Tore Lejon

Evaluating Different Descriptors for Model Design of Antimicrobial Peptides with Enhanced Activity Toward P. aeruginosa

The number of isolated drug‐resistant pathogenic microbes has increased drastically over the past decades, demonstrating an urgent need for new therapeutic interventions. Antimicrobial peptides have for a long time been looked upon as an interesting template for drug optimization. However, the process of optimizing peptide antimicrobial activity and specificity, using large peptide libraries is both tedious and expensive. Here, we describe the construction of a mathematical model for prediction, prior to synthesis, of peptide antibacterial activity toward Pseudomonas aeruginosa. By use of novel descriptors quantifying the contact energy between neighboring amino acids in addition to a set of inductive and conventional quantitative structure–activity relationship descriptors, we are able to model the peptides antibacterial activity. Cross‐correlation and optimization of the implemented descriptor values have enabled us to build a model (Bac2a‐ #2) that was able to correctly predict the activity of 84% of the tested peptides, within a twofold deviation window of the corresponding IC50 values, measured earlier. The predictive power, is an average of 10 submodels, each predicting the activity of 20 randomly excluded peptides, with a predictive success of 16.7 ± 1.6 peptides. The model has also been proven significantly more accurate than a simpler model (Bac2a‐ #1), where the inductive and conventional quantitative structure–activity relationship descriptors were excluded.

Phe-Gly dipeptidomimetics designed for the di-/tripeptide transporters PEPT1 and PEPT2: synthesis and biological investigations.

A series of five Phe-Gly dipeptidomimetics containing different amide bond replacements have been synthesized in a facile way from the readily available unsaturated ketoester 1, and their affinities for the di-/tripeptide transporters hPEPT1 (Caco-2 cells) and rPEPT2 (SKPT cells) were tested. The compounds contained the amide bond isosteres ketomethylene (2a), (R)- and (S)-hydroxyethylidene (3a and 4a), and (R)- and (S)-hydroxyethylene (5a and 6a) to provide information on the conformational and stereochemical requirements for hPEPT1 and rPEPT2 affinity. The affinity studies showed that for rPEPT2 there is no significant difference in affinity between the ketomethylene isostere 2a and the natural substrate Phe-Gly (K(i) values of 18.8 and 14.6 microM, respectively). Also the affinities for hPEPT1 are in the same range (K(i) values of 0.40 and 0.20 mM, respectively). This corroborates earlier findings that the amide bond as such is not essential for binding to PEPTX, but the results also reveal possible differences in the binding of ketomethylene isosteres to hPEPT1 and rPEPT2. The trans-hydroxyethylidene and hydroxyethylene isosteres proved to be poor substrates for PEPTX. These results provide new information about the importance of flexibility and of the stereochemistry at the C(4)-position for this class of compounds. Furthermore, the intracellular uptake of 2a-4a in Caco-2 cells was investigated, showing a 3-fold reduction of the uptake of 2a in the presence of the competetive inhibitor Gly-Pro, indicating contribution from an active transport component. No active uptake of 3a and 4a was observed. Transepithelial transport studies also indicated active transport of 2a across Caco-2 monolayers.

Boron-Containing Peptidomimetics – A Novel Class of Selective Anti-tubercular Drugs

Medical treatment for tuberculosis is complicated nowadays by the appearance of new multiresistant strains, and therefore, new antibiotics are in great need. Here, we report the synthesis and in vitro testing of a new class of highly selective antimicrobial boron‐containing peptidomimetics with compounds exhibiting activity against Mycobacterium tuberculosis at ≤5 μg/mL. The new approach developed makes it possible to synthesize variously substituted β‐aminoboronic acids and their derivatives with a high level of diastereoselectivity.

Multivariate methods for evaluating the efficiency of electrodialytic removal of heavy metals from polluted harbour sediments

Chemometrics was used to develop a multivariate model based on 46 previously reported electrodialytic remediation experiments (EDR) of five different harbour sediments. The model predicted final concentrations of Cd, Cu, Pb and Zn as a function of current density, remediation time, stirring rate, dry/wet sediment, cell set-up as well as sediment properties. Evaluation of the model showed that remediation time and current density had the highest comparative influence on the clean-up levels. Individual models for each heavy metal showed variance in the variable importance, indicating that the targeted heavy metals were bound to different sediment fractions. Based on the results, a PLS model was used to design five new EDR experiments of a sixth sediment to achieve specified clean-up levels of Cu and Pb. The removal efficiencies were up to 82% for Cu and 87% for Pb and the targeted clean-up levels were met in four out of five experiments. The clean-up levels were better than predicted by the model, which could hence be used for predicting an approximate remediation strategy; the modelling power will however improve with more data included.

Syntheses and anti-tubercular activity of β-substituted and α,β-disubstituted peptidyl β-aminoboronates and boronic acids.

Tuberculosis is still affecting millions of people worldwide, and new resistant strains of Mycobacterium tuberculosis are being found. It is therefore necessary to find new compounds for treatment. In this paper, we report the synthesis and in vitro testing of peptidyl β‐aminoboronic acids and β‐aminoboronates with anti‐tubercular activity. Copyright

Chemometric analysis for pollution source assessment of harbour sediments in Arctic locations.

Pollution levels, pollutant distribution and potential source assessments based on multivariate analysis (chemometrics) were made for harbour sediments from two Arctic locations; Hammerfest in Norway and Sisimiut in Greenland. High levels of heavy metals were detected in addition to organic pollutants. Preliminary assessments based on principal component analysis (PCA) revealed different sources and pollutant distribution in the sediments of the two harbours. Tributyltin (TBT) was, however, found to originate from point source(s), and the highest concentrations of TBT in both harbours were found adjacent to the former shipyards. Polyaromatic hydrocarbons (PAH) ratios and PCA plots revealed that the predominant source in both harbours was pyrogenic related to coal/biomass combustion. Comparison of commercial polychlorinated biphenyls (PCB) mixtures with PCB compositions in the sediments indicated relation primarily to German, Russian and American mixtures in Hammerfest; and American, Russian and Japanese mixtures in Sisimiut. PCA was shown to be an important tool for identifying pollutant sources and differences in pollutant composition in relation to sediment characteristics.

Prediction of Activity, Synthesis and Biological Testing of anti-HSV Active Peptides

Herpes simplex virus infections can be treated with a number of drugs, but as for all pathogens, there is a constant need for new therapies. In the search for lead compounds some peptides have proven to possess an antiviral effect, but it is still unclear what mechanisms are responsible for this effect. We wish to report on the use of principal properties of amino acids for developing quantitative structure–activity relationships (QSAR:s) as a tool for modelling peptide activity and predicting the activity of new peptides. In order to test the reliability of the method, new peptides have been designed by using multivariate methodology, synthesized and tested for a number of responses. Two of the new peptides synthesized were active at lower concentrations than experienced before regarding entry and herpes simplex virus activity, but they were not able to completely inhibit viral infection. This may reflect differences in mode of action of peptides depending on the amino acid content.

Palladium-catalysed synthesis of pyrimidines

Satisfactory yields of 4-substituted pyrimidines and bicyclic pyrimidines are produced from α-methyl or α-methylene ketones when reacted with formamide and tetrakis(triphenylphosphine)palladium(0) or a 1:2 mixture of palladium(II) acetate and triphenylphosphine as catalysts. Under the same reaction conditions pyridines or imidazole are formed from 1,3- or 1,2-diketones.

Screening of variable importance for optimizing electrodialytic remediation of heavy metals from polluted harbour sediments

Using multivariate design and modelling, the optimal conditions for electrodialytic remediation (EDR) of heavy metals were determined for polluted harbour sediments from Hammerfest harbour located in the geographic Arctic region of Norway. The comparative importance of the variables, current density, remediation time, light/no light, the liquid–solid ratio and stirring rate of the sediment suspension, was determined in 15 laboratory-scale EDR experiments by projection to latent structures (PLS). The relation between the X matrix (experimental variables) and the Y matrix (removal efficiencies) was computed and variable importance in the projection was used to assess the influence of the experimental variables. Current density and remediation time proved to have the highest influence on the remediation of the heavy metals Cr, Cu, Ni, Pb and Zn in the studied experimental domain. In addition, it was shown that excluding the acidification time improved the PLS model, indicating the importance of applying a limited experimental domain that covers the removal phases of each heavy metal in the specific sediment. Based on PLS modelling, the optimal conditions for remediating the Hammerfest sediment were determined; operating in the experimental domain of 0.5–0.8 mA/cm2 and a remediation time after acidification of 450–570 h met acceptable levels according to Norwegian sediment quality guidelines. GRAPHICAL ABSTRACT

Synthesis and antimicrobial activity of α-aminoboronic-containing peptidomimetics.

A library of 175 dipeptidomimetics and tripeptidomimetics containing an α‐amino boronic acid or boronate has been synthesized, and the activity toward Mycobacterium tuberculosis, Candida albicans, Staphylococcus aureus, Streptococcus pyogenes, Escherichia coli and Pseudomonas aeruginosa has been screened. Although there is no clear structure–activity relationship, several compounds exhibit promising activity against different pathogens. Copyright