DFT studies of the structure, vibrational and NMR spectra of 2-amino-pyridine betaine monohydrate

Four of the most stable conformers of 2-amino-pyridine betaine (1-carboxymethyl-2-amino-pyridinium inner salt) monohydrates, 2-NH₂PB·H₂O, and one anhydrous were analyzed by the B3LYP/6-31G(d,p) calculations and compared with the X-ray data. Two types of optimized conformers can be distinguished: (a) with NH₂ and COO groups and (b) an imino tautomer with NH and COOH groups. A common feature of the optimized molecules are intramolecular hydrogen bonds between the COO⁻ and H₂N or COOH and HN groups. In the crystal both NH₂ and COO groups participate in intermolecular hydrogen bonds. The probable assignments of the anharmonic experimental solid state vibrational frequencies of 2-NH₂PB·H₂O and 2-ND₂PB·D₂O (conformer 2) based on the calculated B3LYP/6-31G(d,p) harmonic frequencies have been made. Correlations between experimental chemical shifts for 2-NH₂PB, its hydrochloride and 1-carboxyethyl-2-amino-pyridinium inner salt (¹³C and ¹H in D₂O) and GIAO/B3LYP/6-31G(d,p) calculated isotropic shielding constants, δ_exp=a+bσ_calc, are reported. Good linear regression between experimental and theoretical results for ¹³C was obtained. Only in 2-NH₂PB the hydrogen at -position is outside the linear correlation.     

Dissecting Noncovalent Interactions in Carboxyl-Functionalized Ionic Liquids Exhibiting Double and Single Hydrogens Bonds Between Ions of Like Charge

We show that the carboxyl-functionalized ionic liquid 1-(carboxymethyl)pyridinium bis(trifluoromethylsulfonyl)imide [HOOC-CH₂-py][NTf₂] exhibits three types of hydrogen bonding: the expected single hydrogen bonds between cation and anion, and, surprisingly, single and double hydrogen bonds between the cations, despite the repulsive Coulomb forces between the ions of like charge. Combining X-ray crystallography, differential scanning calorimetry, IR spectroscopy, thermodynamic methods and DFT calculations allows the analysis and characterization of all types of hydrogen bonding present in the solid, liquid and gaseous states of the ionic liquid (IL). We find doubly hydrogen bonded cationic dimers (c⁺=c⁺) in the crystalline phase. With increasing temperature, this binding motif opens in the liquid and is replaced by (c⁺−c⁺−a⁻ species, with a remaining single cationic hydrogen bond and an additional hydrogen bond between cation and anion. We provide clear evidence that the IL evaporates as hydrogen-bonded ion pairs (c⁺−a⁻) into the gas phase. The measured transition enthalpies allow the noncovalent interactions to be dissected and the hydrogen bond strength between ions of like charge to be determined.     

Structure of the complex of dimethylphenyl betaine with dichloroacetic acid studied by X-ray diffraction,DFT calculations,infrared and Raman spectra

The structure of the complex of dimethylphenyl betaine (DMPB) with dichloroacetic acid (DCA) (1) has been investigated by X-ray diffraction, FTIR and Raman spectroscopy, and B3LYP/6-311 + + G(d,p) calculations. The crystal is monoclinic, space group P2₁. The acid is connected with betaine through the OH⋯O hydrogen bond of 2.480(2) Å. In the optimized structure the short, asymmetric O⋯O distance is 2.491 Å. FTIR spectrum shows a broad absorption in the 1500–400 cm⁻¹ region characteristic of very short OH⋯O hydrogen bond caused by Fermi resonance between νOH and overtones of δOH and γOH. In the Raman spectrum this broad absorption is not observed. The potential energy distributions (PED) were used for the assignments of IR and Raman frequencies in the experimental and calculated spectra. The FTIR and Raman spectra of the crystal complex are consistent with the X-ray results.     

Synthesis,Crystal Structure,and Conductivity Investigation of a New Monophosphate: (2-CH3OC6H4CH2NH 3)H2PO4

Chemical preparation, crystal structure, thermogravimetric and differential analysis, solid state ³¹P MAS NMR characterization, and IR spectroscopic investigations are given for a new organic cation dihydrogenmonophosphate, (2-CH₃OC₆H₄CH₂NH₃)H₂PO₄. This compound is monoclinic C2/c, with unit cell parameters a = 27.740(8), b = 4.827(2), c = 16.435(3) Å, β = 93.79(2)°, V = 2196 (1) ų, Z = 8, and ρ = 1.422 g · cm^?3. The crystal structure has been determined and refined to R = 0.046 (Rw = 0.056), using 1,746 independent reflections with I > 3σ (I). Its atomic arrangement can be described by infinite polyanions [H₂PO₄] _n ^{n ?}, organized in ribbons alternating with organic cations. Strong hydrogen bonds connect the different components. Electrical conductivity measurements show that the [2-CH₃OC₆H₄CH₂NH₃]H₂PO₄ has a low ionic conductivity value at 403 K.     

Synthesis, spectroscopic characterization, X-ray structure and DFT studies on 4-(2-hydroxyphenyl)-4,5,6,7-tetrahydro-1H-imidazo[4,5-c]pyridin-5-ium chloride hydrate

The title molecular salt, 4-(2-hydroxyphenyl)-4,5,6,7-tetrahydro-1H-imidazo[4,5-c]pyridin-5-ium chloride hydrate (C₁₂H₁₄N₃O⁺·Clˉ·H₂O), was synthesized and characterized by IR-NMR spectroscopy and single-crystal X-ray diffraction. In addition to the molecular geometry from X-ray experiment, the molecular geometry, vibrational frequencies and gauge-independent atomic orbital (GIAO) ¹H and ¹³C NMR chemical shift values of the title compound in the ground state have been calculated using the density functional theory (DFT/B3LYP) method with the 6-31++G(d,p) and 6-311++G(d,p) basis sets, and compared with the experimental data. Besides, molecular electrostatic potential (MEP) distribution and non-linear optical properties of the title compound were investigated by theoretical calculations at the B3LYP/6-311++G(d,p) level.     

Understanding sterol-membrane interactions, part II: complete 1H and 13C assignments by solid-state NMR spectroscopy and determination of the hydrogen-bonding partners of cholesterol in a lipid bilayer

The complete assignment of cholesterol 1H and 13C NMR resonances in a lipid bilayer environment (Lalpha-dimyristoylphosphatidylcholine/cholesterol 2:1) has been obtained by a combination of 1D and 2D MAS NMR experiments: 13C spectral editing, ge-HSQC, dipolar HETCOR and J-based HETCOR. Specific chemical shift variations have been observed for the C1-C6 atoms of cholesterol measured in CCl4 solution and in the membrane. Based on previous work (F. Jolibois, O. Soubias, V. Reat, A. Milon, Chem. Eur. J. 2004, 10, preceding paper in this issue: DOI: 10.1002/chem.200400245) these variations were attributed to local changes around the cholesterol hydroxy group, such as the three major rotameric states of the C3-O3 bond and different hydrogen bonding partners (water molecules, carboxy and phosphodiester groups of phosphatidylcholine). Comparison of the experimental and theoretical chemical shifts obtained from quantum-chemistry calculations of various transient molecular complexes has allowed the distributions of hydrogen bonding partners and hydroxy rotameric states to be determined. This is the first time that the probability of hydrogen bonding occurring between cholesterol's hydroxy group and phosphatidylcholine's phosphodiester has been determined experimentally.     

NMR studies of novel Schiff bases derived from L-alpha-amino methyl esters and 3-hydroxypyridin-4-carboxaldehyde

Schiff bases of 3-hydroxypyridin-4-carboxaldehyde and L-alpha-amino esters as well as those derived from the structurally related amines lacking the ester function have been synthesised. In two cases a tetrahydro-1H-imidazo[4,5-c]pyridine was formed as a by-product. (1)H, (13)C, (15)N-NMR spectral data and density functional theory (DFT) calculations established the structure of all compounds.     

Spectroscopic studies of the 1:1 complex of piperidine-4-carboxylic acid (isonipecotic acid) with 2,6-dichloro-4-nitrophenol

The 1:1 complex of piperidine-4-carboxylic acid (isonipecotic acid, P4C) with 2,6-dichloro-4-nitrophenol (DCNP), has been investigated by single-crystal X-ray analysis, Raman and FTIR spectroscopy and theoretical calculations. The hydrogen-bonded-ion-pair complex is observed in the crystalline state with the O⋯H⋯OOC hydrogen bond of 2.453(16) Å. FTIR spectrum shows a broad absorption in the 1600–400 cm⁻¹ region characteristic of very short OHO hydrogen bond, broken by the Evans holes. The complexes are joined through NH⋯O into a H-bonding network. The NH⋯O mode appears as a broad band in the range of 3100–2000 cm⁻¹. In the structure optimized at the B3LYP/6–311 + +G(d,p) level of theory the proton is transferred from DCNP to P4C, and molecules are joined through the O⋯HOOC hydrogen bond of 2.640 Å. The experimental and theoretical infrared spectra are discussed. Detail interpretation of the vibrational spectra has been carried out with the use of computed Potential Energy Distribution (PED).     

Interactions between organic molecules and water: rotational spectrum of the 1:1 oxetane-water complex

The 1:1 molecular complex between oxetane and water has been investigated by using free-jet millimeter-wave spectroscopy. The rotational spectra of five isotopomers (with H(2)O, D(2)O, DOH, HOD and H(2) (18)O) have been assigned. Partial r(0) and r(s) structures of the complex have been derived. The water moiety lies in the plane of symmetry of oxetane, with the "free" hydrogen E with respect to the ring. The oxetane ring appears to be slightly nonplanar, with the C(beta) carbon tilted on the opposite side of the water unity. The three atoms involved in the hydrogen bond adopt a linear arrangement with an O(ring).H distance of about 1.86 A, and the angle between the COC bisector and the O(ring).H bond being congruent with 106 degrees. Additionally, quantum-chemical calculations for the complex were performed and were found to be in agreement with the experimental results.     

Crystal Structure and Spectroscopic Studies of a New Organic Dihydrogenmonophosphate [2-NH2-6-CH3-C4H3N2O]2(H2PO4)2

Physicochemical properties of a new dihydrogenmonophosphate [2-NH ₂ -6-CH ₃ -C ₄ H ₃ N ₂ O] ₂ (H ₂ PO ₄ ) ₂ are described on the basis of X-ray crystal structure investigation. This compound crystallizes in the triclinic space group P-1. The unit cell parameters are: a = 7.667(3) Å, b = 8.204(5) Å, c = 14.761(6) Å, α = 98.85(4)°, β = 99.23(3)°, γ = 90.50(4)°, V = 905.0 ų, and Z = 2. The crystal structure was solved and refined to R = 0.037, using 4351 independent reflections. The atomic arrangement of this compound is built up by (H ₂ PO ₄ ) _n ^{n ?} chains. Each chain aggregates with organic molecules to form an open framework architecture through hydrogen bond interactions. The structure includes four types of hydrogen bonds. The first one, O─H─O, links the H ₂ PO ₄ groups to form (H ₂ PO ₄ ) _n ^{n ?} infinite inorganic chains parallel to the a axis. The three other types, O─H─O(carbonylic), N─H─O(carbonylic), and N─H─O, assemble the inorganic chains so as to build up a three-dimensional arrangement. This compound has also been investigated by IR, and solid-state ¹³ C and ³¹ P MAS NMR spectroscopies combined to ab initio calculations.     

Synthesis,Crystal Structure,and NMR Spectroscopy of a New P-Phenylenediamonium Diphosphate [p-NH3C6H4NH3]H2P2O7

Crystal growth and characterization by X-ray diffraction and NMR spectroscopy of a new p-phenylenediamonium diphosphate [p-NH₃ C ₆ H ₄ NH ₃]H ₂ P ₂ O ₇ are reported. This compound crystallizes in a triclinic unit cell P1 with the parameters a = 7.130(3), b = 9.047(3), c = 9.350(2) Å, α = 133.44(2)°, β = 95.02(2)°, γ = 107.11(4)°, Z = 2, V = 514.3(15) ų, and D _x = 1.848 g.cm^{? 3}. The crystal structure has been solved and refined to R = 0.0273, using 3678 independent reflections. The atomic arrangement is build up by infinite ribbons of [H₂ P ₂ O ₇] ^2? anions, extending along the a-direction at y = 1/2. Between these ribbons are located the p-phenylenediammonium entities, which form hydrogen bonds N─H…O with some external oxygen atoms of phosphoric groups. Crystallographic results are correlated with that of the solid state ¹³C and ³¹P MAS NMR spectroscopy.     

Crystal and molecular structure, hydrogen bond and electrostatic interactions of bis(1-methylisonicotinate)hydrogen perchlorate studied by X-ray diffraction, DFT calculations, FT-IR, Raman and NMR spectroscopes

The crystal structure of bis(1-methylisonicotinate)hydrogen perchlorate, (MIN)₂H·ClO₄, has been studied by X-ray diffraction, DFT calculations, FT-IR, Raman, ¹H and ¹³C NMR spectra. The crystals are monoclinic, space group P2₁/n, with a pair of MIN molecules bridged by a short asymmetrical O·H·O hydrogen bond of 2.461(5) Å. The COO groups are twisted by 80.55° with respect to the plane of the pyridine ring. The anion interacts electrostatically with the positively charged nitrogen atoms of the neighbouring MIN molecules. The most stable conformer of isolated (MIN)₂H·ClO₄ and two homoconjugated cations, (MIN)₂H, have been analyzed by the B3LYP/6-31G(d,p) calculations in order to determine the influence of the anion on the hydrogen bonds in MIN·H·MIN unit. The FT-IR spectrum of the (MIN)₂H·ClO₄ shows a broad and intense absorption in the 1500–400 cm⁻¹ region, typical of short hydrogen bonds. The isotopic ratio, νOHO/νODO, is close to unity, indicating that the hydrogen bond is acentric (pseudo-type A).     

Ultrasensitive Anion Detection by NMR Spectroscopy: A Supramolecular Strategy Based on Modulation of Chemical Exchange Rate

NMR spectroscopy is a powerful tool for monitoring molecular interactions and is widely used to characterize supramolecular systems at the atomic level. NMR is limited for sensing purposes, however, due to low sensitivity. Dynamic processes such as conformational changes or binding events can induce drastic effects on NMR spectra in response to variations in chemical exchange (CE) rate, which can lead to new strategies in the design of supramolecular sensors through the control and monitoring of CE rate. Here, we present an indirect NMR anion sensing technique in which increased CE rate, due to anion‐induced conformational flexibility of a relatively rigid structure of a novel sensor, allows ultrasensitive anion detection as low as 120 nM .