Origins of isotopomeric polymorphism

The complex formed between 4-methylpyridine and pentachlorophenol (4MPPCP) crystallises in a triclinic space group. If the same complex is synthesized from deuterated pentachlorophenol, it crystallizes in an entirely different monoclinic polymorph. Using solid-state NMR of samples synthesized with a full range of deuteration levels, crystallized from solution or the melt, and in the presence or absence of seeds, we have confirmed that the isotopomers indeed have different thermodynamically stable crystal structures. The roots of this phenomenon of isotopomeric polymorphism apparently lie in the differences in hydrogen bonding between the polymorphs. The triclinic form has a relatively short hydrogen bond. High-field solid-state NMR shows both the ¹H chemical shift and the ²H electric quadrupole coupling of the hydrogen involved in the bond to be strongly temperature-dependent, indicating a low-lying excited state of the hydrogen bond longitudinal vibration. Inelastic neutron scattering of isotopomers of 4MPPCP has allowed us to identify the three orthogonal vibrational modes of the hydrogen in the hydrogen bond, at 29.7, 145, and 205 meV (240, 1168, and 1651 cm^?1). The longitudinal mode is the lowest in energy, and it indicates a slightly asymmetric low-barrier double-well potential. Intrinsic to such potentials is a very small difference in zero-point energies (ZPEs) between the protonated and deuterated forms. As a contrast, the monoclinic form has a comparatively normal hydrogen bond, in which the proton and deuteron ZPEs should be different by approximately 500 cm^?1. A scenario can be envisaged where the triclinic protonated form is lower in energy than the monoclinic protonated form, but the triclinic deuterated form is higher in energy than the monoclinic deuterated form. This evidently accounts for the difference in relative stabilities of the two forms upon isotope substitution.     

In situ solid-state 1H NMR studies of hydration of the solid acid catalyst ZSM-5 in its ammonium form

Hydration of the ammonium form of the solid acid catalyst ZSM-5 is investigated by applying a technique that has been developed recently for carrying out in situ solid-state NMR studies of adsorption processes. From ¹H MAS NMR spectra recorded as a function of time and temperature during the hydration process, insights are established on the nature of the interaction between the adsorbed water molecules and the ammonium cations in the ZSM-5 material. The change in isotropic chemical shift for the ammonium cations is consistent with the formation of N–H?O hydrogen bonding with the water molecules. Studies of the adsorption of deuterated water, and dehydration of the hydrated material, are also reported.     

N-甲替甲酰胺-水的氢键团簇的从头计算研究

利用从头计算方法在MP2 / 6 31+G 和MP2 / 6 311++G(d ,p)水平上对N 甲替甲酰胺 (NMF) 水氢键团簇进行了研究 .计算给出了所有中性和离子化NMF H2 O团簇的优化结构、解离通道以及解离能 .对于N 甲替甲酰胺 ,顺式结构比反式结构具有更低的能量 .对于质子化的NMF ,质子倾向于连接在甲替甲酰胺的氧原子上 .计算结果表明 ,NMF的顺式和反式构型都可以与水分子形成线型的氢键结构 .尽管NMF反式结构比顺式结构能量高 ,但由于反式结构能与水分子形成双氢键 ,因此能更稳定的存在 .N 甲替甲酰胺 水团簇电离后 ,无论顺式和反式结构均有质子化产物生成 .     

Atomic refinement using orientational restraints from solid-state NMR

We describe a procedure for using orientational restraints from solid-state NMR in the atomic refinement of molecular structures. Minimization of an energy function can be performed through either (or both) least-squares minimization or molecular dynamics employing simulated annealing. The energy, or penalty, function consists of terms penalizing deviation from "ideal" parameters such as covalent bond lengths and terms penalizing deviation from orientational data. Thus, the refinement strives to produce a good fit to orientational data while maintaining good stereochemistry. The software is in the form of a module for the popular refinement package CNS and is several orders of magnitude faster than previous software for refinement with orientational data. The short computer time required for refinement removes one of the difficulties in protein structure determination with solid-state NMR.     

壳聚糖和N-羟基苯并三氮唑相互作用的NMR研究

运用液体¹H谱、固体高分辨13C谱以及脉冲梯度场测量自扩散系数等核磁共振技术,研究了壳聚糖（CS）和N-羟基苯并三氮唑（HOBt）的相互作用.结果表明,CS重复单元中2位碳上的-NH₂和HOBt唑环上的-OH之间存在较强的氢键作用,HOBt的存在可以促进CS在水溶液中的溶解,使得在水溶液中对CS进行化学改性成为可能.通过测量CS与HOBt混合溶液中HOBt的自扩散系数,计算出复合物结合与解离的平衡常数K.     

Vibrational spectroscopy and crystal structure analysis of two polymorphs of the di‐amino acid peptide cyclo(L‐Glu‐L‐Glu)

Cyclo(L ‐Glu‐L ‐Glu) has been crystallised in two different polymorphic forms. Both polymorphs are monoclinic, but form 1 is in space group P2₁ and form 2 is in space group C2. Raman scattering and FT‐IR spectroscopic studies have been conducted for the N,O‐protonated and deuterated derivatives. Raman spectra of orientated single crystals, solid‐state and aqueous solution samples have also been recorded. The different hydrogen‐bonding patterns for the two polymorphs have the greatest effect on vibrational modes with N H and CO stretching character. DFT (B3‐LYP/cc‐pVDZ) calculations of the isolated cyclo(L ‐Glu‐L ‐Glu) molecule predict that the minimum energy structure, assuming C₂ symmetry, has a boat conformation for the diketopiperazine ring with the two L ‐Glu side chains being folded above the ring. The calculated geometry is in good agreement with the X‐ray crystallographic structures for both polymorphs. Normal coordinate analysis has facilitated the band assignments for the experimental vibrational spectra. Copyright © 2009 John Wiley & Sons, Ltd.     

Local structure of hydroxy-peroxy apatite: A combined XRD, FT-IR, Raman, SEM, and solid-state NMR study

The synthesized hydroxyapatite (HAp) and hydroxy-peroxy apatite are studied using various techniques, such as X-ray powder diffraction, FT-IR and Raman spectroscopy, scanning electron microscopy, and solid-state NMR spectroscopy. The experimental data suggest that hydroxy-peroxy apatite contains a small amount of hydration of partially dehydroxylated hydroxyapatite phase and calcium hydroxide. The incorporation of peroxide ions into the lattice of HAp causes perturbations of the hydrogen environments and slight changes in its crystal morphology. The distance between H in some structural OH⁻ and adjacent O along the c-axis becomes longer instead of forming a hydrogen bond after the incorporation of peroxide ions.     

Fourier Transform Infrared Spectroscopy of Aliphatic bis(Amidinohydrazones) and Their Deuterated Analogues

The first study on the infrared spectroscopy of the bis(amidinohydrazones) of various glyoxals is reported. The compounds studied include the antileukemic agents glyoxal bis(amidinohydrazone) and methylglyoxal bis(amidinohydrazone) (Mitoguazone) as well as seven mono-and dialkylglyoxal analogues thereof. Free bases as well as doubly protonated species (divalent salts) were investigated. Selectively deuterated analogues were also studied and were synthesized by exchanging nitrogen-bound hydrogen atoms for deuterium atoms. The effects of substituents, protonation and deuteration on the FT-IR spectra of the compounds are discussed.     

2H NMR study of phase transition and hydrogen dynamics in hydrogen bonded organic antiferroelectric 55DMBP-H2ca

Hydrogen dynamics in one-dimensional hydrogen bonded organic antiferroelectric, co-crystal of 5,5’-dimethyl-2,2’-bipyridine (55DMBP) and chloranilic acid (H₂ca), was investigated by use of ²H high resolution solid-state NMR. The two types of hydrogen bonds O-H …N and N⁺-H …O^? in the antiferroelectric phase were clearly observed as the splitting of the side band of the ²H MAS NMR spectra of the acid-proton deuterated compound 55DMBP-D ₂ca. The temperature dependence of the spin-lattice relaxation time was measured of the N⁺-H and O-H deuterons, respectively. It was suggested that the motion of the O-H deuteron is already in the antiferroelectric phase in the fast-motion regime in the NMR time scale, while that of the N⁺-H deuteron is a slow motion. In the high-temperature paraelectric phase, the both deuterons become equivalent and the fast motion of the deuterons in the NMR time scale is taking place with the activation energy of 7.9 kJ mol^?1.     

Quantitative characterization of coal structure by high-resolution CP/MAS 13C solid-state NMR spectroscopy

A method for quantitatively characterizing the carbon skeletal structure of coal by variable contact time experiment using high-resolution CP/MAS ¹³C solid-state NMR spectroscopy is proposed in this paper. The initial polarization transfer intensity from protons directly bonded with carbons, instead of dipolar-dephasing techniques which had to run on a lower frequency NMR spectrometer (100.02 MHz for proton), was used to divide the bridgehead and protonated aromatic carbons, making all the NMR data in this paper obtained on a high frequency NMR spectrometer (500.12 MHz for proton). On this basis, the fractions of different carbons in coal were further divided by the initial polarization transfer intensity from spin diffusion of protons unbonded with carbons. The structure of Naomaohu coal, a subbituminous coal from China, was measured. The change of polarization transfer with contact time was analyzed quantitatively. The fractions of aromatic, aliphatic, carboxyl and carbonyl carbons, and corrective aromaticity are 0.61, 0.39, 0.1 and 0.51, respectively. The fractions of protonated and bridgehead aromatic carbons are 0.22 and 0.09, respectively. These results agreed with literatures, and bond concentration calculated by the carbon skeletal structure distribution of coal was reasonable.     

Steady-state fluorescence and photo-isomerization study of 1-methyl-4′-(p-N,N dimethyl-amino styryl) pyridinium iodide

Photochemical and thermal trans/cis isomerization reactions are reported for 1-methyl-4′-(p-N,N dimethyl-amino styryl) pyridinium iodide, Cy, which is synthesized in the trans configuration. In a basic solution the trans form, Cy_tr, cannot isomerise directly to the cis form. Its protonated form, Cy_trH⁺, is active and reacts photochemically from trans to cis isomer, Cy_cH⁺. The quantum yields Φ_tc and Φ_ct are determined in water. Deprotonation process of Cy_cH⁺ yields the cis isomer, Cy_c, which can thermally revert to the stable trans form. The rate constant and the activated parameters of the thermal reaction are also determined. Due to irreversibility of the thermal reaction , a complete molecular reaction cycle is performed in one direction. To get more information on the spectral properties of protonated form, its absorption and fluorescence spectra were investigated in sixteen neat polar protic and aprotic solvents. Absorption energy correlates linearly with hydrogen bond acceptor ability of the solvent. Another linear correlation was found between fluorescence energy of CyH⁺ and free energy for transferring the proton to the surrounding solvent, ΔG_t^o.     

Conformational dynamics of a metallomesogen studied by 2H-NMR spectroscopy

In this work we present a quantitative analysis of both quadrupolar splittings and deuterium Zeeman and quadrupolar spin-lattice relaxation times reported in the literature for two isotopomers of Azpac, an acetylacetonate derivative of the cyclopalladated 4, 4'-bis(hexyloxy) azoxybenzene. Azpac-d(4) is deuterated at the aromatic rings and Azpac-d(26) is deuterated on the alkoxy chains. The additive potential method is used to model the splittings, while the derived spectral densities are interpreted using the decoupled model in conjunction with the Nordio model. The two side chains are assumed to be noninteracting and identical in their conformations in order to limit the size of the transition rate matrix needed to describe correlated internal bond rotations in the chains. Rotational diffusion constants and internal jump rate constants are derived for this metallomesogen.     

Structure and symmetry of azulene as determined from microwave spectra of isotopomers

The rotational spectra of six ¹³C isotopomers in natural abundance and of eight synthesized deuterium isotopomers of azulene have been measured using pulsed nozzle cavity and waveguide Fourier transform microwave (FTMW) spectrometers over the 8–18?GHz range. The spectrum of the parent species was remeasured with the higher resolution of FTMW spectrometers. Rotational constants have been fitted to the measured frequencies of the rotational transitions of all measured isotopomers. In addition, centrifugal distortion constants were determined for the parent species and the deuterated isotopomers. The permanent electric dipole moment was redetermined from Stark splittings. The C_2v covering symmetry of the azulene molecule has been demonstrated unambiguously from a single set of observed transitions for the asymmetrically substituted 1-, 4-, 5- and 9-¹³C–isotopomers at twice the intensity of the symmetrically substituted 2- and 6-¹³C–isotopomers. The positions of all nuclei of the planar non–alternating aromatic ring system of azulene have been determined from moments of inertia of all available isotopomers. Different methods have been used to arrive at a near equilibrium structure.     

Spin susceptibility of DMM (TCNQ)2

DMM(TCNQ)₂ crystallizes into both monoclinic and triclinic crystal structures. The TCNQ stacks in the monoclinic structure tetramerized below 260K and the temperature dependence of the susceptibility can be fit to Bulaevskii's theory with an exchange energy of ≈260K. The susceptibility of the triclinic structure is Curie-Weiss from room temperature to 35K where it increases much less rapidly becoming independent of temperature below 6K. This is interpreted in terms of a linear one dimensional antiferromagnetic chain.     

The study of hydronium NASICON conductivity with deuterium

The ionic conductivity of the bulk phase of bonded hydronium NASICON (Hyceram^TM) was measured at equilibrium with an H₂O/N₂ and then a D₂O/N₂ atmosphere, each at 100% relative humidity and 75% relative humidity over the temperature range 25°C to 50°C. At 100% relative humidity and 25°C, the protonic system had a bulk conductivity of 5.0×10⁻⁴ S/cm and an activation energy of 17.3kJ/mole; the same sample, when deuterated, had a bulk conductivity of 2.2×10⁻⁴ S/cm and an activation energy of 19.3kJ/mole. At 75% relative humidity and 25°C, the conductivity of the protonated system decreased to 1.4×10⁻⁴S/cm with an activation energy of 24.1 kJ/mole. The deuterated sample at 75% relative humidity had a bulk conductivity of 5.4×10⁻⁵ S/cm with an activation energy of 26.0 kJ/mole. The isotope effect suggested a proton hopping (Grotthus) mechanism as the means by which the protons pass through the lattice.     

Gas phase retro-Michael reaction resulting from dissociative protonation: fragmentation of protonated warfarin in mass spectrometry

A mass spectrometric study of protonated warfarin and its derivatives (compounds 1 to 5) has been performed. Losses of a substituted benzylideneacetone and a 4-hydroxycoumarin have been observed as a result of retro-Michael reaction. The added proton is initially localized between the two carbonyl oxygens through hydrogen bonding in the most thermodynamically favorable tautomer. Upon collisional activation, the added proton migrates to the C-3 of 4-hydroxycoumarin, which is called the dissociative protonation site, leading to the formation of the intermediate ion-neutral complex (INC). Within the INC, further proton transfer gives rise to a proton-bound complex. The cleavage of one hydrogen bond of the proton-bound complex produces the protonated 4-hydroxycoumarin, while the separation of the other hydrogen bond gives rise to the protonated benzylideneacetone. Theoretical calculations indicate that the 1, 5-proton transfer pathway is most thermodynamically favorable and support the existence of the INC. Both substituent effect and the kinetic method were utilized for explaining the relative abundances of protonated 4-hydroxycoumarin and protonated benzylideneacetone derivative. For monosubstituted warfarins, the electron-donating substituents favor the generation of protonated substituted benzylideneacetone, whereas the electron-withdrawing groups favor the formation of protonated 4-hydroxycoumarin. Copyright ? 2012 John Wiley & Sons, Ltd.     

Selective detection of ¹³CHD₂ signals from a mixture of ¹³CH₃/¹³CH₂D/¹³CHD₂ methyl isotopomers in proteins

In NMR spectra of partially deuterated proteins methyl correlations are commonly observed as a combination of signals from 13CH?, 13CH?D and 13CHD? isotopomers. In a number of NMR applications, methyl groups of the 13CHD? variety are targeted because of their AX-like character and concomitant simplification of the involved relaxation mechanisms. Although complete elimination of signals from 13CH?D methyl groups can be easily achieved in such applications, if the magnetization is not transferred through deuterium nuclei, efficient suppression of usually stronger 13CH? peaks is more problematic. A pair of simple pulse-scheme elements are presented that achieve almost complete suppression of 13CH? signals in the mixtures of 13CH?/13CH?D/13CHD? methyl isotopomers of small proteins at the expense of a moderate (～20-to-40%) reduction in intensities of the targeted 13CHD? groups. The approaches described are based purely on scalar coupling (1J(CH)) evolution properties of different 13C and 1H transitions within 13CH? spin-systems and are superior to magnetization transfer through deuterons with respect to sensitivity of the detected 13CHD? methyl signals.     

Induced Smectic X Phase Through Intermolecular Hydrogen-Bonded Liquid Crystals Formed Between Citric Acid and <Emphasis Type="Italic">p</Emphasis>-<Emphasis Type="Italic">n</Emphasis>-(Octyloxy)Benzoic Acid

Hydrogen-bonded liquid crystal (HBLC) is synthesized from citric acid (CA) and 4-(octyloxy)benzoic acid (8OBA) with different mole ratios. Fourier transform infrared spectroscopy (FT-IR) confirms the presence of hydrogen bond between CA and 8OBA. Nuclear magnetic resonance (NMR) spectroscopic studies validate the intermolecular complementary, cyclic type of hydrogen bond, and molecular environment in the designed HBLC complex. Powder X-ray diffraction analysis reveals the monoclinic nature of liquid crystal complex in solid phase. Liquid crystal parameters such as phase transition temperature and enthalpy values for the corresponding mesogenic phases are investigated using a polarizing optical microscope (POM) and differential scanning calorimetry (DSC). It is observed that the change in chain length and steric hindrance while increasing the mole ratio in HBLC complex induces a new smectic X (Sm X) along with higher-order smectic G (Sm G) phases by quenching of smectic C (Sm C). From the experimental observations, induced Sm X phase has been identified as a finger print texture. Also, Sm G is a multi-colored mosaic texture in 1:1, 1:2, and 1:3 mol ratios. The optical tilt angle, thermal stability factor, and enhanced thermal span width of CA + 8OBA complex are discussed.     

Deuteron NMR spectra of ammonium ion isotopomers at low temperatures

Partially deuterated ammonium compounds contain ammonium ion isotopomers with relative abundances given by the binomial distribution of protons and deuterons. All isotopomers with deuterons contribute characteristic deuteron NMR spectra at 5K. Experimental NMR spectra were separated and respective contributions of isotopomers were determined. The derived contributions agree with expected values for a given deuteration in the case of ammonium hexafluorophosphate. In ammonium hexachlorotellurate both NH2D2+ and about 50% of NH3D+ ions are rigid, while the remaining NH3D+ perform limited jumps. NHD3+ and ND4+ ions undergo tunnelling rotation, NH3D+ ions perform either jumps about C2 axis or limited jumps, but some stay rigid in ammonium hexachlorostannate. NH2D2+, NHD 3+ and ND4+ undergo rotational tunnelling. In the case of ammonium perchlorate, the NH3D+ ions perform either jumps about C3 axis or limited jumps whilst some remain rigid. Very low values of activation energies were derived for all spectral components from the temperature dependence of their spectra, up to about 20K, which indicates an incoherent tunnelling nature of the observed dynamic processes. The diverse mobility of NH3D+ ions appears to be the most interesting and new feature.     

Molecular dynamics of polycrystalline cellobiose studied by solid-state NMR

Molecular motions of polycrystalline cellobiose have been investigated by measuring proton spin–lattice relaxation times, T₁ and T_1ρ, and the second moment, M₂, in both protonated and D₂O exchanged forms over the temperature range 120–380 K. T₁ relaxation is dominated by the motions of hydroxyl groups between 150 and 380 K, characterised by an activation energy of about 8.74 kJ/mol, whereas T_1ρ relaxation is driven by the motions of the same groups between 120 and 300 K. T_1ρ results suggest that hydroxyl groups have a distribution of dynamics. Motion of methylene groups was detected in the second-moment experiments at about 350 K, characterised by activation energy of about 40 kJ/mol. Consideration of the calculated and observed rigid-lattice second moments suggests that the reported X-ray data are incorrect for the inter-proton distance on C6′. ¹³C CPMAS spectra of both protonated and deuterated cellobiose have also been measured. Spectra of the deuterated material showed the existence of a second crystalline form in addition to the normal form.