Design of radical-resistant amino acid residues: a combined theoretical and experimental investigation

Ab initio calculations have been used to design radical-resistant amino acid residues. Optimized structures of free and protected amino acids and their corresponding alpha-carbon-centered radicals were determined with B3-LYP/6-31G(d). Single-point RMP2/6-31G(d) calculations on these structures were then used to obtain radical stabilization energies, to examine the effect of steric repulsion between the side chains and amide carbonyl groups on the stability of alpha-carbon-centered peptide radicals. Relative to glycine, the destabilization for alanine and valine residues was found to be approximately 9 and 18 kJ mol(-1), respectively, which correlates with the reactivity of analogous amino acid residues in peptides toward hydrogen atom abstraction in conventional free radical reactions. To design amino acid residues that would resist radical reactions, strategies by which the steric effects could be magnified were considered. This resulted in the identification of tert-leucine and 3,3,3-trifluoroalanine as suitable molecules. With these amino acid residues, the destabilization of the alpha-carbon-centered radicals relative to that of glycine is increased substantially to approximately 36 and 41 kJ mol(-1), respectively. The theoretical predictions have been supported by experimental observations: a tert-leucine derivative was shown to be very slow to react with N-bromosuccinimide, while the corresponding trifluoroalanine derivative was found to be inert.     

FT-IR and NMR investigation of 1-phenylpiperazine: a combined experimental and theoretical study

FT-IR and (1)H, (13)C, DEPT, COSY, NOESY, HETCOR, INADEQUATE NMR spectra of 1-phenylpiperazine (pp) have been reported for the first time except for its (1)H NMR spectrum. The vibrational frequencies and (1)H, (13)C NMR chemical shifts of pp (C(10)H(14)N(2)) have been calculated by means of the Hartree-Fock (HF) and Becke-Lee-Yang-Parr (BLYP) or Becke-3-Lee-Yang-Parr (B3LYP) density functional methods with 6-31G(d) and 6-31G(d,p) basis sets, respectively. Comparison between the experimental and the theoretical results indicates that density functional B3LYP method is superior to the scaled HF and BLYP approach for predicting vibrational frequencies and NMR properties.     

UV photodissociation of ethylamine cation: a combined experimental and theoretical investigation

Direct current (DC) slice imaging of state-selected ions is combined with high-level ab initio calculations to give insight into reaction pathways, dynamics, and energetics for ethylamine cation photodissociation at 233 nm. These reaction pathways are of interest for understanding the rich chemistry of Titan's ionosphere recently revealed by the Cassini mission. The result for the H-loss product has a bimodal translational energy distribution, indicating two distinct H-loss pathways: these are assigned to triplet CH(3)CH(2)NH(+) product ions and the singlet CH(3)CHNH(2)(+) species. The distribution shows a modest fraction of energy available in translation and is consistent with barrierless dissociation from the ground state. HCNH(+) formation is observed as the dominant channel and exhibits a bimodal translational energy distribution with the faster component depicting a significant angular anisotropy. This suggests a direct excited-state decay pathway for this portion of the distribution. We have also observed the H + H(2) loss product as a minor secondary dissociation channel, which correlates well with the formation of CH(2)CNH(2)(+) ion with an exit barrier.     

Electronic states of o-nitrobenzaldehyde: a combined experimental and theoretical study

The experimental UV/vis absorption spectrum of ortho-nitrobenzaldehyde (o-NBA) has been assigned by means of MS-CASPT2/CASSCF, TD-DFT, and RI-CC2 theoretical computations. Additional information on the nature of the absorbing bands was obtained by comparing the o-NBA spectrum with that of related compounds, as, e.g., nitrobenzene and benzaldehyde. For wavelengths larger than approximately 280 nm, the absorption spectrum of o-NBA is dominated by a series of weak n pi* absorptions from the NO2 and CHO groups. These weak transitions are followed in energy by a more intense band, peaking at 250 nm and arising from charge transfer pi pi* excitations involving mainly benzene and nitro orbitals. Finally, the most intense band centered at 220 nm has its origin in the overlap of two different absorptions: the first one localized in the NO2 substituent and the second one arising from a charge transfer excitation involving the NO2 and the CHO fragments, respectively.     

Room-temperature palladium-catalyzed Negishi-type coupling: a combined experimental and theoretical study

An air-stable, bulky electron-accepting phosphine ligand (phosphabarrelene) allows the easy reduction of a Pd(II) precursor to a Pd(0) complex, highly active in room-temperature Negishi-type cross-coupling. DFT calculations show that the use of the electron-accepting ligand favors both transmetalation (TM) and reductive-elimination (RE) processes (see scheme; OA = oxidative addition).     

Exploring similarities in reactivity of superatom species: a combined theoretical and experimental investigation

The replacement of group 10-based materials by superatoms has gained great attention due to studies presenting similarities in electronic character and reactive nature between pairs. The current study extends the concept to systems of larger and varied composition as the pairs PdO(+) and ZrO(2)(+) as well as NiO(+) and TiO(2)(+) are interacted with C(2)H(4) and CO through DFT calculations and guided-ion-beam mass spectrometry. It is determined that the pairs readily oxidize C(2)H(4) while oxygen transfer is limited towards CO. Interestingly, within the reaction profiles for oxidation of C(2)H(4) by PdO(+) and NiO(+), a spin crossover is observed which greatly increases the exothermicity of the process. This investigation presents a major step in identifying replacements for expensive group 10 metals in catalytic materials.     

Exploring rearrangements along the fragmentation of glutaric acid negative ion: a combined experimental and theoretical study

Glutaric acid, a common short‐chain aliphatic dicarboxylic acid, was investigated in the negative ion mode by subjecting its [M–H]^? ion to collision‐induced dissociation (CID) experiments in an infinity ion cyclotron resonance (ICR) cell coupled to a hexapole–quadrupole–hexapole ion guide. A 12 Tesla magnet was used for high‐resolution measurements. Two distinctive main pathways were observed in the MS/MS spectrum. The fragmentation pathways were also thoroughly investigated in a density functional theory (DFT) study involving a B3LYP/6‐311+G(2d,p)//B3LYP/6‐311+G(d,p) level of theory. Elimination of CO₂ from the [M–H]^? ion of the dicarboxylic acid takes place in a concerted mechanism, by which a 1,5 proton shift occurs from the intact carboxyl group to the methylene moiety located in the α position relative to the deprotonated carboxyl group. This concerted mechanism stabilizes the terminal negative charge and deprotonates the second carboxylic acid group. Water elimination from the [M–H]^? ion does not take place by means of a simple proton removal from the α methylene group – and OH^? release from the carboxylate group to abstract an additional α proton thus leading to the formation of a deprotonated ketene anion. In the case of this dicarboxylic acid, a new mechanism was found for water elimination, which differs from that known for aliphatic monocarboxylic acids. An intramolecular interaction between the deprotonated and the intact carboxyl groups plays a key role in making a new energetically favourable mechanism. The DFT study also reveals that a combined loss of CO₂ and H₂O in the form of H₂CO₃ is possible. Copyright © 2010 John Wiley & Sons, Ltd.     

Conformational behavior of cinchonidine revisited: a combined theoretical and experimental study

Conformational space of cinchonidine has been explored by means of ab initio potential and free energy surfaces, and the temperature-induced changes of conformational populations were studied by a combined NOESY-DFT analysis. The DFT-derived potential energy surface investigation identified four new conformers. Among them, Closed(7) is substantially relevant to fully understand the conformational behavior. The energy surfaces gave access to the favored transformation pathways at different temperatures (280-320 K). They also revealed the reasons for the negligible presence of energetically stable conformers and explained the experimentally observed temperature dependence of the populations.     

Ionization energies of argon clusters: a combined experimental and theoretical study

We have measured appearance energies of Ar(n)+, n相似文献   

The electronic spectrum of AuO: a combined theoretical and experimental study

The near-infrared electronic spectrum of AuO(1) has been re-examined in light of the new microwave data on the v = 0 and v = 1 vibrations of the X(2)Pi(3/2) state of AuO. The two observed bands in the spectrum, with red-degraded bandheads located at 10726 and 10665 cm(-1), have been reanalyzed. New theoretical work on AuO clarifies the electronic structure, and the bands in the infrared are now assigned as the (0,1) and (1,2) bands of the a(4)Sigma(-)(3/2) - X(2)Pi(3/2) transition, respectively.     

FT-IR and NMR investigation of 2-(1-cyclohexenyl)ethylamine: a combined experimental and theoretical study

FT-IR and (1)H, (13)C, DEPT, HETCOR, COSY, and NOESY NMR spectra of 2-(1-cyclohexenyl)ethylamine (CyHEA) have been reported for the first time. The vibrational frequencies and (1)H, (13)C NMR chemical shifts of CyHEA (C(8)H(15)N) have been calculated by means of the Hartree-Fock (HF), Becke-Lee-Yang-Parr (BLYP) and Becke-3-Lee-Yang-Parr (B3LYP) density functional methods with 6-31 G(d) and 6-31 G(d,p) basis sets, respectively. The comparison between the experimental and the theoretical results indicates that density functional B3LYP method is superior to the scaled HF and BLYP approach for vibrational frequencies and predicting NMR properties.     

Inhibition efficiency and adsorption mechanism of 4-aminobenzoic acid for copper corrosion in nitric acid medium: a combined experimental and theoretical investigation

Structural Chemistry - A combined experimental and theoretical study is presented to predict and analyze the inhibition efficiency and adsorption mechanism of 4-aminobenzoic acid molecule for...     

Chiral interactions in azobenzene dimers: a combined experimental and theoretical study

To investigate interchromophore interactions in azobenzene polymers, we have undertaken a thorough spectroscopic analysis of the azodye [(S)-3-pivaloyloxy-1-(4'-nitro-4-azobenzene)pyrrolidine] by modeling the repeating unit of poly[(S)-3-methacryloyloxy-1-(4'-nitro-4-azobenzene)pyrrolidine) and its dimeric derivative whose synthesis is presented here. The analysis of the electronic and Raman spectra of the azodye in several solvents is based on a previously proposed model for polar chromophores in solution. Electronic and CD spectra of the dimeric unit are collected and analyzed within the framework of a new model. On the basis of the information collected from the spectroscopic analysis of the solvated dye, this model accounts for interchromophore interactions in the dimer. The large CD signal measured for the dimer (amounting to about a third of the signal measured for the polymer) suggests the presence of important chiral interactions in the dimeric unit, and is modeled in terms of a right-handed relative orientation of the two chromophores.     

Diatropicity of 3,4,7,8,9,10,13,14-octadehydro[14]annulenes: a combined experimental and theoretical investigation

The synthesis and study of a series of octadehydro[14]annulenes is described. The aromaticity of these annulenes was investigated through examination of experimental data from arene-fused systems as well as calculated nucleus-independent chemical shifts (NICS) and bond lengths. Benzene ring fusion to the parent system results in a stepwise loss in aromaticity as the number of fused rings is increased from one to two to three. This decrease in annulenic ring current is manifested in the alkene proton chemical shifts (0-2 benzenes) as well as the NICS (0-3 benzenes). Comparison of isomeric thiophene-fused annulenes shows further evidence of ring current competition as these allow for observation of intermittent degrees of delocalization throughout the annulenic core. A consistent relationship between the magnitude of the NICS values and the degree of benzannelation is also observed.     

Revised structure of a purported 1,2-dioxin: a combined experimental and theoretical study

3,6-Bis(p-tolyl)-1,2-dioxin (1g) was suggested by Shine and Zhao as a product in an electron-transfer (ET) photochemical reaction. This photoproduct is instead shown to be (E)-1,4-di-p-tolylbut-2-ene-1,4-dione ((E)-4a). Ab initio and DFT calculations indicate that ring-closed 1,2-dioxin is thermodynamically far less stable than open-chain but-2-ene-1,3-dione. These calculations indicate that (E)-4a is formed via the cation radical of 1g, which sequentially isomerizes to a novel sigma-radical with an O,O 3e bond [(Z)-4a](+)(*), undergoes ET to give (Z)-4a, and then photoisomerizes to (E)-4a.     

Anion-binding properties of the tripyrrolemethane group: a combined experimental and theoretical study

Tripyrrolemethane- and bistripyrrolemethane-containing systems were recently reported to be efficient and selective hosts for anions. Nevertheless, the basic intrinsic properties of tripyrrolemethane as a ligand for anions have not yet been explored. Here we report the study of the anion-binding properties of the tripyrrolemethane group. We applied a combined experimental and theoretical approach to determine the affinity of the tripyrrolemethane system for different anions in the gas phase, in solution and in the crystalline state. In the crystal, the tripyrrolemethane group forms a number of different complexes with the bromide ion, some involving the participation of more than one ligand species. Despite the very similar basicity of fluoride and dihydrogen phosphate, the tripyrrolemethane ligand exhibits a clear preference for the fluoride anion in solution, which indicates an anion-binding system and not merely deprotonation. Although the affinity of the tripyrrolemethane ligand for other ions was negligible in solution, gas-phase studies show that complexation with larger halide ions is favoured over complexation with fluoride.     

The nature of unsupported uranium-ruthenium bonds: a combined experimental and theoretical study

Four new uranium-ruthenium complexes, [(Tren(TMS))URu(η(5)-C(5)H(5))(CO)(2)] (9), [(Tren(DMSB))URu(η(5)-C(5)H(5))(CO)(2)] (10), [(Ts(Tolyl))(THF)URu(η(5)-C(5)H(5))(CO)(2)] (11), and [(Ts(Xylyl))(THF)URu(η(5)-C(5)H(5))(CO)(2)] (12) [Tren(TMS)=N(CH(2)CH(2)NSiMe(3))(3); Tren(DMSB)=N(CH(2)CH(2)NSiMe(2)tBu)(3)]; Ts(Tolyl)=HC(SiMe(2)NC(6)H(4)-4-Me)(3); Ts(Xylyl)=HC(SiMe(2)NC(6)H(3)-3,5-Me(2))(3)], were prepared by a salt-elimination strategy. Structural, spectroscopic, and computational analyses of 9-12 shows: i) the formation of unsupported uranium-ruthenium bonds with no isocarbonyl linkages in the solid state; ii) ruthenium-carbonyl backbonding in the [Ru(η(5)-C(5)H(5))(CO)(2)](-) ions that is tempered by polarization of charge within the ruthenium fragments towards uranium; iii) closed-shell uranium-ruthenium interactions that can be classified as predominantly ionic with little covalent character. Comparison of the calculated U-Ru bond interaction energies (BIEs) of 9-12 with the BIE of [(η(5)-C(5)H(5))(3)URu(η(5)-C(5)H(5))(CO)(2)], for which an experimentally determined U-Ru bond disruption enthalpy (BDE) has been reported, suggests BDEs of approximately 150 kJ mol(-1) for 9-12.     

Competing isomerizations: a combined experimental/theoretical study of phenylpentenone isomerism

The possible competition of Z/E versus hydrogen-shift isomerization in (E)-5-phenyl-3-penten-2-one (E-1) and (E)-5-phenyl-4-penten-2-one (E-2) was studied, both experimentally and theoretically. Iodine-catalyzed isomerization experiments and computational modeling studies show that the equilibrated system consists predominantly of E-1 and E-2, with E-2 in moderate excess, and with no detectable amounts of the Z (cis) diastereoisomers. Density functional theory (DFT) calculations corroborated the free energy difference (Delta(r) and Delta(r) were -0.7 and -1.1 kcal mol(-1), respectively), and computations of Boltzmann-weighted (1)H NMR spectra were found to be useful in confirming the assignment of the isomers. The relevance of this equilibrium to earlier work on double-bond stabilization is discussed.     

FT-IR and FT-Raman vibrational spectra and molecular structure investigation of nicotinamide: A combined experimental and theoretical study

In this work, the experimental and theoretical spectra of nicotinamide (C₆H₆N₂O) are studied. FT-IR and FT-Raman spectra of title molecule in the liquid phase have been recorded in the region 4000–100 cm^?1. The structural and spectroscopic data of the molecule in the ground state have been calculated by using Hartree–Fock and density functional method (B3LYP) with the 6-31+G*(d, p) and 6-31++G* (d, p)basis set. The vibrational frequencies have been calculated and scaled values have been compared with the experimental FT-IR and FT-Raman spectra. The observed and calculated frequencies are found in good agreement. The DFT-B3LYP/6-31++G (d, p) calculations have been found are more reliable than the ab initio HF/6-31+G (d, p) calculations for the vibrational study of nicotinamide. The optimized geometric parameters (bond lengths and bond angles) are compared with experimental values of the molecule. The alteration of vibrational bands due to the substitutions in the base molecule is also investigated from their characteristic region of linked spectrum.