How the Generalized Anomeric Effect Influences the Conformational Preference

The generalized anomeric effect refers to the conformational preference of a gauche structure over an anti structure for molecules with a R‐X‐C‐Y moiety. Whereas there are conflicting reports regarding the origin of this ubiquitous effect, a general consensus is that both the steric (more specifically electrostatic) and hyperconjugative interactions contribute. Here we employed the block‐localized wavefunction (BLW) method, which is the simplest variant of ab initio valence bond (VB) theory and can define reference electron‐localized states self‐consistently, to evaluate the magnitude of the hyperconjugation effect in a number of acyclic molecules exhibiting the generalized anomeric effect. The BLW‐based energy decomposition analysis revealed that both the steric and hyperconjugation effects contribute to the conformational preferences of methoxymethyl fluoride and methoxymethyl chlorides. But for the other systems under investigation, including methanediol, methanediamine, aminomethanol and dimethoxymethane, the hyperconjugative interactions play a negative role in the conformational preferences and the steric effect is solely responsible for the generalized anomeric effect.     

The α‐effect exhibited in gas‐phase SN2@N and SN2@C reactions

In order to explore the existence of α‐effect in gas‐phase S_N2@N reactions, and to compare its similarity and difference with its counterpart in S_N2@C reactions, we have carried out a theoretical study on the reactivity of six α‐oxy‐Nus (FO^?, ClO^?, BrO^?, HOO^?, HSO^?, H₂NO^?) in the S_N2 reactions toward NR₂Cl (R = H, Me) and RCl (R = Me, i‐Pr) using the G2(+)_M theory. An enhanced reactivity induced by the α‐atom is found in all examined systems. The magnitude of the α‐effect in the reactions of NR₂Cl (R = H, Me) is generally smaller than that in the corresponding S_N2 reaction, but their variation trend with the identity of α‐atom is very similar. The origin of the α‐effect of the S_N2@N reactions is discussed in terms of activation strain analysis and thermodynamic analysis, indicating that the α‐effect in the S_N2@N reactions largely arises from transition state stabilization, and the “hyper‐reactivity” of these α‐Nus is also accompanied by an enhanced thermodynamic stability of products from the n_(N) → σ*_(O?Y) negative hyperconjugation. Meanwhile, it is found that the reactivity of oxy‐Nus in the S_N2 reactions toward NMe₂Cl is lower than toward i‐PrCl, which is different from previous experiments, that is, the S_N2 reactions of NH₂Cl is more facile than MeCl. © 2013 Wiley Periodicals, Inc.     

Direct Spectroscopic Evidence of Hyperconjugation Unveils the Conformational Landscape of Hydrazides

The stereochemistry of hydrazides makes them especially interesting as building blocks for molecular design. An exhaustive conformational analysis of three model hydrazides was conducted in a conformer‐selective approach by using a combination of high‐level quantum chemistry calculations and vibrational spectroscopy in the gas phase and in solution. The NH stretch frequency was found to be highly sensitive to hyperconjugation, thus making it an efficient probe of the conformation of the neighboring nitrogen atom. This property greatly assisted the identification of the isomers observed experimentally in the conformer pool. A rationalization of the hydrazide conformational landscape is proposed, therefore paving the way for a better characterization of secondary structures in larger systems.     

Gas-phase structures, rotational barriers, and conformational properties of hydroxyl and mercapto derivatives of cyclohexa-2,5-dienone and cyclohexa-2,5-dienthione

The rotational barriers and conformational properties of the hydroxyl and mercapto groups attached to the alpha and beta positions of cyclohexa-2,5-dione and cyclohexa-2,5-dienthione have been studied at the B3LYP/ 6-311++G(d,p) level of theory. The results show that the conformational preferences of these studied systems are the result of a subtle interplay between different competing effects (conjugation, hyperconjugation, and steric repulsions). The applicability of the density functional theory reactivity indices and the maximum hardness principle for the present systems has been analyzed.     

Conformational Control of Oligo(p‐phenyleneethynylene)s with Intrinsic Substituent Electronic Effects: Origin of the Twist in Pentiptycene‐Containing Systems

Dependence of the backbone planarity of oligo(p‐phenyleneethynylene)s (OPEs) on the intrinsic electronic character of substituents and on the nature of the solvent has been experimentally demonstrated with a series of center‐symmetrical five‐ring systems, pentiptycene‐pentiptycene‐arene‐pentiptycene‐pentiptycene, differing in the substituents on the central arene. In frozen 2‐methyltetrahydrofuran (MTHF), the adjacent pentiptycene units prefer to be in a mutually twisted orientation when the substituents are electron‐withdrawing (F and amido), resulting in a TPPT or TTTT conformation, whereas a planarized PPPP backbone is favored in the case of electron‐donating substituents (alkyl and alkoxy). The propensity to adopt the PPPP form is generally enhanced by replacing MTHF with either methylcyclohexane or mixed ethanol/methanol as solvent. These observations reveal that the twist between adjacent pentiptycene units in OPEs is a consequence of the electronic rather than steric effects of iptycenyl substituents. The electronic effect of iptycenyl substituents is manifested in decreased phenylene π polarizability as the net effect of both electron‐donating hyperconjugation and an electron‐withdrawing inductive effect. Variable‐temperature electronic absorption and emission spectroscopies are the critical tools for this work. Our findings provide important guidelines for conformational and electronic engineering of OPEs and for the design of novel iptycene‐based organic electronic materials.     

Future directions of structural mass spectrometry using hydroxyl radical footprinting

Hydroxyl radical protein footprinting coupled to mass spectrometry has been developed over the last decade and has matured to a powerful method for analyzing protein structure and dynamics. It has been successfully applied in the analysis of protein structure, protein folding, protein dynamics, and protein–protein and protein–DNA interactions. Using synchrotron radiolysis, exposure of proteins to a ‘white’ X‐ray beam for milliseconds provides sufficient oxidative modification to surface amino acid side chains, which can be easily detected and quantified by mass spectrometry. Thus, conformational changes in proteins or protein complexes can be examined using a time‐resolved approach, which would be a valuable method for the study of macromolecular dynamics. In this review, we describe a new application of hydroxyl radical protein footprinting to probe the time evolution of the calcium‐dependent conformational changes of gelsolin on the millisecond timescale. The data suggest a cooperative transition as multiple sites in different molecular subdomains have similar rates of conformational change. These findings demonstrate that time‐resolved protein footprinting is suitable for studies of protein dynamics that occur over periods ranging from milliseconds to seconds. In this review, we also show how the structural resolution and sensitivity of the technology can be improved as well. The hydroxyl radical varies in its reactivity to different side chains by over two orders of magnitude, thus oxidation of amino acid side chains of lower reactivity are more rarely observed in such experiments. Here we demonstrate that the selected reaction monitoring (SRM)‐based method can be utilized for quantification of oxidized species, improving the signal‐to‐noise ratio. This expansion of the set of oxidized residues of lower reactivity will improve the overall structural resolution of the technique. This approach is also suggested as a basis for developing hypothesis‐driven structural mass spectrometry experiments. Copyright © 2010 John Wiley & Sons, Ltd.     

Experimental and theoretical electronic absorption spectra of 2,4‐diphenyl‐1,5‐benzothiazepine and its derivatives: Solvatochromic effect and time dependent density functional theory approach

Electronic spectra of 2,4‐diphenyl‐1,5‐benzothiazepine and some of its derivatives in 1,2‐dichloromethane and ethanol are investigated experimentally and theoretically using the time dependent density functional theory (TD‐DFT) method at the B3LYP/6‐311G** level of the theory. The origin of the spectrum of the parent compound is found to be an additive one. The observed ultra violet (UV) spectra in both solvents show two bands S1 in the range between 312–334 nm and S2 in the range between 248–272 nm. The solvent effect is investigated experimentally and theoretically and a blue shift is observed, which is explained in terms of a hydrogen bond model between the solvent and the most negative site of the solute (N atom). This theoretical model is robust in reproducing the experimental blue shift and calculating the hydrogen bond energy and hydrogen bond length. The extent of delocalization and charge transfer processes of the studied compounds is estimated and discussed in terms of natural bond orbital (NBO) analysis and second order perturbation interactions (E²) between donors and acceptors. The effect of substituents of the studied compounds in both solvents shows a noticeable red shift attributed to hyperconjugation effects of the π electron systems of the different moieties.     

An ab initio interpretation in gas phase and aqueous solution of the generalized anomeric effect in R?O?CR2?NR2 (R = H,CH3)

The conformational stability of aminomethanol and its methylated derivatives has been investigated by means of ab initio methods in the gas phase and aqueous solution. Among the computational levels employed, HF/6‐31G**//HF/6‐31G** calculations correctly describe the conformational features of this series of compounds, and agree well with the results obtained using larger basis sets and including ZPE or electron correlation corrections. Calculated energies and geometries follow the known trends associated to the generalized anomeric effect. Thus, the most stable conformers exhibit preferences for the trans orientations of the Lp N C O and Lp O C N moieties. However, reverse anomeric effects are observed when a methyl group is bonded to the oxygen, because the Lp O C N unit prefers a gauche orientation (that is, trans Me O C N). The natural bond orbital (NBO) method was employed to explain the cited conformational preferences. According to the NBO results, trans arrangements are preferred because the stabilization due to charge delocalization is more important than electrostatic and steric contributions. This explanation agrees with the conclusions obtained by other independent procedures based on energy decomposition schemes. The NBO method was also used to explain the origin of the rotational barriers around the C O and C N bonds in terms of the balance between unfavorable hyperconjugation and electrostatic and steric effects. Changes in conformational stability caused by methylations in different molecular positions were also explained by the influence of the methyl groups on lone‐pair delocalization and on steric effects. Finally, the effect of solvation was studied by means of the ab initio PCM method, and the significant changes on relative energies found were analyzed. © 2000 John Wiley & Sons, Inc. J Comput Chem 21: 462–477, 2000     

Conformational and stereoelectronic investigation in 1,2-difluoropropane: The gauche effect

The effect of attaching an additional fluorine atom at C-2 in 1-fluoropropane (FP), giving 1,2-difluoropropane (DFP), on its conformational equilibrium, is theoretically evaluated. This substitution causes critical implications on the conformer stabilities of DFP (TG, GT and GG conformations) and the steric and electrostatic interactions should favor the conformer with fluorine atoms trans. However, the gauche effect plays a major role in describing the energies balance in DFP, shifting the equilibrium towards the conformation in which the two fluorine atoms are gauche. The origin of this effect is discussed through an NBO analysis, which allows the evaluation of both classical and non-classical (hyperconjugation and bent bonds) interactions as the prevailing factors governing the conformational equilibrium of molecules containing the 1,2-difluoroethane fragment.     

Hyperconjugation as it affects conformational analysis

A primer for the qualitative identification and quantitative analysis of hyperconjugative delocalization is presented. The particular focus is upon the influence of hyperconjugation as it affects conformational analysis. Computational methodologies are illustrated within the context of several diverse molecular systems: anomeric and reverse anomeric effects in 2-tetrahydropyranosylammonium, generalized anomeric effects in phosphorus-stabilized carbanions, and hyperconjugative effects in phosphorus- and silicon-based trigonal bipyramids. Hyperconjugation is shown to compete with apicophilicity in the final examples. Although the latter influence has long been accounted for in traditional conformational analysis of trigonal bipyramidal systems, the former has been less appreciated.     

超共轭与立体电子效应

回顾了超共轭概念的起源与发展,简述了超共轭效应在立体电子效应中的重要地位及其对于分子构象和反应活性的重要影响,并对乙烷的优势构象成因进行了讨论。     

Regioselective One‐Pot Synthesis of Triptycenes via Triple‐Cycloadditions of Arynes to Ynolates

We developed the novel one‐pot synthetic method of substituted triptycenes by the reaction of ynolates and arynes. This four‐step process involves three cycloadditions and electrocyclic ring opening of the strained Dewar anthracene. Each of the three related but structurally distinct classes of nucleophiles (ynolate, enolate, and anthracenolate) reacts with o‐benzyne in the same predictable manner controlled by chelation and negative hyperconjugation. The resulting functionalized C₃‐symmetrical triptycenes hold promise in the design of functional materials.     

Macrocycles All Aflutter: Substitution at an Allylic Center Reveals the Conformational Dynamics of [13]‐Macrodilactones

The shapes adopted by large‐ring macrocyclic compounds play a role in their reactivity and their ability to be bound by biomolecules. We investigated the synthesis, conformational analysis, and properties of a specific family of [13]‐macrodilactones as models of natural‐product macrocycles. The features of our macrodilactones enabled us to study the relationship between stereogenic centers and planar chirality through the modular synthesis of new members of this family of macrocycles. Here we report on insights gained from a new [13]‐macrodilactone that is substituted at a position adjacent to the alkene in the molecule. Analysis of the compound, in comparison to an α‐substituted regioisomer, by using X‐ray crystallography, NMR coupling constants, and reaction‐product characterization in concert with computational chemistry, revealed that the alkene unit is dynamic. That is, the data support a model in which the alkene in our [13]‐macrodilactones oscillates between two conformations. A difference in reactivity of one conformation compared to the other leads to manifestation of this dynamic behavior. The results underscore the local conformational dynamics observed in some natural‐product macrocycles, which could have implications for biomolecule binding.     

Reactivity of Dicoordinated Stannylones (Sn0) versus Stannylenes (SnII): An Investigation Using DFT‐Based Reactivity Indices

The reactivity of dicoordinated Sn⁰ compounds, stannylones, is probed using density functional theory (DFT)‐based reactivity indices and compared with the reactivity of dicoordinated Sn^II compounds, stannylenes. For the former compounds, the influence of different types of electron‐donating ligands, such as cyclic and acyclic carbenes, stannylenes and phosphines, on the reactivity of the central Sn atom is analyzed in detail. Sn⁰ compounds are found to be relatively soft systems with a high nucleophilicity, and the plots of the Fukui function f^? for an electrophilic attack consistently predict the highest reactivity on the Sn atom. Next, complexes of dicoordinated Sn compounds with different Lewis acids of variable hardness are computed. In a first part, the double‐base character of stannylones is demonstrated in interactions with the hardest Lewis acid H⁺. Both the first and second proton affinities (PAs) are high and are well correlated with the atomic charge on the Sn atom, probing its local hardness. These observations are also in line with electrostatic potential plots that demonstrate that the tin atom in Sn⁰ compounds bears a higher negative charge in comparison to Sn^II compounds. Stannylones and stannylenes can be distinguished from each other by the partial charges at Sn and by various reactivity indices. It also becomes clear that there is a smooth transition between the two classes of compounds. We furthermore demonstrate both from DFT‐based reactivity indices and from energy decomposition analysis, combined with natural orbitals for chemical valence (EDA‐NOCV), that the monocomplexed stannylones are still nucleophilic and as reactive towards a second Lewis acid as towards the first one. The dominating interaction is a strong σ‐type interaction from the Sn atom towards the Lewis acid. The interaction energy is higher for complexes with the cation Ag⁺ than with the non‐charged electrophiles BH₃, BF₃, and AlCl₃.     

A theoretical study of rhodium(I) catalyzed carbonylative ring expansion of aziridines to beta-lactams: crucial activation of the breaking C-N bond by hyperconjugation

The regioselectivity and enantiospecificity of the [Rh(CO)2Cl]2-catalyzed carbonylative ring expansions of N-tert-butyl-2-phenylaziridine to yield 2-azetidinone and the lack of reactivity of N-tert-butyl-2-methylaziridine along this process were investigated at the B3LYP/6-31G(d) (LANL2DZ for Rh) theory level taking into account solvent effects. According to our results, the regioselectivity in the ring expansion of N-tert-butyl-2-phenylaziridine and the unreactivity of N-tert-butyl-2-methylaziridine experimentally observed are determined by the different degree of activation of the breaking C-N bond in the initial aziridine-Rh(CO)2Cl complex due to its hyperconjugation interaction with the substituent on the carbon atom. When a phenyl substituent is present its hyperconjugation interaction with the C(alpha)-N bond facilitates the insertion of the metal atom into this bond. On the other hand, when the substituent is a methyl group, a larger stability of the initial complex along with a lower stabilization through hyperconjugation of the TS for insertion of the Rh atom into the C(alpha)-N bond make the ring expansion of N-tert-butyl-2-methylaziridine unviable. The enantiospecificity experimentally observed is also reproduced by our calculations given that the stereogenic center is never perturbed to change its configuration.     

Measurement and Applications of Long‐Range Heteronuclear Scalar Couplings: Recent Experimental and Theoretical Developments

The use of long‐range heteronuclear couplings, in association with ¹H–¹H scalar couplings and NOE restraints, has acquired growing importance for the determination of the relative stereochemistry, and structural and conformational information of organic and biological molecules. However, the routine use of such couplings is hindered by the inherent difficulties in their measurement. Prior to the advancement in experimental techniques, both long‐range homo‐ and heteronuclear scalar couplings were not easily accessible, especially for very large molecules. The development of a large number of multidimensional NMR experimental methodologies has alleviated the complications associated with the measurement of couplings of smaller strengths. Subsequent application of these methods and the utilization of determined J‐couplings for structure calculations have revolutionized this area of research. Problems in organic, inorganic and biophysical chemistry have also been solved by utilizing the short‐ and long‐range heteronuclear couplings. In this minireview, we discuss the advantages and limitations of a number of experimental techniques reported in recent times for the measurement of long‐range heteronuclear couplings and a few selected applications of such couplings. This includes the study of medium‐ to larger‐sized molecules in a variety of applications, especially in the study of hydrogen bonding in biological systems. The utilization of these couplings in conjunction with theoretical calculations to arrive at conclusions on the hyperconjugation, configurational analysis and the effect of the electronegativity of the substituents is also discussed.     

Substituent effects and the role of negative hyperconjugation in siloxycarbene rearrangements

Substituent effects and the role of negative hyperconjugation in 1,2-silyl migration and decarbonylation of methoxy(substituted-siloxy)carbenes have been investigated using quantum chemical calculations and natural bond orbital analysis. It has been found that sigma-electron-withdrawing substituents generally lower the barriers for 1,2-silyl migration and decarbonylation, consistent with symmetry-forbidden concerted rearrangements involving intramolecular front-side nucleophilic attack by the carbene lone pair at silicon and by the methoxy oxygen at silicon, respectively. However, while good linear Hammett correlations are obtained for 1,2-silyl migration, those obtained for decarbonylation are poor. In addition, there appears to be a relationship between the extent of pertinent hyperconjugative interactions in the siloxycarbene conformers and the ease of intramolecular reactivity. As a matter of fact, the finding that 1,2-silyl migration is more favorable than decarbonylation seems to be primarily related to stronger negative hyperconjugation between the carbene lone pair and the O-Si antibonding orbital, compared to that between the methoxy oxygen n(sigma) lone pair and the O-Si antibonding orbital. Moreover, the activation enthalpies for 1,2-silyl migration decrease linearly with stronger negative hyperconjugation, although no such correlation could be established for decarbonylation.     

Bis-phosphorus stabilised carbene complexes

The stabilisation of the carbene centre in a complex can be achieved either by the metal moiety or the carbon substituents. The balance between these two stabilising effects determines the nature of the M=C bond and therefore the reactivity of the metal complexes. Introducing two vicinal phosphorus groups as substituents of the carbene centre proved to be rewarding, since depending on the coordination number of this atom different electronic properties are observed. Indeed, a sigma(3)-P atom possesses a lone pair that can interact with a carbene centre by destabilising its vacant p(pi) orbital. On the contrary a sigma(4)-P group presents low lying sigma* orbitals which can be involved in delocalising electronic density in the carbene p(pi) orbital by negative hyperconjugation. Therefore, PCP carbene complexes can exhibit either an electrophilic or nucleophilic reactivity depending on the nature of the phosphorus group and the metal centre. Carbenes complexes of early and late transition metals, but also of lanthanides are discussed in this perspective.     

Hydrazine: Structural features and conformational preference in nanotubes

Investigation of structural features and conformational transformations of the hydrazine molecule in open single walled carbon nanotubes using the hybrid DFT method PBE/3ζ revealed in most cases the contraction of the N–N bond length, decrease in its order, generation of a positive or negative charge on the encapsulated molecule and a substantial decrease in the rotation barrier about the N–N bond caused by stabilization of the local maximum (anti-form) apparently, due to attenuation of the hyperconjugation effect in the hydrazine molecule. In one of clusters this form becomes the global minimum on the potential energy surface.     

Steric as well as n→π* Interaction Controls the Conformational Preferences of Phenyl Acetate: Gas‐phase Spectroscopy and Quantum Chemical Calculations

Herein, we report that the conformational preference of phenyl acetate is governed by steric effect and n→π* interaction. Conformation‐specific electronic and IR spectroscopy combined with quantum chemistry calculations confirm the presence of only the cis conformer of phenyl acetate in the experiment. The cis conformer of phenyl acetate has n→π* interaction between the lone‐pair electrons on the carbonyl oxygen atom and the π* orbitals of the phenyl group. The n→π* interaction is absent in the trans conformer which has additional steric repulsion between the methyl group and phenyl ring. The trans conformer is higher in energy than the cis conformer by ≈3 kcal mol^?1. We have found the effect of methyl substitution on the strength of the n→π* interaction, steric repulsion, and hyperconjugation in phenyl acetate. The red‐shift observed in the cis conformer of phenyl acetate with respect to the trans conformer is affected due to the influence of the methyl substituent on the strength of the n→π* interaction as well as hyperconjugation. The present result demonstrates that the introduction of a bulkier substituent can induce steric as well as electronic control to reduce conformational heterogeneity of a molecular system. Understanding the effect of bulkier substituents to promote defined conformations having specific non‐covalent interactions may have implication in better perception of the optimum structure and function of biomolecules as well as recognition of drugs by biomolecules.