Conformational analysis of 2-methyl-5-nitro-1,3,2-dioxaborinane

Quantum-chemical methods HF/6-31G(d), HF/6-31+G(d), MP2/6-31G(d)//HF/6-31G(d), and MP2/6-31+G(d)//HF/6-31+G(d) were used to investigate the conformational isomerization of 2-methyl-5-nitro-1,3,2-dioxaborinane. It has been shown that a potential energy surface of this compound includes two minima: an axial form of semi-chair and equatorial sofa together with a transition state belonging to the conformation of 2,5-twist-form. A comparison between experimental NMR ¹H and theoretical vicinal coupling constants was used to determine the quantitative conformational composition of cyclic boric acid ester and a value of ΔG ⁰ for nitro group at the ring carbon atom C⁵ in CCl₄ and C₆D₅NO₂ solutions.     

Conformational studies of poly(N5-Ω-hydroxyalkyl-L-glutamine)s in reversed micelles

The molecular conformations of poly(N⁵-dihydroxyethylaminopropyl-L-glutamine) and poly(N⁵-dihydroxyethyl-L-glutamine) were investigated in reversed micelles of AOT as well as in aqueous solutions. Both poly(-amino acid)s assume disordered structures in pure water. The conformation of poly(N⁵-dihydroxyethylaminopropyl-L-glutamine) transits into-helix in the reversed micelles as the molar ratio of water to AOT (w₀=[H₂O]/[AOT]) becomes smaller. A similar conformational transition was also observed in aqueous solutions when a certain amount of AOT was added. Under these conditions, however, poly(N⁵-dihydroxyethyl-L-glutamine) did not undergo a conformational transition into-helix.     

Conformational analysis of 5-substituted 1,3-dioxanes

Quantum-chemical study on the potential energy surface of 5-alkyl- and 5-phenyl-1,3-dioxanes at the RHF/6-31G(d) level of theory revealed two pathways for conformational isomerizations of the equatorial and axial chair conformers. Potential barriers to this process were estimated. The Gibbs conformational energies ΔG° of substituents at C⁵ in the 1,3-dioxane ring were determined on the basis of experimental (¹H NMR) and theoretical vicinal coupling constants, which turned out to be consistent with published data.     

Conformational studies of poly(cis-5-ethyl-D-proline)

Two possible conformations for poly(cis-5-ethyl-D -proline) have been identified and characterized by using combinations of ¹H- and ¹³C-NMR, CD, and ORD spectroscopic techniques. Both forms have helical conformations similar to those of poly(L -proline) characterized by different amide bonds (cis and trans). However, the carbonyl group of the amide in poly(cis-5-ethyl-D -proline) form II (trans) seems to be closer to perpendicular orientation with respect to the helical axis than in poly(L -proline) form II. The pyrrolidine ring conformation of form I (cis) is probably β⁺γ^?-puckered, whereas for form II it is probably β⁺-puckered in nature. The side-chain ethyl groups prefer to adopt anti conformations to the C₅? H bond, or prefer to have χ = 180°, regardless which of the two forms poly(cis-5-ethyl-D -proline) may like to assume. The experimental results agree well with our previous theoretical conformational energy calculations.     

Synthesis and Conformations of Adamantylated Calix[5]- and -[6]arenes

Procedures have been developed for the preparation of completely and partially adamantylated calix[n]arenes (n = 5, 6) by reaction of 3-R-substituted 1-hydroxyadamantanes (R = H, 4-MeC₆H₄, 4-MeSO₂C₆H₄, 4-HO-3-HOCOC₆H₃, HOCOCH₂) with p-H-calix[n]arenes (n = 5, 6) and 5,11,23,29-tetra-tert-butylcalix[6]arene in trifluoroacetic acid. Lower- and upper-rim modification of the prepared compounds has been studied. According to the ¹H NMR data, adamantylcalix[6]arenes possessing carboxymethyl groups in the adamantane moieties are characterized by reduced conformational mobility.     

1H n.m.r. spectra of some bicyclic compounds: I—relative configurations of the diastereomeric endo-α-methyl-5-norbornene-2-methanols,the corresponding saturated analogues,and their cyclization ether products

The configurational and conformational relationship at C-2 and C-α in the two racemic diastereomeric endo-α-methyl-5-norbornene-2-methanols and the corresponding saturated endo-α-methyl-2-norbornanemethanols were determined by first-order analysis of the ¹H n.m.r. spectra of these compounds and of their cyclization ether products, i.e. 3-methyl-2-oxatricyclo[4.2.1.0^4,8]nonanes and 5-methyl-4-oxatricyclo[4.3.0.0^3,8]nonanes. In addition, the conformational preference of the hydroxyl group in the unsaturated and saturated alcohols was confirmed by the lanthanide induced shift technique, using Eu(fod)₃ as shift reagent, combined with a computer program involving various conformations of the –CHOHMe group.     

How Frustrated Lewis Acid/Base Systems Pass through Transition‐State Regions: H2 Cleavage by [tBu3P/B(C6F5)3]

We investigate the transition‐state (TS) region of the potential energy surface (PES) of the reaction tBu₃P+H₂+B(C₆F₅)₃→tBu₃P‐H⁽⁺⁾+^(?)H?B(C₆F₅)₃ and the dynamics of the TS passage at room temperature. Owing to the conformational inertia of the phosphane???borane pocket involving heavy tBu₃P and B(C₆F₅)₃ species and features of the PES E(P???H, B???H | B???P) as a function of P???H, B???H, and B???P distances, a typical reactive scenario for this reaction is a trajectory that is trapped in the TS region for a period of time (about 350 fs on average across all calculated trajectories) in a quasi‐bound state (scattering resonance). The relationship between the timescale of the TS passage and the effective conformational inertia of the phosphane???borane pocket leads to a prediction that isotopically heavier Lewis base/Lewis acid pairs and normal counterparts could give measurably different reaction rates. Herein, the predicted quasi‐bound state could be verified in molecular collision experiments involving femtosecond spectroscopy.     

Two conformers of 10,11‐dihydro‐5H‐dibenzo[a,d]cyclo­heptene spiro‐linked with homobenzoquinone epoxide

The crystal structures of the two thermally equilibrated conformational isomers of the epoxide 1′,5′‐dimethyl­spiro[10,11‐dihydro‐5H‐dibenzo[a,d]cyclo­heptene‐5,8′‐4′‐oxatricyclo[5.1.0.0^3,5]octane]‐2′,6′‐dione, C₂₃H₂₀O₃, have been determined by X‐ray diffraction. In the tricyclic dione skeleton, the oxirane and cyclo­propane rings adopt an anti structure with respect to the conjunct quinone frame. The spiro‐linked 10,11‐dihydro‐5H‐dibenzo[a,d]cyclo­heptene ring of the major isomer has a fairly twisted boat form, folding opposite to the adjoining cyclo­propane methyl substituent, whereas the seven‐membered ring of the minor isomer has an almost ideal twist–boat form, inversely folding to the side of the relevant methyl group. The conformational structures of these isomers have been compared with those of the corresponding isomers of the unepoxidized homobenzoquinone.     

Effect of solvent on the methanol JHCOH value

³J_HCOH, which depends on solvent dielectric constant (ε), has been calculated by the INDO MO finite perturbation method incorporated with “Solvaton Theory”. The calculation results agree with the experimental finding that ³J_HCOH decreases with increase of ε.The respective contributions of conformational change and dielectric constant variation to the effect of solvent on experimental values of ³J_HCOH are discussed separately because ³J_HCOH, the vicinal coupling constant, is known to be sensitive to conformational change. It is concluded that ε contributes more to the change of the experimental value of ³J_HCOH by solvents.     

Interactions intramoléculaires. XXVI—Constantes de couplage et hétérogénéités conformationnelles dans une série de R-3 et R-5 cyano-4 cyclohexènes deutériés (R=méthyl ou t-butyl)

For trans-3-R- and 5-R-1-acetoxy-4-cyanocyclohexene-6,6-d₂ the molar fractions of diequatorial conformers are 0.83 (3-methyl), 0.68 (5-methyl), 0.57 (3-tert-butyl) and 0.55–0.69 (5-tert-butyl). For the last two compounds the values of the coupling constants are in agreement with the hypothesis of an ee?aa equilibrium. For the cis isomers, the molar fractions of equatorial alkyl conformers are 0.76 (3-methyl and 5-methyl) and 1.0 (3-tert-butyl and 5-tert-butyl). The cis-1-acetoxy-3-tert-butyl-4-methoxycarbonyl-cyclohexene presents a conformational heterogeneity. The conformational free energy of the methyl group in position 4 has been evaluated as ?0.6 kcal mol^?1 (2.5 kJ mol^?1).     

Cyclooct-1-en-5-yne. Preparation,spectroscopic characteristics and chemical reactivity

Cyclooct-1-en-5-yne (3) has been obtained as an isolable, but highly reactive hydrocarbon by oxidation of cyclooct-5-ene-1, 2-dihydrazone with lead tetraacetate (Scheme 2). Information regarding the structure and conformational mobility of 3 has been gained from the analysis of its ¹H- and ¹³C-NMR. spectra and was found to agree with the results of force field calculations. Photolysis (206 nm) of 3 in solution has induced cleavage to butatriene and butadiene. The first band in the photoelectron spectrum of 3 ( I _v 9.10 eV) is attributed to ionization from a rather delocalized orbital with predominant weight of the double bond p-AO's. Nevertheless, the high reactivity of 3 stems from the strained triple bond as evidenced by the reaction products obtained by pyrolysis, oxidation, Diels-Alder addition, and 1, 3-dipolar addition (Scheme 4).     

Purine 3′:5′‐cyclic nucleotides with the nucleobase in a syn orientation: cAMP,cGMP and cIMP

Purine 3′:5′‐cyclic nucleotides are very well known for their role as the secondary messengers in hormone action and cellular signal transduction. Nonetheless, their solid‐state conformational details still require investigation. Five crystals containing purine 3′:5′‐cyclic nucleotides have been obtained and structurally characterized, namely adenosine 3′:5′‐cyclic phosphate dihydrate, C₁₀H₁₂N₅O₆P·2H₂O or cAMP·2H₂O, (I), adenosine 3′:5′‐cyclic phosphate 0.3‐hydrate, C₁₀H₁₂N₅O₆P·0.3H₂O or cAMP·0.3H₂O, (II), guanosine 3′:5′‐cyclic phosphate pentahydrate, C₁₀H₁₂N₅O₇P·5H₂O or cGMP·5H₂O, (III), sodium guanosine 3′:5′‐cyclic phosphate tetrahydrate, Na⁺·C₁₀H₁₁N₅O₇P⁻·4H₂O or Na(cGMP)·4H₂O, (IV), and sodium inosine 3′:5′‐cyclic phosphate tetrahydrate, Na⁺·C₁₀H₁₀N₄O₇P⁻·4H₂O or Na(cIMP)·4H₂O, (V). Most of the cyclic nucleotide zwitterions/anions [two from four cAMP present in total in (I) and (II), cGMP in (III), cGMP⁻ in (IV) and cIMP⁻ in (V)] are syn conformers about the N‐glycosidic bond, and this nucleobase arrangement is accompanied by C_rib—H…N_pur hydrogen bonds (rib = ribose and pur = purine). The base orientation is tuned by the ribose pucker. An analysis of data obtained from the Cambridge Structural Database made in the context of syn–anti conformational preferences has revealed that among the syn conformers of various purine nucleotides, cyclic nucleotides and dinucleotides predominate significantly. The interactions stabilizing the syn conformation have been indicated. The inter‐nucleotide contacts in (I)–(V) have been systematized in terms of the chemical groups involved. All five structures display three‐dimensional hydrogen‐bonded networks.     

Derivatives of exo-5-Aminomethyl-endo-5-methylbicyclo[2.2.1]hept-2-ene and exo-5-Aminomethyl-endo-5-methyl-exo-2,3-epoxybicyclo[2.2.1]heptane

exo-5-Aminomethyl-endo-5-methylbicyclo[2.2.1]hept-2-ene and its 2,3-epoxy derivative were synthesized, and their geometric parameters and conformational properties, in particular the barriers to rotation of the aminomethyl fragment about the exocyclic C⁵ÄC bond, were studied by the molecular-mechanics method (MMX) and compared with those found for structurally related exo-5-aminomethylbicyclo[2.2.1]hept-2-ene. The title compounds were brought into reactions with electrophilic reagents: arenesulfonyl chlorides, isocyanates, and isothiocyanates.     

Conformational studies of hydantoin‐5‐acetic acid and orotic acid

Hydantoin‐5‐acetic acid [2‐(2,5‐dioxoimidazolidin‐4‐yl)acetic acid] and orotic acid (2,6‐dioxo‐1,2,3,6‐tetrahydropyrimidine‐4‐carboxylic acid) each contain one rigid acceptor–donor–acceptor hydrogen‐bonding site and a flexible side chain, which can adopt different conformations. Since both compounds may be used as coformers for supramolecular complexes, they have been crystallized in order to examine their conformational preferences, giving solvent‐free hydantoin‐5‐acetic acid, C₅H₆N₂O₄, (I), and three crystals containing orotic acid, namely, orotic acid dimethyl sulfoxide monosolvate, C₅H₄N₂O₄·C₂H₆OS, (IIa), dimethylammonium orotate–orotic acid (1/1), C₂H₈N⁺·C₅H₃N₂O₄⁻·C₅H₄N₂O₄, (IIb), and dimethylammonium orotate–orotic acid (3/1), 3C₂H₈N⁺·3C₅H₃N₂O₄⁻·C₅H₄N₂O₄, (IIc). The crystal structure of (I) shows a three‐dimensional network, with the acid function located perpendicular to the ring. Interestingly, the hydroxy O atom acts as an acceptor, even though the carbonyl O atom is not involved in any hydrogen bonds. However, in (IIa), (IIb) and (IIc), the acid functions are only slightly twisted out of the ring planes. All H atoms of the acidic functions are directed away from the rings and, with respect to the carbonyl O atoms, they show an antiperiplanar conformation in (I) and synperiplanar conformations in (IIa), (IIb) and (IIc). Furthermore, in (IIa), (IIb) and (IIc), different conformations of the acid O=C—C—N torsion angle are observed, leading to different hydrogen‐bonding arrangements depending on their conformation and composition.     

Interactions intramoleculaires: XXII—Constantes de couplage, équilibres conformationnels et interactions gauches avec un groupement t-butyle (molécules cyclohexéniques deutériées)

The NMR parameters are determined for a series of disubstituted (R = CH₃, (CH₃)₃C; X = COOCH₃, CN) and specifically deuterated cyclohexenes. The ³ J(HH), ³J(HD), ⁴J(HH) and ⁵ J(HH) coupling constants are used to evaluate the conformational equilibria. Three of the five compounds with an allylic t-butyl substituent, are conformationally heterogeneous; these equilibria, and those between stereoisomers are used for an analysis of this phenomenon, carried out within the framework of the hypothesis of additivity of conformational free energies and gauche interactions.     

Unlocking the Hydrolytic Mechanism of GH92 α-1,2-Mannosidases: Computation Inspires the use of C-Glycosides as Michaelis Complex Mimics

The conformational changes in a sugar moiety along the hydrolytic pathway are key to understand the mechanism of glycoside hydrolases (GHs) and to design new inhibitors. The two predominant itineraries for mannosidases go via ^OS₂→B_2,5→¹S₅ and ³S₁→³H₄→¹C₄. For the CAZy family 92, the conformational itinerary was unknown. Published complexes of Bacteroides thetaiotaomicron GH92 catalyst with a S-glycoside and mannoimidazole indicate a ⁴C₁→⁴H₅/¹S₅→¹S₅ mechanism. However, as observed with the GH125 family, S-glycosides may not act always as good mimics of GH's natural substrate. Here we present a cooperative study between computations and experiments where our results predict the E₅→B_2,5/¹S₅→¹S₅ pathway for GH92 enzymes. Furthermore, we demonstrate the Michaelis complex mimicry of a new kind of C-disaccharides, whose biochemical applicability was still a chimera.     

The conformation of t-butyl 2-methoxy-5, 6-dihydro-2 H-pyran-6-carboxylates and 6,6′- disubstituted 2-methoxy-5,6-dihydro-2H-pyran derivatives on the basis of 1H and 13 C NMR spectra

The ¹H and ¹³C NMR spectra of trans- and cis-tert-butyl 2-methoxy-5,6-dihydro-2H-pyran-6-carboxylates (1 and 2) and 6,6′-disubstituted 2-methoxy-5,6-dihydro-2H-pyrans (3-7) have been recorded. HH and CH coupling constants are discussed in terms of the ¹H₆?⁶H₁ conformational equilibrium. It has been found that 1 occurs exclusively in the ¹H₆ conformation, whereas its cis isomer, 2, exists in an equilibrium of both half-chair forms. 6,6′-Disubstituted 2-methoxy-5,6-dihydro-2H-pyrans 3-6 display spectral and conformational behaviour similar to that of 1, whereas 7 resembles 2 in this respect.     

Ramanspektroskopische Untersuchungen an PCl5 II. Das System PCl5—ZrCl4

Raman spectra of some solid and molten PCl₅–ZrCl₄ mixtures have been recorded. ZrCl₆ ^2– complex ions accompanied by at least one more chlorozirconate species are present in the solid as well as in the melt. The newRaman frequencies are attributed to ZrCl₅ ^–, which fundamentals are given and assignment is proposed to be analogous to TiCl₅ ^–. The presence of ZrCl₆ ^2– and ZrCl₅ ^– can be explained by the equilibrium ZrCl₆ ^2–+PCl₄ ⁺ZrCl₅ ^–+PCl₅.

     

Precision measurement of the energy of the 4d 9 5s 2 2 D 5/2 metastable level in Ag I

The energy of the 4d ⁹ 5s ^{2 2} D _5/2 metastable level in Ag I, which is the upper level of the very narrow 5s ² S _1/2 – 4d ⁹ 5s ^{2 2} D _5/2 two-photon transition at 661.2 nm, has been determined from precision measurements of the wavelengths of the 206.1 nm (5s ² S _1/2 – 6p ² P ₃ ^2/0 ) and 547.5 nm (4d ⁹ 5s ^{2 2} D _5/2 – 6p ² P ₃ ^2/0 ) lines emitted from a hollow-cathode discharge. The measured energy of the 4d ⁹ 5s ^{2 2} D _5/2 level, 30 242.286(7) cm^–1, is combined with the known hyperfine splittings and the estimated¹⁰⁷Ag-¹⁰⁹Ag isotope shift to obtain accurate absolute frequencies for the hyperfine components of the 661.2 nm transition. These results should help in the detection of the narrow 661.2 nm two-photon transition, which has been proposed as a new optical frequency standard.