No description available.

This thesis is a study of solid halogenated organic compounds by Nuclear Magnetic Resonance Spectroscopy (NMR) in an attempt to extract previously inaccessible information. The first part of the thesis is concerned with three fluorinated steroids, studied by observing (^1)H, (^13)C and (^19)F nuclei. A number of experimental techniques are employed to verify solution-state and solid-state spectral assignments, and spectral anomalies are discussed. Both proton-coupled and proton-decoupled (^19)F solid-state spectra, recorded using specially designed spectrometer hardware, are presented. The huge gain in resolution afforded by the implementation of proton decoupling allows static and MAS spectra to yield previously inaccessible information pertaining to various NMR parameters of the fluorine nuclei. Advantages of (^1)H→(^19)F cross-polarisation experiments over single-pulse experiments are explained and rotational resonance, dipolar dephasing, T(_1), measurement and spin-exchange experiments are presented from which information regarding phenomena such as spin diffusion and polymorphism is gleaned. The second part of the thesis focusses on the topic of residual dipolar coupling, the transfer of quadrupolar effects to spin-1/2 nuclei via dipolar coupling and/or anisotropy m indhect coupling. Unexpected, field-dependent, multiplicities for signals in spectra of spin-1/2 nuclei are observed, which can be used to evaluate certain fundamental NMR parameters including the quadrupolar coupling constant and, m favourable cases, anisotropy in indirect coupling. The phenomenon is comprehensively studied for the (^13)C, (^35,37)Cl and (^13)C, (^79,81)Br spin-pairs in a range of solid halogenated compounds. Coupling to more than one halogen nucleus and long- range (non-bonded) coupling are considered. First-order perturbation, inverse first- order and "exact" theories, that allow the multiplet line positions to be predicted, are introduced and their results are subsequently compared to the experimentally observed the positions. Rapid molecular motion is shown to negate the effects of residual dipolar coupling and the phenomenon is analysed with the aid of NQR measurements.

Abstract The indirect spin-spin coupling is a molecular internuclear interaction, which is observable by utilizing NMR spectroscopy. This coupling, denoted J, is a second-order tensorial property that consists of rank-0, 1, and 2 components. The present thesis deals with the experimental determination of the rank-0 and rank-2 components of J tensors for different pairs of interacting nuclei by utilizing liquid crystal NMR (LC NMR) method. The experimental information of the rank-2 component of the J tensor appears as Janiso, a combination of tensor elements. In LC NMR, Janiso is manifested as a contribution to the experimental anisotropic coupling (Dexp ) that contains also the corresponding internuclear dipolar coupling, D. The dipolar coupling is defined by the molecular geometry and average orientation, and affected by the molecular motions. Therefore, the molecular geometry and orientation have to be determined together with the studied Janiso couplings. The contributions to D couplings arising from the molecular vibrations and solvent-induced deformation of the molecular geometry are taken into account in the analysis of the experimental data; the contributions are presented briefly in this thesis. The LC NMR experiments are performed for C6H6, HCONH2, C2H2, C2H4, C2H6, 1,4-C6H4F2, CH3F, CH2F2, CHF3, and CSiH6 molecules, and some important aspects of the liquid crystal NMR method are discussed. The obtained information of J tensors is compared with the theoretical ab initio MCSCF results. Finally, the systematics of the J tensors in different structural surroundings is found and the significance of the indirect contribution to the corresponding Dexp coupling is discussed.

No description available.

Strukturaufklärung gehört zu den wichtigsten Gebieten der Grundlagenforschung, da sie direkte Einblicke in biologische Systeme und ihre Mechanismen liefert. Der NMR Spektroskopie kommt dabei eine besondere Bedeutung zu, denn sie ermöglicht Forschung unter physiologischen Bedingungen. Dementsprechend ist die Entwicklung neuer Techniken zur Verbesserung dieser Methode weiterhin ein zentrales Forschungsgebiet. Paramagnetische Markierung von Biomolekülen ermöglicht die Bestimmung von NMR Parametern, wie z.B. residuale dipolare Restkopplungen (RDCs) oder Pseudokontaktverschiebungen (PCSs), die für die Strukturaufklärung wertvolle Winkel- und Abstandsinformationen über das Zielmolekül beinhalten. In diesem Zusammenhang wurden Lanthanoidionen-koordinierende Tags entwickelt und erfolgreich an Proteinen angebracht. Durch die paramagnetischen Eigenschaften der Lanthanoidionen wird eine partielle Ausrichtung des Zielmoleküls im Magnetfeld des NMR Spektrometers induziert und somit das Messen residualer dipolarer Kopplungen ermöglicht. Zusätzlich werden die NMR Signale durch eine Dipol-Dipol-Wechselwirkung zwischen dem Lanthanoidion und den Kernen verschoben (PCS). In der konventionellen NMR Spektroskopie werden diese Effekte, aufgrund der Brownschen Molekularbewegung und dem Fehlen eines Metallions, nicht beobachtet. In der Fachliteratur ist ein Transfer dieser Methode auf Oligonukleotide nicht bekannt, obwohl DNA und RNA zu den wichtigsten Biomolekülen überhaupt zählen. In dieser Arbeit wurde mit Hilfe des kürzlich entwickelten Cys-Ph-TAHA Tags ein Protokoll zur Bestimmung von paramagnetischen Effekten in der DNA entwickelt. Dafür wurde eine modifizierte Nukleobase synthetisiert, die eine passende Bindungsstelle für den Tag aufweist. Mit der neu entwickelten Methode wurden zwei paramagnetische und eine diamagnetische Referenzprobe hergestellt. Mittels hochauflösender NMR Spektroskopie konnten paramagnetisch-induzierte PCSs und RDCs gemessen werden. Die Auswertung zeigte eine hohe Qualität der gemessenen PCSs in beiden paramagnetischen Proben. Die RDCs wiesen einen signifikanten Fehler auf. Die in der NMR Spektroskopie übliche Isotopenmarkierung (13C/15N) ist bei im DNA-Synthesizer hergestellten Oligonukleotiden auf Grund der teuren Ausgangsmaterialien nicht möglich, sodass die hergestellten NMR Proben eine natürliche Isotopenhäufigkeit aufwiesen. In den NMR Spektren zur Bestimmung der RDCs ist damit das Verhältnis von Signal-zu-Rausch relativ niedrig, was zusammen mit der paramagnetischen Relaxationsverstärkung zu einem größeren Messfehler führt. Dennoch konnten die erhaltenen paramagnetischen Daten mit einem Ensemblemodell beschrieben werden. In der vorliegenden Arbeit wurde die Methode der paramagnetischen Markierung erfolgreich auf die Stoffklasse der Oligonukleotide übertragen. Dabei wurde ein reproduzierbares Protokoll entwickelt, mit dem eine Bindungsstelle in einen DNA Strang eingebaut und das Zielmolekül anschließend mit dem Cys-Ph-TAHA Tag markiert wurde. Die erfolgreiche Anwendung der Methode konnte durch die erhaltenen paramagnetischen Messwerte von hoher Qualität verifiziert werden.

京都大学 / 新制・課程博士 / 博士(理学) / 甲第23460号 / 理博第4754号 / 新制||理||1681(附属図書館) / 京都大学大学院理学研究科生物科学専攻 / (主査)教授 杤尾 豪人, 教授 森 和俊, 教授 望月 敦史 / 学位規則第4条第1項該当 / Doctor of Science / Kyoto University / DGAM

This thesis is aimed at studying experimentally the magnetisationdynamics of discs in the sub-micron range made of low dampingferromagnetic materials. For this purpose, an extremely sensitivetechnique has been used: the ferromagnetic resonance force microscopy. A firstpart is devoted to the measurement of the eigenmodes of NiMnSb discstaken in their remanent state: a vortex. The influence of aperpendicular magnetic field on the spin wave modes in the vortex state willbe detailled. Then, the coupling mechanism between the vortex core andthese spin wave, eventually leading to its dynamical reversal, ishighlighted. A theoretical framework of the vortex state is presented,allowing to model the experimental observations. In a second part,the problem of the collective magnetisation dynamics in several FeVdiscs is addressed. Measurements of the collective modes coupled bythe dynamical dipolar interaction are presented, associated with atheoretical modelisation which explain quantitatively the experimentalresults.

This thesis is about excitation, detection, properties and applications of multiple quantum coherences applied to different dipolar coupled spin systems. Major focus of the work is on spectral simplification, measurement of residual dipolar couplings and discrimination of enantiomers in chiral aligning media. The first chapter gives a brief account on the fundamentals of nuclear magnetic resonance spectroscopy and multiple quantum coherences. This includes a description of product operator and polarization operator formalisms of pulses and evolution of magnetization. Subsequently a detailed account of two dimensional multiple quantum – single quantum (MQ-SQ) correlation experiments is given. Demonstration of the homonuclear MQ-SQ pulse sequence on a weakly coupled spin system and analysis of the spectrum obtained are also discussed. Homo-nuclear multiple quantum studies carried out to obtain relative the signs of the couplings have been reported in the initial part of the second chapter. The technique has been applied on doubly labeled acetonitrile (13CH313C15N) aligned in a liquid crystalline medium. Special situations like ambiguity in the determination of relative signs of the couplings from the appearance of two dimensional MQ-SQ spectra and the explanation for the same are also discussed. Homo-nuclear MQ experiments on indistinguishable spins, like protons in a methyl group of 13CH313C15N oriented in liquid crystal, and distinguishable spins, like the two carbons in the same molecule, have been carried out. Different directions of approach in which these results need to be analyzed have been discussed. Subsequent part of the chapter is about the correlation of connected MQ-SQ coherences. These experiments are significant in reducing the cross-peaks further from the MQ-SQ spectra. This concept is extended for the discrimination of optical enantiomers dissolved in chiral aligning medium made of poly-Γ-benzyl-L-glutamate (PBLG) and CDCl3. In molecules of Chemical and biological interest one encounters several nuclei such as, 1H, 13C, 15N and 19F. It will be of general interest to determine magnitudes and relative signs of the couplings among these coupled nuclei by NMR experiments. Utilization of hetero-nuclear MQ Experiments in solving such problems is discussed in the third Chapter. Hetero-nuclear MQ experiments were carried out on dipolar coupled 13CH313C15N, with the aim of obtaining the values and signs of various hetero-nuclear couplings in the molecule. The splitting of transitions in the spectra of oriented molecules is always influenced by the sum of dipolar and scalar couplings. Hence precise determination of dipolar couplings requires the knowledge of scalar couplings. To determine the J couplings, experiments were carried out on the same molecule in isotropic medium. When many coupled nuclei are involved one has to carry out several experiments to derive all the spectral parameters. In circumventing this problem heteronuclear multiple quantum experiments involving more than two nuclei as active spins are advantageous. This reduces the number of experiments and thereby reducing the total experimental time. Second part of this chapter demonstrates how a triple resonance triple quantum experiment can provide majority of the couplings from a given coupled system. The feasibility of the experiment is demonstrated even for molecules containing natural abundant isotopes. Application of multiple quantum j-resolved technique for chiral discrimination and obtaining complete one dimensional spectrum of each enantiomer from their racemic mixture is discussed in the fourth chapter. The two dimensional experiment consists of a selective double quantum excitation period followed by selective refocusing during indirect time domain, isotropic mixing and nonselective detection of SQ transitions. Hence this pulse sequence is named as DQSERF-COSY (Double Quantum Selective Refocused Correlation Spectroscopy). The experiment exploits the existence of different intra-methyl couplings between the enantiomers dissolved in chiral liquid crystal medium to separate the one dimensional spectra of each enantiomer in different cross sections. This is possible due to the fact that all the nuclei in any one of the enantiomers are coupled among themselves and there is no inter molecular interaction between the two enantiomers. Also one can extract all the couplings between protons in each enantiomer, which can subsequently be utilized for determination of the residual dipolar couplings, structure and orientation parameters.

<p>Nuclear magnetic resonance (NMR) spectroscopy is an established technique for macromolecular structure determination at atomic resolution. However, the majority of the current structure determination approaches require a large set of experiments and use large amount of data to elucidate the three dimensional protein structure. While current structure determination protocols may perform well in data-rich settings, protein structure determination still remains to be a difficult task in a sparse-data setting. Sparse data arises in high-throughput settings, for larger proteins, membrane proteins, and symmetric protein complexes; thereby requiring novel algorithms that can compute structures with provable guarantees on solution quality and running time.</p><p>In this dissertation project we made an effort to address the key computational bottlenecks in NMR structural biology. Specifically, we improved and extended the recently-developed techniques by our laboratory, and developed novel algorithms and computational tools that will enable protein structure determination from sparse NMR data. An underlying goal of our project was to minimize the number of NMR experiments, hence the amount of time and cost to perform them, and still be able to determine protein structures accurately from a limited set of experimental data. The algorithms developed in this dissertation use the global orientational restraints from residual dipolar coupling (RDC) and residual chemical shift anisotropy (RCSA) data from solution NMR, in addition to a sparse set of distance restraints from nuclear Overhauser effect (NOE) and paramagnetic relaxation enhancement (PRE) measurements. We have used tools from algebraic geometry to derive analytic expressions for the bond vector and peptide plane orientations, by exploiting the mathematical interplay between RDC- or RCSA-derived sphero-conics and protein kinematics, which in addition to improving our understanding of the geometry of the restraints from these experimental data, have been used by our algorithms to compute the protein structures provably accurately. Our algorithms, which determine protein backbone global fold from sparse NMR data, were used in the high-resolution structure determination protocol developed in our laboratory to solve the solution NMR structures of the FF Domain 2 of human transcription elongation factor CA150 (RNA polymerase II C-terminal domain interacting protein), which have been deposited into the Protein Data Bank. We have developed a novel, sparse data, RDC-based algorithm to compute ensembles of protein loop conformations in the presence of a moderate level of dynamics in the loop regions. All the algorithms developed in this dissertation have been tested on experimental NMR data. The promising results obtained by our algorithms suggest that our algorithms can be successfully applied to determine high-quality protein backbone structures from a limited amount of experimental NMR data, and hence will be useful in automated NOE assignments and high-resolution protein backbone structure determination from sparse NMR data. The algorithms and the software tools developed during this project are made available as free open-source to the scientific community.</p> / Dissertation

<p>This thesis evaluates several solid-state NMR spectroscopy approaches to studying lithium ion dynamics in solid-state electrolytes. With the goal of reducing the risks associated with current liquid electrolytes, solid-state electrolytes provide non-flammable materials that are also stable against attack by cathode and anode materials. Solid-state NMR spectroscopy offers a versatile method to determine structural details and can also provide information about ion mobility in solid-state electrolytes. Challenges involved in the study of solid-state electrolytes include the difficulty in distinguishing between ^6,7Li resonances due to the small chemical shift range of diamagnetic lithium species. The NMR methods selected in this thesis aim to circumvent some of these issues in order to determine structural and dynamic properties in solid-state electrolytes. Several different electrolytes have been examined including LaLi_0.5Fe_0.2O_2.09 and related materials, which exhibit intricate structural properties. ¹³⁹La NMR spectroscopy, in combination with ⁷Li MAS NMR spectroscopy, was used to determine the nature of this disorder. In addition, studies of the quadrupolar framework ⁸⁷Rb nucleus, which take advantage of its large electric field gradient, have been used to indirectly probe the activation energy for Ag⁺ ion hopping in the solid-state silver ion electrolyte RbAg₄I₅. Alternatively, dipolar coupling between ⁶Li and ⁷Li has been used to compare lithium ion hopping rates in Li₆BaLa₂M₂O₁₂ (M = Ta, Nb) using ⁶Li{⁷Li}-REDOR NMR studies. Finally, T₂ relaxation studies have been used to probe ion dynamics in Li₃V₂(PO₄)₃ and LiVO₃ in order to determine if this is a viable method to study dynamics in these materials.</p> / Doctor of Philosophy (PhD)