Polymer-supported approach for solution-phase synthesis of cysteine trap protease inhibitors: procedure for straightforward optimization of the P1-P1' pocket

Peptide-based reversible and irreversible cysteine proteases inhibitors are well reported in the literature. Many of these compounds have an electrophilic carbonyl group as a cysteine trap in the place of a scissile amide moiety of the natural substrate. As a common mechanism strategy, we have designed a probe library of a cysteine trap for rapid optimization of P1-P1' pockets of different cysteine proteases. The synthesis of this library using a straightforward methodology based on polymer-supported reagents and scavengers to avoid tedious purification steps has been achieved. For the selective monobromination of diazo ketones, preparation of a new supported reagent, piperidinoaminomethylpolystyrene hydrobromide, is also described.     

Amino acids attached to 2'-amino-LNA: synthesis and excellent duplex stability

The synthesis of 2'-amino-LNA (the 2'-amino derivative of locked nucleic acid) has opened up a number of exciting possibilities with respect to modified nucleic acids. While maintaining the excellent duplex stability inferred by LNA-type oligonucleotides, the nitrogen in the 2'-position of 2'-amino-LNA monomers provides an excellent handle for functionalisation. Herein, the synthesis of amino acid functionalised 2'-amino-LNA derivatives is described. Following ON synthesis, a glycyl unit attached to the N2'-position of 2'-amino-LNA monomers was further acylated with a variety of amino acids. On binding to DNA/RNA complements, the modified ONs induce a marked increase in thermal stability, which is particularly apparent in a buffer system with a low salt concentration. The increase in thermal stability is thought to be caused, at least in part, by decreased electrostatic repulsion between the negatively charged phosphate backbones when positively charged amino acid residues are appended. Upon incorporation of more than one 2'-amino-LNA modification, the effects are found to be nearly additive. For comparison, 2'-amino-LNA derivatives modified with uncharged groups have been synthesised and their effect on duplex thermal stability likewise investigated.     

Nitrile Metabolizing Enzymes in Biocatalysis and Biotransformation

Nitrile metabolizing enzymes, i.e., aldoxime dehydratase, hydroxynitrile lyase, nitrilase, nitrile hydratase, and amidase, are the key catalysts in carbon nitrogen triple bond anabolism and catabolism. Over the past several years, these enzymes have drawn considerable attention as prominent biocatalysts in academia and industries because of their wide applications. Research on various aspects of these biocatalysts, i.e., sources, screening, function, purification, molecular cloning, structure, and mechanisms, has been conducted, and bioprocesses at various scales have been designed for the synthesis of myriads of useful compounds. This review is focused on the potential of nitrile metabolizing enzymes in the production of commercially important fine chemicals such as nitriles, carboxylic acids, and amides. A number of opportunities and challenges of nitrile metabolizing enzymes in bioprocess development for the production of bulk and fine chemicals are discussed.     

QSAR based modeling on a series of α-hydroxy amides as a novel class of bradykinin B1 selective antagonists

G-protein coupled receptors like Bradykinin (BK) B₁ represent a potential treatment route for chronic pain and inflammation. Quantitative structure activity relationship has been performed on a series of α-hydroxy amides as a novel class of bradykinin B₁ selective antagonists, using different physicochemical parameters along with appropriate indicator variables. It has been found that physicochemical parameters such as connectivity indices ³χ, ⁴χ and ⁵χ, molecular weight, molar refractivity, density along with indicator variables are significantly correlated with activity. In this paper best results were obtained by using multiple regression analysis. Different models were generated with high values of R² and low values of PRESS/SSY ratio. The significant equations were statistically tested by using leave one out (LOO) technique and cross validation methods.     

Validated HPTLC method for the simultaneous quantification of diterpenoids in Vitex trifolia L.

Vitex trifolia L. is an important Indian medicinal plant with diverse pharmacological properties. In a recent study, we reported the isolation and antitubercular activity evaluation of three new diterpenoids from its leaves; here we have developed a validated rapid, simple, precise, and accurate high‐performance TLC method for the simultaneous quantification of isolated diterpenoids in V. trifolia. Diterpenoids, 6α,7α‐diacetoxy‐13‐hydroxy‐8(9),14‐labdadien ( A ), 13‐hydroxy‐5(10),14‐halimadien‐6‐one ( B ), and 9‐hydroxy‐13(14)‐labden‐16,15‐olide ( C ) were separated on silica gel 60F₂₅₄ high‐performance TLC plates using chloroform/acetone (98:2, v/v) as mobile phase. The quantitation of diterpenoids was carried out using densitometric reflection/absorption mode at 610 nm after postchromatographic derivatization using a vanillin/sulfuric acid reagent. A precise and accurate quantification can be performed for compounds A and B in the linear working concentration range of 333–1000 ng/band and for C in the range of 670–2000 ng/band with good correlations (r = 0.9984, 0.9991, and 0.9994, respectively). The method was validated for peak purity, precision, accuracy, robustness, LOD, and LOQ, as per the ICH guidelines. The method reported here is simple, reproducible and may be applied for the quantitative analysis of the above diterpenoids in the leaves of V. trifolia.     

Phytochemical investigation of ethyl acetate extract from Curcuma aromatica Salisb. rhizomes

Three phytochemicals, curcumin 1, demethoxycurcumin 2 and β-sitosterol-3-O-β-d-glucopyranoside 3 have been isolated from the ethyl acetate extract of rhizomes of Curcuma aromatica. Chemical structures of all the three isolates were determined using spectroscopic and chemical analyses. β-Sitosterol-3-O-β-d-glucopyranoside has been isolated for the first time from this plant.     

Quantitative structure activity relationship (QSAR) studies on a series of imidazole derivatives as novel ORL1 receptor antagonists

QSAR studies were performed on a series of imidazole derivatives as novel Orl1 receptor antagonists. Imidazole derivatives have been analyzed in relation to their physicochemical and molecular properties. The activities of the compounds were found to be significantly correlated with the physicochemical parameters such as density (D), surface tension (St), index of refraction (Ior), balaban index (J) and partition coefficient (Log P). It was found that the presence of group at R₁ position was conducive for the inhibitory activity. The results are critically discussed on the basis of regression data and cross validation techniques. Poglani factor Q and the results of LOO (leave one out) method confirms the reliability and predictability of the proposed models.     

Insertion of a small peptide of six amino acids into the β7–β8 loop of the p51 subunit of HIV-1 reverse transcriptase perturbs the heterodimer and affects its activities

Background  

HIV-1 RT is a heterodimeric enzyme, comprising of the p66 and p51 subunits. Earlier, we have shown that the β7-β8 loop of p51 is a key structural element for RT dimerization (Pandey et al., Biochemistry 40: 9505, 2001). Deletion or alanine substitution of four amino acid residues of this loop in the p51 subunit severely impaired DNA binding and catalytic activities of the enzyme. To further examine the role of this loop in HIV-1 RT, we have increased its size such that the six amino acids loop sequences are repeated in tandem and examined its impact on the dimerization process and catalytic function of the enzyme.     

Fabrication and characterization of thin films of single-walled carbon nanotube bundles on flexible plastic substrates

A convenient method to obtain patterns of films of single-walled carbon nanotubes (SWNT) bundles on flexible plastic is described. Using the Line Patterning method SWNT films of thickness ranging from approximately 300-1500 nm can be obtained from aqueous surfactant-supported dispersions of chemically purified SWNT bundles synthesized by the pulsed-laser ablation method. These films are strongly adherent and are competitive in performance with commercially available films of indium-tin-oxide (ITO) on plastics. For example, an approximately 1500 thick film of SWNT on poly(ethylene terephthalate) (PET) shows a surface resisitvity of approximately 80 Omega/sq, optical transparency >80%, and robust flexibility. Unlike ITO/PET, films of SWNT/PET can be folded and bent to a crease without cracking. The simple techniques involoved in obtaining these films (i.e., those without requiring lithography or ink-jet printing) could help facilitate the rapid fabrication of transparent, flexible electronic devices, heralding what promises to be a new approach towards the development of next-generation optoelectronic devices.     

Oxygen (O6+) ion beam irradiation effects on etching parameter in lexan polymeric track detector

The polymer Lexan was irradiated to 80MeV O⁶⁺ ion beam using the 15UD pelletron at Inter University Accelerator Centre, New Delhi. The ion fluence ranging from 10¹¹ to 3 × 10¹² ions/cm² has been used to study the dose effects of irradiation on Lexan. By using the etching technique, it is observed that the bulk etch rate of the sample increases with increasing the ion influence, while the activation energy associated with it show a decreasing trend which can be explained on the basis of polymer degradation.