Laser-induced NMR shift of a paramagnetic system

Perturbation theory on optical ac Stark effect is applied to study the NMR spectroscopy in paramagnetic systems. Application of the circularly or linearly polarized optical field would lead to shifts in the NMR lines, which is proportional to the laser intensity and the induced polarizability tensors by hyperfine interaction. The induced shift for 193Ir NMR spectrum of [IrBrg]2- is expected to be of the order of 1-10 Hz as resonance is approached with light intensity 10 W·cm-2. For the supersonic molecular beam samples 193IrC, the laser-induced NMR shift is estimated to be as large as 1-10 MHz near resonance.     

NMR spectra of paramagnetic complexes of 1-vinylimidazole with iron group metals

The high-resolution ¹H and ¹³C NMR spectra of 1-vinylimidazole complexes with iron group metals were recorded. The contact coupling in these systems was established in the ¹H and ¹³C NMR spectra. The applicability of the NMR spectra transformed by long-range hyperfine coupling for elucidating the molecular structure of the ligand was shown. Published in Russian in Izvestiya Akademii Nauk. Seriya Khimicheskaya, No. 6, pp. 1430–1433, June, 2005.     

One- and two-photon spectra of some selected molecules: A comparative study

The complementarity of one- and two-photon spectroscopy has been utilised for throwing light on the following problems of chemical interest: (1) Weak interaction between identical chromophores separated by insulating bridges gives rise to split states of different symmetries. Two-photon spectroscopy (TPA), in conjunction with one-photon absorption (OPA), has been used to identify the states and hence to estimate the magnitude of interaction in bimolecules and trimolecules. From the shifts between the one- and the two-photon spectra, the splittings have been estimated. Calculations confirm that the dominant interaction is the through-bond one. (2) The second type of problem is the identification ofg andu vibrations in molecules. We have initiated studies on three molecules in jet-cooled conditions: 9,10-dihydro-anthracene (DHA). 9,10-dihydro-phenanthrene (DHP) and octa-fluoronaph-thalene (OFN). Only the one-photon fluorescence excitation spectra have so far been obtained by us and the TPA spectra are under investigation. (3) The third class of molecules discussed here are the Ln³⁺ complexes wheref ⁿ⇒ fⁿ transitions are intrinsically two-photon allowed. We have studied two GD³⁺ single crystals. The CF-splittings, observed clearly in TPA, have been fitted with a parametric model. Some of our observations on the variations of TPA intensity patterns from crystal to crystal, such as circular:linear polarisation ratios, relative intensities of transitions to differentJ-states, do not quite fit in with the Axe-Judd-Downer model. The discrepancies call for a reappraisal of the role of ligand in the TPA process.     

Keeping PASE with WEFT: SHWEFT–PASE pulse sequences for 1H NMR spectra of highly paramagnetic molecules

Metalloproteins are a category of biomolecules in which the metal site is usually the locus of activity or function. In many cases, the metal ions are paramagnetic or have accessible paramagnetic states, many of which can be studied using NMR spectroscopy. Extracting useful information from ¹H NMR spectra of highly paramagnetic proteins can be difficult because the paramagnetism leads to large resonance shifts (~400 ppm), extremely broad lines, extreme baseline nonlinearity, and peak shape distortion. It is demonstrated that employing polychromatic and adiabatic shaped pulses in simple pulse sequences, then combining existing sequences, leads to significant spectral improvement for highly paramagnetic proteins. These sequences employ existing technology, with available hardware, and are of short duration to accommodate short nuclear T₁ and T₂. They are shown to display uniform excitation over large spectral widths (~75 kHz), accommodate high repetition rates, produce flat baselines over 75 kHz while maintaining peak shape fidelity, and can be used to reduce spectral dynamic range. High‐spin (S = 5/2) metmyoglobin, a prototypical highly paramagnetic protein, was used as the test molecule. The resulting one‐dimensional (1D) pulse sequences combine shaped pulses with super‐water elimination Fourier transform, which can be further combined with paramagnetic spectroscopy to give shaped pulses with super‐water elimination Fourier transform–paramagnetic spectroscopy. These sequences require, at most, direct current offset correction and minimal phasing. The performance of these sequences in simple ¹H 1D, 1D NOE, and two‐dimensional NOESY experiments is demonstrated for metmyoglobin and Paracoccus denitrificans Co²⁺‐amicyanin (S = 3/2), and employed to make new heme hyperfine resonance assignments for high‐spin metBjFixLH_151–256, the heme sensing domain of Bradyrhizobium japonicum FixL. Copyright © 2013 John Wiley & Sons, Ltd.     

Predicting NMR spectra by computational methods: structure revision of hexacyclinol

[structure: see text] The structure of the natural product hexacyclinol was reassigned from endoperoxide 1 to the diepoxide 7 on the basis of calculated (13)C chemical shift data using HF/3-21G geometries and mPW1PW91/6-31G(d,p) GIAO NMR predictions. These predictions correlate very well with experimental data for three other highly oxygenated natural products, elisapterosin B, maoecrystal V, and elisabethin A. Hexacyclinol is proposed to arise from acid-catalyzed rearrangement of panepophenanthrin in the presence of methanol.     

Water structure and dynamics at a silica surface: Pake doublets in 1H NMR spectra

Detailed knowledge about the dynamics and structure of liquids in the vicinity of a solid surface is important in several fields of research. In this study a homogeneous model system of colloidal and nonporous silica particles with a narrow particle size distribution was used to examine such properties of adsorbed water and 1-heptanol. Doublet (1)H water resonances ("Pake doublets") indicate a preferred spatial orientation for the water molecules, as well as a lower molecular density in the surface-induced water structures compared to bulk water. These surface-induced structures are found to extend at least 8 nm from the silica surface. T(1) relaxation measurements at several temperatures indicate weaker H-bonding in the adsorbed water compared to bulk water. T(2) relaxation measurements at several temperatures reveal the presence of two water phases and give quantitative information on the mobility of water molecules and proton exchange processes. The presence of 1-heptanol changes the water characteristics, primarily in the water phase closer to the surface, where water molecules experience decreased translational and increased rotational freedom. In the absence of water, adsorbed 1-heptanol forms surface aggregates encompassing several molecular layers, where the first adsorbed layer shows severe restrictions in mobility and subsequent layers are more mobile.     

The study of macromolecular structure by pulsed NMR

NMR has been widely used to determine chemical structure. The analysis of many important physical and physico-chemical properties such as molecular weight and mobility, the effect of crosslinking and entanglements and of solvents temperature, the role of crystalline regions and chain flexebility may be achieved very readily and simply these techniques. Once methods of analysis are understood and evaluated, they may serve only for the analysis of radiation effects but also for other forms of chemical treatment, the role of additives, orientation, and understanding and evaluation of important physical aspects, for which many of these polymers are intended. The use of pulsed NMR can also be used to evaluate radiation chemistry under different conditions, and it is expected that this knowledge could be extended to biological and medical systems, where a knowledge of the physical arrangements, mobility, entangled and other molecular properties and especially arrangement can be very important, yet difficult to measure.     

Simultaneous NMR study of protein structure and dynamics using conservative mutagenesis

A novel iterative procedure is described that allows both the orientation and dynamics of internuclear bond vectors to be determined from direct interpretation of NMR dipolar couplings, measured under at least three orthogonal alignment conditions. If five orthogonal alignments are available, the approach also yields information on the degree of motional anisotropy and the direction in which the largest amplitude internal motion of each bond vector takes place. The method is demonstrated for the backbone (15)N-(1)H, (13)C(alpha)-(1)H(alpha), and (13)C(alpha)-13C' interactions in the previously well-studied protein domain GB3, dissolved in a liquid crystalline suspension of filamentous phage Pf1. Alignment variation is achieved by using conservative mutations of charged surface residues. Results indicate remarkably uniform backbone dynamics, with amplitudes that agree well with those of previous (15)N relaxation studies for most residues involved in elements of secondary structure, but larger amplitude dynamics than those found by (15)N relaxation for residues in loop and turn regions. In agreement with a previous analysis of dipolar couplings, the N-H bonds in the second beta-strand, which is involved in antibody recognition, show elevated dynamics with largest amplitudes orthogonal to the chain direction.     

Modeling of heavy-atom-ligand NMR spin-spin coupling in solution: molecular dynamics study and natural bond orbital analysis of Hg-C coupling constants

Ab initio molecular dynamics (MD) and relativistic density functional NMR methods were applied to calculate the one‐bond Hg? C NMR indirect nuclear spin–spin coupling constants (J) of [Hg(CN)₂] and [CH₃HgCl] in solution. The MD averages were obtained as J(¹⁹⁹Hg? ¹³C)=3200 and 1575 Hz, respectively. The experimental Hg? C spin–spin coupling constants of [Hg(CN)₂] in methanol and [CH₃HgCl] in DMSO are 3143 and 1674 Hz, respectively. To deal with solvent effects in the calculations, finite “droplet” models of the two systems were set up. Solvent effects in both systems lead to a strong increase of the Hg? C coupling constant. From a relativistic natural localized molecular orbital (NLMO) analysis, it was found that the degree of delocalization of the Hg 5d_σ nonbonding orbital and of the Hg? C bonding orbital between the two coupled atoms, the nature of the trans Hg? C/Cl bonding orbital, and the s character of these orbitals, exhibit trends upon solvation of the complexes that, when combined, lead to the strong increase of J(Hg? C).     

The structure of the proton skeleton in 1,3-butadieneiron Tricarbonyl as determined from the NMR spectra of oriented molecules

¹H NMR spectra of 1,3-butadieneiron tricarbonyl oriented in a nematic liquid crystal solvent have been analysed and used to derive the structure of the proton skeleton, which is found to be non-planar. The distance of the anti protons from the plane defined by the remaining four protons is 0.77 ± 0.06 ±.     

Elucidation of the electronic structure of molecules with the help of NMR spin-spin coupling constants: the FH molecule

It is demonstrated how the one-bond NMR spin-spin coupling constant (SSCC) (1)J(FH) can be used as a source of information on the electronic structure of the FH molecule. For this purpose, the best possible agreement between measured and calculated SSCC is achieved by large basis set coupled perturbed density functional theory calculations. Then, the calculated value is dissected into its four Ramsey terms: Fermi contact, the paramagnetic spin-orbit term, the diamagnetic spin-orbit term, and the spin dipole term, which in turn are decomposed into orbital contributions and then described by their spin densities and orbital current densities. In this way, the SSCC gives detailed information about the electronegativity of F, the bond polarity, the bond polarizability, the volume and the polarizability of sigma and pi lone pair orbitals, the s- or p-character of the bond orbital, the nature of the LUMO, and the density distribution around F.     

Full-atom molecular dynamics study of structure and stability of filament-like aggregates formed by silver mercaptide molecules

The process of the emergence of gel network in a cystein-silver solution is studied by full-atom molecular dynamics. It is shown that, because of the formation of donor-acceptor sulfur-silver bonds, clusters are formed by zwitterions and cations of silver mercaptide followed by the formation of filament-like aggregates. The analysis of formed molecular configurations demonstrates that filament-like aggregates are stabilized by virtue of the interaction between ?NH ₃ ⁺ and ?C(O)O^? groups that belong to the particles of silver mercaptide comprising neighbor clusters. The absorption UV spectra of various aggregates formed from particles of silver mercaptide are investigated by the quantum-mechanical ZINDO/1 method.     

Analysis of 1H NMR spectra of fluorene and azafluorenes: Long-range coupling constants

Analyses of the ¹H NMR spectra of fluorene, 2-nitrofluorene, 1-azafluorene, 2-azafluorene, 4-azafluorene, 7-nitro-4-azafluorene and 1,4-diazafuorene have been carried out using computer calculations and homo double resonance techniques. The relative signs and magnitude of the ⁴J, ⁵J and ⁶J long-range coupling constants of the 9-CH₂ group protons with the pyridine and phenylene ring protons have been measured by five- and six-spin calculations. It was established that the presence of substituents and the N heteroatom has only a very weak effect on the values and signs of these coupling constants. The usual alternating signs of long-range coupling constants involving π-electron systems were confirmed, giving negative signs for even and positive signs for odd numbers of bonds separating the coupling protons.     

A theoretical NMR study of polymorphism in crystal structures of azoles and benzazoles

The NMR chemical shifts of two azoles and one benzazole whose crystal structures present polymorphism have been computed using the GIPAW approach. ¹⁵N and ¹³C nuclei have been studied. Statistical analysis of the computed ¹³C and ¹⁵N chemical shifts indicates that the GIPAW chemical shifts reproduce with a high degree of accuracy those experimentally reported. This methodology can be used to identify other polymorphic crystal structures.     

Simulation of 2D H homo- and H-C heteronuclear NMR spectra of organic molecules by DFT calculations of spin-spin coupling constants and H and C-chemical shifts

Simulation of 2D ¹H homo- and ¹H-¹³C heteronuclear NMR spectra of organic molecules are here suggested as a tool in the structure elucidation of organic compounds. DFT calculations of ¹H and ¹³C chemical shifts are performed on a sample compound, the ethyl ester of the exo-2-norbornanecarbamic acid, with the mPW1PW91 method using the 6-31G(d) basis set, following a full optimization of the geometry. Homo and heteronuclear spin-spin coupling constants are also calculated, providing full prediction of the common 2D ¹H-¹H COSY, 2D ¹H-¹³C HSQC, and 2D ¹H-¹³C HMBC.