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Department of Bioorganic Chemistry is one of 14 departments of Faculty of Chemistry, Wrocław University of Science and Technology. It is headed by Łukasz Berlicki and formed by 5 research groups of: prof. Paweł Kafarski, prof. Artur Mucha, prof. Łukasz Berlicki, Dr. Rafał Kowalczyk and Dr. Rafał Latajka. The main research areas are on a border of chemistry and biology.





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[EN] JOURNAL COVER! We are honored that our paper on #peptide #foldamer #nanostructures is highlighted on the front...

Opublikowany przez Berlicki Lab Czwartek, 25 lutego 2021

Recent papers

Towards Foldameric Miniproteins: A Helix‐Turn‐Helix Motif
Ożga, K.; Drewniak-Świtalska, M.; Rudzińska-Szostak, E.; Berlicki, Ł.
ChemPlusChem 2021, 86, 646
DOI: 10.1002/cplu.202100090

Numerous beta‐amino acid containing peptides forming secondary structures have been already described, however the design of higher order structures remains poorly explored. The methodology allowing construction of sequence patterns containing few rigid secondary element was proposed and experimentally validated. On a basis of 9/10/9/12‐helix containing cis‐2‐aminocyclopentanecarboxylic acid (cis‐ACPC) residues arranged in aabb sequence pattern, a conformationally stable helix‐turn‐helix structure was designed. The connection between two helices was also constructed using cis‐ACPC residues. Five examples of designed peptides were obtained and analyzed using circular dichroism and nuclear magnetic resonance spectroscopies, which confirmed the assumed way of folding. The NMR structure was calculated for the peptide with the highest number of non‐sequential contacts.

Recent papers

Constrained beta-amino acid-containing miniproteins
Drewniak, M.; Barycza, B.; Rudzińska-Szostak, E.; Morawiak, P.; Berlicki, Ł.
Org. Biomol. Chem. 2021, accepted.
DOI: 10.1039/D1OB00309G

The construction of beta-amino acid-containing peptides that fold to tertiary structures in solution remains challenging. Two model miniproteins, namely, Trp-cage and FSD, were scanned using constrained beta-amino acid in order to evaluate its impact on the folding process. Relationships between forces stabilizing miniprotein structure and conformational stability of analogues were found. The possibility of significant increase of a conformational stability of studied miniproteins by substitution with beta-amino acid at terminus of a helix was shown. On the basis of these results, beta-amino acid containing-peptide analogs with helical fragments substantially altered by incorporation of several constrained beta-amino acids were designed, synthesized and evaluated with respect to their structure and stability. The smallest known -amino acid-containing peptide with well-defined tertiary structure is described.

Recent papers

Dipeptides of S-Substituted Dehydrocysteine as Artzyme Building Blocks: Synthesis, Complexing Abilities and Antiproliferative Properties
Lenartowicz, P.; Psurski, M.; Kotynia, A.; Pieniężna, A. Cuprych, M., Poniatowska, K., Brasuń, J., Kafarski,P.
Int. J. Mol. Sci. 2021, 22, 1
DOI: 10.3390/ijms22042168

Background: Dehydropeptides are analogs of peptides containing at least one conjugatedouble bond between alpha,beta-carbon atoms. Its presence provides unique structural properties and reaction centre for chemical modification. In this study, the series of new class of dipeptides containing S-substituted dehydrocysteine with variety of heterocyclic moieties was prepared. The compounds were designed as the building blocks for the construction of artificial metalloenzymes (artzymes). Therefore, the complexing properties of representative compounds were also evaluated. Furthermore, the acknowledged biological activity of natural dehydropeptides was the reason to extend the study for antiproliferative action of against several cancer cell lines. Methods: The synthetic strategy involves glycyl and phenylalanyl-(Z)-beta-bromodehydroalanine as a substrate in one pot addition/elimination reaction of thiols. After deprotection of N-terminal amino group the compounds with triazole ring were tested as complexones for copper(II) ions using potentiometric titration and spectroscopic techniques (UV-Vis, CD, EPR). Finally, the antiproliferative activity was evaluated by sulforhodamine B assay. Results and Conclusions: A simple and efficient procedure for preparation of dipeptides containing S-substituded dehydrocysteine was provided. The peptides containing triazole appeared to be strong complexones of copper(II) ions. Some of the peptides exhibited promising antiproliferative activities against number of cancer cell lines, including cell lines resistant to widely used anticancer agent.

Recent papers

Peptides as Active Ingredients: A Challenge for Cosmeceutical Industry.
Ledwon, P.; Errante, F.; Papini, A. M.; Rovero, P.; Latajka, R.
Chem. Biodiversity 2021, accepted.
DOI: 10.1002/cbdv.202000833

Cosmeceutical field, which merges cosmetics and pharmaceuticals, is nowadays a highly investigated research area, because a scientific demonstration of the claimed bioactivity of new cosmeceutical ingredients is increasingly requested. In fact, an aspect differentiating traditional cosmetics from cosmeceuticals is the identification and characterization of the active ingredients and demonstrating its efficacy in the claimed activity. An interesting group of bioactive cosmeceutical ingredients are peptides, which due to their particular properties, meets most of the requirements presented by the cosmeceutical industry when composing new formulas. In this context, beside bioactivity, two additional aspects have been recently considered, when dealing with peptides as cosmeceutical ingredients: bioavailability and stability. We describe herein novel methods applied in order to enhance peptides skin‐penetration and stability, reviewing both scientific articles and patents, issued in the cosmeceutical arena.

Recent papers

Monosubstituted Acetophenone Thiosemicarbazones as Potent Inhibitors of Tyrosinase: Synthesis, Inhibitory Studies, and Molecular Docking.
Hałdys, K.; Goldeman, W.; Anger-Góra, N.; Rossowska, J.; Latajka, R.
Pharmaceuticals 2021, 14, 74
DOI: 10.3390/ph14010074

A set of 12 monosubstituted acetophenone thiosemicarbazone derivatives (TSCs) were synthesized and their inhibitory properties toward tyrosinase activity were tested. Moreover, their ability to inhibit melanogenesis in the B16F10 murine melanoma cell line was studied. In order to investigate the nature of interactions between the enzyme and the inhibitors, molecular docking to the active site was performed. TSCs 5, 6, 8, and 9 revealed a half maximal inhibitory concentration (IC50) below 1 µM. Compound 6 turned out to be the most potent tyrosinase inhibitor. All investigated compounds showed reversible inhibition of competitive or mixed type. The para-substituted TSCs had higher affinity for the enzyme as compared to their ortho- and meta-analogues. All investigated compounds inhibited melanin production in B16F10 cells at the micromolar level. Molecular docking showed that the sulfur atom of the thiourea moiety penetrates the active site and interacts with copper ions. The above outcomes might be helpful in the design of new tyrosinase inhibitors in the food and cosmetic industries.

Recent papers

Hierarchical approach for the rational construction of helix-containing nanofibrils using α,β-peptides.
Szefczyk, M.; Szulc, N.; Gąsior-Głogowska, M.; Modrak-Wójcik, A.; Bzowska, A.; Majstrzyk, W.; Taube, M.; Kozak, M.; Gotszalk, T.; Rudzińska-Szostak, E.; Berlicki, Ł.
Nanoscale 2021, 13, 4000
DOI: 10.1039/D0NR04313C

The rational design of novel self-assembled nanomaterials based on peptides remains a great challenge in modern chemistry. A hierarchical approach for the construction of nanofibrils based on α,β-peptide foldamers is proposed. The incorporation of a helix-promoting trans-(1S,2S)-2-aminocyclopentanecarboxylic acid residue in the outer positions of the model coiled-coil peptide led to its increased conformational stability, which was established consistently by the results of CD, NMR and FT-IR spectroscopy. The designed oligomerization state in the solution of the studied peptides was confirmed using analytical ultracentrifugation. Moreover, the cyclopentane side chain allowed additional interactions between coiled-coil-like structures to direct the self-assembly process towards the formation of well-defined nanofibrils, as observed using AFM and TEM techniques.

Recent papers

Covalent Inhibition of Bacterial Urease by Bifunctional Catechol-Based Phosphonates and Phosphinates
Pagoni, A.; Grabowiecka, A.; Tabor, W.; Mucha, A.; Vassiliou, S.; Berlicki, Ł.
J. Med. Chem. 2021, 64, 404
DOI: 10.1021/acs.jmedchem.0c01143

In this study, a new class of bifunctional inhibitors of bacterial ureases, important molecular targets for antimicrobial therapies, was developed. The structures of the inhibitors consist of a combination of a phosphonate or (2-carboxyethyl)phosphinate functionality with a catechol-based fragment, which are designed for complexation of the catalytic nickel ions and covalent bonding with the thiol group of Cys322, respectively. Compounds with three types of frameworks, including β-3,4-dihydroxyphenyl-, α-3,4-dihydroxybenzyl-, and α-3,4-dihydroxybenzylidene-substituted derivatives, exhibited complex and varying structure-dependent kinetics of inhibition. Among irreversible binders, methyl β-(3,4-dihydroxyphenyl)-β-(2-carboxyethyl)phosphorylpropionate was observed to be a remarkably reactive inhibitor of Sporosarcina pasteurii urease (kinact/KI = 10 420 s-1 M-1). The high potential of this group of compounds was also confirmed in Proteus mirabilis whole-cell-based inhibition assays. Some compounds followed slow-binding and reversible kinetics, e.g., methyl β-(3,4-dihydroxyphenyl)-β-phosphonopropionate, with Ki* = 0.13 μM, and an atypical low dissociation rate (residence time τ = 205 min).

Recent papers

Novel, automated, semi-industrial modular photobioreactor system for cultivation of demanding microalgae that produce fine chemicals—The next story of H. pluvialis and astaxanthin
Borowiak, D.; Lenartowicz, P.; Grzebyk, M.; Wisniewski, M.; Lipok, J.; Kafarski, P.
Algal Res. 2021, 53, 1
DOI: 10.1016/j.algal.2020.102151

Recently, there has been increased interest in the use of microorganisms in the production of pharmaceuticals, nutraceuticals and energy supply products, which is due to their rapid growth rate and ability to biosynthesize fine chemicals or biotransform specific xenobiotics. To achieve the desired scale of production and optimization of microbial cultures, it is necessary to design bioreactors that enable process automation, control of working parameters, reduction of microbial and chemical contaminations, and culture independence of climate conditions. In response to this need, an original, modular airlift-type photobioreactor system was designed and manufactured. This novel semitechnical system, with a total volume of 1000 dm3, was operated via computer control, which enabled the creation of time profiles of red, blue and white LED illumination and of carbon dioxide and air dosing. The quality and usefulness of the developed system was demonstrated via the case study, namely two-stage cultivation of the microalgae Haematococcus pluvialis — a species commonly used in the production of natural astaxanthin. The experimentally developed procedure ensures a repeatable and efficient biomass multiplication process and the maintenance of a light- and chemical-mediated effective stress mechanismthat allows the production of up to 3.2% natural astaxanthin in terms of dry biomass.

Recent papers

Stereoselectivity Enhancement During the Generation of Three Contiguous Stereocenters in Tetrahydrothiophenes
Mała, Ż. A.; Janicki, M. J.; Niedźwiecka, N. H.; Góra, R. W.; Konieczny, K. A.; Kowalczyk, R.
ChemCatChem 2021, 13, 574
DOI: 10.1002/cctc.202001583

Application of carefully designed Cinchona alkaloid based squaramides resulted in the formation of three contiguous stereocenters in enantio‐ and diastereoselective Sulfa‐Michael/intramolecular aldol reactions cascade. Increase of the temperature to 333 K in reaction of mercaptoacetic aldehyde and various en‐ynones allowed the rise of the reaction rate while not affecting the enantioselectivity nor diastereoselectivity. Stereoselectivity was dependent on the structure of the hydrogen‐bonding unit, thus revealing the importance of weak interactions in the formation of the multifunctional tetrahydrothiophenes. Kohn‐Sham Density Functional Theory results suggest that a perfect fit of the electrophile and squaramide via tailored (+)N−H hydrogen bonding and π–π stacking interactions were the main factors of the chirality transfer.

Recent papers

Cinchona squaramide-catalyzed intermolecular desymmetrization of 1,3-diketones leading to chiral 1,4-dihydropyridines.
Dajek, M.; Pruszczyńska, A.; Konieczny, K. A.; Kowalczyk, R.
Adv. Synth. Catal. 2020, 362, 3613
DOI: 10.1002/adsc.202000455

Addition of prochiral cyclic 1,3‐diketones to Michael acceptors applying bifunctional Cinchona‐derived squaramides resulted in chiral adducts with stereoselectivities of up to 99% ee and allowed for desymmetrization of the nucleophile. These labile hemiacetal intermediates were transformed to new 1,4‐dihydropyridines with high diastereoselectivities and no erosion of optical purity. Their further oxidation to pyridine followed by Fisher indolization provided chiral pyridine‐indoles.