Jolanta Polkowska

Combining Independent Drug Classes into Superior, Synergistically Acting Hybrid Molecules

Increasing the potency of synthesized drugs has been a stepwise process accomplished by progressively modifying the chemical scaffold of a single parent lead compound. To date, there has been no basis for thinking that the combination of pharmacological effects of independently acting drugs could be achieved beyond mere simultaneous administration. We reasoned that if the target molecule of two independent classes of drugs was the same, chemical synthesis of a hybrid compound where these drugs presented moieties within one molecule might yield synergistic effects; that is, a new quality might emerge that would be more than the sum of the singlemoiety compounds. Such multifunctional hybrid compounds that assign different functions to its different moieties to achieve a synergistic pharmacodynamic effect have successful predecessors in nature: for example, bleomycin is a natural compound with three different moieties acting in concert to cleave DNA.

Host-guest interactions between molecular clips and multistate systems based on flavylium salts.

Flavylium salts contain the basic structure and show a pH-dependent sequence of reactions identical to natural anthocyanins, which are responsible for most of the red and blue colors of flowers and fruits. In this work we investigated the effect of the water-soluble molecular clips C1 and C2 substituted by hydrogen phosphate or sulfate groups on the stability and reactions of the flavylium salts 1-4 by the use of UV-vis absorption, fluorescence, and NMR spectroscopy as well as of the time-resolved pH jump and flash photolysis methods. Clip C1 forms highly stable host-guest complexes with the flavylium salts 1 and 2 and the quinoidal base 3A in methanol. The binding constants were determined by fluorometric titration to be log K = 4.1, 4.7, and 5.6, respectively. Large complexation-induced (1)H NMR shifts of guest signals, Delta delta(max), indicate that in the case of the flavylium salts 1 and 2 the pyrylium ring and in the case of the quinoidal base 3A the o-hydroxyquinone ring are preferentially bound inside the clip cavity. Due to the poor solubility of these host-guest complexes in water, the association constants could be only determined in highly diluted aqueous solution by UV-vis titration experiments for the complex formation of clip C1 with the flavylium salt 3AH(+) at pH = 2 and the quinoidal base 3A at pH = 5.3 to be log K = 4.9 for both complexes. Similar results were obtained for the formation of the complexes of the sulfate-substituted clip C2 with flavylium salt 4AH(+) and its quinoidal base 4A which are slightly better soluble in water (log K = 4.3 and 4.0, respectively). According to the kinetic analysis (performed by using the methods mentioned above) the thermally induced trans-cis chalcone isomerization (4Ct --> 4Cc) and the H(2)O addition to flavylium cation 4AH(+) followed by H(+) elimination leading to hemiketal 4B are both retarded in the presence of clip C2, whereas the photochemically induced trans-cis isomerization (4Ct --> 4Cc) is not affected by clip C2. The results presented here are explained with dominating hydrophobic interactions between the molecular clips and the flavylium guest molecules. The other potential interactions (ion-ion, cation-pi, pi-pi, and CH-pi), which certainly determine the structures of these host-guest complexes to a large extent, seem to be of minor importance for their stability.

A Mechanism of Efficient G6PD Inhibition by a Molecular Clip

Triple duty: A synthetic molecular clip traps nicotinamide adenine dinucleotide phosphate (NADP(+); see picture) as well as occupying both the cofactor- and the substrate-binding site in glucose-6-phosphate (G6P) dehydrogenase. This combination of two inhibition mechanisms makes the clip highly effective and selective for this enzyme over other dehydrogenases.

Isolated β-Turn Model Systems Investigated by Combined IR/UV Spectroscopy

The functionality of bioactive molecules sensitively depends on their structure. For the investigation of intrinsic structural properties, molecular beam experiments combined with laser spectroscopy have proven to be a suitable tool. Herein we present an analysis of the two isolated tripeptide model systems Ac-Phe-Tyr(Me)-NHMe and Boc-Phe-Tyr(Me)-NHMe. For this purpose, mass-selective combined IR/UV spectroscopy is applied to both substances in a molecular beam experiment. The comparison of the experimental data with DFT calculations, including different functionals as well as dispersion corrections, allows an assignment of both tripeptide models to β-turns formed independently from the protection groups and supported by the interaction of the two aromatic chromophores.

Effect of molecular clips and tweezers on enzymatic reactions by binding coenzymes and basic amino acids

The tetramethylene-bridged molecular tweezers bearing lithium methanephosphonate or dilithium phosphate substituents in the central benzene or naphthalene spacer-unit and the dimethylene-bridged clips containing naphthalene or anthracene sidewalls substituted by lithium methanephosphonate, dilithium phosphate, or sodium sulfate groups in the central benzene spacer-unit are water-soluble. The molecular clips having planar naphthalene sidewalls bind flat aromatic guest molecules preferentially, for example, the nicotinamide ring and/or the adenine-unit in the nucleotides NAD(P)+, NMN, or AMP, whereas the benzene-spaced molecular tweezers with their bent sidewalls form stable host–guest complexes with the aliphatic side chains of basic amino acids such as lysine and argenine. The phosphonate-substituted tweezer and the clips having an extended central naphthalene spacer-unit or extended anthracene and benzo[k]fluoranthene sidewalls, respectively, form highly stable self-assembled dimers in aqueous solution, evidently due to non-classical hydrophobic interactions. The phosphate-substituted molecular clip containing naphthalene sidewalls inhibits the enzymatic, ADH-catalyzed ethanol oxidation by binding the cofactor NAD+ in a competitive reaction. Surprisingly, tweezer-bearing phosphate substituents in the central benzene spacer-unit are more efficient inhibitors for the ethanol oxidation than the correspondingly substituted naphthalene clip, even though the tweezer does not bind the cofactor NAD+ within the limits of detection. The phosphate-substituted naphthalene clip is, however, a highly efficient inhibitor of the enzymatic oxidation of glucose-6-phosphate (G6P) with NADP+ catalyzed by glucose-6-phosphate dehydrogenase (G6PD), whereas the phosphonate-substituted clip only functions as an inhibitor by forming a complex with the cofactor. Detailed kinetic, thermodynamic, and computational modeling studies provide insight into the mechanism of these novel enzyme inhibition reactions.

Unraveling the function of paralogs of the aldehyde dehydrogenase super family from Sulfolobus solfataricus.

Aldehyde dehydrogenases (ALDHs) have been well established in all three domains of life and were shown to play essential roles, e.g., in intermediary metabolism and detoxification. In the genome of Sulfolobus solfataricus, five paralogs of the aldehyde dehydrogenases superfamily were identified, however, so far only the non-phosphorylating glyceraldehyde-3-phosphate dehydrogenase (GAPN) and α-ketoglutaric semialdehyde dehydrogenase (α-KGSADH) have been characterized. Detailed biochemical analyses of the remaining three ALDHs revealed the presence of two succinic semialdehyde dehydrogenase (SSADH) isoenzymes catalyzing the NAD(P)+-dependent oxidation of succinic semialdehyde. Whereas SSO1629 (SSADH-I) is specific for NAD+, SSO1842 (SSADH-II) exhibits dual cosubstrate specificity (NAD(P)+). Physiological significant activity for both SSO-SSADHs was only detected with succinic semialdehyde and α-ketoglutarate semialdehyde. Bioinformatic reconstructions suggest a major function of both enzymes in γ-aminobutyrate, polyamine as well as nitrogen metabolism and they might additionally also function in pentose metabolism. Phylogenetic studies indicated a close relationship of SSO-SSALDHs to GAPNs and also a convergent evolution with the SSADHs from E. coli. Furthermore, for SSO1218, methylmalonate semialdehyde dehydrogenase (MSDH) activity was demonstrated. The enzyme catalyzes the NAD+- and CoA-dependent oxidation of methylmalonate semialdehyde, malonate semialdehyde as well as propionaldehyde (PA). For MSDH, a major function in the degradation of branched chain amino acids is proposed which is supported by the high sequence homology with characterized MSDHs from bacteria. This is the first report of MSDH as well as SSADH isoenzymes in Archaea.

Cover Picture: Effect of Substituents on the Complexation of Aromatic and Quinoid Substrates with Molecular Tweezers and Clips (Eur. J. Org. Chem. 7/2004)

The cover picture shows the structures of the empty dimethoxy-substituted clip and the host−guest complex between the hydroquinone clip and 1,2,4,5-tetracyanobenzene (TCNB) calculated by force field. The calculations are in good agreement with single-crystal structure analyses. The compression of the naphthalene sidewalls of the clip by 2.2 A? during the complexation, which is necessary to obtain binding arene−arene interactions in the complex, is calculated to be a low-energy process. The complementary nature of the electrostatic potential surface (EPS) of the tetramethylene-bridged naphthalene tweezer and TCNB (calculated by AM1) explains the high selectivity of this class of receptors toward electron-deficient substrates. Details are discussed in the article by F.-G. Klarner et al. on p. 1405 ff. Cover art by Bjorn Kahlert.