Ozonation of Decalin as a Model Saturated Cyclic Molecule: A Spectroscopic Study

Ozonolysis is used for oxidation of a model cyclic molecule-decalin, which may be considered as an analog of saturated cyclic molecules present in heavy oil. The conversion of decalin exceeds 50% with the highest yield of formation of acids about 15–17%. Carboxylic acids, ketones/aldehydes, and alcohols are produced as intermediate products. The methods of UV-visible, transmission IR, attenuated total reflection IR-spectroscopy, NMR and mass-spectrometry were used to identify reaction products and unravel a possible reaction mechanism. The key stage of the process is undoubtedly the activation of the first C-H bond and the formation of peroxide radicals.

Global Aromaticity at the Nanoscale

<div><p>Aromaticity is an important concept for predicting electronic delocalisation in molecules, particularly for designing organic semiconductors and single-molecule electronic devices. It is most simply defined by the ability of a cyclic molecule to sustain a ring current when placed in a magnetic field. Hückel’s rule states that if a ring has [4n+2] π-electrons, it will be aromatic with an induced magnetisation that opposes the external field inside the ring, whereas if it has 4n π-electrons, it will be antiaromatic with the opposite magnetisation. This rule reliably predicts the behaviour of small molecules, typically with circuits of less than about 22 π-electrons (n = 5). It is not clear whether aromaticity has a size limit and whether Hückel’s rule is valid in much larger macrocycles. Here, we present evidence for global aromaticity in a wide variety of porphyrin nanorings, with circuits of up to 162 π-electrons (n = 40; diameter 5 nm). We show that aromaticity can be controlled by changing the molecular structure, oxidation state and three-dimensional conformation. Whenever a global ring current is observed, its direction is correctly predicted by Hückel’s rule. The magnitude of the current is maximised when the average oxidation state of the porphyrin units is around 0.5–0.7, when the system starts to resemble a conductor with a partially filled valence band. Our results show that aromaticity can arise in large macrocycles, bridging the size gap between ring currents in molecular and mesoscopic rings.</p></div>

Global Aromaticity at the Nanoscale

<div><p>Aromaticity is an important concept for predicting electronic delocalisation in molecules, particularly for designing organic semiconductors and single-molecule electronic devices. It is most simply defined by the ability of a cyclic molecule to sustain a ring current when placed in a magnetic field. Hückel’s rule states that if a ring has [4n+2] π-electrons, it will be aromatic with an induced magnetisation that opposes the external field inside the ring, whereas if it has 4n π-electrons, it will be antiaromatic with the opposite magnetisation. This rule reliably predicts the behaviour of small molecules, typically with circuits of less than about 22 π-electrons (n = 5). It is not clear whether aromaticity has a size limit and whether Hückel’s rule is valid in much larger macrocycles. Here, we present evidence for global aromaticity in a wide variety of porphyrin nanorings, with circuits of up to 162 π-electrons (n = 40; diameter 5 nm). We show that aromaticity can be controlled by changing the molecular structure, oxidation state and three-dimensional conformation. Whenever a global ring current is observed, its direction is correctly predicted by Hückel’s rule. The magnitude of the current is maximised when the average oxidation state of the porphyrin units is around 0.5–0.7, when the system starts to resemble a conductor with a partially filled valence band. Our results show that aromaticity can arise in large macrocycles, bridging the size gap between ring currents in molecular and mesoscopic rings.</p></div>

Global Aromaticity at the Nanoscale

<div><p>Aromaticity is an important concept for predicting electronic delocalisation in molecules, particularly for designing organic semiconductors and single-molecule electronic devices. It is most simply defined by the ability of a cyclic molecule to sustain a ring current when placed in a magnetic field. Hückel’s rule states that if a ring has [4n+2] π-electrons, it will be aromatic with an induced magnetisation that opposes the external field inside the ring, whereas if it has 4n π-electrons, it will be antiaromatic with the opposite magnetisation. This rule reliably predicts the behaviour of small molecules, typically with circuits of less than about 22 π-electrons (n = 5). It is not clear whether aromaticity has a size limit and whether Hückel’s rule is valid in much larger macrocycles. Here, we present evidence for global aromaticity in a wide variety of porphyrin nanorings, with circuits of up to 162 π-electrons (n = 40; diameter 5 nm). We show that aromaticity can be controlled by changing the molecular structure, oxidation state and three-dimensional conformation. Whenever a global ring current is observed, its direction is correctly predicted by Hückel’s rule. The magnitude of the current is maximised when the average oxidation state of the porphyrin units is around 0.5–0.7, when the system starts to resemble a conductor with a partially filled valence band. Our results show that aromaticity can arise in large macrocycles, bridging the size gap between ring currents in molecular and mesoscopic rings.</p></div>

Tessellate & Montage: Molecular analytics of cyclic conformations

The conformations and shapes of macromolecular structures in biological and synthetic materials often define the macroscopic functions of the systems. Tessellate and Montage provide a standardized toolset for rapid reporting of large datasets allowing comparisons of cyclic molecule conformations (ring pucker) from structural databases and simulation trajectory data. This facilitates an understanding of the dynamic transition between common conformations and the flexible range in a ring that underlies molecular behaviour and recognition properties.

Cyclic molecule aerogels: a robust cyclodextrin monolith with hierarchically porous structures for removal of micropollutants from water

Mechanically strong cyclodextrin aerogel monoliths with intrinsic nano-cavities and synthetic micropores/mesopores were synthesized for purifying water containing various micropollutants.

Structural studies of NenD1, an argininosuccinate lyase involved in the biosynthesis of nenemycin

Nenemycin is a newly discovered 31-membered cyclodepsipeptide antibiotic isolated from an aquatic Streptomyces. This cyclic molecule contains ester and peptide bonds and is biosynthesized by the combined action of multiple enzymes. Among those is NenD1, an argininosuccinate lyase involved in the synthesis of 2S,3R--2,3-diaminobutanoic acid (DABA), a modified amino acid later added to the cycle of the nenemycin biosynthesis. The structure of NenD1 has been determined at 2.7 Å, showing the homotetrameric arrangement of the enzyme. A new crystal form was obtained after reductive methylation of lysine residues and the resulted 2.9 Å structure reveals features not present in the original. The active site is located at the interface of three subunits and its architecture was compared with other similar enzymes. Our study provides further insights into the synthesis mechanism of the unusual amino acid.