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.     

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.     

Conformational dynamics of bis(BF2)‐2,2′‐bidipyrrins revealed by through‐space 13C?19F and 19F?19F couplings

The conformation of [bis‐(N,N′‐difluoroboryl)]‐3,3′‐diethyl‐4,4′,8,8′,9,9′,10,10′‐octamethyl‐2,2′‐bidipyrrin (1) in solution was studied by analyzing the ¹³C? ¹⁹F and ¹⁹F? ¹⁹F through‐space spin–spin couplings. The ¹H and ¹³C NMR spectra were assigned on the basis of nuclear Overhauser effect spectroscopy (NOESY), heteronuclear single‐quantum correlation (HSQC), and heteronuclear multiple‐bond correlation (HMBC) experiments. The ¹⁹F spectrum of 1 was compared with that of 2‐ethyl‐1,3,5,6,7‐pentamethyl‐4,4‐difluoro‐4‐bor‐3a,4a‐diaza‐s‐indacen (2). The ¹⁹F? ¹⁹F through‐space spin? spin coupling in 1 was thus assigned and the coupling constant was obtained by simulating the coupling patterns. The obtained conformation of 1 was compared with those of the known complexes [bis‐(N,N′‐difluoroboryl)]‐3,3′,8,8′,9,9′‐hexaethyl‐4,4′,10,10′‐tetramethyl‐6,6′‐(4‐methylphenyl)‐2,2′‐bidipyrrin (3)and [bis‐(N,N′‐difluoroboryl)]‐9,9′‐diethyl‐4,4′,8,8′,10,10′‐hexamethyl‐3,3′‐bis(methoxycarbonylethyl)‐2,2′‐bidipyrrin (4). The conformational dynamics of 1, 3, and 4 was surveyed by observing the temperature dependence of the through‐space coupling constants between 253 and 333 K. The ¹³C? ¹⁹F and ¹⁹F? ¹⁹F through‐space spin–spin couplings thus confirm similar conformations of different BisBODIPYs in solution in contrast to earlier findings in the solid state. Copyright © 2009 John Wiley & Sons, Ltd.     

Characterization of G‐Quadruplex/Hairpin Transitions of RNAs by 19F NMR Spectroscopy

2′‐O‐[(4‐Trifluoromethyl‐triazol‐1‐yl)methyl] reporter groups have been incorporated into guanosine‐rich RNA models (including a known bistable Qd/Hp RNA and two G‐rich regions of mRNA of human prion protein, PrP) and applied for the ¹⁹F NMR spectroscopic characterization of plausible G‐quadruplex/hairpin (Qd/Hp) transitions in these RNA structures. For the synthesis of the CF₃‐labeled RNAs, phosphoramidite building blocks of 2′‐O‐[(4‐CF₃‐triazol‐1‐yl)methyl] nucleosides (cytidine, adenosine, and guanosine) were prepared and used as an integral part of the standard solid‐phase RNA synthesis. The obtained ¹⁹F NMR spectra supported the usual characterization data (obtained by UV‐ and CD‐melting profiles and by ¹H NMR spectra of the imino regions) and additionally gave more detailed information on the Qd/Hp transitions. The molar fractions of the secondary structural species (Qd, Hp) upon thermal denaturation and under varying ionic conditions could be determined from the intensities and shifts of the ¹⁹F NMR signals. For a well‐behaved Qd/Hp transition, thermodynamic parameters could be extracted.     

13C Fourier transform n.m.r.: XIII—reassignment of the 13C spectrum of ergosterol

The complete labeling pattern of ergosterol isolated from Saccharomyces cerevisiae grown with [1-¹³C] acetate is detailed and the results of this study have led to a reassignment of carbons 5, 8, 12, 16, 22 and 23 in the ¹³C n.m.r. spectrum of ergosterol.     

13C?13C spin coupling constants in tetrahydronaphthylene,hexahydrobenzanthracene and benzo[a]pyrene derivatives

The ¹³C? ¹³C spin coupling constants have been determined in substituted [1-¹³C]tetrahydronaphthylenes, [5-¹³C]hexahydrobenzanthracenes and [5-¹³C]benzanthracene. In addition, the ¹³C? ¹³C spin coupling constants for 7-hydroxy[7-¹³C]benzopyrene, trans-7,8-dihydro[7-¹³C]benzopyrene-7,8-diol and trans-7,8-dihydro[10-¹³C]benzopyrene-7,8-diol are reported, together with the one-bond carbon-carbon coupling constants between C-4 and C-5 in selected 4,5-disubstituted benzopyrenes. Values for the directly bonded coupling constants and long-range coupling constants are similar to those reported previously for other aromatic and aliphatic systems. Substituent effects on carbon-carbon coupling are compared for similarly substituted cyclic and acyclic systems.     

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.     

Novel 2,4,5‐Trisubstituted Pyridines as Key Intermediates for the Preparation of the TSPO Ligand 6‐F‐PBR28: Synthesis and Full 1H and 13C NMR Characterization

As part of our ongoing research for molecular structures binding to the translocator protein (TSPO 18 kDa), we investigated the preparation of a number of new 2,4,5‐trisubstituted pyridines as novel building blocks. In particular, 5‐amino‐2‐halo‐4‐phenoxypyridines ( 11 , 12 , 13 ) were designed as key intermediates for the synthesis of the recently developed TSPO ligand 6‐F‐PBR28 and its fluorine‐18‐labeled version for positron emission tomography, 6‐[¹⁸F]F‐PBR28. We hereby report the chemical preparation as well as the ¹H and ¹³C NMR spectroscopic data of polysubstituted pyridines 2 , 3 , 4 , 5 , 6 , 7 , 7b , 8 , 9 , 10 , 11 , 12 , 13 , 14 . The latter demonstrates dramatic changes in electron density repartition of the aromatic ring upon substitution.     

Through‐space 19F–19F spin–spin coupling in ortho‐fluoro Z‐azobenzene

We report through‐space (TS) ¹⁹F–¹⁹F coupling for ortho‐fluoro‐substituted Z ‐azobenzenes. The magnitude of the TS‐coupling constant (^TSJ_FF) ranged from 2.2–5.9 Hz. Using empirical formulas reported in the literature, these coupling constants correspond to non‐bonded F–F distances (d_FF) of 3.0–3.5 Å. These non‐bonded distances are significantly smaller than those determined by X‐ray crystallography or density functional theory, which argues that simple models of ¹⁹F–¹⁹F TS spin–spin coupling solely based d_FF are not applicable. ¹H, ¹³C and ¹⁹F data are reported for both the E and Z isomers of ten fluorinated azobenzenes. Density functional theory [B3YLP/6‐311++G(d,p)] was used to calculate ¹⁹F chemical shifts, and the calculated values deviated 0.3–10.0 ppm compared with experimental values. Copyright © 2015 John Wiley & Sons, Ltd.     

Synthesis of [18,19,21,22‐13C4]‐Labeled Tautomycin as an NMR Probe of Protein Phosphatase Inhibitor

We have accomplished the synthesis of ¹³C‐labeled tautomycin at the C18, C19, C21, and C22 positions starting from 100 % [¹³C]triethylphosphonoacetate for the purpose of elucidating the dynamics and conformation of the C17–C26 moiety. NMR spectroscopy of ¹³C‐labeled tautomycin revealed strong binding with protein phosphatase type 1 and new features in the ¹³C NMR spectrum, such as the very small three‐bond coupling constants (²J).     

1H,13C and 19F NMR data of N‐substituted 6‐(4‐methoxyphenyl)‐7H‐pyrrolo[2,3‐d]pyrimidin‐4‐amines in DMSO‐d6

Chemical shift assignment of seven N‐substituted 6‐(4‐methoxyphenyl)‐7H‐pyrrolo[2, 3‐d]pyrimidin‐4‐amines, six of which are fluorinated, have been performed based on ¹H, ¹³C, ¹⁹F, and 2D COSY, HMBC and HSQC experiments. Copyright © 2009 John Wiley & Sons, Ltd.     

1H and 13C NMR spectral characterization of some antimalarial in vitro 2,4‐diamino‐10‐methylpyrimido[4,5‐b]‐5‐quinolone derivatives

We report the ¹H NMR and ¹³C NMR chemical shifts and J(H,H), J(H,F) and J(C,F) coupling constants of 13 2,4‐diamino‐10‐methylpyrimido[4,5‐b]‐5‐quinolone derivatives, some of them with moderate activity against Plasmodium falciparum in vitro. They were characterized and assigned on the basis of ¹H, ¹³C and ¹³C–¹H (short‐ and long‐range) correlated spectra. Copyright © 2002 John Wiley & Sons, Ltd.     

Local order in polycarbonate glasses by 13C{19F} rotational‐echo double‐resonance NMR

Nearest‐neighbor chain packing in a homogeneous blend of carbonate ¹³C‐labeled bisphenol A polycarbonate and CF₃‐labeled bisphenol A polycarbonate has been characterized using a shifted‐pulse version of magic‐angle spinning ¹³C{¹⁹F} rotational‐echo double‐resonance (REDOR) NMR. Complementary NMR experiments have also been performed on a polycarbonate homopolymer containing the same ¹³C and ¹⁹F labels. In the blend, the ¹³C observed spin was at high concentration, and the ¹⁹F dephasing or probe spin was at low concentration. In this situation, an analysis in terms of a distribution of isolated heteronuclear pairs of spins is valid. A comparison of the results for the blend and homopolymer defines the NMR conditions under which higher concentrations of probe labels can be used and a simple analysis of the REDOR results is still valid. The nearest neighbors of a CF₃ on one chain generally include a carbonate group on an adjacent chain. A direct interpretation of the REDOR total dephasing for the polycarbonate blend indicates that at least 75% of carbonate‐carbon ¹³C ··· F₃ nearest neighbors are separated by a narrow distribution of distances 4.7 ± 0.3 Å. In addition, analysis of the variations in REDOR spinning‐sideband dephasing shows that most of the ¹³C ··· F₃ dipolar vectors have a preferred orientation relative to the polycarbonate mainchain axis. This combination of distance and orientational constraints is interpreted in terms of local order in the packing of the carbonate group of one polycarbonate chain relative to the isopropylidene moiety in a neighboring chain. © 2006 Wiley Periodicals, Inc. J Polym Sci Part B: Polym Phys 44: 2760–2775, 2006     

A General Copper‐Mediated Nucleophilic 18F Fluorination of Arenes

Molecules labeled with fluorine‐18 are used as radiotracers for positron emission tomography. An important challenge is the labeling of arenes not amenable to aromatic nucleophilic substitution (S_NAr) with [¹⁸F]F^?. In the ideal case, the ¹⁸F fluorination of these substrates would be performed through reaction of [¹⁸F]KF with shelf‐stable readily available precursors using a broadly applicable method suitable for automation. Herein, we describe the realization of these requirements with the production of ¹⁸F arenes from pinacol‐derived aryl boronic esters (arylBPin) upon treatment with [¹⁸F]KF/K₂₂₂ and [Cu(OTf)₂(py)₄] (OTf=trifluoromethanesulfonate, py=pyridine). This method tolerates electron‐poor and electron‐rich arenes and various functional groups, and allows access to 6‐[¹⁸F]fluoro‐L ‐DOPA, 6‐[¹⁸F]fluoro‐m‐tyrosine, and the translocator protein (TSPO) PET ligand [¹⁸F]DAA1106.     

Complete 1H, 13C, 19F and 31P NMR data assignment of CWC‐related chemicals N,N‐dialkyl‐P‐alkyl phosphonamidic fluorides

The complete multinuclear ¹H, ¹³C, ³¹P and ¹⁹F NMR data of symmetrically substituted amines containing N,N‐dialkyl‐P‐alkyl phosphonamidic fluorides are presented. Assignment was achieved, using various one‐and two‐dimensional NMR experiments. Copyright © 2010 John Wiley & Sons, Ltd.     

1,2‐, 1,7‐ and 1,12‐Dicarba‐closo‐dodecaborane(12) Derivatives Revisited by 13C NMR Spectroscopy and DFT Calculations. First Observation of Isotope‐Induced Chemical Shifts 1Δ10/11B(13C), and the Signs and Magnitudes of Coupling Constants 1J(13C,13C) and 1J(13C,11B)

The origin of broadening of ¹³C(carborane) NMR signals of 1,2‐, 1,7‐ and 1,12‐dicarba‐closo‐dodecaboranes(12) and several diphenylsilyl derivatives has been examined in detail and could be traced only partially to unresolved ¹³C–¹¹B spin‐spin coupling. Other contributions to the line widths arise from ¹³C–¹H dipole‐dipole interactions and, in particular, from isotope‐induced chemical shifts ¹Δ^10/11B(¹³C), observed here for carboranes for the first time. In the case of 1‐diphenylsilyl‐1,2‐dicarba‐closo‐dodecaborane(12), the coupling constant ¹J(¹³C,¹³C) = 9.3 Hz was measured in natural abundance of ¹³C. The small value of this coupling constant and its negative sign is predicted by calculations based on optimised structures [B3LYP/6‐311+G(d,p) level of theory] of the parent carboranes and 1‐silyl‐1,2‐dicarba‐closo‐dodecaborane(12) as a model compound [calcd. ¹J(¹³C,¹³C) = –10.5 Hz]. Calculated coupling constants ¹J(¹³C,¹¹B) are small (<7 Hz), in contrast to published assumptions, and of either sign, whereas ¹J(¹¹B,¹¹B) are all positive and range up to 15 Hz.     

Détermination par RMN 1H et 13C des Couplages J(CH) et J(CC) dans des Monomères Precurseurs de Lignine: Vanilline,Férulate d'Ethyle et Alcool Coniférylique Sélectivement Enrichis en 2H et 13C

Some monomer model compounds of lignin have been selectively ²H and ¹³C labelled: vanillin, ethyl ferulate, coniferyl alcohol and ethyl hydrogen malonate. Deuterium isotope effects on the ¹³C chemical shifts in [formyl-²H]vanillin, [5-²H]vanillin and [α,α,5-²H₃]coniferyl alcohol made the unambiguous assignment of the aromatic ¹³C signals possible. Absolute ^1,2,3J(CC) values have been determined on ¹³C spectra of [formyl-¹³C]vanillin, and of ethyl ferulate and coniferyl alcohol in which the vinylic C-γ and C-β carbons were ¹³C enriched. It has been possible to measure ⁴J(C?O, C-4) in vanillin and ⁴J(C-γ, C-4) in ethyl ferulate. The determination of ^1,2,3,4J (CH) absolute values was done by means of gated decoupled ¹³C spectra of the non-labelled compounds. When second order effects made the use of this technique impossible we determined certain J(CH) values and their signs either by analysing the ¹H NMR spectra of ¹³C labelled coniferyl alcohol [²J(C-β, H-γ), ²J(C-β, H-α), ²J(C-γ, H-β), ³J(C-γ, H-α)] or by a double irradiation experiment on the 250 MHz ¹H NMR spectrum of ethyl [β-¹³C] ferulate [for ²J(C-β, H-γ)].     

Mechanism Studies of the Conversion of 13C‐Labeled n‐Butane on Zeolite H‐ZSM‐5 by Using 13C Magic Angle Spinning NMR Spectroscopy and GC–MS Analysis

By using ¹³C MAS NMR spectroscopy (MAS=magic angle spinning), the conversion of selectively ¹³C‐labeled n‐butane on zeolite H‐ZSM‐5 at 430–470 K has been demonstrated to proceed through two pathways: 1) scrambling of the selective ¹³C‐label in the n‐butane molecule, and 2) oligomerization–cracking and conjunct polymerization. The latter processes (2) produce isobutane and propane simultaneously with alkyl‐substituted cyclopentenyl cations and condensed aromatic compounds. In situ ¹³C MAS NMR and complementary ex situ GC–MS data provided evidence for a monomolecular mechanism of the ¹³C‐label scrambling, whereas both isobutane and propane are formed through intermolecular pathways. According to ¹³C MAS NMR kinetic measurements, both pathways proceed with nearly the same activation energies (E_a=75 kJ mol^?1 for the scrambling and 71 kJ mol^?1 for isobutane and propane formation). This can be rationalized by considering the intermolecular hydride transfer between a primarily initiated carbenium ion and n‐butane as being the rate‐determining stage of the n‐butane conversion on zeolite H‐ZSM‐5.