Thermodynamic studies of molecular interactions in aqueous alpha-cyclodextrin solutions: application of McMillan-Mayer and Kirkwood-Buff theories

Osmotic vapor pressure and density measurements were made for aqueous alpha-cyclodextrin (alpha-CD) solutions in the temperature range between 293.15 and 313.15 K. The experimental osmotic coefficient data were used to determine the corresponding activity coefficients and the excess Gibbs free energy of solutions. Further, the activity data obtained at different temperatures along with the enthalpies of dissolution (reported in the literature) were processed to obtain the excess enthalpy and excess entropy values for the solution process. The partial molar entropies of water and of alpha-cyclodextrin were calculated at different temperatures and also at different concentrations of alpha-CD. Using the partial molar volume data at infinite dilution, the solute-solvent cluster integrals were evaluated which yielded information about solute-solvent interactions. The application of McMillan-Mayer theory of solutions was made to obtain osmotic second and third virial coefficients which were decomposed into attractive and repulsive contributions to solute-solute interactions. The second and third osmotic virial coefficients are positive and show minimum at 303.15 K. The Kirkwood-Buff (KB) integrals G(ij), defined by the equation G(ij) = f(infinity)0 (g(ij)- 1)4pir(2) dr, have been evaluated using the experimental osmotic coefficient (and hence activity coefficient) and partial molar volume data. The limiting values of KB integrals, G(ij)(0) are compared with molecular interaction parameters (solute-solute i.e., osmotic second virial coefficient) obtained using McMillan-Mayer theory of solutions. We found an excellent agreement between the two approaches.     

NMR studies of molecular motion in tetramethylammonium hydroxide pentahydrate

Polycrystalline (CH₃)₄NOH·5 H₂O (I) and (CH₃)₄NOD·5D₂O (II) have been studied by¹H NMR lineshapes, second moments and spin-lattice relaxation times and by²H NMR lineshapes as a function of temperature. From low temperatures the first motion to occur is reorientation of the internally rigid (CH₃)₄N⁺ ion about a uniqueC ₃ axis (E _ta = 8.37 kJ/mol forI,E _a = 9.00 kJ/mole forII), followed closely by pseudo isotropic reorientation of the whole ion (E _a = 18.10 kJ/mol). Motion of the cage molecules (water and hydroxide ion) occurs at higher temperatures with an apparentE _a = 11.30 kJ/mol. There is some evidence of a phase transition inII but notI in the 220–230 K region.²H NMR lineshapes ofII below 220 K indicate static cage molecules. Some of the²H quadrupole coupling constants derived from these spectra correspond to O·O hydrogen-bond distances which are incompatible with the known room temperature structure ofI. Above the possible transition inII the anisotropic²H lineshapes indicate rapid motion of²H among all possible hydrogen-bond sites via transfer along the bonds and molecular reorientation. This motion persists in the high temperature phase but the lineshape becomes isotropic due to the cubic symmetry of this phase. It is possible that¹H or²H tunnelling plays an important part in the motion of the cage molecules and the different phase behaviour ofI andII.Dedicated to Dr D. W. Davidson in honor of his great contributions to the sciences of inclusion phenomena.     

NMR studies and conformations of asymmetric polyamides derived from cyclopropyl diacids and diamines

The synthesis and optical properties of the polyamides [poly(C3A˙C3B) and poly(C3A-C3MB)] derived from asymmetric trans-1,2-cyclopropanedicarboxylic acids (C3A), asymmetric trans-1,2-diaminocyclopropanes (C3B), and asymmetric trans-1,2-bis(methylamino) cyclopropanes (C3MB) were reported in the preceding article. This paper describes the NMR studies and conformations of the polyamides. The NMR studies of the polyamides and their diamide models have suggested that the polyamides have about a 90° torsional angle for NH (or CH₃) CH. This angle seems to be reasonable because of less steric interaction, especially for poly(+)C3A(+)C3MB. The N? CH₃ of the poly(+)C3A(+)C3MB in sulfuric acid-d₂ (D₂SO₄) is a singlet and is tentatively assigned to trans to the carbonyl oxygen of the amide group. In 2,2,2-trifluoroethanol-d₃ (TFE-d₃) and chloroform-d (CDCl₃) it is also a singlet and is tentatively assigned to cis. The overall results obtained suggest that poly(+)C3A(+)C3MB exists in a compact helical conformation in TFE and TMS, while some conformational transition to a highly extended helical form with opposite handedness is induced by the addition of MSA. Likewise, poly(+)C3A(+)C3B must exist in some ordered conformation in the solvents studied. Possible ordered conformations of the polyamides have been proposed based on the experimental results and some assumptions.     

NMR studies of molecular motion of ultradispersed polytetrafluoroethylene

Molecular motion in ultradispersed polytetrafluroethylene obtained by special gas-phase technology has been studied experimentally and theoretically based on a temperature dependence of the second moment of ¹⁹F NMR spectra and the time of spin-lattice relaxation. The results of observations are interpreted as the consequence of reorientation motion of CF₂ groups around the axis of macromolecules at low temperature and of translational motion of macromolecules in the high temperature region. Qualitative differences from the molecular motion in industrial polytetrafluoroethylene (teflon-4) were detected and parameters of dynamic processes determined.     

Broad-line NMR studies of molecular motion in cured epoxy resins

The conformation of network chain segments in a rigid glassy DDM-cured bisphenol A epoxy resin has been determined by means of rotational isomeric-state model and confirmed by conformity of experimental NMR second moments with a theoretical estimate based on the model. The glass transition temperatures T_g have been determined from precipitate NMR line narrowing with increase in temperature due to the onset of rapid (>10⁴ Hz) main-chain molecular motion. The temperature dependence of the correlation frequency has been determined and the type and extent of molecular motion that occurs in such epoxy resins is discussed.     

NMR studies of molecular mobility in uniaxially stretched oriented polymers

The effect of elasticlike uniaxial tension on molecular mobility in polymers have been studied over a wide temperature range using the broad-line NMR technique. The studies were carried out on oriented semicrystalline samples of nylon 6, poly(ethylene terephthlate), polypropylene, polyethylene, polyoxymethylene, poly(vinyl alcohol), and polytetrafluorethylene. Above the low-temperature transition the NMR spectra are reversibly transformed under tension. Increases in the second moments of the spectra are attributed to weaker molecular motion in stressed polymers. The only exception is polypropylene, in which the reverse, i.e., enhancement of molecular mobility, can be observed in a certain temperature range. In the spectra of polymers stretched above the glass transition temperature the narrow component decreases, thus indicating inhibition of micro-Brownian motion, a phenomenon we call “mechanical vitrification.” Such mechanical vitrification is proved to result from reduction in the number of possible tie-chain conformations in the non-crystalline regions and not from closer packing of chains. In discussing the results we use the experimental data on the reduction of the number of gauche isomers under tension (on average, one transition of a gauche link to the trans state causes at least five methylene groups in the main chain to become immobile). The results of studies of molecular mobility in stretched polymers are used for more accurate definition of the mechanisms of molecular motion at different temperatures. A method for evaluation of the energy of intermolecular interactions which hinder small-scale motion at low temperature is suggested.     

NMR studies of conformations and dynamic processes—III : Cyclophanes with unsaturated bridges

Three cyclophanes, each displaying a different type of dynamic process, have been studied by NMR methods. The barriers to these processes are attributed mainly to the decrease in π-electron overlap between the benzene rings and adjacent double bonds which occurs in the transition state for each process. In [5₂] paracyclophanetetraene, two successive flippings of the benzene rings interconvert the two hydrogens in the methylene groups (Scheme 1). In tetramethyl [2₄] paracyclophanetetraene, the passage of one methyl group through the central cavity of the molecule interconverts two conformations of similar, but not equal, free energy (Scheme 2). In [2₆] orthoparacyclophanehexaene, the orthosubstituted rings change sides by passing through the centre of the cyclophane (Scheme 3).     

Solid-state NMR studies of the molecular structure of Taxol

Solid-state 13C{1H} cross-polarization/magic angle spinning spectroscopy (CP/MAS) has been utilized to extract the molecular structure information of Taxol, which is an anti-tumor therapeutic medicine extracted from the yew bark. The 13C signals have chemical shift values quite consistent with those measured in solution phase, and the overall chemical shift range is over 200 ppm. Notably, most of the 13C resonances of the taxane ring have two clearly resolved spectral components except the resonance peaks of C-15, C-16 and C-17, which are located at the central part of the taxane ring. On the basis of our NMR data, we propose that these doublets originate from two slightly different molecular conformations of the taxane ring and still the central part of the ring remains structurally similar. Furthermore, it is demonstrated that the 13C chemical shift difference deduced from the doublet splittings can serve as a direct measure of the structural difference between the two conformations, which could possibly correlate with the anti-tumor activity of Taxol.     

Cluster analysis of molecular conformations

We describe a method for locating clusters of geometrically similar conformers in ensembles of chemical conformations. We first calculate the pairwise interconformational distance matrix in either torsional or Cartesian space and then use an agglomerative, single-link clustering method to define a hierarchy of clusterings in the same space. Especially good clusterings are distinguished by high values of the separation ratio: the ratio of the shortest intercluster distance to the characteristic threshold distance defining the clustering. We also discuss other statistics. The method has been embodied in a program called XCluster, which can display the distance matrix, the hierarchy of clusterings, and the clustering statistics in a variety of formats. XCluster can also write out the clustered conformations for subsequent or simultaneous viewing with a molecular visualization program. We demonstrate the sorts of insight that this approach affords with examples obtained from conformational search and molecular dynamics procedures. © 1994 by John Wiley & Sons, Inc.     

Problems of using dynamic NMR techniques in studies of photoinduced molecular dynamics

Institute of Inorganic Chemistry, Siberian Branch, Russian Academy of Sciences. Translated fromZhurnal Strukturnoi Khimii, Vol. 36, No. 4, pp. 753–756, July–August, 1995.     

Azolium-linked cyclophanes: a comprehensive examination of conformations by 1H NMR spectroscopy and structural studies

The synthesis and characterization of a series of azolium-linked cyclophanes are reported. The cyclophanes consist of two azolium groups (17 examples) or three imidazolium groups (1 example) linked to two benzenoid units (benzene, naphthalene, p-xylene, mesitylene, 1,2,3,4- and 1,2,4,5-tetramethylbenzene, 2,6-pyridine, and p-tert-butylphenol) via methylene groups. Cyclophanes containing ortho-, meta-, and para-substitution patterns in the benzenoid units were examined. The conformations of the cyclophanes were examined in solution by variable-temperature NMR studies and in the solid state by crystallographic studies. The p-cyclophanes and mesitylene-based m- and o/m-cyclophanes are rigid on the NMR time scale, as indicated by sharp (1)H NMR spectra at all accessible temperatures. The non-mesitylene-based m-cyclophanes and the o-cyclophanes are fluxional on the NMR time scale at high temperatures, but in most cases, specific conformations can be "frozen out" at low temperatures. Many structures deduced from solution studies were consistent with those in the solid state.     

镧系离子核磁共振探针法在分子构象研究中的应用:三种核苷酸分子在不溶液中的构象分析

本文应用镧系离子作为核磁共振探针的方法, 研究了5'CMP,5-AMP以及5-IMP三种核苷酸在酸性水溶液中的构象分布, 将实验测得的'HNMR谱的镧系诱导假接触位移, 纵向弛豫速率增强以及邻位自旋耦合常数等数据用计算机进行分析处理, 结果表明, 核苷酸分子在水溶液中的构象以一组构象异构体平衡共存, 与晶态相比,分子中绕单键旋转的二面角以及戊糖环的折叠形式均有一定的变化但, 碱基仍以稳定的反式存在。     

1H NMR studies of molecular relaxations of poly-1-butene

The temperature dependance of the proton NMR line shape, T₁ and T_1ρ of isotactic poly-1-butene forms I, I′, II, and III have been studied between 100 and 400 K (up to melting). The usual line shape decompositions concerning rigid vs. crystalline and mobile vs. amorphous phases are discussed. The rigid-lattice second moments were calculated introducing a fast rotation of the methyl group. Complex spin-lattice decays were analyzed as a continuous distribution of rates. Relaxation behavior was analyzed in terms of a Williams-Watt correlation function. Motions in the crystalline parts of samples in forms II and III very similar to the amorphous one were revealed, leading us to compare form II to a condis crystal during the crystal form transformation. © 1995 John Wiley & Sons, Inc.     

Structural studies of LNA:RNA duplexes by NMR: conformations and implications for RNase H activity

We have used NMR and CD spectroscopy to study the conformations of modified oligonucleotides (locked nucleic acid, LNA) containing a conformationally restricted nucleotide (T(L)) with a 2'-O,4'-C-methylene bridge. We have investigated two LNA:RNA duplexes, d(CTGAT(L)ATGC):r(GCAUAUCAG) and d(CT(L)GAT(L)AT(L)GC):r(GCAUAUCAG), along with the unmodified DNA:RNA reference duplex. Increases in the melting temperatures of +9.6 degrees C and +8.1 degrees C per modification relative to the unmodified duplex were observed for these two LNA:RNA sequences. The three duplexes all adopt right-handed helix conformations and form normal Watson-Crick base pairs with all the bases in the anti conformation. Sugar conformations were determined from measurements of scalar coupling constants in the sugar rings and distance information derived from 1H-1H NOE measurements; all the sugars in the RNA strands of the three duplexes adopt an N-type conformation (A-type structure), whereas the sugars in the DNA strands change from an equilibrium between S- and N-type conformations in the unmodified duplex towards more of the N-type conformation when modified nucleotides are introduced. The presence of three modified T(L) nucleotides induces drastic conformational shifts of the remaining unmodified nucleotides of the DNA strand, changing all the sugar conformations except those of the terminal sugars to the N type. The CD spectra of the three duplexes confirm the structural changes described above. On the basis of the results reported herein, we suggest that the observed conformational changes can be used to tune LNA:RNA duplexes into substrates for RNase H: Partly modified LNA:RNA duplexes may adopt a duplex structure between the standard A and B types, thereby making the RNA strand amenable to RNase H-mediated degradation.     

NMR studies of conformations and dynamic processes—1 : [24]cyclophanes with ethylene bridges

The conformations and dynamic processes in a series of relatively unstrained [2₄]paracyclophanes (with one, two or four -CH₂-CH₂-bridges) and some closely related compounds have been analysed. Their ¹NMR spectra have been recorded at low temperatures and the temperature dependence rationalised as being due to essentially two types of dynamic process-the torsional motion around the sp³-sp³ C-C bonds in the bridges, and the rotation around the sp²-sp³ C-C bonds adjacent to the benzene rings. The barriers to the former process are similar for the series of cyclophanes 1–6 and are due to steric and electronic interactions in the syn-oriented transition states. In cyclophanes 7–9, in which anti-orientations of the aromatic rings are possible, the barriers are lower. The latter process, involving the rotation of the benzene rings, becomes important at temperatures below 150 K and has not been further analysed.     

NMR studies of conformations and dynamic processes—II : [26]Bicyclophanes with ethylene bridges

The conformations and dynamic processes in two bicyclophanes have been analysed on the basis of temperature-dependent ¹H NMR spectra. Both bicyclophanes are suggested to have a lowest-energy conformation of D₃ symmetry in which the substituents at all ethylene bridges are gauche⁺ (or gauche^?) oriented. The interconversion of the mirror image conformers of each bicyclophane equilibrates the two hydrogens in each methylene group, the barriers being ca 36 and 37 kJ mol^?1, respectively, as determined by line-shape analysis.     

Quinuclidine complex with alpha-cyclodextrin: a diffusion and 13C NMR relaxation study

The stability of an inclusion complex of quinuclidine with alpha-cyclodextrin in solution was investigated by NMR measurements of the translational diffusion coefficient. A 1:1 stoichiometry model yielded an association constant of 35 +/- 3 M(-1). The guest molecules exchange rapidly between the host cavity and the bulk solution. The reorientational dynamics of the guest and host molecules was studied using carbon-13 NMR relaxation at two magnetic fields. The relaxation of the host nuclei showed very little dependence on the guest-host concentration ratio, while the 13C spins in quinuclidine were sensitive to the solution composition. Using mole-fraction data, it was possible to extract the relaxation parameters for the bound and free form of quinuclidine. Relaxation rates of the guest molecule, free in solution, were best described by an axially symmetric model, while the data of the complex species were analyzed using the Lipari-Szabo method. Applying the axially symmetric model to the complexed quinuclidine indicated that the anisotropy of its reorientation in the bound form was increased.     

Complexation in pseudorotaxanes based on alpha-cyclodextrin and different alpha,omega-diaminoalkanes by NMR diffusion measurements

The interactions of 1,4-diaminobutane (1), 1,6-diaminohexane (2), 1,8-diaminooctane (3), 1,10-diaminodecane (4), and 1,12-diaminododecane (5) with alpha-cyclodextrin (alpha-CD) were studied in aqueous solutions by NMR diffusion measurements before and after protonation. The correlation between the association constant and the length of the alkyl chain of the diamine unit was studied. The assumption that protonation on the amino groups can be used as a stopper and, as a result, to convert the pseudorotaxanes into rotaxanes was tested. In addition, other factors that can affect the pseudorotaxane stability, such as the effects of temperature, were tested. On the basis of these measurements, the following conclusions could be reached: (1) The association constant increases with the increase in the alkyl chain length. (2) For the salts (2b-5b), both in neutral and in acidic solutions, the binding constants increase as the number of CH(2) units increases. (3) The association constants of the complexes of the diaminoalkane salts and alpha-CD are lower than those of the corresponding neutral diaminoalkanes. (4) This difference between the binding constants of the diaminoalkanes and their respective salts decreases as the chain length increases. (5) By examining the effects of temperature on the (1)H NMR spectra, it was found that after addition of DCl the energy barrier for the threading-dethreading process of the salt of 5a is larger than that for the salt of 4a.