Aromatic 19F–13C TROSY—[19F, 13C]-Pyrimidine Labeling for NMR Spectroscopy of RNA

We present the access to [5-¹⁹F, 5-¹³C]-uridine and -cytidine phosphoramidites for the production of site-specifically modified RNAs up to 65 nucleotides (nts). The amidites were used to introduce [5-¹⁹F, 5-¹³C]-pyrimidine labels into five RNAs—the 30 nt human immunodeficiency virus trans activation response (HIV TAR) 2 RNA, the 61 nt human hepatitis B virus ϵ (hHBV ϵ) RNA, the 49 nt SAM VI riboswitch aptamer domain from B. angulatum, the 29 nt apical stem loop of the pre-microRNA (miRNA) 21 and the 59 nt full length pre-miRNA 21. The main stimulus to introduce the aromatic ¹⁹F–¹³C-spin topology into RNA comes from a work of Boeszoermenyi et al., in which the dipole-dipole interaction and the chemical shift anisotropy relaxation mechanisms cancel each other leading to advantageous TROSY properties shown for aromatic protein sidechains. This aromatic ¹³C–¹⁹F labeling scheme is now transferred to RNA. We provide a protocol for the resonance assignment by solid phase synthesis based on diluted [5-¹⁹F, 5-¹³C]/[5-¹⁹F] pyrimidine labeling. For the 61 nt hHBV ϵ we find a beneficial ¹⁹F–¹³C TROSY enhancement, which should be even more pronounced in larger RNAs and will facilitate the NMR studies of larger RNAs. The [¹⁹F, ¹³C]-labeling of the SAM VI aptamer domain and the pre-miRNA 21 further opens the possibility to use the biorthogonal stable isotope reporter nuclei in in vivo NMR to observe ligand binding and microRNA processing in a biological relevant setting.     

Aromatic 19F–13C TROSY—[19F, 13C]‐Pyrimidine Labeling for NMR Spectroscopy of RNA

We present the access to [5‐¹⁹F, 5‐¹³C]‐uridine and ‐cytidine phosphoramidites for the production of site‐specifically modified RNAs up to 65 nucleotides (nts). The amidites were used to introduce [5‐¹⁹F, 5‐¹³C]‐pyrimidine labels into five RNAs—the 30 nt human immunodeficiency virus trans activation response (HIV TAR) 2 RNA, the 61 nt human hepatitis B virus ? (hHBV ?) RNA, the 49 nt SAM VI riboswitch aptamer domain from B. angulatum, the 29 nt apical stem loop of the pre‐microRNA (miRNA) 21 and the 59 nt full length pre‐miRNA 21. The main stimulus to introduce the aromatic ¹⁹F–¹³C‐spin topology into RNA comes from a work of Boeszoermenyi et al., in which the dipole‐dipole interaction and the chemical shift anisotropy relaxation mechanisms cancel each other leading to advantageous TROSY properties shown for aromatic protein sidechains. This aromatic ¹³C–¹⁹F labeling scheme is now transferred to RNA. We provide a protocol for the resonance assignment by solid phase synthesis based on diluted [5‐¹⁹F, 5‐¹³C]/[5‐¹⁹F] pyrimidine labeling. For the 61 nt hHBV ? we find a beneficial ¹⁹F–¹³C TROSY enhancement, which should be even more pronounced in larger RNAs and will facilitate the NMR studies of larger RNAs. The [¹⁹F, ¹³C]‐labeling of the SAM VI aptamer domain and the pre‐miRNA 21 further opens the possibility to use the biorthogonal stable isotope reporter nuclei in in vivo NMR to observe ligand binding and microRNA processing in a biological relevant setting.     

Multi-Site Conformational Exchange in the Synthetic Neomycin-Sensing Riboswitch Studied by 19F NMR

The synthetic neomycin-sensing riboswitch interacts with its cognate ligand neomycin as well as with the related antibiotics ribostamycin and paromomycin. Binding of these aminoglycosides induces a very similar ground state structure in the RNA, however, only neomycin can efficiently repress translation initiation. The molecular origin of these differences has been traced back to differences in the dynamics of the ligand:riboswitch complexes. Here, we combine five complementary fluorine based NMR methods to accurately quantify seconds to microseconds dynamics in the three riboswitch complexes. Our data reveal complex exchange processes with up to four structurally different states. We interpret our findings in a model that shows an interplay between different chemical groups in the antibiotics and specific bases in the riboswitch. More generally, our data underscore the potential of ¹⁹F NMR methods to characterize complex exchange processes with multiple excited states.     

19F, 13C NMR analysis of an oxygen carrier,perfluorotributylamine, and perfluoropentanoic acid

NMR relaxation measurement of perfluorocarbons (PFCs), such as perfluorotributylamine (FTBA), is a convenient method for the determination of oxygen concentrations in tissues and tumors. Previous relaxation studies of FTBA used different ¹⁹F NMR assignments causing some confusion. Fluorine‐detected ¹⁹F, ¹³C HMQC and HMBC and selectively ¹⁹F‐decoupled ¹³C NMR provided unequivocal ¹⁹F and ¹³C assignments for FTBA and perfluoropentanoic acid (FPA). Based on those assignments, ¹³C spin–lattice relaxation time constants (T₁) and effective correlation times for FTBA and FPA are reported and discussed. Copyright © 2003 John Wiley & Sons, Ltd.     

1H, 13C, 19F and 11B NMR spectral reference data of some potassium organotrifluoroborates

Complete ¹H, ¹³C, ¹⁹F and ¹¹B NMR spectral data for 28 potassium organotrifluoroborates are described. The resonance for the carbon bearing the boron atom is described for most of the studied compounds. A modified ¹¹B NMR pulse sequence was used and better resolution was observed allowing the observation of ¹¹B–¹⁹F coupling constants for some of the studied compounds. Copyright © 2009 John Wiley & Sons, Ltd.     

Discrimination of pseudo‐meta and pseudo‐para diamino‐octafluoro[2.2]paracyclophanes by 1H, 19F,and 13C NMR

Pseudo‐meta and pseudo‐para diamino‐octafluoro[2.2]paracyclophanes are challenging to separate either by chromatography or recrystallization, but through the use of a mixture of the two isomers, the ¹H, ¹⁹F, and ¹³C NMR spectra of these compounds have been fully and unambiguously assigned using ¹H COSY, ¹H‐¹⁹F HOESY, ¹H‐¹³C HSQC, ¹H‐¹³C HMBC, and ¹⁹F‐¹³C HSQC techniques. This permits the easy identification of either of the individual isomers. In addition, the ¹³C spectrum of the pseudo‐ortho analogue is reported and assigned for the first time. The gem shift effect in this series of bridge‐fluorinated paracyclophanes serves to deshield ¹H resonances and shield ¹³C. Copyright © 2012 John Wiley & Sons, Ltd.     

Complete assignment of the 1H, 13C, 15N and 19F NMR spectra of nine DL-phenylalcoholamide anticonvulsants

The 1H, 13C, 15N and 19F NMR spectra of nine DL-phenylalcoholamides bearing fluorine and chlorine as substituents of the phenyl ring are reported. All of them are active as anticonvulsants in pentylenetetrazole-induced seizures.     

Structural properties of perfluorinated linear alkanes: a 19F and 13C NMR study of perfluorononane

Liquid perfluorocarbons exhibit unique physical-chemical characteristics such as extraordinary stability, combined hydrophobia and lipophobia, low surface tension and a capacity to carry large quantities of gas. They have found widespread use in industry, medicine and biology even though the molecular origin of these properties is not fully understood. The objective of the present work was to elucidate the physical behavior of perfluorinated linear alkanes by investigating their intramolecular electronic environment using 13C and 19F NMR techniques in combination with theoretical calculations of molecular orbitals. Particular advantage was taken of 19F-19F through-space couplings, which led us to propose a molecular model in which delocalized p-electrons of the fluorines cover the entire surface of the molecule in two pairs of intertwined helices. Experimental data are presented for n-perfluorononane and supported by corresponding measurements with shorter and longer perfluorinated alkanes.     

Mono‐ and difluorinated 1,1,2,2,9,9,10,10‐octafluoro[2.2]paracyclophanes (AF4s)—A 1H and 19F NMR study

Complete assignment of the ¹H and ¹⁹F chemical shifts in 4‐fluoro‐AF4 (1) were based on the nOes seen in its ¹⁹F‐¹H HOESY spectrum. This allowed for identification of features which can further be applied to the assignment of the regiochemistry of substituted perfluoroparacyclophanes (PCPs) and AF4s: (i) an aromatic fluorine couples with the two fluorines in the closest bridge that are syn to it, with constants of ca. 20 Hz; (ii) an aromatic fluorine couples with the bridge fluorine five bonds away that is anti to it in the same paraphenylene moiety, with a constant of ca. 3.5 Hz; (iii) the geminal coupling of the bridge fluorines is 246 Hz if they have an ortho fluorine and 238 Hz if they do not; (iv) a bridge fluorine couples with those aromatic protons in the same paraphenylene moiety that are four or five bonds away and anti. These features have been used to assign the regiochemistry of the pseudo‐ortho, pseudo‐meta and pseudo‐para‐difluoro AF4s 2–4. It has also been demonstrated that SCS for the bridge fluorines can be used as well for this assignment. Copyright © 2009 John Wiley & Sons, Ltd.     

[60]富勒烯衍生物的对称性、碳笼结构与13C NMR谱

本文全面综述了多种[60]富勒烯衍生物的结构,阐述了(13)~C NMR谱在[60]富勒烯衍生物结构表征中的应用,重点讨论了不同对称性[60]富勒烯衍生物的(13)~C NMR谱图特征.通过[60]富勒烯部分(13)~C共振线的化学位移、数目和相对强度,可以确定[60]富勒烯衍生物的对称结构和加成方式.对于C_s、C_(2v)和C_(3v)对称性的[60]富勒烯衍生物,镜面上的碳原子的相对化学位移很大程度上取决于他们距加成位置的距离.因此,(13)~C NMR谱在碳笼具体结构的确定中具有不可替代的作用.     

Complete assignment of 19F, 1H and 13C NMR spectra of monomers and precursors towards bridge trifluoromethylated poly(p-phenylenevinylene)

The complete assignment of 19F, 1H and 13C NMR spectra of 11 trifluoromethylated and four bistrifluoromethylated monomers for bridge trifluoromethylated poly(p-phenylenevinylene) is described. The combination of one-dimensional 19F, 1H and 13C spectra, long-range fluorine couplings and the two-dimensional techniques of direct and long-range HETCOR (J = 140 and 8 Hz) permitted full resonance assignment.     

Impact of Magnesium(II) on Beryllium Fluorides in Solutions Studied by 19F NMR Spectroscopy

Beryllium fluorides are widely used in protein phosphorylation studies to get stable transition state analogs or near attack conformers, which has attracted much attention. BeF₃^? is one of the optimal phosphoryl (PO₃^?) analogs for its identical geometry and charge, and Mg²⁺ naturally participates in the phosphoryl binding in biological systems. In solutions, BeF₃^? coexists with other beryllium fluorides (BeF₄^2?, BeF₂ and BeF⁺) and magnesium fluorides, and there are equilibriums between these species. In this article, ¹⁹F NMR spectroscopy was applied to the investigation of the impact of magnesium(II) on beryllium fluorides. It has been found that when Mg²⁺ was introduced into the solutions, the chemical shifts, the intensities and the line widths of ¹⁹F signals of various beryllium fluoride complexes were changed. After ionic strength correction, these effects were remarkable only for BeF₄^2? and BeF₃^?, especially BeF₄^2?, when the concentration of the fluoride ion is relatively low. Mechanism of the effects is proposed which involves ion pair formation between Mg²⁺ and beryllium fluorides.     

19F NMR chemical shifts of CF4 in CO2 over a wide pressure range at different temperatures

¹⁹F NMR chemical shifts of CF₄ in CO₂ under extremely dilute concentrations were precisely determined at 299.8, 314.4 and 328.9 K over a wide range of pressure between 0.4 and 33 MPa. The solvent‐induced chemical shift, where the bulk magnetic susceptibility correction was made, was quantitatively expressed as a function of CO₂ density. Copyright © 2002 John Wiley & Sons, Ltd.     

Investigation of the correlations between 19F and 1H NMR signals for various mono‐ and di‐substituted octafluoro[2.2]paracyclophanes

A selection of mono‐ and pseudo ortho di‐substituted octafluoro[2.2]paracyclophane derivatives were analyzed using ¹⁹F‐¹H HOESY, ¹H COSY and ¹⁹F COSY techniques. This resulted in the unambiguous assignment of the ¹⁹F and ¹H NMR resonances, and also revealed interesting solvent effects and noteworthy coupling patterns for various J_HH, J_HF, and J_FF interactions, including observable through bond ⁷J_FF and ⁸J_FF couplings. For the four mono‐substituted derivatives, the assignments were achieved through the combination of ¹⁹F‐¹H HOESY, ¹H COSY and ¹⁹F COSY techniques. The C₂ symmetry of the six pseudo ortho di‐substituted derivatives that were examined produced simplified spectra, and careful inspection of the characteristic ¹H coupling patterns led to the assignment of ¹H signals. Therefore only ¹⁹F‐¹H HOESY experiments were required to complete the assignments for those molecules. Refinements and alternative strategies for previous protocols are presented for the molecules that were less responsive to nuclear Overhauser effect (nOe) experiments. Copyright © 2009 John Wiley & Sons, Ltd.     

Pentamidine Analogs: Syntheses, Structures in Solid State by 13C CP/MAS NMR Spectroscopy, and X-Ray Crystallography and their Preliminary Biological Screening Against Human Cancer

Summary. The synthesis of four new 1,5-bis(4-amidinophenoxy)-3-oxapentane analogs is described. The structures of the obtained bis-amidines and bis-nitriles in the solid state are evaluated on the basis of ¹³C CP/MAS NMR spectra and theoretical calculations at DFT level. A single crystal X-ray diffraction structure is presented for 1,5-bis(4-amidinophenoxy)-3-oxapentane. A preliminary anticancer assay against three cell lines is also given.     

Pyrazolo[1,5-a]pyrimidines. A combined multinuclear magnetic resonance (1H, 13C, 15N, 19F) and DFT approach to their structural assignment

Multinuclear magnetic resonance spectroscopy together with GIAO-DFT calculations allowed establishment of the structure of the products obtained by condensation of 3(5)-amino-4-phenyl-1H-pyrazole and beta-dicarbonyl compounds bearing a trifluoromethyl group. They are 3-phenyl-5-(R)-7-trifluoromethylpyrazolo[1,5-a]pyrimidines.     

Simple organofluorine compounds giving field-dependent 13C and 19F NMR spectra with complex patterns: higher order effects and cross-correlated relaxation

The CF(3) signals in the (13)C{(1)H} spectrum of 1,1,1,3,3,3-hexafluoroisopropyl alcohol and the (CF(3))(2) CH signals in the corresponding triflate exhibit much greater complexity than might first be expected. The same holds for the (13)C satellites in the (19)F spectra. Complex patterns appear because of higher order effects resulting from the combination of a relatively large four-bond (19)F-(19)F J coupling in the ((13)CF(3))(12)CH((12)CF(3))-containing isotopomer and a typical large one-bond (13)C/(12)C isotope effect on the (19)F chemical shift. This complexity cannot be eliminated at very high magnetic field strengths. The triflate (CF(3))(2)CH-O-SO(2)CF(3) presents still additional complexity because of the presence of two different types of CF(3) groups exhibiting (6)J(FF) in any of the isotopomers and the chemical shift differences in hertz between the various (19)F signals in the two different (13)CF(3)-containing isotopomers. In addition, the presence of a small (5)J(CF) in the ((13)CF(3))((12)CF(3))(12)CH-O-SO(2) (12)CF(3) isotopomer is revealed only through simulations. The hexafluoroisopropyl CF(3) groups in the alcohol and triflate and the SO(2)CF(3) group in the triflate apparently provide the first examples of cross-correlated relaxation in (13)CF(3) groups. An analysis of the spectra in the context of previously reported work highlights the novel aspects of our findings. In particular, for each part of the complex hexafluoroisopropyl CF(3) quartet, peak height and linewidth variations resulting from cross-correlated relaxation are observed. These variations within a group of (13)C signals reflect different spin-lattice and spin-spin relaxation rates for the transitions within that group arising from higher order coupling effects.     

Complete 1H and 13C NMR spectral assignment of cis- and trans- 3-(2-[2-(4-methylphenyl)ethenyl]phenyl])sydnones

1H and 13C NMR spectra of cis- and trans-3-(2-[2-(4-methylphenyl)ethenyl]phenyl])sydnones, the first stilbene-substituted mezoionic oxadiazolium rings, were fully assigned combining the information in various solvents, such as deuterated benzene, acetone and chloroform, using 2D NMR techniques.     

Application of biosynthetic 13C-enrichment using [1-13C]-, [2-13C]- and [1,2-13C2]-acetate as precursor for 13C NMR spectral assignment of higher plant metabolites. The assignments of some bryonolic acid derivatives

The ¹³C NMR spectra of some derivatives of bryonolic acid (1) (D:C-friedoolean-8-en-3β-ol-29-oic acid) were assigned by means of ¹³C-enrichment, lanthanide-induced shifts (LIS) and comparison of chemical shift data between derivatives. The ¹³C-enriched species of 1, i.e., 1a, 1b and 1c were biosynthesized by Luffa cylindrica (Cucurbitaceae) callus fed with [1-¹³C]-, [2-¹³C]- or [1,2-¹³C₂]-acetate, respectively. Methyl acetylbryonolates 2, 2a, 2b and 2c, methyl bryonolates 3, 3a, 3b and 3c, methyl bryononates 4 and 4a, diacetyl-3β,29-diols (3,29-diacetyl-D:C-friedoolean-8-en-β,29-diol) 5, 5a, 5b and 5c, and 3-acetyl-3β,29-diols 6, 6a and 6b were prepared from 1, 1a, 1b and 1c, and their ¹³C NMR spectra were recorded. The ¹³C concentration of the ¹³C-enriched species was high enough to exhibit the satellite peaks clearly, and the analysed data were very useful for this study. Thus, total assignments for 2, 3, 4, 5 and 6 were established. It was found that conversion of the methoxycarbonyl group at C-29 into an acetoxymethyl group caused complex changes in the chemical shifts of the C, D- and E-ring carbons and those of the methyl carbons linked to these rings.