Resolution of tryptophan-ANS fluorescence energy transfer in apomyoglobin by site-directed mutagenesis

Resonance energy transfer between tryptophanyl residues and the apolar fluorescent dye 1-anilino-8-naphthalene sulfonate (ANS) occurs when the fluorophore is bound to native folded sperm whale apomyoglobin. The individual transfer contribution of the two tryptophanyl residues (W7 and W14, both located on the A-helix of the protein) was resolved by measuring the tryptophan-ANS transfer efficiency for the ANS-apomyoglobin complexes formed by wild-type protein and protein mutants containing one or no tryptophanyl residues, i.e. W7F, W14F and W7YW14F. The transfer efficiency of W14 residue was found to be higher than that of W7, thus indicating that W14 acts as the main energy donor in the ANS-apomyoglobin complex. This suggests that the plane containing the anilinonaphthalene ring of the extrinsic fluorophore has a spatial orientation similar to that of W14 and, hence, to the heme group in the holoprotein.     

Analysis of 21-deoxycortisol, a marker of congenital adrenal hyperplasia, in blood by atmospheric pressure chemical ionization and electrospray ionization using multiple reaction monitoring

Congenital adrenal hyperplasia (CAH) is an autosomal recessive disorder mainly caused by 21-hydroxylase deficit (21-OHD). Deletions or mutations of the CYP21 gene induce the impairment of glucocorticoid and mineralcorticoid synthesis. 17-Hydroxyprogesterone (17-OHP) is the hormonal marker in patients, but not in the heterozygous subjects. Excess 17-OHP is hydroxylated into 21-deoxycortisol (21-DF), and therefore 21-DF can be used as a specific marker for diagnosis of heterozygous individuals. We report an analytical method for analysis of 21-DF in blood samples using electrospray (ESI) and atmospheric pressure chemical ionization (APCI), showing that ESI is very sensitive for the analysis of this marker molecule. The multiple reaction monitoring (MRM) approach was used to increase the specificity and the sensitivity of the method.     

Dicyanoperylene-diimide thin-film growth: a combined optical and morphological study

N,N′-bis (n-octyl)-dicyanoperylene-3,4:9,10-bis(dicarboximide) (PDI8-CN₂) molecules represent an important example of novel n-type organic materials for realization of air-stable n-channel organic thin film transistors. In this work, the growth by evaporation of PDI8-CN₂ thin films deposited on silicon/silicon dioxide substrates has been investigated as a function of the film thickness through the combination of optical and morphological analyses. A continuous transition from two-dimensional to three-dimensional growth is observed at increasing thickness, accompanied by a modification of the photoluminescence spectrum of the films. Correlations between morphology and optical emission (photoluminescence) of the films are evidenced: namely, an emission band, red shifted with respect to the excitonic transition, emerges at increasing thickness. Time-resolved photoluminescence analysis demonstrates that the decay kinetics of such a band is different from the one associated with exciton recombination. Such a feature may thus represent a useful signature of defect-related trap states.     

A Semisynthetic Approach to New Immunoadjuvant Candidates: Site‐Selective Chemical Manipulation of Escherichia coli Monophosphoryl Lipid A

A semisynthetic approach to novel lipid A derivatives from Escherichia coli (E. coli) lipid A is reported. This methodology stands as an alternative to common approaches based exclusively on either total synthesis or extraction from bacterial sources. It relies upon the purification of the lipid A fraction from fed‐batch fermentation of E. coli, followed by its structural modification through tailored, site‐selective chemical reactions. In particular, modification of the lipid pattern and functionalization of the phosphate group as well as of the sole primary hydroxyl group were accomplished, highlighting the unusual reactivity of the molecule. Preliminary investigations of the immunostimulating activity of the new semisynthetic lipid A derivatives show that some of them stand out as promising, new immunoadjuvant candidates.     

Beta‐lactoglobulin Electrochemical Detection Based with an Innovative Platform Based on Composite Polymer

In this work, we present a new electrochemical disposable platform based on poly(aniline‐co‐anthranilic acid) (PANI/PAA) composite polymer coupled with an aptamer for sensitive detection of β‐lactoglobulin. Firstly, PANI/PAA film was electrodeposited on the graphite screen‐printed electrode surface by cyclic voltammetry. The co‐polymer modified electrode was then employed as platform for the covalent immobilization of an amino‐modified aptamer. Various β‐lactoglobulin solutions, with a fixed amount of biotinylated oligonucleotide complementary sequence, were dropped onto the aptasensor surface. A streptavidin‐alkaline phosphatase conjugate was then employed to trace the affinity reaction. After the addition of 1‐naphthyl‐phosphate enzymatic substrate, 1‐naphthol electroactive product was detected by differential pulse voltammetry. A decrease in the signal was obtained when the target concentration was increased, in according to a signal‐off approach. After optimization of key experimental parameters, a dose‐response curve was obtained between 0.01–1.0 μg mL^?1 β‐lactoglobulin concentration range. The limit of detection of 0.053 μg L^?1 was obtained. Milk samples spiked with β‐lactoglobulin were analyzed.     

Rapid analysis of aflatoxin M1 in milk using dispersive liquid–liquid microextraction coupled with ultrahigh pressure liquid chromatography tandem mass spectrometry

A simple, rapid, and sensitive method based on simultaneous protein precipitation and extraction of aflatoxin M₁ (AFM₁) followed by dispersive liquid–liquid microextraction (DLLME) and ultrahigh pressure liquid chromatography tandem mass spectrometry (UHPLC-MS/MS) analysis was developed for the determination of AFM₁ in milk samples. In order to precipitate the proteins and extract AFM₁ from milk, a sample pretreatment using acetonitrile and NaCl as the extraction/denaturant solvent and salting-out agent, respectively, was optimised. Subsequently, the acetonitrile (upper) phase, containing AFM₁, was used as the disperser solvent in DLLME, and extractant (chloroform) and water were added in turn to the extract to perform the DLLME process. The main parameters affecting the extraction efficiency of the whole analytical procedure, such as acetonitrile volume, amount of salt, type and volume of extractant and water volume, were carefully optimised by experimental design. Under optimum conditions, the developed method provides an enrichment factor of 33 and detection and quantification limits (0.6 and 2.0 ng kg^?1, respectively) below the maximum levels imposed by current regulations for AFM₁ in milk and infant milk formulae. Recoveries (61.3–75.3 %) and repeatability (RSD?<?10, n?=?3), tested in different types of milk at four AFM₁ levels, met the performance criteria required by EC Regulation No. 401/2006. Moreover, the matrix effect on the signal intensity of the analyte was negligible. The proposed method provides a rapid extraction and an accurate determination of AFM₁ in milk and formula milk using a simple and inexpensive sample preparation procedure.

Relation equations in residuated lattices

In questa nota si affronta il problema della risoluzione di equazioni matriciali del tipoAX=B, doveA eB sono matrici a valori su un reticolo distributivo residuato rispetto a una moltiplicazione. In particolare, si individua la più grande soluzione di una tale equazione e si danno condizioni relative alle soluzioni minimali.     

Extending fragment-based free energy calculations with library Monte Carlo simulation: annealing in interaction space

Pre-calculated libraries of molecular fragment configurations have previously been used as a basis for both equilibrium sampling (via library-based Monte Carlo) and for obtaining absolute free energies using a polymer-growth formalism. Here, we combine the two approaches to extend the size of systems for which free energies can be calculated. We study a series of all-atom poly-alanine systems in a simple dielectric solvent and find that precise free energies can be obtained rapidly. For instance, for 12 residues, less than an hour of single-processor time is required. The combined approach is formally equivalent to the annealed importance sampling algorithm; instead of annealing by decreasing temperature, however, interactions among fragments are gradually added as the molecule is grown. We discuss implications for future binding affinity calculations in which a ligand is grown into a binding site.     

Cystatins, serpins and other families of protease inhibitors in plants

Plant protease inhibitors (PIs) are generally small proteins present in high concentrations in storage tissues (tubers and seeds), and to a lower level in leaves. Even if most of them are active against serine and cysteine proteases, PIs active against aspartic proteases and carboxypeptidases have also been identified. Inhibitors of serine proteases are further classifiable in several families on the basis of their structural features. They comprise the families known as Bowman-Birk, Kunitz, Potato I and Potato II, which are the subject of review articles included in this special issue. In the present article we aim to give an overview of other families of plant PIs, active either against serine proteases or other class of proteases, describing their distribution, activity and main structural characteristics.     

PlantPIs--an interactive web resource on plant protease inhibitors

PlantPIs is a web querying system for a database collection of plant protease inhibitors data. Protease inhibitors in plants are naturally occurring proteins that inhibit the function of endogenous and exogenous proteases. In this paper the design and development of a web framework providing a clear and very flexible way of querying plant protease inhibitors data is reported. The web resource is based on a relational database, containing data of plants protease inhibitors publicly accessible, and a graphical user interface providing all the necessary browsing tools, including a data exporting function. PlantPIs contains information extracted principally from MEROPS database, filtered, annotated and compared with data stored in other protein and gene public databases, using both automated techniques and domain expert evaluations. The data are organized to allow a flexible and easy way to access stored information. The database is accessible at http://www.plantpis.ba.itb.cnr.it/.