Set Of Stereoisomers Research Articles

Isoskeletomerism as an intermediate concept for mediating between stereoisomerism and isomerism. A remedy for conceptual defects of organic chemistry

After isoskeletomerism is introduced as an intermediate concept for mediating between stereoisomerism and isomerism, so-called ‘constitutional isomerism’ is critically discussed as one of the roots of confusion in organic chemistry. The convention that isomerism is subdivided into stereoisomerism and ‘constitutional isomerism’ is concluded to be misleading, because these concepts are conceptually distinct from a viewpoint of the concepts of equivalence relationships and equivalence classes. The indifference toward these concepts is one of the conceptual defects of organic chemistry. A new flowchart for judging enantiomerism, RS-stereoisomerism, stereoisomerism, isoskeletomerism, and isomerism is discussed to generate an isomer-classification diagram, where RS-stereoisomerism and isoskeletomerism are contained as new matters for remedying the conceptual defects. Skeletons are derived from basic skeletons by three operations (the bond operation, the replacement operation, and the substitutive operation), and they are used to examine the action of isoskeletomeric relationships. Equivalent molecular entities under an isoskeletomeric relationship are collected to give a set of isoskeletomers, which is concluded to be an equivalence class. The confusion caused by so-called ‘constitutional isomerism’ and its subcategories (‘skeletal isomerism’, ‘positional isomerism’, and so on) is critically discussed from the viewpoint of isoskeletomerism as a missing link. The double-entendre of the term constitution is examined when applied to both a 3D entity (a set of stereoisomers) and a 2D entity (a graph). Taxonomy of organic compounds and rational formulas, nomenclature of organic compounds, and combinatorial enumeration of chemical compounds are discussed from the viewpoint of isoskeletomerism.

Combinatorial approach to group hierarchy for stereoskeletons of ligancy 4

Fujita’s proligand method developed originally for combinatorial enumeration under point groups (Fujita in Theor Chem Acc 113:73–79, 2005) is extended to meet the group hierarchy, which stems from the stereoisogram approach for integrating geometric aspects and stereoisomerism in stereochemistry (Fujita in J Org Chem 69:3158–3165, 2004). Thereby, it becomes applicable to enumeration under respective levels of the group hierarchy. Combinatorial enumerations are conducted to count inequivalent pairs of (self-)enantiomers under a point group, inequivalent quadruplets of RS-stereoisomers under an RS-stereoisomeric group, inequivalent sets of stereoisomers under a stereoisomeric group, and inequivalent sets of isoskeletomers under an isoskeletal group. In these enumerations, stereoskeletons of ligancy 4 are used as examples, i.e., a tetrahedral skeleton, an allene skeleton, an ethylene skeleton, an oxirane skeleton, a square planar skeleton, and a square pyramidal skeleton. Two kinds of compositions are used for the purpose of representing molecular formulas in an abstract fashion, that is to say, the compositions for differentiating proligands having opposite chirality senses and the compositions for equalizing proligands having opposite chirality senses. Thereby, the classifications of isomers are accomplished in a systematic fashion.

Total synthesis of palmyrolide A and its 5,7-epi isomers

Stereoselective total synthesis of palmyrolide A, a 15-membered neuroactive macrolide, was described by adopting a synthetic strategy developed for the proposed structures, and its 5,7-epi isomers. The strategy was designed in such a way that the set of stereoisomers, which were needed for establishing the absolute configuration of palmyrolide A, could be obtained from one time operation. The diastereoselective hydrogenation of exo-methylene-γ-butyrolactone to α-methyl-γ-butyrolactone, Yamaguchi esterfication, and intramolecular dehydrative cyclization to form trans-enamide were the key steps involved in the synthesis.

Effects of double and triple bonds on the spatial representations of odorants in the rat olfactory bulb

Many naturally occurring volatile chemicals that are detected through the sense of smell contain unsaturated (double or triple) carbon-carbon bonds. These bonds can affect odors perceived by humans, yet in a prior study of unsaturated hydrocarbons we found only very minor effects of unsaturated bonds. In the present study, we tested the possibility that unsaturated bonds affect the recognition of oxygen-containing functional groups, because humans perceive odor differences between such molecules. We therefore compared spatial activity patterns across the entire glomerular layer of the rat olfactory bulb evoked by oxygen-containing odorants differing systematically in the presence, position, number, and stereochemistry of unsaturated bonds. We quantified activity patterns by mapping [(14)C]2-deoxyglucose uptake into anatomically standardized data matrices, which we compared statistically. We found that the presence and number of unsaturated bonds consistently affected activity patterns, with the largest effect related to the presence of a triple bond. Effects of bond saturation included a loss of activity in glomeruli strongly activated by the corresponding saturated odorants and/or the presence of activity in areas not stimulated by the corresponding saturated compounds. The position of double bonds also affected patterns of activity, but cis vs. trans configuration had no measurable impact in all five sets of stereoisomers that we studied. These results simultaneously indicate the importance of interactions between carbon-carbon bond types and functional groups in the neural coding of odorant chemical information and highlight the emerging concept that the rat olfactory system is more sensitive to certain types of chemical differences than others.

Structural identification of prostaglandin A 1 biotransformation products from tumor cells

Ret B104 neuroblastoma and C6 glioma cells are able to metabolize prostaglandin A 1 (PGA 1). Four metabolites were isolated by high performance liquid chromatography. Their structure was elucidated by fast atom bombardment mass spectrometry and 1H nuclear magnetic resonance. It appears that these biotransformation products are two sets of stereoisomers : the two isomers that eluted first are 9α- and 9β-hydroxy-11α-cysteinylglycyl adducts whereas the other two are 9α-and 9β-hydroxy-11α-cysteinyl derivatives. These compounds were compared with authentic samples prepared by Michael addition of the corresponding thiol onto PGA 1, then by reduction with sodium borohydride.