Hydroxymethyl group conformation in saccharides: structural dependencies of (2)J(HH), (3)J(HH), and (1)J(CH) spin-spin coupling constants

Experimental and theoretical methods have been used to correlate (2)J(HH) and (3)J(HH) values within the exocyclic hydroxymethyl groups (CH(2)OH) of saccharides with specific molecular parameters, and new equations are proposed to assist in the structural interpretation of these couplings. (3)J(HH) depends mainly on the C-C torsion angle (omega) as expected, and new Karplus equations derived from J-couplings computed from density functional theory (DFT) in a model aldopyranosyl ring are in excellent agreement with experimental values and with couplings predicted from a previously reported general Karplus equation. These results confirm the reliability of DFT-calculated (1)H-(1)H couplings in saccharides. (2)J(HH) values depend on both the C-C (omega) and C-O (theta) torsions. Knowledge of the former, which may be derived from other parameters (e.g., (3)J(HH)), allows theta to be evaluated indirectly from (2)J(HH). This latter approach complements more direct determinations of theta from (3)J(HCOH) and potentially extends these more conventional analyses to O-substituted systems lacking the hydroxyl proton. (1)J(CH) values within hydroxymethyl fragments were also examined and found to depend on r(CH), which is modulated by specific bond orientation and stereoelectronic factors. These latter factors could be largely, but not completely, accounted for by C-C and C-O torsional variables, leading to only semiquantitative treatments of these couplings (details discussed in the Supporting Information). New equations pertaining to (2)J(HH) and (3)J(HH) have been applied to the analysis of hydroxymethyl group J-couplings in several mono- and oligosaccharides, yielding information on C5-C6 and/or C6-O6 rotamer populations.     

Long range HH couplings and bond fixation in 2-pyrones

We have determined the magnitudes of all possible four-, five- and six-bond HH couplings in four 2-pyrone derivatives. Substituents exert a negligible effect on the couplings. The allylic couplings are position-specific (J₃₄ = 1·2; J₄₅ ≤ 0·2; J₅₆ = 0.8) and the observed pattern of alternating magnitudes is indicative of π-bond fixation. The allylic couplings can be translated into π-bond orders which agree well with results of recently published SCF-MO calculations on 2-pyrone. Finally, comparison of long range coupling constant data for 4,6-dimethyl-2-pyrone with those for related cyclic anhydrides and trans-1,3-pentadiene further supports the picture of 2-pyrone as a slightly perturbed butadiene, in agreement with extensive chemical and physical evidence.     

Suppression of phase and amplitude J(HH) modulations in HSQC experiments

The amplitude and the phase of cross peaks in conventional 2D HSQC experiments are modulated by both proton–proton, J(HH), and proton–carbon, ¹J(CH), coupling constants. It is shown by spectral simulation and experimentally that J(HH) interferences are suppressed in a novel perfect‐HSQC pulse scheme that incorporates perfect‐echo INEPT periods. The improved 2D spectra afford pure in‐phase cross peaks with respect to ¹J(CH) and J(HH), irrespective of the experiment delay optimization. In addition, peak volumes are not attenuated by the influence of J(HH), rendering practical issues such as phase correction, multiplet analysis, and signal integration more appropriate. Copyright © 2014 John Wiley & Sons, Ltd.     

Variation in protein C(alpha)-related one-bond J couplings

Four types of polypeptide (1)J(C alpha X) couplings are examined, involving the main-chain carbon C(alpha) and either of four possible substituents. A total 3105 values of (1)J(C alpha H alpha), (1)J(C alpha C beta), (1)J(C alpha C'), and (1)J(C alpha N') were collected from six proteins, averaging 143.4 +/- 3.3, 34.9 +/- 2.5, 52.6 +/- 0.9, and 10.7 +/- 1.2 Hz, respectively. Analysis of variances (ANOVA) reveals a variety of factors impacting on (1)J and ranks their relative statistical significance and importance to biomolecular NMR structure refinement. Accordingly, the spread in the (1)J values is attributed, in equal proportions, to amino-acid specific substituent patterns and to polypeptide-chain geometry, specifically torsions phi, psi, and chi(1) circumjacent to C(alpha). The (1)J coupling constants correlate with protein secondary structure. For alpha-helical phi, psi combinations, (1)J(C alpha H alpha) is elevated by more than one standard deviation (147.8 Hz), while both (1)J(C alpha N') and (1)J(C alpha C beta) fall short of their grand means (9.5 and 33.7 Hz). Rare positive phi torsion angles in proteins exhibit concomitant small (1)J(C alpha H alpha) and (1)J(C alpha N') (138.4 and 9.6 Hz) and large (1)J(C alpha C beta) (39.9 Hz) values. The (1)J(C alpha N') coupling varies monotonously over the phi torsion range typical of beta-sheet secondary structure and is largest (13.3 Hz) for phi around -160 degrees. All four coupling types depend on psi and thus help determine a torsion that is notoriously difficult to assess by traditional approaches using (3)J. Influences on (1)J stemming from protein secondary structure and other factors, such as amino-acid composition, are largely independent.     

Unexpected geometrical effects on paramagnetic spin-orbit and spin-dipolar 2J(FF) couplings

The second-rank tensor character of the paramagnetic spin-orbit and spin-dipolar contributions to nuclear spin-spin coupling constants is usually ignored when NMR measurements are carried out in the isotropic phase. However, in this study it is shown that isotropic (2)J(FF) couplings strongly depend on the relative orientation of the C-F bonds containing the coupling nuclei and the eigenvectors of such tensors. Predictions about such effect are obtained using a qualitative approach based on the polarization propagator formalism at the RPA, and results are corroborated performing high-level ab initio spin-spin coupling calculations at the SOPPA(CCSD)/EPR-III//MP2/EPR-III level in a model system. It is highlighted that no calculations at the RPA level were carried out in this work. The quite promising results reported in this paper suggest that similar properties are expected to hold for the second-rank nuclear magnetic shielding tensor.     

Geminal 2J(29Si‐O‐29Si) couplings in oligosiloxanes and their relation to direct 1J(29Si‐13C) couplings

Absolute values of (79) geminal ²J(²⁹Si‐O‐²⁹Si) couplings were measured in an extensive series of (55) unstrained siloxanes dissolved in chloroform‐d. Signs of ²J(²⁹Si‐O‐²⁹Si) in some (9) silicon hydrides were determined relative to ¹J(²⁹Si‐¹H) which are known to be negative. It is supposed that positive sign of the ²J(²⁹Si‐O‐²⁹Si) coupling found in all studied hydrides is common to all siloxanes. Theoretical calculations for simple model compounds failed to reproduce this sign and so their predictions of bond length and angle dependences cannot be taken as reliable. Useful empirical correlations were found between the ²J(²⁹Si‐O‐²⁹Si) couplings on one side and the total number m of oxygen atoms bonded to the silicon atoms, sum of ²⁹Si chemical shifts or product of ¹J(²⁹Si‐¹³C) couplings on the other side. The significance of these correlations is briefly discussed. Copyright © 2011 John Wiley & Sons, Ltd.     

Trans-hydrogen-bond (h2)J(NN) and (h1)J(NH) couplings in the DNA A-T base pair: natural bond orbital analysis

Natural bond orbital (NBO) analysis described here demonstrates that trans-hydrogen-bond (trans-H-bond) NMR J couplings in the DNA A-T base pair, h2JNN and h1JNH, are determined largely by three terms: two Lewis-type contributions (the single-orbital contribution from the adenine lone pair and the contribution from the sigmaN3H3 natural bond orbital of the thymine ring) and one contribution from pairwise delocalization of spin density (between the lone pair in adenine and the sigma* antibonding orbital linking N3 and H3 of thymine). For h2JNN coupling, all three contributions are positive, whereas for h1JNH coupling, the delocalization term is negative, and the other two terms are positive, resulting in a small net positive coupling constant. This result rationalizes the experimental findings that the two-bond coupling (h2JNN approximately 9 Hz) is larger than the one-bond coupling (h1JNH approximately 3 Hz) and demonstrates that the same hyperconjugative and steric mechanisms that stabilize the H-bond are involved in the transmission of J coupling information. The N1...H3-N3 H-bond of the DNA A-T base pair is found to exhibit significant covalent character, but steric effects contribute almost equally to the trans-H-bond coupling.     

Insights into the mobility of methyl-bearing side chains in proteins from (3)J(CC) and (3)J(CN) couplings

Side-chain dynamics in proteins can be characterized by the NMR measurement of (13)C and (2)H relaxation rates. Evaluation of the corresponding spectral densities limits the slowest motions that can be studied quantitatively to the time scale on which the overall molecular tumbling takes place. A different measure for the degree of side-chain order about the C(alpha)-C(beta) bond (chi(1) angle) can be derived from (3)J(C)(')(-)(C)(gamma) and (3)J(N)(-)(C)(gamma) couplings. These couplings can be measured at high accuracy, in particular for Thr, Ile, and Val residues. In conjunction with the known backbone structures of ubiquitin and the third IgG-binding domain of protein G, and an extensive set of (13)C-(1)H side-chain dipolar coupling measurements in oriented media, these (3)J couplings were used to parametrize empirical Karplus relationships for (3)J(C)(')(-)(C)(gamma) and (3)J(N)(-)(C)(gamma). These Karplus curves agree well with results from DFT calculations, including an unusual phase shift, which causes the maximum (3)J(CC) and (3)J(CN) couplings to occur for dihedral angles slightly smaller than 180 degrees, particularly noticeable in Thr residues. The new Karplus curves permit determination of rotamer populations for the chi(1) torsion angles. Similar rotamer populations can be derived from side-chain dipolar couplings. Conversion of these rotamer populations into generalized order parameters, S(J)(2) and S(D)(2), provides a view of side-chain dynamics that is complementary to that obtained from (13)C and (2)H relaxation. On average, results agree well with literature values for (2)H-relaxation-derived S(rel)(2) values in ubiquitin and HIV protease, but also identify a fraction of residues for which S(J,D)(2) < S(rel)(2). This indicates that some of the rotameric averaging occurs on a time scale too slow to be observable in traditional relaxation measurements.     

Effect of electronic interactions on NMR 1J(CF) and 2J(CF) couplings in cis- and trans-4-t-butyl-2-fluorocyclohexanones and their alcohol derivatives

In order to study the influence of hyperconjugative, inductive, steric, and hydrogen-bond interactions on (1)J(CF) and (2)J(CF) NMR spin-spin coupling constants (SSCCs), they were measured in cis- and trans-4-t-butyl-2-fluorocyclohexanones and their alcohol derivatives. The four isotropic terms of those SSCCs, Fermi contact (FC), spin dipolar (SD), paramagnetic spin-orbit (PSO), and diamagnetic spin-orbit (DSO), were calculated at the SOPPA(CCSD)/EPR-III level. Significant changes in FC and PSO terms along that series of compounds were rationalized in terms of their transmission mechanisms by employing a qualitative analysis of their expressions in terms of the polarization propagator formalism. The PSO term is found to be sensitive to proximate interactions like steric compression and hydrogen bonding; we describe how it could be used to gauge such interactions. The FC term of (2)J(CF) SSCC in cis-4-t-butyl-2-fluorocyclohexanone is rationalized as transmitted in part by the superposition of the F and O electronic clouds.     

A graphical tool for the prediction of vicinal proton-proton 3J(HH) coupling constants

The easy to use and free available graphical tool MestRe-J, developed for Win-32 platforms, calculates the vicinal proton-proton coupling constants 3J(HH) from the torsion angle phi between the coupled protons for the two kinds of generalized Karplus equations developed by Altona's group as well as for equations from other authors. Besides the classical Haasnoot-de Leeuw-Altona equations, including individual substituent effects that depend on their relative Huggins's electronegativities Deltachi, the program incorporates the more recent and precise Díez-Altona-Donders equations. The substituent effects in these equations, that include effects of interactions between substituents, depend on substituent parameters lambda optimized from the 3J(HH) couplings to methyl groups. Weighted time-averaged couplings can be calculated. The equations for 3J(HH) can be solved to provide the torsion angles phi.     

A computational study of 2J(HH)(gem) indirect spin-spin coupling constants in simple hydrides of the second and third periods

Several theoretical methods have been used to compute (2)J(HH) in neutral, anionic and cationic HXH hydrides, X being the 14 nuclei from Li to Cl (28 molecules). Since the calculations also provide (1)J(XH) spin-spin coupling constants (SSCC), these have also been analyzed. The best results were obtained using Second-order polarization propagator approximation (SOPPA)/sadJ. The geminal coupling constants appear to be dependent on the electronegativity of the X-atom.     

Synthesis of heterosubstituted hexaarylbenzenes via asymmetric carbonylative couplings of benzyl halides

[structure: see text]. Asymmetric carbonylative couplings of benzyl halides have been shown to give heterosubstituted 1,3-diarylacetones in moderate to high yields. These asymmetric ketones were converted via Knoevenagel condensations to tetraarylcyclopentadienones, and further conversion via dehydro-Diels-Alder cycloadditions gave highly heterofunctionalized hexaarylbenzenes with uniquely functionalized aryl groups at the para positions of the central benzene. This method allows control of the substituents on each of four unique pendent aryl group positions, giving rise to substitution patterns not available using symmetrical 1,3-diarylacetones.     

Simultaneous measurement of J(HH) and two different nJ(CH) coupling constants from a single multiply edited 2D cross‐peak

Three different J‐editing methods (IPAP, E.COSY and J‐resolved) are implemented in a single NMR experiment to provide spin‐state‐edited 2D cross‐peaks from which a simultaneous measurement of different homonuclear and heteronuclear coupling constants can be performed. A new J‐selHSQMBC‐IPAP experiment is proposed for the independent measurement of two different ⁿJ(CH) coupling constants along the F2 and F1 dimensions of the same 2D cross‐peak. In addition, the E.COSY pattern provides additional information about the magnitude and relative sign between J(HH) and ⁿJ(CH) coupling constants. Copyright © 2013 John Wiley & Sons, Ltd.     

DFT calculation of 1J(119Sn,13C) and 2J(119Sn,1H) coupling constants in di- and trimethyltin(IV) compounds

We have tested several computational protocols, at the nonrelativistic DFT level of theory, for the calculation of 1J(119Sn, 13C) and 2J(119Sn, 1H) spin-spin coupling constants in di- and trimethyltin(IV) derivatives with various ligands. Quite a good agreement with experimental data has been found with several hybrid functionals and a double-zeta basis set for a set of molecules comprising tetra-, penta-, and hexa-coordinated tin(IV). Then, some of the protocols have been applied to the calculation of the 2J(119Sn, 1H) of the aquodimethyltin(IV) ion and dimethyltin(IV) complex with D-ribonic acid and to the calculation of 1J(119Sn, 13C) and 2J(119Sn, 1H) of the dimethyltin(IV)-glycylglycine and glycylhistidine complexes in water solutions. Solvent effects have been considered in these cases by including explicit water molecules and/or the solvent reaction field, resulting in a good agreement with experimental data. The proposed protocols constitute a helpful tool for the structural determination of di- and triorganotin(IV) derivatives.     

On the interference of J(HH) modulation in HSQMBC‐IPAP and HMBC‐IPAP experiments

The effects of phase modulation due to homonuclear proton–proton coupling constants in HSQMBC‐IPAP and HMBC‐IPAP experiments are experimentally evaluated. We show that accurate values of small proton–carbon coupling constants, ⁿJ_CH, can be extracted even for phase‐distorted cross‐peaks obtained from a selHSQMBC experiment applied simultaneously on two mutually J‐coupled protons. On the other hand, an assessment of the reliability of ⁿJ_CH measurement from distorted cross‐peaks obtained in broadband IPAP versions of equivalent HMBC and HSQMBC experiments is also presented. Finally, we show that HMBC‐COSY experiments could be an excellent complement to HMBC for the measurement of small ⁿJ_CH values. Copyright © 2013 John Wiley & Sons, Ltd.     

3J(HH)?Pμ,ν correlation for planar 7-membered cyclic π-systems—structural effects on 3J(HH)

It is shown that sterically unperturbed vicinal HH coupling constants in planar 7-membered π-systems correlate linearly with the HMO π-bond order: ³J(HH) = 20.91P_μ,_ν–3.85 (r.m.s. error 0.26 Hz, correlation coefficient =0.988). Systematic deviations from this relationship which most probably originate from valence angle changes are found for fused π-systems containing rings of different size. Model calculations using the CNDO/2 method as well as finite perturbation theory and INDO wave functions support the experimental findings. An improvement of existing ³J(HH)? P_μ,_ν correlations for planar 6-membered rings is possible if CNDO/2 π-bond orders are used instead of HMO or PPP-SCF data.