A recipe for the crystallization of enzymes

A recipe for the crystallization of enzyme

Droplet deformation and pumping in AC electro-osmotic micropumps

This paper was presented at the 2nd Micro and Nano Flows Conference (MNF2009), which was held at Brunel University, West London, UK. The conference was organised by Brunel University and supported by the Institution of Mechanical Engineers, IPEM, the Italian Union of Thermofluid dynamics, the Process Intensification Network, HEXAG - the Heat Exchange Action Group and the Institute of Mathematics and its Applications.This contribution deals with the pumping and deformation of oil in water droplets in alternating-current electro-osmotic micropumps. These micropumps are used to transport lowly conductive fluids through micro channels by means of a harmonically driven electrode array on the channel bottom. The periodic formation of an electric double layer above the electrodes results in an electro-osmotic flow, which carries along adjacent fluid layers. In experiments we observed that droplets immersed in the carrier fluid are transported by the channel flow and periodically deformed when passing the electrodes. Due to the different polarizability and conductivity of the droplet and the carrier fluid, dielectrophoretic forces act on the fluid droplet interface. These forces that are described by the Maxwell stress tensor increase with the electric field strength and attract the droplet towards the electrode. This contribution analyses the mechanisms of droplet pumping and deformation numerically by means of solving for the electric and the flow field to the two phases in the channel and by evaluating the dielectrophoretic forces on the droplet. A conservative level-set method is used to track the droplet surface accurately

PeneloPET simulations of the Biograph ToF clinical PET scanner

Proceedings of: 2011 IEEE Nuclear Science Symposium and Medical Imaging Conference (NSS/MIC). Valencia, Spain, 23-29 October 2011Monte Carlo simulations are widely used in positron emission tomography (PET) for optimizing detector design, acquisition protocols, as well as for developing and assessing corrections and reconstruction methods. PeneloPET is a Monte Carlo code for PET simulations which considers detector geometry, acquisition electronics and materials, and source definitions. PeneloPET is based on PENELOPE, a Monte Carlo code for the simulation of the transport in matter of electrons, positrons and photons, with energies up to 1 GeV. In this work we use PeneloPET to simulate the Biograph TruePoint (B-TP), Biograph TruePoint with TrueV (B-TPTV) and Biograph mCT PET/CT scanners. These configurations consist of three (B-TP) and four (B-TPTV and mCT) rings of 48 detector blocks. Each block comprises a 13 × 13 matrix of 4 × 4 × 20 mm3 LSO crystals. Simulations were adjusted to reproduce some experimental results from the actual scanners and validated by comparing their predictions to further experimental results. Sensitivity, spatial resolution, noise equivalent count (NEC) rate and scatter fraction (SF) were estimated. The simulations were then employed to estimate the optimum values of system parameters, such as energy and time coincidence windows and to assess the effect of system modifications (such as number of rings) on performance.This work was supported in part by Comunidad de Madrid (ARTEMIS S2009IDPI 1802), Spanish Ministry of Science and Innovation (ENTEPRASE Grant, PSE 300000 2009 5) and PRECISION grant IPT 300000 2010 3 and european regional funds and CPAN, Centro de Fisica de Particulas, Astroparticulas y Nuclear (CSD 2007 00042@Ingenio2010 12). This study has been (partially) funded by CDTI under the CENIT Programme (AMIT Project). Part of the calculations of this work was performed in the "Cluster de Calculo de Alta Capacidad para Tecnicas Fisicas "funded in part by UCM and in part by UE with European regional funds"Publicad

Practical private database queries based on a quantum key distribution protocol

Private queries allow a user Alice to learn an element of a database held by a provider Bob without revealing which element she was interested in, while limiting her information about the other elements. We propose to implement private queries based on a quantum key distribution protocol, with changes only in the classical post-processing of the key. This approach makes our scheme both easy to implement and loss-tolerant. While unconditionally secure private queries are known to be impossible, we argue that an interesting degree of security can be achieved, relying on fundamental physical principles instead of unverifiable security assumptions in order to protect both user and database. We think that there is scope for such practical private queries to become another remarkable application of quantum information in the footsteps of quantum key distribution.Comment: 7 pages, 2 figures, new and improved version, clarified claims, expanded security discussio

Generation, Annotation and Analysis of First Large-Scale Expressed Sequence Tags from Developing Fiber of Gossypium barbadense L

BACKGROUND: Cotton fiber is the world's leading natural fiber used in the manufacture of textiles. Gossypium is also the model plant in the study of polyploidization, evolution, cell elongation, cell wall development, and cellulose biosynthesis. G. barbadense L. is an ideal candidate for providing new genetic variations useful to improve fiber quality for its superior properties. However, little is known about fiber development mechanisms of G. barbadense and only a few molecular resources are available in GenBank. METHODOLOGY AND PRINCIPAL FINDINGS: In total, 10,979 high-quality expressed sequence tags (ESTs) were generated from a normalized fiber cDNA library of G. barbadense. The ESTs were clustered and assembled into 5852 unigenes, consisting of 1492 contigs and 4360 singletons. The blastx result showed 2165 unigenes with significant similarity to known genes and 2687 unigenes with significant similarity to genes of predicted proteins. Functional classification revealed that unigenes were abundant in the functions of binding, catalytic activity, and metabolic pathways of carbohydrate, amino acid, energy, and lipids. The function motif/domain-related cytoskeleton and redox homeostasis were enriched. Among the 5852 unigenes, 282 and 736 unigenes were identified as potential cell wall biosynthesis and transcription factors, respectively. Furthermore, the relationships among cotton species or between cotton and other model plant systems were analyzed. Some putative species-specific unigenes of G. barbadense were highlighted. CONCLUSIONS/SIGNIFICANCE: The ESTs generated in this study are from the first large-scale EST project for G. barbadense and significantly enhance the number of G. barbadense ESTs in public databases. This knowledge will contribute to cotton improvements by studying fiber development mechanisms of G. barbadense, establishing a breeding program using marker-assisted selection, and discovering candidate genes related to important agronomic traits of cotton through oligonucleotide array. Our work will also provide important resources for comparative genomics, polyploidization, and genome evolution among Gossypium species

The X-Ray Crystal Structure of Escherichia coli Succinic Semialdehyde Dehydrogenase; Structural Insights into NADP+/Enzyme Interactions

In mammals succinic semialdehyde dehydrogenase (SSADH) plays an essential role in the metabolism of the inhibitory neurotransmitter gamma-aminobutyric acid (GABA) to succinic acid (SA). Deficiency of SSADH in humans results in elevated levels of GABA and gamma-Hydroxybutyric acid (GHB), which leads to psychomotor retardation, muscular hypotonia, non-progressive ataxia and seizures. In Escherichia coli, two genetically distinct forms of SSADHs had been described that are essential for preventing accumulation of toxic levels of succinic semialdehyde (SSA) in cells.Here we structurally characterise SSADH encoded by the E coli gabD gene by X-ray crystallographic studies and compare these data with the structure of human SSADH. In the E. coli SSADH structure, electron density for the complete NADP+ cofactor in the binding sites is clearly evident; these data in particular revealing how the nicotinamide ring of the cofactor is positioned in each active site.Our structural data suggest that a deletion of three amino acids in E. coli SSADH permits this enzyme to use NADP+, whereas in contrast the human enzyme utilises NAD+. Furthermore, the structure of E. coli SSADH gives additional insight into human mutations that result in disease