Phosphorus magnetic resonance spectroscopy in malformations of cortical development

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

Doxazosin Treatment Alters Stromal Cell Behavior and Increases Elastic System Fibers Deposition in Rat Prostate

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

Structure of chorismate synthase from Mycobacterium tuberculosis

In bacteria, fungi, plants, and apicomplexan parasites, the aromatics compounds, such as aromatics amino acids, are synthesized through seven enzymes from the shikimate pathway, which are absent in mammals. The absence of this pathway in mammals make them potential targets for development of new therapy against infectious diseases, such as tuberculosis, which is the world's second commonest cause of death from infectious disease. The last enzyme of shikimate pathway is the chorismate synthase (CS), which is responsible for conversion of the 5-enolpyruvylshikimate-3-phosphate to chorismate. Here, we report the crystallographic structure of CS from Mycobacterium tuberculosis (MtCS) at 2.65 angstrom resolution. The MtCS structure is similar to other CS structures, presenting beta-alpha-beta sandwich structural topology, in which each monomer of MtCS consists of a central helical core. The MtCS can be described as a tetramer formed by a dimer of dimers. However, analytical ultracentrifugation studies suggest the MtCS is a dimer with a more asymmetric shape than observed on the crystallographic dimer and the existence of a low equilibrium between dimer and tetramer. Our results suggest that the MtCS oligomerization is concentration dependent and some conformational changes must be involved on that event. (c) 2005 Elsevier B.V. All rights reserved.

Molecular models of NS3 protease variants of the Hepatitis C virus

Background: Hepatitis C virus (HCV) currently infects approximately three percent of the world population. In view of the lack of vaccines against HCV, there is an urgent need for an efficient treatment of the disease by an effective antiviral drug. Rational drug design has not been the primary way for discovering major therapeutics. Nevertheless, there are reports of success in the development of inhibitor using a structure-based approach. One of the possible targets for drug development against HCV is the NS3 protease variants. Based on the three-dimensional structure of these variants we expect to identify new NS3 protease inhibitors. In order to speed up the modeling process all NS3 protease variant models were generated in a Beowulf cluster. The potential of the structural bioinformatics for development of new antiviral drugs is discussed.Results: the atomic coordinates of crystallographic structure 1CU1 and 1DY9 were used as starting model for modeling of the NS3 protease variant structures. The NS3 protease variant structures are composed of six subdomains, which occur in sequence along the polypeptide chain. The protease domain exhibits the dual beta-barrel fold that is common among members of the chymotrypsin serine protease family. The helicase domain contains two structurally related beta-alpha-beta subdomains and a third subdomain of seven helices and three short beta strands. The latter domain is usually referred to as the helicase alpha-helical subdomain. The rmsd value of bond lengths and bond angles, the average G-factor and Verify 3D values are presented for NS3 protease variant structures.Conclusions: This project increases the certainty that homology modeling is an useful tool in structural biology and that it can be very valuable in annotating genome sequence information and contributing to structural and functional genomics from virus. The structural models will be used to guide future efforts in the structure-based drug design of a new generation of NS3 protease variants inhibitors. All models in the database are publicly accessible via our interactive website, providing us with large amount of structural models for use in protein-ligand docking analysis.

Dificuldades no diagnóstico laboratorial das hemoglobinopatias

Há vários tipos de hemoglobinopatias que são caracterizados por variantes das hemoglobinas anormais (ex: Hb S, Hb C, Hb Instáveis,etc) e por talassemias (ex: tal. alfa, tal. beta, tal.beta/delta,etc) As hemoglobinopatias são consideradas como uma das doenças genéticas mais comuns em todo o mundo, com prevalência de portadores heterozigotos de seus principais tipos em aproximadamente 5% da população mundial. Devido à heterogenidade clínica e genética dessas alterações genéticas é fundamental estabelecer a investigação laboratorial das diferentes formas de hemoglobinas variantes e de talassemias. Este artigo apresenta as principais dificuldades laboratoriais que envolvem a complexidade molecular das hemoglobinopatias.

Diagnóstico de hemoglobinopatias em recém-nascidos do Hospital de Base de São José do Rio Preto-SP

The neonatal period is considered the most effective for the screening of hemoglobinopathies. This allows prophylaxis and prevention, improving the patient's survival and guidance of parents and heterozygote carriers. The present work aims at the early detection of abnormal hemoglobins, the establishment of standard analysis and to examine the viability of the prevention program. Blood samples were collected by heel stick and from blood cord of children born in the Hospital de Base São José do Rio Preto, from April 1998 to November 1999. Electrophoresis and cytological, biochemical, cromatographic analyses were made for abnormal hemoglobin characterization. A total of 1,478 neonatal blood samples were analyzed in which 14.62% presented with hemoglobins alterations: 3.32% had Hb S; 0.61% had Hb C; 7.44% were suggestive of alpha thalassemia; 1.55% were suggestive of beta thalassemia, and 1.70% had alpha/beta thalassemia interactions. The samples collected from the blood cord showed better results in all analyses while the blood samples collected by heel stick on filter paper, were applicable to only specific methodologies. The routine laboratory methods allowed identification of the thalassemic and variant forms, and isoelectric focusing presented sensitivity only for variant identification in this age range. The suspected cases were reassessed after six months, which permitted genetic counseling of their family members and clinic attendance. A multidisciplinary approach in programs of this kind is fundamental for its success.

Caracterização de hemoglobina N-Baltimore em doador de sangue de São José do Rio Preto, SP

As alterações que envolvem as globinas devem-se a modificações em genes responsáveis pela seqüência e estrutura das cadeias polipeptídicas, bem como aos genes reguladores da síntese destas cadeias. Hemoglobinas variantes apresentam estrutura química diferente da hemoglobina normal correspondente, resultante de mutações em uma ou mais bases nitrogenadas, ocasionando a troca de aminoácidos nas globinas alfa, beta, delta ou gama. A hemoglobina N-Baltimore é uma variante de globina beta, com substituição da lisina, na posição 95, por ácido glutâmico, apresentando mobilidade eletroforética mais rápida que a hemoglobina A em pH alcalino. Nas análises eletroforéticas em pH alcalino realizadas em doadores de sangue do Hemocentro de São José do Rio Preto (SP) identificamos a presença de portador de hemoglobina rápida em heterozigose, posteriormente confirmada por focalização isoelétrica e cromatografia líquida de alta pressão (HPLC). Os estudos de hemoglobinas anormais em doadores de sangue permitem a identificação de variantes raras e possibilitam o aconselhamento genético adequado a cada caso com estudo familial.

Connection coefficients and zeros of orthogonal polynomials

We discuss an old theorem of Obrechkoff and some of its applications. Some curious historical facts around this theorem are presented. We make an attempt to look at some known results on connection coefficients, zeros and Wronskians of orthogonal polynomials from the perspective of Obrechkoff's theorem. Necessary conditions for the positivity of the connection coefficients of two families of orthogonal polynomials are provided. Inequalities between the kth zero of an orthogonal polynomial p(n)(x) and the largest (smallest) zero of another orthogonal polynomial q(n)(x) are given in terms of the signs of the connection coefficients of the families {p(n)(x)} and {q(n)(x)}, An inequality between the largest zeros of the Jacobi polynomials P-n((a,b)) (x) and P-n((alpha,beta)) (x) is also established. (C) 2001 Elsevier B.V. B.V. All rights reserved.

Zeros of Jacobi functions of second kind

The number of zeros in (- 1, 1) of the Jacobi function of second kind Q(n)((alpha, beta)) (x), alpha, beta > - 1, i.e. The second solution of the differential equation(1 - x(2))y (x) + (beta - alpha - (alpha + beta + 2)x)y' (x) + n(n + alpha + beta + 1)y(x) = 0,is determined for every n is an element of N and for all values of the parameters alpha > - 1 and beta > - 1. It turns out that this number depends essentially on alpha and beta as well as on the specific normalization of the function Q(n)((alpha, beta)) (x). Interlacing properties of the zeros are also obtained. As a consequence of the main result, we determine the number of zeros of Laguerre's and Hermite's functions of second kind. (c) 2005 Elsevier B.V. All rights reserved.

Monotonicity of zeros of Jacobi polynomials

Denote by x(nk)(alpha, beta), k = 1...., n, the zeros of the Jacobi polynornial P-n((alpha,beta)) (x). It is well known that x(nk)(alpha, beta) are increasing functions of beta and decreasing functions of alpha. In this paper we investigate the question of how fast the functions 1 - x(nk)(alpha, beta) decrease as beta increases. We prove that the products t(nk)(alpha, beta) := f(n)(alpha, beta) (1 - x(nk)(alpha, beta), where f(n)(alpha, beta) = 2n(2) + 2n(alpha + beta + 1) + (alpha + 1)(beta + 1) are already increasing functions of beta and that, for any fixed alpha > - 1, f(n)(alpha, beta) is the asymptotically extremal, with respect to n, function of beta that forces the products t(nk)(alpha, beta) to increase. (c) 2007 Elsevier B.V. All rights reserved.

On the behaviour of zeros of Jacobi polynomials

Denote by x(n,k)(alpha, beta) and x(n,k) (lambda) = x(n,k) (lambda - 1/2, lambda - 1/2) the zeros, in decreasing order, of the Jacobi polynomial P-n((alpha, beta))(x) and of the ultraspherical (Gegenbauer) polynomial C-n(lambda)(x), respectively. The monotonicity of x(n,k)(alpha, beta) as functions of a and beta, alpha, beta > - 1, is investigated. Necessary conditions such that the zeros of P-n((a, b)) (x) are smaller (greater) than the zeros of P-n((alpha, beta))(x) are provided. A. Markov proved that x(n,k) (a, b) < x(n,k)(α, β) (x(n,k)(a, b) > x(n,k)(alpha, beta)) for every n is an element of N and each k, 1 less than or equal to k less than or equal to n if a > alpha and b < β (a < alpha and b > beta). We prove the converse statement of Markov's theorem. The question of how large the function could be such that the products f(n)(lambda) x(n,k)(lambda), k = 1,..., [n/2] are increasing functions of lambda, for lambda > - 1/2, is also discussed. Elbert and Siafarikas proved that f(n)(lambda) = (lambda + (2n(2) + 1)/ (4n + 2))(1/2) obeys this property. We establish the sharpness of their result. (C) 2002 Elsevier B.V. (USA).

Monotonicity of zeros of Jacobi-Sobolev type orthogonal polynomials

Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES)

Asymptotics for Jacobi-Sobolev orthogonal polynomials associated with non-coherent pairs of measures

Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES)

The X-ray crystallographic structure of Escherichia coli branching enzyme

Branching enzyme catalyzes the formation of alpha-1,6 branch points in either glycogen or starch. We report the 2.3-Angstrom crystal structure of glycogen branching enzyme from Escherichia coli. The enzyme consists of three major domains, an NH2-terminal seven-stranded beta-sandwich domain, a COOH-terminal domain, and a central alpha/beta-barrel domain containing the enzyme active site. While the central domain is similar to that of all the other amylase family enzymes, branching enzyme shares the structure of all three domains only with isoamylase. Oligosaccharide binding was modeled or branching enzyme using the enzyme-oligosaccharide complex structures of various alpha-amylases and cyclodextrin glucanotransferase and residues were implicated in oligosaccharide binding. While most of the oligosaccharides modeled well in the branching enzyme structure, an approximate 50degrees rotation between two of the glucose units was required to avoid steric clashes with Trp(298) of branching enzyme. A similar rotation was observed in the mammalian alpha-amylase structure caused by an equivalent tryptophan residue in this structure. It appears that there are two binding modes for oligosaccharides in these structures depending on the identity and location of this aromatic residue.

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).