The Thiamine diphosphate dependent Enzyme Engineering Database: A tool for the systematic analysis of sequence and structure relations

<p>Abstract</p> <p>Background</p> <p>Thiamine diphosphate (ThDP)-dependent enzymes form a vast and diverse class of proteins, catalyzing a wide variety of enzymatic reactions including the formation or cleavage of carbon-sulfur, carbon-oxygen, carbon-nitrogen, and especially carbon-carbon bonds. Although very diverse in sequence and domain organisation, they share two common protein domains, the pyrophosphate (PP) and the pyrimidine (PYR) domain. For the comprehensive and systematic comparison of protein sequences and structures the Thiamine diphosphate (ThDP)-dependent Enzyme Engineering Database (TEED) was established.</p> <p>Description</p> <p>The TEED <url>http://www.teed.uni-stuttgart.de</url> contains 12048 sequence entries which were assigned to 9443 different proteins and 379 structure entries. Proteins were assigned to 8 different superfamilies and 63 homologous protein families. For each family, the TEED offers multisequence alignments, phylogenetic trees, and family-specific HMM profiles. The conserved pyrophosphate (PP) and pyrimidine (PYR) domains have been annotated, which allows the analysis of sequence similarities for a broad variety of proteins. Human ThDP-dependent enzymes are known to be involved in many diseases. 20 different proteins and over 40 single nucleotide polymorphisms (SNPs) of human ThDP-dependent enzymes were identified in the TEED.</p> <p>Conclusions</p> <p>The online accessible version of the TEED has been designed to serve as a navigation and analysis tool for the large and diverse family of ThDP-dependent enzymes.</p

Mechanical properties of thermally modified beech timber for structural purposes

The use of thermally modified timber for structural purposes is of increasing interest. In order to guarantee sufficient reliability in terms of load bearing capacity and fitness for use the strength and stiffness properties of this modified wood have to be assessed. Industrially produced, thermally modified structural timber members made of beech (Fagus sylvatica L.) were subject of the tests presented in this paper. Bending, tension parallel and perpendicular to grain and compression parallel and perpendicular to grain properties were determined. The derived mechanical properties were benchmarked to the European EN 338 strength class system for structural timber. It turned out that the used strong thermal treatment of the raw material resulted in a significant reduction of most of the strength properties. However, stiffness properties were not affected. In particular the strength properties perpendicular to grain suffered a lot due to the thermal modification whereas compression strength parallel to grain was unchanged. The main drawbacks found along the experiments were a pronounced brittle behaviour of the specimens and big variations in strength. For the determination of strength values it is proposed not to use correlations as provided in European standards but to test and state these properties discretely. On the basis of these results a general use of strongly thermally modified beech as structural timber cannot be recommended. However, for selected purposes, like e.g., for structural façade elements or for columns, the use of this material might be an optio

Delamination detection in a 90-year-old glulam block with scanning dry point-contact ultrasound

Glued laminated timber (glulam) is known in timber constructions since more than 100 years. Glulam members can delaminate due to aging and excessive changes of temperature and humidity. This results in significantly reduced load bearing capability of the affected structural members. This contribution focuses on the ultrasonic point-contact inspection of gluing plane delamination as a nondestructive method. Ultrasonic measurements on a section of a 90-year-old roofing glulam member are presented. The results are compared with manual detection and evaluation of delamination with a feeler gauge, with X-ray computed tomography analyses, and with numerical simulations. Appropriate data evaluation of the mechanized ultrasonic results allows the determination of material separation that are deeper than 20 mm in the signature of the surface wave and large-scale delamination (>80% of the complete bonding width) in the back-wall echo. Numerical simulations based on the finite-difference time-domain method shed light into the details of the wave propagation and support the experimental finding

Radiation emitted by transverse-gradient undulators

Conventional undulators are used in synchrotron light sources to produce radiation with a narrow relative spectral width as compared to bending magnets or wigglers. The spectral width of the radiation produced by conventional undulators is determined by the number of undulator periods and by the energy spread and emittance of the electron beam. In more compact electron sources like for instance laser plasma accelerators the energy spread becomes the dominating factor. Due to this effect these electron sources cannot in general be used for high-gain free electron lasers (FELs). In order to overcome this limitation, modified undulator schemes, so-called transverse gradient undulators (TGUs), were proposed and a first superconducting TGU was built at Karlsruhe Institute of Technology (KIT), Karlsruhe, Germany. In this paper simulations of the expected synchrotron radiation spectral distribution are presented. An experimental test with that device is under preparation at the laser wakefield accelerator at the JETI laser at the University of Jena, Germany

Relation entre forme de l'arbre, indicateur de contrainte de croissance et fentes à l'abattage.

La qualité du bois de hêtre est fortement liée à la présence de fentes à coeur sur les grumes. Un projet européen visait à étudier la relation entre la forme de l’arbre, les contraintes de croissance et l’apparition de fentes. Les observations ont été réalisées sur 8 sites de 5 pays européens. Les résultats montrent qu’il y a peu de relation entre forme de l’arbre et indicateur de contrainte de croissance. Mais cette large étude a pu mettre quelques tendances en évidence

Electro-Optical Diagnostics at KARA and FLUTE – Results and Prospects

Electro-optical (EO) methods are nowadays well-proven diagnostic tools, which are utilized to detect THz fields in countless experiments. The world’s first near-field EO sampling monitor at an electron storage ring was developed and installed at the KIT storage ring KARA (Karlsruhe Research Accelerator) and optimized to detect longitudinal bunch profiles. This experiment with other diagnostic techniques builds a distributed, synchronized sensor network to gain comprehensive data about the phase-space of electron bunches as well as the produced coherent synchrotron radiation (CSR). These measurements facilitate studies of physical conditions to provide, at the end, intense and stable CSR in the THz range. At KIT, we also operate FLUTE (Ferninfrarot Linac- und Test-Experiment), a new compact versatile linear accelerator as a test facility for novel techniques and diagnostics. There, EO diagnostics will be implemented to open up possibilities to evaluate and compare new techniques for longitudinal bunch diagnostics. In this contribution, we will give an overview of results achieved, the current status of the EO diagnostic setups at KARA and FLUTE and discuss future prospects

Macroscopic Manifestation of Domain-wall Magnetism and Magnetoelectric Effect in a N\'eel-type Skyrmion Host

We report a magnetic state in GaV$_4$Se$_8$ which emerges exclusively in samples with mesoscale polar domains and not in polar mono-domain crystals. Its onset is accompanied with a sharp anomaly in the magnetic susceptibility and the magnetic torque, distinct from other anomalies observed also in polar mono-domain samples upon transitions between the cycloidal, the N\'eel-type skyrmion lattice and the ferromagnetic states. We ascribe this additional transition to the formation of magnetic textures localized at structural domain walls, where the magnetic interactions change stepwise and spin textures with different spiral planes, hosted by neighbouring domains, need to be matched. A clear anomaly in the magneto-current indicates that the domain-wall-confined magnetic states also have strong contributions to the magnetoelectric response. We expect polar domain walls to commonly host such confined magnetic edge states, especially in materials with long wavelength magnetic order

Controlling Activity and Selectivity Using Water in the Au-Catalysed Preferential Oxidation of CO in H\u3csub\u3e2\u3c/sub\u3e

Industrial hydrogen production through methane steam reforming exceeds 50 million tons annually and accounts for 2–5% of global energy consumption. The hydrogen product, even after processing by the water–gas shift, still typically contains ∼1% CO, which must be removed for many applications. Methanation (CO + 3H2 → CH4 + H2O) is an effective solution to this problem, but consumes 5–15% of the generated hydrogen. The preferential oxidation (PROX) of CO with O2 in hydrogen represents a more-efficient solution. Supported gold nanoparticles, with their high CO-oxidation activity and notoriously low hydrogenation activity, have long been examined as PROX catalysts, but have shown disappointingly low activity and selectivity. Here we show that, under the proper conditions, a commercial Au/Al2O3 catalyst can remove CO to below 10 ppm and still maintain an O2-to-CO2 selectivity of 80–90%. The key to maximizing the catalyst activity and selectivity is to carefully control the feed-flow rate and maintain one to two monolayers of water (a key CO-oxidation co-catalyst) on the catalyst surface