Structural basis for metal ion coordination and the catalytic mechanism of sphingomyelinases D

Sphingomyelinases D (SMases D) from Loxosceles spider venom are the principal toxins responsible for the manifestation of dermonecrosis, intravascular hemolysis, and acute renal failure, which can result in death. These enzymes catalyze the hydrolysis of sphingomyelin, resulting in the formation of ceramide 1-phosphate and choline or the hydrolysis of lysophosphatidyl choline, generating the lipid mediator lysophosphatidic acid. This report represents the first crystal structure of a member of the sphingomyelinase D family from Loxosceles laeta (SMase I), which has been determined at 1.75-angstrom resolution using the quick cryo-soaking technique and phases obtained from a single iodine derivative and data collected from a conventional rotating anode x-ray source. SMase I folds as an (alpha/beta)(8) barrel, the interfacial and catalytic sites encompass hydrophobic loops and a negatively charged surface. Substrate binding and/or the transition state are stabilized by a Mg2+ ion, which is coordinated by Glu(32), Asp(34), Asp(91), and solvent molecules. In the proposed acid base catalytic mechanism, His(12) and His(47) play key roles and are supported by a network of hydrogen bonds between Asp(34), Asp(52), Trp(230), Asp(233), and Asn(252).

Molecular adaptability of nucleoside diphosphate kinase b from trypanosomatid parasites: stability, oligomerization and structural determinants of nucleotide binding

Fundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP)

Synthesis, Infrared Spectroscopy and Crystal Structure Determination of a New Decavanadate

Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES)

Photoacclimation in a tropical population of Cladophora glomerata (L.) Kützing 1843 (Chlorophyta) from southeastern Brazil

Fundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP)

Evaluation of thermal compatibility between core and veneer dental ceramics using shear bond strength test and contact angle measurement

Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES)

Stabilization of a (3+1)-dimensional soliton in a Kerr medium by a rapidly oscillating dispersion coefficient

Using the numerical solution of the nonlinear Schrodinger equation and a variational method it is shown that (3 + 1)-dimensional spatiotemporal optical solitons can be stabilized by a rapidly oscillating dispersion coefficient in a Kerr medium with cubic nonlinearity. This has immediate consequence in generating dispersion-managed robust optical soliton in communication as well as possible stabilized Bose-Einstein condensates in periodic optical-lattice potential via an effective-mass formulation. We also critically compare the present stabilization with that obtained by a rapid sinusoidal oscillation of the Kerr nonlinearity parameter.

Dissipation-managed soliton in a quasi-one-dimensional Bose-Einstein condensate

We use the time-dependent mean-field Cross-Pitaevskii equation to study the formation of a dynamically-stabilized dissipation managed bright soliton in a quasi-one dimensional Bose-Einstein condensate (BEC). Because of three-body recombination of bosonic atoms to molecules, atoms are lost (dissipated) from a BEC. Such dissipation leads to the decay of a BEC soliton. We demonstrate by a perturbation procedure that an alimentation of atoms from an external source to the BEC may compensate for the dissipation loss and lead to a dynamically-stabilized soliton. The result of the analytical perturbation method is in excellent agreement with mean-field numerics. It seems possible to obtain such a dynamically stabilized BEC soliton without dissipation in laboratory.

SU(5)circle times Z(13) grand unification model

We propose an SU(5) grand unified model with an invisible axion and the unification of the three coupling constants which is in agreement with the values, at M(Z), of alpha, alpha(s), and sin(2)theta(W). A discrete, anomalous, Z(13) symmetry implies that the Peccei-Quinn symmetry is an automatic symmetry of the classical Lagrangian protecting, at the same time, the invisible axion against possible semiclassical gravity effects. Although the unification scale is of the order of the Peccei-Quinn scale the proton is stabilized by the fact that in this model the standard model fields form the SU(5) multiplets completed by new exotic fields and, also, because it is protected by the Z(13) symmetry.

Stabilization of bright solitons and vortex solitons in a trapless three-dimensional Bose-Einstein condensate by temporal modulation of the scattering length

Using variational and numerical solutions of the mean-field Gross-Pitaevskii equation we show that a bright soliton can be stabilized in a trapless three-dimensional attractive Bose-Einstein condensate (BEC) by a rapid periodic temporal modulation of scattering length alone by using a Feshbach resonance. This scheme also stabilizes a rotating vortex soliton in two dimensions. Apart from possible experimental application in BEC, the present study suggests that the spatiotemporal solitons of nonlinear optics in three dimensions can also be stabilized in a layered Kerr medium with sign-changing nonlinearity along the propagation direction.

Stabilization of a light bullet in a layered Kerr medium with sign-changing nonlinearity

Using the numerical solution of the nonlinear Schrodinger equation and a variational method, it is shown that (3+1)-dimensional spatiotemporal optical solitons, known as light bullets, can be stabilized in a layered Kerr medium with sign-changing nonlinearity along the propagation direction.

Effects of time-periodic linear coupling on two-component Bose-Einstein condensates in two dimensions

We examine two-component Gross-Pitaevskii equations with nonlinear and linear couplings, assuming self-attraction in one species and self-repulsion in the other, while the nonlinear inter-species coupling is also repulsive. For initial states with the condensate placed in the self-attractive component, a sufficiently strong linear coupling switches the collapse into decay (in the free space). Setting the linear-coupling coefficient to be time-periodic (alternating between positive and negative values, with zero mean value) can make localized states quasi-stable for the parameter ranges considered herein, but they slowly decay. The 2D states can then be completely stabilized by a weak trapping potential. In the case of the high-frequency modulation of the coupling constant, averaged equations are derived, which demonstrate good agreement with numerical solutions of the full equations. (C) 2007 Elsevier B.V. All rights reserved.

Two-dimensional dipolar Bose-Einstein condensate bright and vortex solitons on a one-dimensional optical lattice

Fundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP)

Towards a UV completion of chameleons in string theory

Chameleons are scalar fields that couple directly to ordinary matter with gravitational strength, but which nevertheless evade the stringent constraints on tests of gravity because of properties they acquire in the presence of high ambient matter density. Chameleon theories were originally constructed in a bottom-up, phenomenological fashion, with potentials and matter couplings designed to hide the scalar from experiments. In this paper, we attempt to embed the chameleon scenario within string compactifications, thus UV completing the scenario. We look for stabilized potentials that can realize a screening mechanism, and we find that the volume modulus rather generically works as a chameleon, and in fact the supersymmetric potential used by Kachru, Kallosh, Linde and Trivedi (KKLT) is an example of this type. We consider all constraints from tests of gravity, allowing us to put experimental constraints on the KKLT parameters.

Self-trapping of a binary Bose-Einstein condensate induced by interspecies interaction

Fundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP)

Some results on vector bundle monomorphisms

In this paper we use the singularity method of Koschorke [2] to study the question of how many different nonstable homotopy classes of monomorphisms of vector bundles lie in a stable class and the percentage of stable monomorphisms which are not homotopic to stabilized nonstable monomorphisms. Particular attention is paid to tangent vector fields. This work complements some results of Koschorke [3; 4], Libardi-Rossini [7] and Libardi-do Nascimento-Rossini [6].