Stereoelectronic interactions are too weak to explain the molecular conformation in solid state of -2--butyl-5-(-butylsulfonyl)-1,3-dioxane.

-2--Butyl-5-(-butylsulfonyl)-1,3-dioxane (-1) exhibits a high degree of eclipsing in the H-C5-S-C segment in the solid state, the origin of which remains unexplained. The eclipsed conformation that corresponds to an energetic minimum in the solid state practically corresponds to a rotational transition state in solution, which allows an approach to understand transitions states. The difference in the enthalpy of sublimation Δ between -1 and the more stable -1 is 8.

Revealing the Role of Noncovalent Interactions on the Conformation of the Methyl Group in Tricyclic Orthoamide.

Tricyclic orthoamides are valuable molecules with wide-ranging applications, including organic synthesis and molecular recognition. Their structural properties make them intriguing, particularly the eclipsed all- conformer, which is typically less stable than the alternated conformation and is a rare phenomenon in organic chemistry. However, it gains stability in crystalline and hydrated settings, challenging the existing theoretical explanations.

Modifications in the piperazine ring of nucleozin affect anti-influenza activity.

The infection caused by the influenza virus is a latent tret. The limited access to vaccines and approved drugs highlights the need for additional antiviral agents. Nucleozin and its analogs have gain attention for their promising anti-influenza activity.

Experimental and theoretical study of the role of CH/π interactions in the aminolysis reaction of acetyl galactoside.

Molecular recognition of saccharides is a growing field, which has many implications in cancer therapy, drug discovery, and cellular communication among others. The participation of CH/π interactions in this event is well known. Nevertheless, the intrinsic role of CH/π for modulating chemical reactions is still far from being applicable.

Are boat transition states likely to occur in Cope rearrangements? A DFT study of the biogenesis of germacranes.

It has been proposed that elemanes are biogenetically formed from germacranes by Cope sigmatropic rearrangements. Normally, this reaction proceeds through a transition state with a chair conformation. However, the transformation of schkuhriolide (germacrane) into elemanschkuhriolide (elemane) may occur through a boat transition state due to the final configuration of the elemanschkuhriolide, but this transition state is questionable due to its high energy.

Stereochemistry of a Second Riolozane and Other Diterpenoids from Jatropha dioica.

The dichloromethane extract of the roots of Jatropha dioica afforded riolozatrione (1) and a C-6 epimer of riolozatrione, 6-epi-riolozatrione (2), as a new structure and only the second reported riolozane diterpenoid. The two known diterpenoids jatrophatrione (3) and citlalitrione (4) were also isolated and characterized. Both epimers 1 and 2 are genuine plant constituents, with 2 likely being the biosynthesis precursor of 1 due to the tendency for the quantitative transformation of 2 into 1 under base catalysis.

Biogenesis of Triterpene Dimers from Orthoquinones Related to Quinonemethides: Theoretical Study on the Reaction Mechanism.

The biogenetic origin of triterpene dimers from the Celastraceae family has been proposed as assisted hetero-Diels-Alder reaction (HDA). In this work, computational calculation of HDA between natural quinonemethides (tingenone and isopristimerol) and hypothetical orthoquinones has been performed at the M06-2X/6-31G(d) level of theory. We have located all the HDA transition states supporting the biogenetic route via HDA cycloadditions.

The influence of sulfur configuration in H NMR chemical shifts of diasteromeric five-membered cyclic sulfites.

The effect of the stereochemistry of the sulfur atom on H chemical shifts of the diasteromeric pair of cyclic sulfites of 4-[methoxy(4-nitrophenyl)methyl]-5-phenyl-1,3,2-dioxathiolan-2-oxide was investigated. The complete H and C NMR spectral assignment was achieved by the use of one-dimensional and two-dimensional NMR techniques in combination with X-ray data. A correlation of experimental data with theoretical calculations of chemical shift tensors using density functional theory and topological theory of atoms in molecules was made.

A theoretical biogenesis overview of diterpenes isolated from Salvia microphylla.

Establishing the reaction mechanisms involved in the biosynthesis of natural products plays an important role in phytochemistry and pharmacology. Mechanistic studies of the biogenesis of natural products have been mainly explored by means of theoretical calculations, and taking into account experimental structures of reagents and products. Using a hybrid meta density functional theory method (mPW1B95), we studied the mechanisms associated with the biogenesis of five neo-clerodanes isolated from Salvia mycrophylla.

ent-Kaurene Glycosides from Ageratina cylindrica.

The aqueous extract of the leaves of Ageratina cylindrica afforded six new ent-kaurenoic acid glycosides together with the known diterpenoid paniculoside V, the flavonoid astragalin, chlorogenic acid, and L-chiro-inositol. The structures were elucidated mainly by NMR and MS methods, and the absolute configuration was established by vibrational circular dichroism spectroscopy. The new compounds showed moderate antiprotozoal activity against Entamoeba histolytica and Giardia lamblia trophozoites.

The rotational barrier of ethane and some of its hexasubstituted derivatives in terms of the forces acting on the electron distribution.

A novel and alternative explanation of the rotational barrier of ethane and several hexasubstituted derivatives, CX3CX3 (X = H, F, CH3, Cl, Br), is suggested based on the evaluation of the properties of the electron distribution. The forces exerted on the electron density of the topological atoms making up a molecule, the Ehrenfest forces, are analyzed and, with the help of the virial theorem, they are used to explain the experimental rotational barriers. According to this approach, the barrier is mainly a consequence of the decrease of the always attractive Ehrenfest forces (EFs) linking the two C atoms.

The role of induced current density in Steroelectronic effects: Perlin effect.

The normal and reverse Perlin effect is usually explained by the redistribution of electron density produced by hyperconjugative mechanisms, which increases the electron population within axial or equatorial proton in normal or reverse effect, respectively. Here an alternative explanation for the Perlin effect is presented on the basis of the topology of the induced current density, which directly determines the nuclear magnetic shielding. Current densities around the C-H bond critical point and intra-atomic and interatomic contributions to the magnetic shielding explain the observed Perlin effect.

Vibrational circular dichroism (VCD), VCD exciton coupling, and X-ray determination of the absolute configuration of an α,β-unsaturated germacranolide.

The absolute configuration of was deduced by vibrational circular dichroism together with the evaluation of the Flack and Hooft X-ray parameters. Vibrational circular dichroism exciton coupling, using the carbonyl group signals, confirmed the absolute configuration of . In addition, sodium borohydride reduction of the 11,13-double bond of 6-epi-desacetyllaurenobiolide () yields an almost equimolecular mixture of C11 epimers, while reduction of the same double bond of 6-epi-laurenobiolide () provided almost exclusively the (11S) diastereoisomer .

Assessment of hydrophobic interactions and their contributions through the analysis of the methane dimer.

Hydrophobic Interactions (HIs) are important in many phenomena of molecular recognition in chemistry and biology. Still, the relevance of HIs is sometimes difficult to evaluate particularly in large systems and intramolecular interactions. We put forward a method to estimate the magnitude and the different contributions of a given HI of the C···C, H-C···H, and H···H type through (i) the analysis of the electron density in the intermolecular region for eleven relative orientations of the methane dimer and (ii) the subsequent decomposition of the corresponding interaction energy in physically significant contributions using Symmetry Adapted Perturbation Theory (SAPT).

Properties of atoms in electronically excited molecules within the formalism of TDDFT.

The topological analysis of the electron density for electronic excited states under the formalism of the quantum theory of atoms in molecules using time-dependent density functional theory (TDDFT) is presented. Relaxed electron densities for electronic excited states are computed by solving a Z-vector equation which is obtained by means of the Sternheimer interchange method. This is in contrast to previous work in which the electron density for excited states is obtained using DFT instead of TDDFT, that is, through the imposition of molecular occupancies in accordance with the electron configuration of the excited state under consideration.

Dynamic molecular graphs: "hopping" structures.

This work aims to contribute to the discussion about the suitability of bond paths and bond-critical points as indicators of chemical bonding defined within the theoretical framework of the quantum theory of atoms in molecules. For this purpose, we consider the temporal evolution of the molecular structure of [Fe{C(CH2 )3 }(CO)3 ] throughout Born-Oppenheimer molecular dynamics (BOMD), which illustrates the changing behaviour of the molecular graph (MG) of an electronic system. Several MGs with significant lifespans are observed across the BOMD simulations.

Structure, absolute configuration, and antidiarrheal activity of a thymol derivative from Ageratina cylindrica.

The leaves of Ageratina cylindrica afforded a thymol derivative that was characterized by physical and spectroscopical methods as (8S)-8,9-epoxy-6-hydroxy-l0-benzoyloxy-7-oxothymol isobutyrate (1). The absolute configuration of 1 was established as 8S by vibrational circular dichroism spectroscopy in combination with density functional theory calculations and by evaluation of the Flack and Hooft X-ray parameters. Compound 1 showed weak antiprotozoal activity against Entamoeba histolytica and Giardia lamblia trophozoites and a high inhibitory effect on hyperpropulsive movement of the small intestine in rats.

NMR-based conformational analysis of perezone and analogues.

Complete assignment of the (1)H NMR chemical shift and coupling constant values of perezone (1), O-methylperezone (2) and 6-hydroxyperezone (3) was carried out by total-line-shape-fitting calculations using the PERCH iterative spectra analysis software (PERCH Solutions Ltd., Kuopio, Finland). The resulting simulated spectra for the three compounds showed strong similarity to their corresponding experimental spectra.

The rotational barrier in ethane: a molecular orbital study.

The energy change on each Occupied Molecular Orbital as a function of rotation about the C-C bond in ethane was studied using the B3LYP, mPWB95 functional and MP2 methods with different basis sets. Also, the effect of the ZPE on rotational barrier was analyzed. We have found that σ and π energies contribution stabilize a staggered conformation.

Role of carbocation's flexibility in sesquiterpene biosynthesis: computational study of the formation mechanism of terrecyclene.

Two mechanisms have been proposed in the literature to explain the formation of the skeleton of terrecyclic acid from farnesyl diphosphate. Both mechanisms satisfy the experimental data obtained using isotopic labeling, but computational results at the mPW1B95/6-31+G(d,p) level of theory allow the differentiation between them. While one of the mechanisms is basically a carbocation cascade, the other one requires several steps that imply high energetic demands.

A C-Glycosylflavone from Piper ossanum, a Compound Conformationally Controlled by CH/π and Other Weak Intramolecular Interactions.

The structure of the known 2''-O-α-rhamnosyl-4''-O-methylvitexin (apigenin-8-C-α-rhamnosyl-(1→2)-β-4-O-methylglucopyranoside), isolated from the leaves of Piper ossanum, was revised to acacetin-8-C-neohesperidoside (acacetin-8-C-α-rhamnosyl-(1→2)-β-glucopyranoside or 2''-O-α-rhamnosyl-4'-O-methylvitexin) (1). The NMR data and theoretical calculations established the preferred conformation of 1, which is controlled by CH/π interactions. This phenomenon explains the unusual chemical shifts of some protons in the molecule, besides other weak intramolecular interactions such as the anomeric effect, the Δ2 effect, and several hydrogen bonds.

Application of the additivity of group energies to understand conformational preference: the anomeric effect.

The conformational preference in normal and reverse anomeric effects is analyzed by taking advantage of the known additivity and transferability of functional group energies defined by the gradient of the electron density. As the anomeric effect has an energetic origin and every change in the electron density produces an energetic change, an explanation of this phenomenon should be based on the density changes taking place in a conformational equilibrium. The total energy of substituted cyclohexanoids is partitioned into ring and substituent contributions and the preferred conformation is the result of a balance between them.