Benzimidazole Derivatives as New and Selective Inhibitors of Arginase from Leishmania mexicana with Biological Activity against Promastigotes and Amastigotes.

Leishmaniasis is a disease caused by parasites of the Leishmania genus that affects 98 countries worldwide, 2 million of new cases occur each year and more than 350 million people are at risk. The use of the actual treatments is limited due to toxicity concerns and the apparition of resistance strains. Therefore, there is an urgent necessity to find new drugs for the treatment of this disease. In this context, enzymes from the polyamine biosynthesis pathway, such as arginase, have been considered a good target. In the present work, a chemical library of benzimidazole derivatives was studied performing computational, enzyme kinetics, biological activity, and cytotoxic effect characterization, as well as in silico ADME-Tox predictions, to find new inhibitors for arginase from Leishmania mexicana (LmARG). The results show that the two most potent inhibitors (compounds 1 and 2) have an I50 values of 52 µM and 82 µM, respectively. Moreover, assays with human arginase 1 (HsARG) show that both compounds are selective for LmARG. According to molecular dynamics simulation studies these inhibitors interact with important residues for enzyme catalysis. Biological activity assays demonstrate that both compounds have activity against promastigote and amastigote, and low cytotoxic effect in murine macrophages. Finally, in silico prediction of their ADME-Tox properties suggest that these inhibitors support the characteristics to be considered drug candidates. Altogether, the results reported in our study suggest that the benzimidazole derivatives are an excellent starting point for design new drugs against leishmanisis.

Disulfide Engineered Lipase to Enhance the Catalytic Activity: A Structure-Based Approach on BTL2.

Enhancement, control, and tuning of hydrolytic activity and specificity of lipases are major goals for the industry. Thermoalkaliphilic lipases from the I.5 family, with their native advantages such as high thermostability and tolerance to alkaline pHs, are a target for biotechnological applications. Although several strategies have been applied to increase lipases activity, the enhancement through protein engineering without compromising other capabilities is still elusive. Lipases from the I.5 family suffer a unique and delicate double lid restructuration to transition from a closed and inactive state to their open and enzymatically active conformation. In order to increase the activity of the wild type Geobacillus thermocatenulatus lipase 2 (BTL2) we rationally designed, based on its tridimensional structure, a mutant (ccBTL2) capable of forming a disulfide bond to lock the open state. ccBTL2 was generated replacing A191 and F206 to cysteine residues while both wild type C64 and C295 were mutated to serine. A covalently immobilized ccBTL2 showed a 3.5-fold increment in esterase activity with 0.1% Triton X-100 (2336 IU mg-1) and up to 6.0-fold higher with 0.01% CTAB (778 IU mg-1), both in the presence of oxidizing sulfhydryl agents, when compared to BTL2. The remarkable and industrially desired features of BTL2 such as optimal alkaliphilic pH and high thermal stability were not affected. The designed disulfide bond also conferred reversibility to the enhancement, as the increment on activity observed for ccBTL2 was controlled by redox pretreatments. MD simulations suggested that the most stable conformation for ccBTL2 (with the disulfide bond formed) was, as we predicted, similar to the open and active conformation of this lipase.

Comparative study of two GH19 chitinase-like proteins from Hevea brasiliensis, one exhibiting a novel carbohydrate-binding domain.

Plants express chitinase and chitinase-like proteins (CLPs) belonging to the glycosyl hydrolases of the GH18 and GH19 families, which exhibit varied functions. CLPs in the GH18 family have been structurally and functionally characterized; however, there are no structures available for any member of the GH19 family. In this study, two CLPs of the GH19 family from the rubber tree Hevea brasiliensis (HbCLP1 and HbCLP2) were cloned, expressed and characterized. HbCLP1 was identical to the allergen Hev b 11.0101 previously described by others, while HbCLP2 was a novel isoform exhibiting an unusual half chitin-binding domain before the catalytic domain. Sequence alignments showed that in the two proteins the catalytic residues Glu117 and Glu147 in HbCLP1 and HbCLP2, respectively, were mutated to Ala, accounting for the lack of activity. Nonetheless, both CLPs bound chitin and chitotriose (GlcNAc)3 with high affinities, as evaluated with chitin-affinity chromatography and tryptophan fluorescence experiments. The chitin-binding domains also bound chitotriose with even higher affinities. The crystal structures of the HbCLP1-isolated domains were determined at high resolution. The analysis of the crystallographic models and docking experiments using (GlcNAc)6 oligosaccharides provides evidence of the residues involved in sugar binding. Endochitinase activity was restored in both proteins by mutating residues A117E (HbCLP1) and A147E (HbCLP2); the distance between the catalytic proton donor and the catalytic nucleophile in the in silico mutated residues was 9.5 Å, as occurs in inverting enzymes. HbCLP1 and HbCLP2 were highly thermostable and exhibited antifungal activity against Alternaria alternata, suggesting their participation in plant defense mechanisms.

The C-terminal extension of bacterial flavodoxin-reductases: involvement in the hydride transfer mechanism from the coenzyme.

To study the role of the mobile C-terminal extension present in bacterial class of plant type NADP(H):ferredoxin reductases during catalysis, we generated a series of mutants of the Rhodobacter capsulatus enzyme (RcFPR). Deletion of the six C-terminal amino acids beyond alanine 266 was combined with the replacement A266Y, emulating the structure present in plastidic versions of this flavoenzyme. Analysis of absorbance and fluorescence spectra suggests that deletion does not modify the general geometry of FAD itself, but increases exposure of the flavin to the solvent, prevents a productive geometry of FAD:NADP(H) complex and decreases the protein thermal stability. Although the replacement A266Y partially coats the isoalloxazine from solvent and slightly restores protein stability, this single change does not allow formation of active charge-transfer complexes commonly present in the wild-type FPR, probably due to restraints of C-terminus pliability. A proton exchange process is deduced from ITC measurements during coenzyme binding. All studied RcFPR variants display higher affinity for NADP(+) than wild-type, evidencing the contribution of the C-terminus in tempering a non-productive strong (rigid) interaction with the coenzyme. The decreased catalytic rate parameters confirm that the hydride transfer from NADPH to the flavin ring is considerably hampered in the mutants. Although the involvement of the C-terminal extension from bacterial FPRs in stabilizing overall folding and bent-FAD geometry has been stated, the most relevant contributions to catalysis are modulation of coenzyme entrance and affinity, promotion of the optimal geometry of an active complex and supply of a proton acceptor acting during coenzyme binding.

Coenzyme binding and hydride transfer in Rhodobacter capsulatus ferredoxin/flavodoxin NADP(H) oxidoreductase.

Ferredoxin-NADP(H) reductases catalyse the reversible hydride/electron exchange between NADP(H) and ferredoxin/flavodoxin, comprising a structurally defined family of flavoenzymes with two distinct subclasses. Those present in Gram-negative bacteria (FPRs) display turnover numbers of 1-5 s(-1) while the homologues of cyanobacteria and plants (FNRs) developed a 100-fold activity increase. We investigated nucleotide interactions and hydride transfer in Rhodobacter capsulatus FPR comparing them to those reported for FNRs. NADP(H) binding proceeds as in FNRs with stacking of the nicotinamide on the flavin, which resulted in formation of charge-transfer complexes prior to hydride exchange. The affinity of FPR for both NADP(H) and 2'-P-AMP was 100-fold lower than that of FNRs. The crystal structure of FPR in complex with 2'-P-AMP and NADP(+) allowed modelling of the adenosine ring system bound to the protein, whereas the nicotinamide portion was either not visible or protruding toward solvent in different obtained crystals. Stabilising contacts with the active site residues are different in the two reductase classes. We conclude that evolution to higher activities in FNRs was partially favoured by modification of NADP(H) binding in the initial complexes through changes in the active site residues involved in stabilisation of the adenosine portion of the nucleotide and in the mobile C-terminus of FPR.

Cariotipos de los caracoles de tinte Plicopurpura pansa y Plicopurpura columellaris (Gastropoda: Muricidae)

Karyotypes of the purple snails Plicopurpura pansa and Plicopurpura columellaris (Gastropoda: Muricidae). The karyotypes of the purple snails Plicopurpura pansa (Gould, 1853) and P. columellaris (Lamarck, 1816) were established from 17 and 13 adults, respectively; and from eight capsules with embryos of P. pansa. In P. pansa were counted 59 mitotic fields in the adults and 127 in embryos; and 118 fields in P. columellaris. Chromosome numbers from 30 to 42 were observed in both species. Such a variation was notorious in each sample and there was no evidence of any relationship with tissue (gill, muscle and stomach). Both species has a typical modal number of 2n=36 chromosomes. Five good quality chromosome spreads were selected from adults of each species to assemble the karyotype. Classic cytogenetics statistics like relative lengths, arm ratio, centromeric index and the difference between long and short arms are presented. There were three pairs of metacentric and fifteen pairs of telocentric chromosomes in both species. This classification was not strong enough, so the chromosome complement by species was divided in four groups ("a", "b", "c" and "d") on the basis of relative lengths (p+q). A comparison of p+q in each chromosome pair was estimated within and between species by two ways analysis of variance and Tukey tests (P<0.05). Significant differences were identified among chromosome groups in each species; the differences between species were given by the first three pairs of chromosomes (group "a" biarmed) and the last two pairs (group "d" uniarmed). Deviations in chromosome number and relative lengths probably are given by chromosome rearrangements, related with chromosome polymorphism and presence of the atypical microchromosome "B". The fundamental number in both species was characterized by 42 chromosome arms. No sex chromosomes were identified. Rev. Biol. Trop. 55 (3-4): 853-866. Epub 2007 December, 28.

El cariotipo de Plicopurpura pansa y P. columellaris fue determinado a partir de 17 y 13 especímenes adultos respectivamente. Adicionalmente, se utilizaron ocho cápsulas de P. pansa. Contamos 186 campos mitóticos en P. pansa: 59 en los adultos y 127 en los embriones; y 118 campos en P. columellaris. En ambas especies se observaron números cromosómicos desde 30 hasta 42. Las variaciones en número cromosómico fueron identificadas en cada individuo, no habiendo ninguna relación con los tejidos (branquias, músculo y estómago) empleados. El número modal diploide típico fue de 2n=36 cromosomas en ambas especies. En los especímenes adultos seleccionamos cinco de las mejores dispersiones cromosómicas para armar el cariotipo. Calculamos los estadísticos citogenéticos clásicos, longitudes relativas, proporción de brazos, índice centromérico y la diferencia entre brazos. Identificamos en ambas especies tres pares de cromosomas metacéntricos y quince pares de cromosomas telocéntricos. Esta clasificación no fue suficientemente robusta, por lo que dividimos el complemento cromosómico de cada especie en cuatro grupos ("a", "b", "c" y "d") utilizando como criterio las longitudes relativas (p+q). Hubo diferencias significativas entre grupos cromosómicos por especie y entre especies, los tres primeros pares de cromosomas (grupo "a" birrámeos) y los dos últimos pares (grupo "d" monorrámeos menores) (análisis de varianza de dos vías, p<0.05). Las desviaciones en número cromosómico y en las longitudes relativas, posiblemente se deban a reorganizaciones cromosómicos asociadas con el polimorfismo cromosómico y presencia de microcromosomas tipo "B". El número fundamental en ambas especies se caracterizó por 42 brazos cromosómicos. No identificamos cromosomas sexuales.

[Karyotypes of the purple snails Plicopurpura pansa and Plicopurpura columellaris (Gastropoda: Muricidae)]. / Cariotipos de los caracoles de tinte plicopurpura pansa y Plicopurpura columellaris (Gastropoda: Muricidae).

The karyotypes of the purple snails Plicopurpura pansa (Gould, 1853) and P. columellaris (Lamarck, 1816) were established from 17 and 13 adults, respectively; and from eight capsules with embryos of P. pansa. In P. pansa were counted 59 mitotic fields in the adults and 127 in embryos; and 118 fields in P columellaris. Chromosome numbers from 30 to 42 were observed in both species. Such a variation was notorious in each sample and there was no evidence of any relationship with tissue (gill, muscle and stomach). Both species has a typical modal number of 2n=36 chromosomes. Five good quality chromosome spreads were selected from adults of each species to assemble the karyotype. Classic cytogenetics statistics like relative lengths, arm ratio, centromeric index and the difference between long and short arms are presented. There were three pairs ofmetacentric and fifteen pairs oftelocentric chromosomes in both species. This classification was not strong enough, so the chromosome complement by species was divided in four groups ("a", "b", "c" and "d") on the basis of relative lengths (p+q). A comparison of p+q in each chromosome pair was estimated within and between species by two ways analysis of variance and Tukey tests (P < 0.05). Significant differences were identified among chromosome groups in each species; the differences between species were given by the first three pairs of chromosomes (group "a" biarmed) and the last two pairs (group "d" uniarmed). Deviations in chromosome number and relative lengths probably are given by chromosome rearrangements, related with chromosome polymorphism and presence of the atypical microchromosome "B". The fundamental number in both species was characterized by 42 chromosome arms. No sex chromosomes were identified.