51 research outputs found
Study of the conformation of DARPP-32, a dopamine- and cAMP-regulated phosphoprotein, by fluorescence spectroscopy.
DARPP-32 is a potent inhibitor of protein phosphatase 1 when it is phosphorylated on Thr34 by cAMP-dependent protein kinase. DARPP-32 is also phosphorylated on Ser45 and Ser102 by casein kinase II, resulting in a facilitation of phosphorylation by cAMP-dependent protein kinase. We have studied the conformation of recombinant rat DARPP-32 by steady-state and time-resolved fluorescence. The steady-state emission spectra and quenching of the intrinsic (Trp163) and extrinsic fluorescence (acrylodan or lucifer yellow linked to Cys72) were consistent with a complete exposure of these residues to the aqueous environment. The intrinsic fluorescence of DARPP-32 was resolved into three decay components with lifetimes of 1, 3.4, and 7 ns, with the intermediate lifetime component giving the major contribution. The ratio between the amplitudes associated with the short and long decay constants was decreased upon denaturation. The rotational behavior of DARPP-32 measured by anisotropy decay revealed that Trp163 is located in a highly flexible peptide chain, whereas Cys72 is embedded in a more rigid environment. Phosphorylation by cAMP-dependent protein kinase did not alter any of the fluorescence parameters, whereas only minor effects were associated with casein kinase II phosphorylation. These findings indicate that DARPP-32 contains at least two distinct domains and that phosphorylation has no dramatic effects on its conformation
Transiting Exoplanets with JWST
The era of exoplanet characterization is upon us. For a subset of exoplanets
-- the transiting planets -- physical properties can be measured, including
mass, radius, and atmosphere characteristics. Indeed, measuring the atmospheres
of a further subset of transiting planets, the hot Jupiters, is now routine
with the Spitzer Space Telescope. The James Webb Space Telescope (JWST) will
continue Spitzer's legacy with its large mirror size and precise thermal
stability. JWST is poised for the significant achievement of identifying
habitable planets around bright M through G stars--rocky planets lacking
extensive gas envelopes, with water vapor and signs of chemical disequilibrium
in their atmospheres. Favorable transiting planet systems, are, however,
anticipated to be rare and their atmosphere observations will require tens to
hundreds of hours of JWST time per planet. We review what is known about the
physical characteristics of transiting planets, summarize lessons learned from
Spitzer high-contrast exoplanet measurements, and give several examples of
potential JWST observations.Comment: 22 pages, 11 figures. In press in "Astrophysics in the Next Decade:
JWST and Concurrent Facilities, Astrophysics & Space Science Library,
Thronson, H. A., Tielens, A., Stiavelli, M., eds., Springer: Dordrecht
(2008)." The original publication will be available at
http://www.springerlink.co
Mask formulas for cograssmannian Kazhdan-Lusztig polynomials
We give two contructions of sets of masks on cograssmannian permutations that
can be used in Deodhar's formula for Kazhdan-Lusztig basis elements of the
Iwahori-Hecke algebra. The constructions are respectively based on a formula of
Lascoux-Schutzenberger and its geometric interpretation by Zelevinsky. The
first construction relies on a basis of the Hecke algebra constructed from
principal lower order ideals in Bruhat order and a translation of this basis
into sets of masks. The second construction relies on an interpretation of
masks as cells of the Bott-Samelson resolution. These constructions give
distinct answers to a question of Deodhar.Comment: 43 page
Parametric Polyhedra with at least Lattice Points: Their Semigroup Structure and the k-Frobenius Problem
Given an integral matrix , the well-studied affine semigroup
\mbox{ Sg} (A)=\{ b : Ax=b, \ x \in {\mathbb Z}^n, x \geq 0\} can be
stratified by the number of lattice points inside the parametric polyhedra
. Such families of parametric polyhedra appear in
many areas of combinatorics, convex geometry, algebra and number theory. The
key themes of this paper are: (1) A structure theory that characterizes
precisely the subset \mbox{ Sg}_{\geq k}(A) of all vectors b \in \mbox{
Sg}(A) such that has at least solutions. We
demonstrate that this set is finitely generated, it is a union of translated
copies of a semigroup which can be computed explicitly via Hilbert bases
computations. Related results can be derived for those right-hand-side vectors
for which has exactly solutions or fewer
than solutions. (2) A computational complexity theory. We show that, when
, are fixed natural numbers, one can compute in polynomial time an
encoding of \mbox{ Sg}_{\geq k}(A) as a multivariate generating function,
using a short sum of rational functions. As a consequence, one can identify all
right-hand-side vectors of bounded norm that have at least solutions. (3)
Applications and computation for the -Frobenius numbers. Using Generating
functions we prove that for fixed the -Frobenius number can be
computed in polynomial time. This generalizes a well-known result for by
R. Kannan. Using some adaptation of dynamic programming we show some practical
computations of -Frobenius numbers and their relatives
Redox cycling metals: Pedaling their roles in metabolism and their use in the development of novel therapeutics
Essential metals, such as iron and copper, play a critical role in a plethora of cellular processes including cell growth and proliferation. However, concomitantly, excess of these metal ions in the body can have deleterious effects due to their ability to generate cytotoxic reactive oxygen species (ROS). Thus, the human body has evolved a very well-orchestrated metabolic system that keeps tight control on the levels of these metal ions. Considering their very high proliferation rate, cancer cells require a high abundance of these metals compared to their normal counterparts. Interestingly, new anti-cancer agents that take advantage of the sensitivity of cancer cells to metal sequestration and their susceptibility to ROS have been developed. These ligands can avidly bind metal ions to form redox active metal complexes, which lead to generation of cytotoxic ROS. Furthermore, these agents also act as potent metastasis suppressors due to their ability to up-regulate the metastasis suppressor gene, N-myc downstream regulated gene 1. This review discusses the importance of iron and copper in the metabolism and progression of cancer, how they can be exploited to target tumors and the clinical translation of novel anti-cancer chemotherapeutics
Geographical and temporal distribution of SARS-CoV-2 clades in the WHO European Region, January to June 2020
We show the distribution of SARS-CoV-2 genetic clades over time and between countries and outline potential genomic surveillance objectives. We applied three available genomic nomenclature systems for SARS-CoV-2 to all sequence data from the WHO European Region available during the COVID-19 pandemic until 10 July 2020. We highlight the importance of real-time sequencing and data dissemination in a pandemic situation. We provide a comparison of the nomenclatures and lay a foundation for future European genomic surveillance of SARS-CoV-2.Peer reviewe
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