Hydrogen bonding of aliphatic and aromatic amines in aqueous solution: thermochemistry of solvation

Thermochemistry of hydration of the aliphatic and aromatic amines was studied. Enthalpies of solution at infinite dilution of amines in water were measured using the method of solution calorimetry. A procedure of taking into account the ionization and non-specific hydration of amines in aqueous media was carried out. A method for estimating the enthalpy of hydrogen bonding of amines in aqueous solutions was suggested on the basis of a comparative analysis of the solvation enthalpies of the solutes in water and methanol. The efficiency of this method is confirmed by evaluating the hydrophobic effect enthalpy.     

Migration of methyl groups between aliphatic amines in water

Glycine undergoes spontaneous decarboxylation in dilute aqueous solution at elevated temperatures to form methylamine. During that process, we noticed the appearance of dimethylamine and trimethylamine in smaller amounts that increased gradually with time. These observations suggested the existence of disproportionation reactions of methylamines in water, for which there appears to be no direct precedent in the literature. Every member of the methylamine series is found to yield other members of the methylamine series. When the total concentration of amine was held constant and the rate of reaction was examined as a function of changing pH using the amine itself as the buffer, the initial rate of appearance of the products was found to reach a maximum when the conjugate acid and the conjugate base were present at equivalent concentrations. Near this equivalence point, the rate of reaction varied with pH as expected for a second-order reaction between the protonated and the unprotonated species. Under similar conditions, methyl groups were also found to migrate between the nitrogen atoms of N,N-dimethyl-1,3-propanediamine in a first-order process. With dimethylamine as a common acceptor, trimethylsulfonium ion was found to be approximately 104-fold more reactive than the tetramethylammonium ion at ambient temperature.     

Gas-phase structure of protonated histidine and histidine methyl ester: combined experimental mass spectrometry and theoretical ab initio study

Gas-phase H/D exchange experiments with CD3OD and D2O and quantum chemical ab initio G3(MP2) calculations were carried out on protonated histidine and protonated histidine methyl ester in order to elucidate their bonding and structure. The H/D exchange experiments show that both ions have three equivalent fast hydrogens and one appreciably slower exchangeable hydrogen assigned to the protonated amino group participating in a strong intramolecular hydrogen bond (IHB) with the nearest N(sp2) nitrogen of the imidazole fragment and to the distal ring NH-group, respectively. It is taken for granted that the proton exchange in the IHB is much faster than the H/D exchange. Unlike in other protonated amino acids (glycine, proline, phenylalanine, tyrosine, and tryptophan) studied earlier, the exchange rate of the carboxyl group in protonated histidine is slower than that of the amino group. The most stable conformers and the enthalpies of neutral and protonated histidine and its methyl ester are calculated at the G3(MP2) level of theory. It is shown that strong intramolecular hydrogen bonding between the amino group and the imidazole ring nitrogen sites is responsible for the stability and specific properties of the protonated histidine. It is found that the proton fluctuates between the amino and imidazole groups in the protonated form across an almost vanishing barrier. Proton affinity (PA) of histidine calculated by the G3(MP2) method is 233.2 and 232.4 kcal mol(-1) for protonation at the imidazole ring and at the amino group nitrogens, respectively, which is about 3-5 kcal mol(-1) lower than the reported experimental value.     

Gas-phase dissociation reactions of protonated saxitoxin and neosaxitoxin

The aim of this study was to investigate the behavior of the protonated paralytic shellfish poisons saxitoxin (STX) and neosaxitoxin (NEO) in the gas-phase after ion activation using different tandem mass spectrometry techniques. STX and NEO belong to a group of neurotoxins produced by several strains of marine dinoflagellates. Their chemical structures are based on a tetrahydropurine skeleton to which a 5-membered ring is fused. STX and NEO only vary in their substituent at N-1, with STX carrying hydrogen and NEO having a hydroxyl group at this position. The collision-induced dissociation (CID) spectra exhibited an unusually rich variety and abundance of species due to the large number of functional groups within the small skeletal structures. Starting with triple-quadrupole CID spectra as templates, linked ion-trap MSn data were added to provide tentative dissociation schemes. Subsequent high-resolution FTICR experiments gave exact mass data for product ions formed via infrared multiphoton dissociation (IRMPD) from which elemental formulas were derived. Calculations of proton affinities of STX and NEO suggested that protonation took place at the guanidinium group in the pyrimidine ring for both molecules. Most of the observed parallel and consecutive fragmentations could be rationalized through neutral losses of H2O, NH3, CO, CO2, CH2O and different isocyanate, ketenimine and diimine species, many of which were similar for STX and NEO. Several exceptions, however, were noted and differences could be readily correlated with reactions involving NEO's additional hydroxyl group. A few interesting variations between CID and IRMPD spectra are also highlighted in this paper.     

Gas-phase tautomers of protonated 1-methylcytosine. Preparation, energetics, and dissociation mechanisms

Tautomers of 1-methylcytosine that are protonated at N-3 (1+) and C-5 (2+) have been specifically synthesized in the gas phase and characterized by tandem mass spectrometry and quantum chemical calculations. Ion 1+ is the most stable tautomer in aqueous and methanol solution and is likely to be formed by electrospray ionization of 1-methylcytosine and transferred in the gas phase. Gas-phase protonation of 1-methylcytosine produces a mixture of 1+ and the O-2-protonated tautomer (3+), which are nearly isoenergetic. Dissociative ionization of 6-ethyl-5,6-dihydro-1-methylcytosine selectively forms isomer 2+. Upon collisional activation, ions 1+ and 3+ dissociate by loss of ammonia and [C,H,N,O], whose mechanisms have been established by deuterium labeling and ab initio calculations. The main dissociations of 2+ following collisional activation are losses of CH2=C=NH and HN=C=O. The mechanisms of these dissociations have been elucidated by deuterium labeling and theoretical calculations.     

Polymerization of methyl methacrylate by charge-transfer mechanism with aliphatic primary amines and carbon tetrachloride

Polymerization of methyl methacrylate (MMA) with aliphatic primary amines and carbon tetrachloride has been investigated in th dimethylsulfoxide medium by employing a dilatometric technique at 60°C. The rate of polymerization (R_p) has been evaluated under the conditions, [CCl₄]/[amine] < 1 and > 1. The kinetic data indicate possible participation of the charge transfer complexes formed between the amine + CCl₄ and the amine + MMA in the polymerization of MMA. In the absence of CCl₄ or amine, no polymerization of MMA was observed under the present experimental conditions. The polymerization of MMA was inhibited by hydroquinone, indicating a free radical initiation. The energy of activation varied from 32 to 58 kJ mol^?1.     

Gas-phase ion/ion reactions of multiply protonated polypeptides with metal containing anions

Gas-phase reactions of multiply protonated polypeptides and metal containing anions represent a new methodology for manipulating the cationizing agent composition of polypeptides. This approach affords greater flexibility in forming metal containing ions than commonly used methods, such as electrospray ionization of a metal salt/peptide mixture and matrix-assisted laser desorption. Here, the effects of properties of the polypeptide and anionic reactant on the nature of the reaction products are investigated. For a given metal, the identity of the ligand in the metal containing anion is the dominant factor in determining product distributions. For a given polypeptide ion, the difference between the metal ion affinity and the proton affinity of the negatively charged ligand in the anionic reactant is of predictive value in anticipating the relative contributions of proton transfer and metal ion transfer. Furthermore, the binding strength of the ligand anion to charge sites in the polypeptide correlates with the extent of observed cluster ion formation. Polypeptide composition, sequence, and charge state can also play a notable role in determining the distribution of products. In addition to their usefulness in gas-phase ion synthesis strategies, the reactions of protonated polypeptides and metal containing anions represent an example of a gas-phase ion/ion reaction that is sensitive to polypeptide structure. These observations are noteworthy in that they allude to the possibility of obtaining information, without requiring fragmentation of the peptide backbone, about ion structure as well as the relative ion affinities associated with the reactants.     

Vibrational analysis of n-butyl, n-pentyl,and n-hexyl fluorides

Infrared spectra were obtained for n-butyl, n-pentyl, and n-hexyl fluorides in the liquid and solid states, and liquid-state Raman spectra were obtained for the first two of these. Normal coordinate calculations were carried out and twenty force constants of the C-CH₂F group were refined to provide the best fit for the 114 assigned frequencies of trans-n-propyl, gauche-n-propyl, TT-n-butyl, and TG-n-butyl fluorides. The resulting force constants were used to calculate the frequencies of the GT- and GG conformations of n-butyl fluoride and the two conformations for each of n-pentyl and n-hexyl fluoride that have coplanar carbon chains. The presence of all four conformers of n-butyl fluoride in the liquid state is indicated, but only the TG-conformer is present in the solid. The existence of the two conformations of n-pentyl and n-hexyl fluorides for which calculations were made is supported by comparison of the observed and calculated frequencies. Additional conformations seem to be present. The simplest solid-state spectrum is due only to the conformer that has a coplanar chain of carbons and the fluorine atom in the gauche position. Previous tentative conclusions about the relation between C-F stretching frequency and configuration have been revised.     

Highly substituted cyclohexanes: strong proximity effects influence synthetic access to 1,3,5-tris(bromomethyl)-1,3,5-trialkylcyclohexanes (alkyl = methyl, n-propyl)

1,3,5-Tris(bromomethyl)-1,3,5-trialkylcyclohexanes (alkyl = methyl, n-propyl) were prepared. These are the first examples of 1,3,5-tris(halomethyl)-1,3,5-trialkylcyclohexanes. One synthetic method directly converted the corresponding triols with PPh₃Br₂, where an excess of the bromination reagent and high temperature (175 °C) were required. Stoichiometric use of PPh₃Br₂ under mild conditions, successfully employed for the synthesis of the parent tris(bromomethyl)cyclohexane, did not lead to the desired tribromides but rather to cyclic ethers. Proximity effects triggered by the 1,3,5-alkyl groups strongly influence the reactivity of such highly substituted cyclohexanes. An alternative synthetic access to the tris(bromomethyl) compounds was also developed, using 1,3,5-tris(triflatomethyl)-1,3,5-trialkylcyclohexanes (triflato = F₃CSO₃) as synthetic intermediates. An X-ray crystal structure of 1,3,5-tris(bromomethyl)-1,3,5-trimethylcyclohexane was obtained.     

Ab initio calculations and molecular mechanics (MM3) force field development for ammonium and protonated aliphatic amines

The geometries and vibrational frequencies of 11 training molecules containing the ammonium ion moiety were calculated at the MP2/6-31+G* level of theory. Various torsional energy profiles were also calculated using this basis set. From those ab initio calculations, a molecular mechanics (MM3) force field was developed using our Parameter Analysis and Refinement Toolkit System (PARTS). Using this set of parameters, the MM3 force field was found to well reproduce the molecular geometries and vibrational spectra for the all training molecules. CPU time was reduced from days to seconds. The availability of this new force field dramatically increases the feasibility of the computer-assisted drug design involving ammonium and protonated amino groups. © 1997 by John Wiley & Sons, Inc. J Comput Chem 18 : 1371–1391, 1997     

Gas-phase kinetics and mechanism of the reactions of protonated hydrazine with carbonyl compounds. Gas-phase hydrazone formation: kinetics and mechanism

The gas-phase reactions of protonated hydrazine (hydrazinium) with organic compounds were studied in a selected ion flow tube-chemical ionization mass spectrometer (SIFT-CIMS) at 0.5 Torr pressure and approximately 300 K and with hybrid density functional calculations. Carbonyl and other polar organic compounds react to form adducts, e.g., N(2)H(5)(+)(CH(3)CH(2)CHO). In the presence of neutral hydrazine, aldehyde adducts react further to form protonated hydrazones, e.g., CH(3)CH(2)CH[double bond]HNNH(2)(+) from propanal. Using deuterated hydrazine (N(2)D(4)) and butanal, we demonstrate that the gas-phase ion chemistry of hydrazinium and carbonyls operates by the same mechanisms postulated for the reactions in solution. Calculations provide insight into specific steps and transition states in the reaction mechanism and aid in understanding the likely reaction process upon chemical or translational activation. For most carbonyls, rate coefficients for adduct formation approach the predicted maximum collisional rate coefficients, k approximately 10(-9) cm(3) molecule(-1) s(-1). Formaldehyde is an exception (k approximately 2 x 10(-11) cm(3) molecule(-1) s(-1)) due to the shorter lifetime of its collision complex. Following adduct formation, the process of hydrazone formation may be rate limiting at thermal energies. The combination of fast reaction rates and unique chemistry shows that protonated hydrazine can serve as a useful chemical-ionization reagent for quantifying atmospheric carbonyl compounds via CIMS. Mechanistic studies provide information that will aid in optimizing reaction conditions for this application.     

Controlled synthesis of poly(methyl methacrylate) catalyzed by 17-electron closo-ruthenacarboranes and aliphatic amines

The radical polymerization of methyl methacrylate catalyzed by systems based on paramagnetic closo-ruthenacarboranes with diphosphine ligands is studied. Effects of the structure of metallocomplex catalysts on the rate of polymerization and the molecular-mass characteristics of the polymers are investigated. It is shown that the addition of amines to the reaction solution makes it possible to reduce the concentration of metallacarborane catalysts to hundredths of a percent, while control over the polymerization process remains at a high level.     

Simultaneous spectrophotometric analysis of aliphatic amines utilizing thermochromism of charge-transfer complexes with tetrabromophenolphthalein ethyl ester.

Aliphatic amines, such as n-hexylamine (primary), di-n-hexylamine (secondary) and tri-n-hexylamine (tertiary amine), react with tetrabromophenolphthalein ethyl ester molecules (TBPEH) to form reddish or red-violet charge-transfer complexes (CT complexes) in 1,2-dichloroethane (DCE). The absorption maxima of the CT complexes with all primary amines occur at around 560 nm, with secondary amines at 570 nm and, with tertiary amines at 580 nm. The CT complex formation constants with TBPEH in DCE increase in the order of the primary, secondary and tertiary amines, but their constants decrease quantitatively with an increase in temperature. This phenomenon (thermochromism) could be applied to the simultaneous spectrophotometric determination of primary amine and secondary amine, or secondary amine and tertiary amine in a mixed solution utilizing the difference of absorbance with temperature changes.     

N-Dealkylation of aliphatic amines and selective synthesis of monoalkylated aryl amines

Highly selective alkyl transfer processes of mono-, di- and trialkyl amines in the presence of the Shvo catalyst have been realized; in addition, a general method for N-alkylation of aniline with di- and trialkyl amines is presented.     

Gas-phase chemistry of ionized and protonated GeF4: a joint experimental and theoretical study

The gas-phase ion chemistry of GeF(4) and of its mixtures with water, ammonia and hydrocarbons was investigated by ion trap mass spectrometry (ITMS) and ab initio calculations. Under ITMS conditions, the only fragment detected from ionized GeF(4) is GeF(3)(+). This cation is a strong Lewis acid, able to react with H(2)O, NH(3) and the unsaturated C(2)H(2), C(2)H(4) and C(6)H(6) by addition-HF elimination reactions to form F(2)Ge(XH)(+), FGe(XH)(2)(+), Ge(XH)(3)(+) (X = OH or NH(2)), F(2)GeC(2)H(+), F(2)GeC(2)H(3)(+) and F(2)GeC(6)H(5)(+). The structure, stability and thermochemistry of these products and the mechanistic aspects of the exemplary reactions of GeF(3)(+) with H(2)O, NH(3) and C(6)H(6) were investigated by MP2 and coupled cluster calculations. The experimental proton affinity (PA) and gas basicity (GB) of GeF(4) were estimated as 121.5 ± 6.0 and 117.1 ± 6.0 kcal mol(-1), respectively, and GeF(4)H(+) was theoretically characterized as an ion-dipole complex between GeF(3)(+) and HF. Consistently, it reacts with simple inorganic and organic molecules to form GeF(3)(+)-L complexes (L = H(2)O, NH(3), C(2)H(2), C(2)H(4), C(6)H(6), CO(2), SO(2) and GeF(4)). The theoretical investigation of the stability of these ions with respect to GeF(3)(+) and L disclosed nearly linear correlations between their dissociation enthalpies and free energies and the PA and GB of L. Comparing the behavior of GeF(3)(+) with the previously investigated CF(3)(+) and SiF(3)(+) revealed a periodically reversed order of reactivity CF(3)(+) < GeF(3)(+) < SiF(3)(+). This parallels the order of the Lewis acidities of the three cations.     

CuBr/rac-BINOL-catalyzed N-arylations of aliphatic amines at room temperature

We have developed an efficient and readily available catalyst system CuBr/racemic BINOL (1,1'-binaphthyl-2,2'-diol) that catalyzes N-arylation of aliphatic amines at room temperature, and this inexpensive catalyst system is of high selectivity and tolerance toward various functional groups in the substrates.     

Synthesis of n-chloroquinolines and n-ethynylquinolines (n=2, 4, 8): homo and heterocoupling reactions

The n-(ethynyl)quinolines were satisfactorily prepared by heterocoupling reaction between the appropriate n-chloroquinoline and 2-methyl-3-butyn-2-ol, catalyzed by palladium, followed by treatment with a catalytic amount of powdered sodium hydroxide in toluene. The n-(ethynyl)quinolines were transformed in the corresponding conjugate 1,4-bis[n′-(quinolyl)]buta-1,3-diynes by oxidative dimerization, catalyzed by cuprous chloride, with excellent yields. Moreover, the heterocoupling between n′-haloquinoline and n′-(ethynyl)quinoline (n′, 2′ or 3′), catalyzed by palladium, gives 2′,2′-bis(quinoline) or 1,2-di(3′-quinolyl)ethyne, respectively. The same coupling reaction with zerovalent nickel complexes, gives a mixture of 1,2,4- and 1,3,5-tri(n′-quinolyl)benzene.     

Lipophilicity in PK design: methyl, ethyl, futile

Lipophilicity, often expressed as distribution coefficients (log D) in octanol/water, is an important physicochemical parameter influencing processes such as oral absorption, brain uptake and various pharmacokinetic (PK) properties. Increasing log D values increases oral absorption, plasma protein binding and volume of distribution. However, more lipophilic compounds also become more vulnerable to P450 metabolism, leading to higher clearance. Molecular size and hydrogen bonding capacity are two other properties often considered as important for membrane permeation and pharmacokinetics. Interrelationships among these physicochemical properties are discussed. Increasing size (molecular weight) often gives higher potency, but inevitably also leads to either higher lipophilicity, and hence poorer dissolution/solubility, or to more hydrogen bonding capacity, which limits oral absorption. Differences in optimal properties between gastrointestinal absorption and uptake into the brain are addressed. Special attention is given to the desired lipophilicity of CNS drugs. In examples using -blockers, Ca channel antagonists and peptidic renin inhibitors we will demonstrate how potency and pharmacokinetic properties need to be balanced.