Significant Substituent Effect on the Anomerization of Pyranosides: Mechanism of Anomerization and Synthesis of a 1,2‐cis Glucosamine Oligomer from the 1,2‐trans Anomer

Aminoglycosides containing a 2,3‐trans carbamate group easily undergo anomerization from the 1,2‐trans glycoside to the 1,2‐cis isomer under mild acidic conditions. The N‐substituent of the carbamate has a significant effect on the anomerization reaction; in particular, an N‐acetyl group facilitated rapid and complete α‐anomerization. The differences in reactivity due to the various N‐substituents were supported by the results of DFT calculations; the orientation of the acetyl carbonyl group close to the anomeric position was found to contribute significantly to the directing of the anomerization reaction. By exploiting this reaction, oligoaminoglycosides with multiple 1,2‐cis glycosidic bonds were generated from 1,2‐trans glycosides in a one‐step process.     

Synthesis of PCP‐Supported Nickel Complexes and their Reactivity with Carbon Dioxide

The Ni amide and hydroxide complexes [(PCP)Ni(NH₂)] ( 2 ; PCP=bis‐2,6‐di‐tert‐butylphosphinomethylbenzene) and [(PCP)Ni(OH)] ( 3 ) were prepared by treatment of [(PCP)NiCl] ( 1 ) with NaNH₂ or NaOH, respectively. The conditions for the formation of 3 from 1 and NaOH were harsh (2 weeks in THF at reflux) and a more facile synthetic route involved protonation of 2 with H₂O, to generate 3 and ammonia. Similarly the basic amide in 2 was protonated with a variety of other weak acids to form the complexes [(PCP)Ni(2‐Me‐imidazole)] ( 4 ), [(PCP)Ni(dimethylmalonate)] ( 5 ), [(PCP)Ni(oxazole)] ( 6 ), and [(PCP)Ni(CCPh)] ( 7 ), respectively. The hydroxide compound 3 , could also be used as a Ni precursor and treatment of 3 with TMSCN (TMS=trimethylsilyl) or TMSN₃ generated [(PCP)Ni(CN)] ( 8 ) or [(PCP)Ni(N₃)] ( 9 ), respectively. Compounds 3–7 , and 9 were characterized by X‐ray crystallography. Although 3 , 4 , 6 , 7 , and 9 are all four‐coordinate complexes with a square‐planar geometry around Ni, 5 is a pseudo‐five‐coordinate complex, with the dimethylmalonate ligand coordinated in an X‐type fashion through one oxygen atom, and weakly as an L‐type ligand through another oxygen atom. Complexes 2–9 were all reacted with carbon dioxide. Compounds 2 – 4 underwent facile reaction at low temperature to form the κ¹‐O carboxylate products [(PCP)Ni{OC(O)NH₂}] ( 10 ), [(PCP)Ni{OC(O)OH}] ( 11 ), and [(PCP)Ni{OC(O)‐2‐Me‐imidazole}] ( 12 ), respectively. Compounds 10 and 11 were characterized by X‐ray crystallography. No reaction was observed between 5 – 9 and carbon dioxide, even at elevated temperatures. DFT calculations were performed to model the thermodynamics for the insertion of carbon dioxide into 2 – 9 to form a κ¹‐O carboxylate product and understand the pathways for carbon dioxide insertion into 2 , 3 , 6 , and 7 . The computed free energies indicate that carbon dioxide insertion into 2 and 3 is thermodynamically favorable, insertion into 8 and 9 is significantly uphill, insertion into 5 and 7 is slightly uphill, and insertion into 4 and 6 is close to thermoneutral. The pathway for insertion into 2 and 3 has a low barrier and involves nucleophilic attack of the nitrogen or oxygen lone pair on electrophilic carbon dioxide. A related stepwise pathway is calculated for 7 , but in this case the carbon of the alkyne is significantly less nucleophilic and as a result, the barrier for carbon dioxide insertion is high. In contrast, carbon dioxide insertion into 6 involves a single concerted step that has a high barrier.     

Copper(II) and Zinc(II) Complexes of Conformationally Constrained Polyazamacrocycles as Efficient Catalysts for RNA Model Substrate Cleavage in Aqueous Solution at Physiological pH

As part of a quest for efficient artificial catalysts of RNA phosphodiester bond cleavage, conformationally constrained mono‐ and bis‐polyazamacrocycles in which tri‐ or tetraazaalkane chains link the ortho positions of a benzene ring were synthesized. The catalytic activities of mono‐ and dinuclear copper(II) and zinc(II) complexes of these polyazamacrocycles towards cleavage of the P?O bond in 2‐hydroxypropyl‐4‐nitrophenylphosphate (HPNP) in aqueous solution at pH 7 have been determined. Only the complexes of the ligands incorporating three nitrogen atoms in a macrocycle proved to be capable of efficiently catalyzing HPNP transesterification. The dinuclear complexes were found to be approximately twice as efficient as their mononuclear counterparts, and exhibited Michaelis–Menten saturation kinetics with calculated rate constants of k_cat≈10^?4 s^?1. By means of quantum chemical calculations (DFT/COSMO‐RS), several plausible reaction coordinates were described. By correlating the calculated barriers with the experimental kinetic data, two possible reaction scenarios were revealed, with activation free energies of 20–25 kcal mol^?1.     

Switch From Pauli-Lowering to LUMO-Lowering Catalysis in Brønsted Acid-Catalyzed Aza-Diels-Alder Reactions

Brønsted acid-catalyzed inverse-electron demand (IED) aza-Diels-Alder reactions between 2-aza-dienes and ethylene were studied using quantum chemical calculations. The computed activation energy systematically decreases as the basic sites of the diene progressively become protonated. Our activation strain and Kohn-Sham molecular orbital analyses traced the origin of this enhanced reactivity to i) “Pauli-lowering catalysis” for mono-protonated 2-aza-dienes due to the induction of an asynchronous, but still concerted, reaction pathway that reduces the Pauli repulsion between the reactants; and ii) “LUMO-lowering catalysis” for multi-protonated 2-aza-dienes due to their highly stabilized LUMO(s) and more concerted synchronous reaction path that facilitates more efficient orbital overlaps in IED interactions. In all, we illustrate how the novel concept of “Pauli-lowering catalysis” can be overruled by the traditional concept of “LUMO-lowering catalysis” when the degree of LUMO stabilization is extreme as in the case of multi-protonated 2-aza-dienes.     

Mechanistic Aspects of the Gas‐Phase Reactions of Halobenzenes with Bare Lanthanide Cations: A Combined Experimental/Theoretical Investigation

The gas‐phase reactions of chlorobenzene with all atomic lanthanide cations Ln⁺ (except Pm⁺) have been investigated by using Fourier transform ion cyclotron resonance mass spectrometry in conjunction with density functional theory calculations. According to the latter, a direct chlorine transfer to the lanthanide cation, which has been observed previously for fluorine abstraction from fluorobenzene, is not operative for the C₆H₅Cl/Ln⁺ couples; rather, chlorine transfer proceeds through an initial coordination of the lanthanide cation to the aromatic ring of the substrate. Both, the product distribution and the chlorine abstraction efficiencies are affected by the bond dissociation energy (BDE(Ln⁺?Cl)) as well as the promotion energies of Ln⁺ to attain a 4fⁿ 5d¹ 6s¹ configuration. In addition, mechanistic aspects of some C?H and C?C bond activations are presented. Where appropriate, comparison with the previously studied C₆H₅F/Ln⁺ systems is made.     

Structural,Vibrational and Electronic Properties of Defective Single‐Walled Carbon Nanotubes Functionalised with Carboxyl Groups: Theoretical Studies

Covalent sidewall functionalisation of defective zigzag single‐walled carbon nanotubes [SWCNTs(10,0)] with COOH groups is investigated by using DFT. Four types of point defects are considered: vacancy (V), divacancy [V₂(5‐8‐5), V₂(555‐777)], adatom (AA) and Stone–Wales (SW). The energetic, structural, electronic and vibrational properties of these systems are analysed. Decreasing reactivity is observed in the following order: AA>V>V₂(555‐777)>V₂(5‐8‐5)>SW. These studies also demonstrate that the position in which a carboxyl group is attached to a defective SWCNT is of primary importance. Saturation of two‐coordinate carbon atoms in systems with the vacancy V‐7 and with the adatom AA‐1(2) is 3.5–4 times more energetically favourable than saturation of three‐coordinate carbon atoms for all studied systems. Vibrational analysis for these two systems shows significant redshifts of the ν(C?O) stretching vibration of 96 and 123 cm^?1 compared to that for carboxylated pristine systems. Detailed electronic‐structure analysis of the most stable carboxylated systems is also presented.     

Thermal activation of methane and ethene by bare MO·+ (M=Ge, Sn, and Pb): a combined theoretical/experimental study

The thermal ion/molecule reactions (IMRs) of the Group 14 metal oxide radical cations MO ^{. +} (M=Ge, Sn, Pb) with methane and ethene were investigated. For the MO ^{. +}/CH₄ couples abstraction of a hydrogen atom to form MOH⁺ and a methyl radical constitutes the sole channel. The nearly barrier‐free process, combined with a large exothermicity as revealed by density functional theory (DFT) calculations, suggests a fast and efficient reaction in agreement with the experiment. For the IMR of MO ^{. +} with ethene, two competitive channels exist: hydrogen‐atom abstraction (HAA) from and oxygen‐atom transfer (OAT) to the organic substrate. The HAA channel, yielding C₂H₃ ^. and MOH⁺ predominates for the GeO ^{. +}/ethene system, while for SnO ^{. +} and PbO ^{. +} the major reaction observed corresponds to the OAT producing M⁺ and C₂H₄O. The DFT‐derived potential‐energy surfaces are consistent with the experimental findings. The behavior of the metal oxide cations towards ethene can be explained in terms of the bond dissociation energies (BDEs) of MO⁺? H and M⁺? O, which define the hydrogen‐atom affinity of MO⁺ and the oxophilicity of M⁺, respectively. Since the differences among the BDEs(MO⁺? H) are rather small and the hydrogen‐atom affinities of the three radical cations MO ^{. +} exceed the BDE(CH₃? H) and BDE(C₂H₃? H), hydrogen‐atom abstraction is possible thermochemically. In contrast, the BDEs(M⁺? O) vary quite substantially; consequently, the OAT channel becomes energetically less favorable for GeO ^{. +} which exhibits the highest oxophilicity among these three group 14 metal ions.     

Double Group Transfer Reactions: Role of Activation Strain and Aromaticity in Reaction Barriers

Double group transfer (DGT) reactions, such as the bimolecular automerization of ethane plus ethene, are known to have high reaction barriers despite the fact that their cyclic transition states have a pronounced in‐plane aromatic character, as indicated by NMR spectroscopic parameters. To arrive at a way of understanding this somewhat paradoxical and incompletely understood phenomenon of high‐energy aromatic transition states, we have explored six archetypal DGT reactions using density functional theory (DFT) at the OLYP/TZ2P level. The main trends in reactivity are rationalized using the activation strain model of chemical reactivity. In this model, the shape of the reaction profile ΔE(ζ) and the height of the overall reaction barrier ΔE^≠=ΔE(ζ=ζ^TS) is interpreted in terms of the strain energy ΔE_strain(ζ) associated with deforming the reactants along the reaction coordinate ζ plus the interaction energy ΔE_int(ζ) between these deformed reactants: ΔE(ζ)=ΔE_strain(ζ)+ΔE_int(ζ). We also use an alternative fragmentation and a valence bond model for analyzing the character of the transition states.     

Amavadin and other vanadium complexes as remarkably efficient catalysts for one-pot conversion of ethane to propionic and acetic acids

Synthetic amavadin Ca[V{ON[CH(CH(3))COO](2)}(2)] and its models Ca[V{ON(CH(2)COO)(2)}(2)] and [VO{N(CH(2)CH(2)O)(3)}], in the presence of K(2)S(2)O(8) in trifluoroacetic acid (TFA), exhibit remarkable catalytic activity for the one-pot carboxylation of ethane to propionic and acetic acids with the former as the main product (overall yields up to 93 %, catalyst turnover numbers (TONs) up to 2.0 x 10(4)). The simpler V complexes [VO(CF(3)SO(3))(2)], [VO(acac)(2)] and VOSO(4) are less active. The effects of various factors, namely, C(2)H(6) and CO pressures, time, temperature, and amounts of catalyst, TFA and K(2)S(2)O(8), have been investigated, and this allowed optimisation of the process and control of selectivity. (13)C-labelling experiments indicated that the formation of acetic acid follows two pathways, the dominant one via oxidation of ethane with preservation of the C--C bond, and the other via rupture of this bond and carbonylation of the methyl group by CO; the C--C bond is retained in the formation of propionic acid upon carbonylation of ethane. The reactions proceed via both C- and O-centred radicals, as shown by experiments with radical traps. On the basis of detailed DFT calculations, plausible reaction mechanisms are discussed. The carboxylation of ethane in the presence of CO follows the sequential formation of C(2)H(5) (*), C(2)H(5)CO(*), C(2)H(5)COO(*) and C(2)H(5)COOH. The C(2)H(5)COO(*) radical is easily formed on reaction of C(2)H(5)CO(*) with a peroxo V catalyst via a V{eta(1)-OOC(O)C(2)H(5)} intermediate. In the absence of CO, carboxylation proceeds by reaction of C(2)H(5) (*) with TFA. For the oxidation of ethane to acetic acid, either with preservation or cleavage of the C-C bond, metal-assisted and purely organic pathways are also proposed and discussed.     

The Mechanism of NO Bond Cleavage in Rhodium‐Catalyzed CH Bond Functionalization of Quinoline N‐oxides with Alkynes: A Computational Study

Metal‐catalyzed C?H activation not only offers important strategies to construct new bonds, it also allows the merge of important research areas. When quinoline N‐oxide is used as an arene source in C?H activation studies, the N?O bond can act as a directing group as well as an O‐atom donor. The newly reported density functional theory method, M11L, has been used to elucidate the mechanistic details of the coupling between quinoline N?O bond and alkynes, which results in C?H activation and O‐atom transfer. The computational results indicated that the most favorable pathway involves an electrophilic deprotonation, an insertion of an acetylene group into a Rh?C bond, a reductive elimination to form an oxazinoquinolinium‐coordinated Rh^I intermediate, an oxidative addition to break the N?O bond, and a protonation reaction to regenerate the active catalyst. The regioselectivity of the reaction has also been studied by using prop‐1‐yn‐1‐ylbenzene as a model unsymmetrical substrate. Theoretical calculations suggested that 1‐phenyl‐2‐quinolinylpropanone would be the major product because of better conjugation between the phenyl group and enolate moiety in the corresponding transition state of the regioselectivity‐determining step. These calculated data are consistent with the experimental observations.     

Facile P−C/C−H Bond‐Cleavage Reactivity of Nickel Bis(diphosphine) Complexes

Unusual cleavage of P?C and C?H bonds of the P₂N₂ ligand, in heteroleptic [Ni(P₂N₂)(diphosphine)]²⁺ complexes under mild conditions, results in the formation of an iminium formyl nickelate featuring a C,P,P‐tridentate coordination mode. The structures of both the heteroleptic [Ni(P₂N₂)(diphosphine)]²⁺ complexes and the resulting iminium formyl nickelate have been characterized by NMR spectroscopy and single‐crystal X‐ray diffraction analysis. Density functional theory (DFT) calculations were employed to investigate the mechanism of the P?C/C?H bond cleavage, which involves C?H bond cleavage, hydride rotation, Ni?C/P?H bond formation, and P?C bond cleavage.     

Hydroxyl radical reactions with adenine: reactant complexes, transition states, and product complexes

In order to address problems such as aging, cell death, and cancer, it is important to understand the mechanisms behind reactions causing DNA damage. One specific reaction implicated in DNA oxidative damage is hydroxyl free-radical attack on adenine (A) and other nucleic acid bases. The adenine reaction has been studied experimentally, but there are few theoretical results. In the present study, adenine dehydrogenation at various sites, and the potential-energy surfaces for these reactions, are investigated theoretically. Four reactant complexes [A···OH]* have been found, with binding energies relative to A+OH* of 32.8, 11.4, 10.7, and 10.1 kcal mol(-1). These four reactant complexes lead to six transition states, which in turn lie +4.3, -5.4, (-3.7 and +0.8), and (-2.3 and +0.8) kcal mol(-1) below A+OH*, respectively. Thus the lowest lying [A···OH]* complex faces the highest local barrier to formation of the product (A-H)*+H(2)O. Between the transition states and the products lie six product complexes. Adopting the same order as the reactant complexes, the product complexes [(A-H)···H(2)O]* lie at -10.9, -22.4, (-24.2 and -18.7), and (-20.5 and -17.5) kcal mol(-1), respectively, again relative to separated A+OH*. All six A+OH* → (A-H)*+H(2)O pathways are exothermic, by -0.3, -14.7, (-17.4 and -7.8), and (-13.7 and -7.8) kcal mol(-1), respectively. The transition state for dehydrogenation at N(6) lies at the lowest energy (-5.4 kcal mol(-1) relative to A+OH*), and thus reaction is likely to occur at this site. This theoretical prediction dovetails with the observed high reactivity of OH radicals with the NH(2) group of aromatic amines. However, the high barrier (37.1 kcal mol(-1)) for reaction at the C(8) site makes C(8) dehydrogenation unlikely. This last result is consistent with experimental observation of the imidazole ring opening upon OH radical addition to C(8). In addition, TD-DFT computed electronic transitions of the N(6) product around 420 nm confirm that this is the most likely site for hydrogen abstraction by hydroxyl radical.