifs (RRMs): a canonical RRM and a pseudo-RRM. Although pseudo-RRMs are crucial for activity of SR proteins, their mode of action was unknown. By solving the structure of the human SRSF1 pseudo-RRM bound to RNA, we discovered a very unusual and sequence-specific RNA-binding mode that is centered on one a-helix and does not involve the β-sheet surface, which typically mediates RNA binding by RRMs. Remarkably, this mode of binding is conserved in all pseudo-RRMs tested. Furthermore, the isolated pseudo- RRM is sufficient to regulate splicing of about half of the SRSF1 target genes tested, and the bound a-helix is a pivotal element for this function. Our results strongly suggest that SR proteins with a pseudo-RRM frequently regulate splicing by competing with, rather than recruiting, spliceosome components, using solely this unusual RRM

Infrared Emission from Interstellar Dust. II. The Diffuse Interstellar Medium

We present a quantitative model for the infrared emission from dust in the diffuse interstellar medium. The model consists of a mixture of amorphous silicate grains and carbonaceous grains, each with a wide size distribution ranging from molecules containing tens of atoms to large grains > 1 um in diameter. We assume that the carbonaceous grains have polycyclic aromatic hydrocarbon (PAH)-like properties at very small sizes, and graphitic properties for radii a > 50 A. On the basis of recent laboratory studies and guided by astronomical observations, we propose "astronomical" absorption cross sections for use in modeling neutral and ionized PAHs from the far ultraviolet to the far infrared. We also propose modifications to the far-infrared emissivity of "astronomical silicate". We calculate energy distribution functions for small grains undergoing "temperature spikes" due to stochastic absorption of starlight photons, using realistic heat capacities and optical properties. Using a grain size distribution consistent with the observed interstellar extinction, we are able to reproduce the near-IR to submillimeter emission spectrum of the diffuse interstellar medium, including the PAH emission features at 3.3, 6.2, 7.7, 8.6, and 11.3um. The model is compared with the observed emission at high Galactic latitudes as well as in the Galactic plane, as measured by COBE and IRTS. We calculate infrared emission spectra for our dust model heated by a range of starlight intensities, and we provide tabulated dust opacities (extended tables available at http://www.astro.princeton.edu/~draine/dust/dustmix.html)Comment: Final version published in ApJ, 554, 778 but with factor 1.086 error in Table 6 and Fig. 16 corrected. Main change from astro-ph version 1 is correction of typographical errors in Table 1, and correction of typo in eq. (A2). 51 pages, 16 figures, Late

Tracing PAHs and Warm Dust Emission in the Seyfert Galaxy NGC 1068

We present a study of the nearby Seyfert galaxy NGC 1068 using mid- and far- infrared data acquired with the IRAC, IRS, and MIPS instruments aboard the Spitzer Space Telescope. The images show extensive 8 um and 24 um emission coinciding with star formation in the inner spiral approximately 15" (1 kpc) from the nucleus, and a bright complex of star formation 47" (3 kpc) SW of the nucleus. The brightest 8 um PAH emission regions coincide remarkably well with knots observed in an Halpha image. Strong PAH features at 6.2, 7.7, 8.6, and 11.3 um are detected in IRS spectra measured at numerous locations inside, within, and outside the inner spiral. The IRAC colors and IRS spectra of these regions rule out dust heated by the AGN as the primary emission source; the SEDs are dominated by starlight and PAH emission. The equivalent widths and flux ratios of the PAH features in the inner spiral are generally consistent with conditions in a typical spiral galaxy ISM. Interior to the inner spiral, the influence of the AGN on the ISM is evident via PAH flux ratios indicative of a higher ionization parameter and a significantly smaller mean equivalent width than observed in the inner spiral. The brightest 8 and 24 um emission peaks in the disk of the galaxy, even at distances beyond the inner spiral, are located within the ionization cones traced by [O III]/Hbeta, and they are also remarkably well aligned with the axis of the radio jets. Although it is possible that radiation from the AGN may directly enhance PAH excitation or trigger the formation of OB stars that subsequently excite PAH emission at these locations in the inner spiral, the orientation of collimated radiation from the AGN and star formation knots in the inner spiral could be coincidental. (abridged)Comment: 20 pages, 11 figures; AJ, accepted; full resolution version available at http://spider.ipac.caltech.edu/staff/jhhowell/astro/howelln1068.pd

Spatial Separation of the 3.29 micron Emission Feature and Associated 2 micron Continuum in NGC 7023

We present a new 0.9" resolution 3.29 micron narrowband image of the reflection nebula NGC 7023. We find that the 3.29 micron IEF in NGC 7023 is brightest in narrow filaments NW of the illuminating star. These filaments have been seen in images of K', molecular hydrogen emission lines, the 6.2 and 11.3 micron IEFs, and HCO+. We also detect 3.29 micron emission faintly but distinctly between the filaments and the star. The 3.29 micron image is in contrast to narrowband images at 2.09, 2.14, and 2.18 micron, which show an extended emission peak midway between the filaments and the star, and much fainter emission near the filaments. The [2.18]-[3.29] color shows a wide variation, ranging from 3.4-3.6 mag at the 2 micron continuum peak to 5.5 mag in the filaments. We observe [2.18]-[3.29] to increase smoothly with increasing distance from the star, up until the filament, suggesting that the main difference between the spatial distributions of the 2 micron continuum and the the 3.29 micron emission is related to the incident stellar flux. Our result suggests that the 3.29 micron IEF carriers are likely to be distinct from, but related to, the 2 micron continuum emitters. Our finding also imply that, in NGC 7023, the 2 micron continuum emitters are mainly associated with HI, while the 3.29 micron IEF carriers are primarily found in warm molecular hydrogen, but that both can survive in HI or molecular hydrogen. (abridged)Comment: to appear in ApJ, including 1 table and 8 figures, high resolution figures available at http://www.ast.cam.ac.uk/~jin/n7023