NMR measurements of scalar-coupling distributions in disordered solids

The measurement of scalar (J) couplings by solid-state NMR is a field of great interest, since this interaction is a rich source of local structural information, complementary to dipolar and chemical shift interactions. Here, we first demonstrate that J-coupling distributions exist and can be observed in disordered solids, as illustrated with the observation of a pair-specific distribution of (2)J((31)P-N-(31)P) couplings in a bis-phosphino amine, and we investigate the potential effects of such distributions on the measurement of average J-coupling constants. Second, we show that the measurement of two-dimensional (2D) distributions of J-couplings provides a much richer probe of local structural disorder than one-dimensional distributions, and we introduce new methods that provide different (selective or non-selective) ways of measuring 2D J distributions in a wide range of disordered systems. These methods are finally applied to a slightly disordered polymorphic sample of fully (13)C-enriched cellulose, and then to the bis-phosphino amine sample, from which 2D (2)J(PP)-coupling distributions are clearly identified and interpreted.     

Time dependent diffusion in a disordered medium with partially absorbing walls: a perturbative approach

We present an analytical study of the time dependent diffusion coefficient in a dilute suspension of spheres with partially absorbing boundary condition. Following Kirkpatrick [J. Chem. Phys. 76, 4255 (1982)] we obtain a perturbative expansion for the time dependent particle density using volume fraction f of spheres as an expansion parameter. The exact single particle t operator for partially absorbing boundary condition is used to obtain a closed form time dependent diffusion coefficient D(t) accurate to first order in the volume fraction f. Short and long time limits of D(t) are checked against the known short time results for partially or fully absorbing boundary conditions and long time results for reflecting boundary conditions. For fully absorbing boundary condition the long time diffusion coefficient is found to be D(t)=5a(2)/(12fD(0)t)+O((D(0)t/a(2))(-2)) to the first order of perturbation theory. Here f is small but nonzero, D(0) the diffusion coefficient in the absence of spheres, and a the radius of the spheres. The validity of this perturbative result is discussed.     

Structural studies and diffusion measurements of water-swollen cellophane by NMR imaging

NMR imaging and spatially resolved diffusometry have been used to study the distribution of water within swollen cellophane and measure its diffusion coefficient. Water concentration and diffusion coefficient were found to be essentially constant across most of the film thickness. However, significantly slower diffusion was indicated for water near the film surface (D=0.5×10^–9m²s^–1) compared with water in the centre of the film (D=0.88×10^–9m²s^–1). This was also reflected in lower T ₂ values at the edge of the film indicating water with more restricted motion. These observations were interpreted in terms of dense surface regions of cellulose (skin) over a more porous interior (core).     

Rapid distinction of intracellular and extracellular proteins using NMR diffusion measurements

In-cell NMR spectroscopy offers a unique opportunity to begin to investigate the structures, dynamics, and interactions of molecules within their functional environments. An essential aspect of this technique is to define whether observed signals are attributable to intracellular species rather than to components of the extracellular medium. We report here the results of NMR measurements of the diffusion behavior of proteins expressed within bacterial cells, and find that these experiments provide a rapid and nondestructive probe of localization within cells and can be used to determine the size of the confining compartment. We show that diffusion can also be exploited as an editing method to eliminate extracellular species from high-resolution multidimensional spectra, and should be applicable to a wide range of problems. This approach is demonstrated here for a number of protein systems, using both (15)N and (13)C (methyl-TROSY) based acquisition.     

Evaluation of NMR diffusion measurements for the conformational analysis of flexible peptides

The use of diffusion coefficients measured with pulsed-field gradient NMR spectroscopy for the determination of the relative population of conformers in solutions of the human Growth Hormone peptide fragment, hGH(9–19), has been studied in aqueous and in trifluoroethanol (TFE)/ water solutions. The peptide is a good model compound for this study because it adopts a predominantly random coil conformation in aqueous solution and is helical in TFE. The results of the diffusion measurements suggest that the peptide exhibits predominantly random coil structures in aqueous solution and adopts a more helical conformation in solutions containing increasing mole fractions of TFE, consistent with the qualitative findings of the standard CD and NMR experiments to probe peptide conformation. These results indicate that diffusion coefficients measured with NMR can provide additional information about temperature- and solvent-induced changes in the extent of the helical conformer for hGH(9–19) in aqueous solution and in solutions containing various mole fraction of TFE, respectively.     

Evaluation of NMR diffusion measurements for the conformational analysis of flexible peptides

The use of diffusion coefficients measured with pulsed-field gradient NMR spectroscopy for the determination of the relative population of conformers in solutions of the human Growth Hormone peptide fragment, hGH(9-19), has been studied in aqueous and in trifluoroethanol (TFE)/ water solutions. The peptide is a good model compound for this study because it adopts a predominantly random coil conformation in aqueous solution and is helical in TFE. The results of the diffusion measurements suggest that the peptide exhibits predominantly random coil structures in aqueous solution and adopts a more helical conformation in solutions containing increasing mole fractions of TFE, consistent with the qualitative findings of the standard CD and NMR experiments to probe peptide conformation. These results indicate that diffusion coefficients measured with NMR can provide additional information about temperature- and solvent-induced changes in the extent of the helical conformer for hGH(9-19) in aqueous solution and in solutions containing various mole fraction of TFE, respectively.     

Determining accurate molecular sizes in solution through NMR diffusion spectroscopy

This tutorial review deals with the methodological procedures that can be used to obtain accurate molecular sizes in solution from diffusion NMR spectroscopy. The critical aspects associated with the estimation of the size of molecules from the measured translational self-diffusion coefficient, using the Stokes-Einstein equation, are highlighted and discussed. From a theoretical point of view, it is shown how to take into account the size of the solute with respect to that of the solvent and its non-spherical shape using the appropriate correction factors in the frictional coefficient. From a practical point of view, the advantages of introducing an internal standard in the sample are presented. Initially, non-aggregating systems are considered in an attempt to clarify what hydrodynamic dimensions mean. Successively, aggregating systems are addressed showing how it is possible to understand the aggregation level and derive the thermodynamic parameters for some illustrative aggregation processes.     

Determination of peptide oligomerization in lipid bilayers using 19F spin diffusion NMR

Aggregation or oligomerization is important for the function of many membrane peptides such as ion channels and antimicrobial peptides. However, direct proof of aggregation and the determination of the number of molecules in the aggregate have been difficult due to the lack of suitable high-resolution methods for membrane peptides. We propose a 19F spin diffusion magic-angle-spinning NMR technique to determine the oligomeric state of peptides bound to the lipid bilayer. Magnetization transfer between chemically equivalent but orientationally different 19F spins on different molecules reduces the 19F magnetization in an exchange experiment. At long mixing times, the equilibrium 19F magnetization is 1/M, where M is the number of orientationally different molecules in the aggregate. The use of the 19F spin increases the homonuclear dipolar coupling and thus the distance reach. We demonstrate this technique on crystalline model compounds with known numbers of molecules in the asymmetric unit cell, and show that 19F spin diffusion is more efficient than that of 13C by a factor of approximately 500. Application to a beta-hairpin antimicrobial peptide, protegrin-1, shows that the peptide is almost completely dimerized in POPC bilayers at a concentration of 7.4 mol %. Decreasing the peptide concentration reduced the dimer fraction. Using a monomer-dimer equilibrium model, we estimate the DeltaG for dimer formation to be -10.2 +/- 2.3 kJ/mol. This is in good agreement with the previously measured free energy reduction for partitioning and aggregating beta-sheet peptides into phospholipid membranes. This 19F spin diffusion technique opens the possibility of determining the oligomeric structures of membrane peptides.     

NMR measurements of diffusion in concentrated samples: avoiding problems with radiation damping

Pulsed field gradient spin echo NMR is generally the method of choice for diffusion measurements on liquid samples. With modern high field instruments, however, severe problems can arise when it is applied to samples with very high proton concentrations because of the presence of radiation damping. The problems may be greatly reduced by a suitable choice of experimental parameters, in particular the use of modified stimulated echo pulse sequences with a reduced flip angle for the first pulse.     

High-resolution NMR correlation spectra of disordered solids

We show how high-resolution NMR spectra can be obtained for solids for which the spectra are normally broadened due to structural disorder. The method relies on correlations in the chemical shifts between pairs of coupled spins. It is found experimentally that there are strong correlations in the chemical shifts between neighboring spins in both phosphorus-31 and carbon-13 spectra. These correlations can be exploited not only to provide resolution in two-dimensional spectra, but also to yield "chains" of correlated chemical shifts, constituting a valuable new source of structural information for disordered materials.     

Use of glass capillaries to suppress thermal convection in NMR tubes in diffusion measurements

Diffusion ordered spectroscopy (DOSY) is used to determine the translational diffusion coefficients of molecules in solution. However, DOSY is highly susceptible to spurious spectral peaks resulting from thermal convection occurring in the NMR tube. Thermal convection therefore must be suppressed for accurate estimation of translational diffusion coefficients. In this study, we developed a new method to effectively suppress thermal convection using glass capillaries. A total of 6 to 18 capillaries (0.8‐mm outer diameter) were inserted into a regular 5‐mm NMR tube. The capillaries had minimal effect on magnetic field homogeneity and enabled us to obtain clean DOSY spectra of a mixture of small organic compounds. Moreover, the capillaries did not affect chemical shifts or signal intensities in two‐dimensional heteronuclear single quantum coherence spectra. Capillaries are a simple and inexpensive means of suppressing thermal convection and thus can be used in a wide variety of DOSY experiments. Copyright © 2016 John Wiley & Sons, Ltd.     

Relaxation times,diffusion coefficients and high frequency NMR measurements of methane dissolved in MBBA

The measurements of proton T₁, T₂ and diffusion coefficients of CH₄ and deuterium T₁ in CD₄, dissolved in MBBA are reported as a function of the temperature in the nematic and solid phases. Also reported are cw measurements of CH₄ in MBBA at 250 MHz which definitely prove that it is oriented. The results are discussed in terms of their relation to previously published cw NMR measurements on these systems.     

Epitope mapping and competitive binding of HSA drug site II ligands by NMR diffusion measurements

It is important to characterize drug-albumin binding during drug discovery and lead optimization as strong binding may reduce bioavailability and/or increase the drug's in vivo half-life. Despite knowing about the location of human serum albumin (HSA) drug binding sites and the residues important for binding, less is understood about the binding dynamics between exogenous drugs and endogenous fatty acids. In contrast to highly specific antibody-antigen interactions, the conformational flexibility of albumin allows the protein to adopt multiple conformations of approximately equal energy in order to accommodate a variety of ligands. Nuclear magnetic resonance (NMR) diffusion measurements are a simple way to quantitatively describe ligand-protein interactions without prior knowledge of the number of binding sites or the binding stoichiometry. This method can also provide information about ligand orientation at the binding site due to buildup of exchange-transferred NOE (trNOE) on the diffusion time scale of the experiment. The results of NMR diffusion and NOE experiments reveal multiple binding interactions of HSA with dansylglycine, a drug site II probe, and caprylate, a medium-chain fatty acid that also has primary affinity for HSA's drug site II. Interligand NOE (ilNOE) detected in the diffusion analysis of a protein solution containing both ligands provides insight into the conformations adopted by these ligands while bound in common HSA binding pockets. The results demonstrate the ability of NMR diffusion experiments to identify ternary complex formation and show the potential of this method for characterizing other biologically important ternary structures, such as enzyme-cofactor-inhibitor complexes.     

The role of water molecules in a resorcinarene capsule as probed by NMR diffusion measurements

[structure: see text] NMR diffusion measurements were used to probe the role of water molecules in a resorcinarene capsule in a CDCl(3) solution. It was found that the water/resorcinarene ratio affects both the chemical shift and the diffusion coefficient of the water molecules. From the NMR diffusion measurements we could conclude that the major species in the chloroform solution is the hexamer having eight water molecules that are in fast exchange, on the NMR time scale, with the bulk water.     

Transfer of electronic excitation energy in partially disordered polymer chain

A new form of the generalized master equation for electronic excitation transfer in a partially disordered polymer chain was derived. Within this equation, in order to differentiate the transfer in ordered parts of the partially disordered polymer chain, we decomposed the memory function of electronic excitation into several parts. These parts are memory functions associated with various types of subdynamics of electronic excitation. The partially disordered polymer chain where the disorder is caused by conformational defects is discussed.     

Metallocene polymerization catalyst ion-pair aggregation by cryoscopy and pulsed field gradient spin-echo NMR diffusion measurements

Pulsed field gradient spin-echo (PGSE) NMR and cryoscopic measurements have been performed on a series of homogeneous metallocene polymerization catalyst ion-pairs to determine if aggregation is a significant phenomenon under typical polymerization conditions. Cryoscopic measurements on [(Me5Cp)2ZrMe]+[MeB(C6F5)3]- (1), [rac-Et(Indenyl)2ZrMe]+[MeB(C6F5)3]- (2), [(1,2-Me2Cp)2ZrCHTMS2]+[MeB(C6F5)3]- (3), [Me2Si(Me4Cp)(t-BuN)TiMe]+[MeB(C6F5)3]- (4), [Me2Si(Me4Cp)(t-BuN)ZrMe]+[MeB(C6F5)3]- (5), and [Me2C(Fluorenyl)(Cp)ZrMe]+[MeB(C6F5)3]- (6) were carried out in benzene in the 10-18 millimolal concentration range. PGSE measurements, using (p-tolyl)4Si as an internal standard, were also performed on catalyst ion-pairs 1, 4, 6, [(Me5Cp)2ThMe]+[B(C6F5)4]- (7), [(Me2SiCp2)ZrMe]+[MeB(C6F5)3]- (8), and [Cp2ZrMe]+[MeB(C6F5)3]- (9) in the 0.8-10.0 millimolar range. All results are consistent with a 1:1 ion-pair structural model and show little evidence for ion-quadruples or higher-order aggregates.     

N NMR spectroscopy of partially saturated pyrazoles

Partially saturated pyrazoles, namely 1-(4-substituted)phenyl-3-methoxycarbonyl-5-ethoxycarbonyl-4,5-dihydropyrazoles, were submitted to extensive ¹⁵N NMR spectroscopic analyses, performed in natural abundance. Nitrogen chemical shifts were measured by means of INEPT and HMBC experiments, while long range proton-nitrogen scalar coupling values were taken through J-HMBC experiments. A linear plot between nitrogen chemical shifts and Hammett σ_p was observed, enabling us to relate quantitatively the observed chemical shifts to the electronic features of the substituent in the 1-position of the 4,5-dihydropyrazole ring.