Trans‐2‐Aminocyclohexanol derivatives as pH‐triggered conformational switches

A series of trans‐2‐aminocyclohexanol derivatives have been explored as powerful conformational pH triggers. On protonation of the amino group, a conformer with equatorial position of ammonio and hydroxy groups becomes predominant because of an intramolecular hydrogen bond and electrostatic interactions. The energy of these interactions was estimated to be above 10 kJ/mol and in some models exceeded 20 kJ/mol (strong enough to twist a ring in tert‐butyl derivatives). As a result of this conformational flip, all other substituents are forced to change their orientation. If the substituents are designed to perform certain geometry‐dependent functions, for example, as cation chelators or as lipid tails, such acid‐induced transition may be used to control the corresponding molecular properties. The pH sensitivity of conformational equilibria was explored by ¹H nuclear magnetic resonance spectroscopy (NMR), and the titration curves were used for estimation of the pK_a values of protonated compounds that varied from 2.6 to 8.5 (in d₄‐methanol) depending on the structure of amino group. Thus, trans‐2‐aminocyclohexanols can be also used as conformational pH indicators in organic solvents.     

Spectrophotometric Study of Basicity of Some Substituted α-(Benzamtoomethyl)phenylhydrazines

The protonation behavior at 25°C in water and in aqueous sulfuric acid solutions of some substituted α-(p-R-benzamidomethyl)phenyl hydrazines (R=H, CH₃, Cl, Br) was investigated by UV spectrophotometry. The absorption spectra in sulfuric acid solutions were analyzed by the method of multivariate analysis. The premonition constants of hydrazine (pK₁) and amide (pK₂) moieties were determined; pK₂ values were calculated from the reconstituted absorption spectra by Cox - Yates method. Dependence of pK₂ on Hammett's a constants was discussed.     

1H NMR Studies on the Methylation,Protonation, and Hydration Sites in Some Benzo[b]Naphthyridines (Azaacridines)

Abstract

The 300.13 MHz ¹H NMR spectra of the methylated and protonated 6(9)-methylbenzo[b][1,x] naphthyridines (x=5, 6, 7, 8) (5-methylazaacridines) were collected at 298 K in deuterated dimethyl sulfoxide and chloroform, respectively. The methylation and protonation sites were assigned by comparisons of these data with those of the free bases. The results were compared with similar data for related heterocycles and showed that both methylation and protonation occur at the nitrogen in the outer pyrido ring in all four series.

The hydration site in some 2-and 3-azaacridines was determined by specific line broadening in their ¹H NMR spectra to be the same nitrogen as that involved in methylation and protonation. Variable temperature ¹H NMR demonstrated that the specific line broadening results from some changes of ¹⁴N quadrupolar relaxation produced by the slow chemical exchange between unhydrated and hydrated species. Deuterium exchange experiments indicated that the direct spin-spin interaction of a water proton and the protons alpha to the hydrated nitrogen may also have some contribution.     

Inter‐ and intramolecular hydrogen bonds in polyamines: variable‐concentration 1H‐NMR studies

Inter‐ and intramolecular hydrogen bonding play an important role in determining the arrangement, physical properties, and reactivity of a great diversity of structures in chemical and biological systems. Several aromatic nucleophilic substitutions (ANS) in nonpolar aprotic, (non‐HBD), solvents recently studied in our laboratory have demonstrated the importance of self‐association of amines by hydrogen‐bond interactions. In this paper, we describe ¹H‐NMR studies carried out at room temperature on bi‐ and polyfunctionalized amines, namely: N‐(3‐amino‐1‐propyl)morpholine (3‐APMo), histamine, 2‐guanidinobenzimidazole (2‐GB), 1,2‐diaminoethane (EDA), 3‐dimethylamino‐l‐propylamine (DMPA), and 1‐(2‐aminoethyl)piperidine (2‐AEPip). By ¹H‐NMR measurements of amine solutions at variable concentrations we have shown that 3‐APMo, histamine and 2‐GB are able to form a six‐membered ring by intramolecular hydrogen bonding, while EDA, DMPA, and 2‐AEPip form dimers by intermolecular hydrogen bonds. Likewise, variable concentration ¹H‐NMR studies allowed estimation of the corresponding equilibrium constants for the dimerization. These results are correlated with experimental kinetic results of ANS, confirming hereto the relevance of the “dimer mechanism” in reactions involving these amines. Copyright © 2011 John Wiley & Sons, Ltd.     

Proton transfer reactions of hydrazine‐boranes

Hydrazine‐borane and hydrazine‐diborane contain, respectively, 15.4 and 16.9 wt% of hydrogen and are potential materials for hydrogen storage. In this work we present the gas‐phase complexation energies, acidities, and basicities of hydrazine‐borane and hydrazine‐bisborane calculated at MP2/6‐311 + G(d,p) level. We also report the release of dihydrogen from both protonated complexes (ΔG_{hydrazine‐borane} = ?20.9 kcal/mol and ΔG_{hydrazine‐bisborane} = ?27.2 kcal/mol) which is much more exergonic than from analogues amine‐boranes. The addition of the first BH₃ to the hydrazine releases 17.1 kcal/mol, and the second addition releases 15.8 kcal/mol. The attachment of BH₃ also increases the N―H acidity of hydrazine by 46.3 kcal/mol. It was found that the B―H deprotonation leads to intramolecular rearrangement. The basicity values for hydrazine‐borane and ‐bisborane are 180 and 172.8 kcal/mol, respectively. For both complexes the protonation centres are located at the boron moiety. The protonated structure of hydrazine‐bisborane is cyclic and can be described as H₂ captured between a negatively charged B―H hydrogen and positive boron (B―H??H2??B). Atoms in molecules analysis are used to investigate bond paths in concerning structures. Copyright © 2015 John Wiley & Sons, Ltd.     

Spectral Studies On Some 2-Quinolones

Spectral properties of some 2-Quinolones were investigate-ed. IR and ¹H NMR were applied to characterize the ligands. The hydrogen bond property is of important parameter for controlling the behaviour of the compounds. The N[sbnd]H, O[sbnd]H, C[dbnd]O, C[sbnd]H, and C[sbnd]N fundamental functional groups are characterized. The electronic transitions are assigned. The data are explained on the basis of molecular structure and substituents effects. The acid-base equilibria and the phenomena of tautomerism for these compounds are explained and discussed. The acid exponents (pK_OH, and pK_NH) are evaluated.     

A 15N NMR Study of Protonation and Deprotonation of 4,5-Dicyanoimidazole and Its 2-Amino Analogue

Protonation and deprotonation of the title compounds, was studied by means of ¹⁵N NMR. The shieldings of the ring nitrogen atoms are found to be very sensitive to changes in the amount of protonation. In contrast the ¹⁵N shieldings of the cyano and amino groups are found to be relatively insensitive to protonation effects and are unsuitable for estimating the degree of protonation occurring.     

Unusual conformational preferences of 1,3‐dimethyl‐3‐isopropoxy‐3‐silapiperidine

The conformational analysis of the first representative of the Si‐alkoxy substituted six‐membered Si,N‐heterocycles, 1,3‐dimethyl‐3‐isopropoxy‐3‐silapiperidine, was performed by low‐temperature ¹H and ¹³C NMR spectroscopy and DFT theoretical calculations. In contrast to the expectations from the conformational energies of methyl and alkoxy substituents, the Me_axi‐PrO_eq conformer was found to predominate in the conformational equilibrium in the ratio Me_axi‐PrO_eq : Me_eqi‐PrO_ax of ca. 2 : 1 as from the ¹H and ¹³C NMR study. The thermodynamic parameters obtained by the complete line shape analysis showed that the main contribution to the barrier to ring inversion originates from the entropy term of the free energy of activation. Copyright © 2012 John Wiley & Sons, Ltd.     

Natural Abundance Nitrogen - 15 Nuclear Magnetic Resonance Studies of Some Twin - Site Donors

The natural abundance ¹⁵N-NMR chemical shifts of 1, 10-phenanthroline, pyridazine and 7-azaindole have been measured as a function of the nature of the solvent. Hydrogen bonding and protonation result in upfield shift of both the pyridine type nitrogens in 1, 10-phenanthroline and pyridazine where as in 7-azaindole, the effect is larger at the pyridine ring nitrogen. The chemical shifts due to protonation far exceeded those from hydrogen bonding. In addition to identifying the site of donation, the ¹⁵N-NMR data establishes the mechanism of charge transfer and hydrogen bonded complex formation.     

NMR studies on hydrogen bonding and proton transfer in Mannich bases

A review of studies on the ortho Mannich bases containing various substituents in the phenyl ring on the basis of¹H,¹³C and¹⁵N nuclear magnetic resonance (NMR) spectra in various solvents over the temperature range 110–298 K is presented. Some new results are also included. The data gathered so far show that there is some critical (inversion) range of ΔpK _a (= pK _a(NH⁺) − pK _a(OH)) in which the proton transfer equilibrium appears. This inversion range is well reflected in the behaviour of secondary deuterium isotope effect in¹³C NMR spectra. A strong temperature effect on the strength of hydrogen bonding should be emphasized. The¹H chemical shift for trichloroderivative increases from 13.5 at room temperature up to 17 ppm at 130 K when the proton is equally shared between the bridging atoms (¹ J(¹H,¹⁵N) = 30–40 Hz). The potential for the proton motion in such bridges is discussed taking into account the behaviour in the ultraviolet and infrared spectra. The role of dimerization in proton transfer equilibria is shown. In addition the rotation of OH groups involved in hydrogen bond formation and nitrogen pyramidal inversion was studied by the¹H dynamical NMR spectra.     

1H, 13C and 15N NMR Studies of Protonation in Imidazo[1,2-α]Pyrimidine and Derivatives

We have studied1 the protonation behaviour of several cardiotonic polyazaheterocycles and recently shown that the 2-arylimidazo[l,2-a]pyrimidine (3a) undergoes protonation at the imidazo nitrogen (Nl). These investigations have utilised the shielding of acarbon nuclei and increases in ¹³C-¹H or ¹H-¹H couplings that occur on protonation of a heterocyclic nitrogen. We now report unequivocal protonation studies of the parent heterocycle, imidazo[1,2-a]pyrimidine (l), and its 2-aryl derivative (3b) which have allowed the effect of 2-aryl substitution on protonation to be determined. ¹⁵N NMR spectroscopy was employed to determine the protonation site of (1) in a titration study with H2SO4. In addition the N-methyl quaternary salts (21, (4) and (5) were prepared and ¹⁵N, ¹³C and ¹H chemical shifts measured so as to provide unambiguous substituent effects uncomplicated by possible proton transfers.     

13C and 15N spectral editing inside histidine imidazole ring through solid-state NMR spectroscopy

Histidine usually exists in three different forms (including biprotonated species, neutral τ and π tautomers) at physiological pH in biological systems. The different protonation and tautomerization states of histidine can be characteristically determined by ¹³C and ¹⁵N chemical shifts of imidazole ring. In this work, solid-state NMR techniques were developed for spectral editing of ¹³C and ¹⁵N sites in histidine imidazole ring, which provides a benchmark to distinguish the existing forms of histidine. The selections of ¹³C_γ, ¹³C_δ2, ¹⁵N_δ1, and ¹⁵N_ε2 sites were successfully achieved based on one-bond homo- and hetero-nuclear dipole interactions. Moreover, it was demonstrated that ¹H, ¹³C, and ¹⁵ chemical shifts were roughly linearly correlated with the corresponding atomic charge in histidine imidazole ring by theoretical calculations. Accordingly, the ¹H, ¹³C and ¹⁵N chemical shifts variation in different protonation and tautomerization states could be ascribed to the atomic charge change due to proton transfer in biological process.     

Matrix Isolation Infrared Spectroscopic and Density Functional Theory Study of the 1:1 Complex of Bromocyclohexane with NH3: Evidence for a Weak C–H–N Hydrogen Bond

ABSTRACT

The hydrogen-bonded bromocyclohexane–ammonia complex has been isolated and characterized for the first time in argon matrices at 16 K. Coordination of the proton adjacent to the Br substituent on the cyclohexane ring to the amino nitrogen was evidenced by distinct blue shifts of bending modes involving the H-C₁–Br unit. In particular, C–C₁–Br, H–C₁–Br, and C–C₁–H bending modes produced blue shifts ranging from 2.8 to 12.2 cm^?1. Density Functional Theory (DFT) calculations at the B3LYP/6–31 + G(d, p) level yield an essentially linear Br–C₁–H–NH₃ hydrogen bond with a C-H–N distance of 2.412 Å and a hydrogen bond energy of 2.95 kcal/mol.     

An easily Prepared Fluorescent pH Probe Based on Dansyl

A novel fluorescent pH probe from dansyl chloride and thiosemicarbazide was easily prepared and fully characterized by ¹H NMR, ¹³C NMR, LC-MS, Infrared spectra and elemental analysis. The probe exhibited high selectivity and sensitivity to H⁺ with a pK _a value of 4.98. The fluorescence intensity at 510 nm quenched 99.5 % when the pH dropped from 10.88 to 1.98. In addition, the dansyl-based probe could respond quickly and reversibly to the pH variation and various common metal ions showed negligible interference. The recognition could be ascribed to the intramolecular charge transfer caused by the protonation of the nitrogen in the dimethylamino group.     

Organophosphorous ligands in hydrogenase‐inspired iron‐based catalysts: A DFT study on the energetics of metal protonation as a function of P‐atom substitution

The present paper reports a study on the energetics of protonation of a hydrogenase biomimetic complex, [Fe₂(μ‐adt)(CO)₄(PMe₃)₂] (adt = N‐benzylazadithiolate), and of its homologue featuring triphenylphosphine ligands in place of trimethylphosphines. Formation of a terminal hydride on one of the Fe centres was considered first, given the key relevance of terminal hydride species in the enzymatic mechanism. Theoretical calculations highlight that, in a vacuum, terminal protonation of the selected Fe ion in the PPh₃‐bearing organometallic complex is highly favoured when compared to the analogous reaction involving the PMe₃‐containing species, but the trend is inverted in the case of models optimized in a continuum polarizable. An unexpected parallel is thus established between relative basicities of PPh₃ and PMe₃ in vacuum or in solution phase [C. A. Tolman, J. Am. Chem. Soc. 1970 , 92, 2953; G. M. Bancroft, Inorg. Chem. 1986 , 25, 3675], and the energetics of terminal hydride formation upon protonation of [FeFe]‐hydrogenase biomimetic complexes bearing such organophosphorous ligands. Bridging hydride formation was also considered in the present study: calculations showed that protonation of the PMe₃‐bearing organometallic complex is again strongly favoured in vacuo, as compared to the case of the PPh₃‐containing model. However, protonation energies become significantly smaller when solvent effects are taken into account. Such differences between protonation reactions modelled in vacuo and in the polarizable continuum are rationalized in light of the different electrostatic properties of the diiron complexes here considered. Implications for the design and modelling of biomimetic catalysts are briefly discussed in light of recent literature.     

The effect of donor self-association on EPR studies of transient complex formation between nitroxide radicals and solvent molecules

Nitroxide radical-hydrogen donor systems in which the donor can self-associate are examined by EPR techniques. Data for CH₃OH and CH₃COOH and the nitroxide radical TMPO are first fitted by using methods developed for transient complex formation between hydrogen donors and nitroxides. TheK _assoc and hyperfine coupling constants obtained are inconsistent with previous correlations with thepK _a of the hydrogen donor. An alternative method of analysis that incorporates donor self-association is developed and applied to the systems studied.     

The Use of Protonation Induced Changes in Carbon-13 NMR Chemical Shifts to Investigate the Solution Microscopic Structure of Partially Protonated Polybasic Molecules

Abstract

Changes in the NMR chemical shift of carbon-13 nuclei upon protonation of a nearby basic center are shown to be a useful method of probing the microscopic site of protonation of molecules containing multiple basic centers, such as diethylenetriaminepenta-acetic acid (DTPA). This approach is also shown to support the predominance of the pyridine amine protonated tautomer in the 4-pyridone ? 4-hydroxypyridine equilibrium.     

Conformational Analysis of (S)-4,5,6,7-Tetrahydro-5-Methylimidazo [4,5,1-jk][1,4]-Benzodiazepin-2(1H)-one (R78362)

The solution and solid state conformation of (S)-4,5,6,7-tetrahydro-5-methylimidazo [4,5,1-jk][1,4]-benzodiazepin-2(1H)-one (R78362) have been investigated by low temperature NMR and x-ray diffraction studies. The ¹H NMR spectrum of R78362 shows no evidence of the presence of multiple conformers in the temperature range 340K - 177K. Molecular mechanisms and semiempirical molecular orbital calculations suggest that the nitrogen and ring inversion barriers of R78362 are small and thus a time-averaged ¹H NMR spectrum is probably occurring at 298K. The x-ray diffraction data indicated that there were two independent molecules in the asymmetric unit of the crystal. The two molecules had similar conformations with the benzoimidazole ring being planar and the diazepine ring in a “half-chair” conformation.     

Theoretical and Experimental Study of the Conformation and Vibrational Frequencies of N‐Acetyl‐L‐alanine and N‐Acetyl‐L‐alaninate

The vibrational frequencies of N‐acetyl‐L‐alanine (NAAL), its potassium salt (NAALK) and its free anionic form (NAAL^?) are calculated using density functional theory (B3LYP) combined with the 6‐311 + + G(d,p) basis set. The experimental Raman spectrum of solid NAALK and the scaling factors for calculated values are discussed as well. The three species are characterized by intramolecular NH…O hydrogen bonds leading to the formation of a five‐membered ring. As indicated by the intramolecular (N)H…O distances and by the ν(NH) frequencies, the strength of the intramolecular hydrogen bond is ordered as follows: NAAL^? < NAALK < NAAL^?. Owing to their difference in the coupling with other vibrational modes, the in‐plane and out‐of‐plane vibrations do not reflect the strength of the hydrogen bond.     

Hydrogen‐bonded nucleophile effects in ANS: the reactions of 1‐chloro and 1‐fluoro‐2,4‐dinitrobenzene with 2‐guanidinobenzimidazole, 1‐(2‐aminoethyl)piperidine and N‐(3‐aminopropyl)morpholine in aprotic solvents

The kinetics of the reactions of 2,4‐dinitrofluorobenzene (DNFB) and 2,4‐dinitrochlorobenzene (DNClB) with 2‐guanidinobenzimidazole (2‐GB) at 40 ± 0.2 °C in dimethylsulphoxide (DMSO), toluene, and in toluene–DMSO mixtures, and with 1‐(2‐aminoethyl)piperidine (2‐AEPip) and N‐(3‐aminopropyl)morpholine (3‐APMo) in toluene at 25 ± 0.2 °C were studied under pseudo first‐order conditions. For the reactions of 2‐GB carried out in pure DMSO, the second‐order rate coefficients were independent of the amine concentration. In contrast, the reactions of 2‐GB with DNFB in toluene, showed a kinetic behaviour consistent with a base‐catalysed decomposition of the zwitterionic intermediate. These results suggest an intramolecular H‐bonding of 2‐GB in toluene, which is not present in DMSO. To confirm this interpretation the reactions were studied in DMSO–toluene mixtures. Small amounts of DMSO produce significant increase in rate that is not expected on the basis of the classical effect of a dipolar aprotic medium; the effect is consistent with the formation of a nucleophile/co‐solvent mixed aggregate. For the reactions of 3‐APMo with both substrates in toluene, the second‐order rate coefficients, k_A, show a linear dependence on the [amine]. 3‐APMo is able to form a six‐membered ring by an intramolecular H‐bond which prevents the formation of self‐aggregates. In contrast, a third order was observed in the reactions with 2‐AEPip: these results can be interpreted as a H‐bonded homo‐aggregate of the amine acting as a better nucleophile than the monomer. Most of these results can be well explained within the frame of the ‘dimer nucleophile’ mechanism. Copyright © 2010 John Wiley & Sons, Ltd.