2D DQF-COSY Research Articles

In Situ Characterization of Mixtures of Linear and Branched Hydrocarbons Confined within Porous Media Using 2D DQF-COSY NMR Spectroscopy.

The analysis of 1D anti-diagonal spectra from the projections of 2D double-quantum filtered correlation spectroscopy NMR spectra is presented for the determination of the compositions of liquid mixtures of linear and branched alkanes confined within porous media. These projected spectra do not include the effects of line broadening and therefore retain high-resolution information even in the presence of inhomogeneous magnetic fields as are commonly found in porous media. A partial least-square regression analysis is used to characterize the mixture compositions. Two case studies are considered. First, mixtures of 2-methyl alkanes and n-alkanes are investigated. It is shown that estimation of the mol % of branched species present was achieved with a root-mean-square error of prediction (RMSEP) of 1.4 mol %. Second, the quantification of multicomponent mixtures consisting of linear alkanes and 2-, 3-, and 4-monomethyl alkanes was considered. Discrimination of 2-methyl and linear alkanes from other branched isomers in the mixture was achieved, although discrimination between 3- and 4- monomethyl alkanes was not possible. Compositions of the linear alkane, 2-methyl alkane, and the total composition of 3- and 4-methyl alkanes were estimated with a RMSEP <3 mol %. The approach was then used to estimate the composition of the mixtures in terms of submolecular groups of CH3CH2, (CH3)2CH, and CH2CH(CH3)CH2 present in the mixtures; a RMSEP <1 mol % was achieved for all groups. The ability to characterize the mixture compositions in terms of molecular subgroups allows the application of the method to characterize mixtures containing multimethyl alkanes. The motivation for this work is to develop a method for determining the mixture composition inside the catalyst pores during Fischer–Tropsch synthesis. However, the method reported is generic and can be applied to any system in which there is a need to characterize mixture compositions of linear and branched alkanes.

Structural analysis of an aluminum-binding capsular polysaccharide produced by Acidocella aluminiidurans strain AL46, an aluminum-tolerant bacterium isolated from plant roots in a highly acidic swamp in actual acid sulfate soil

Acid sulfate soil is found throughout Southeast Asia, and its strong acidity (pH 2–4) is accompanied by various plant growth-inhibiting factors that can reduce crop production. Among these factors, aluminum elution from the soil due to soil acidity strongly inhibits crop growth and is particularly problematic for agricultural production. We previously isolated Acidocella aluminiidurans strain AL46, a highly aluminum-tolerant bacterium, from the rhizospheres of the grass Panicum repens, inhabiting the acid sulfate soil in Vietnam. To elucidate the mechanism underlying the high aluminum tolerance of strain AL46, in the present study, we investigated the aluminum-adsorption ability of strain AL46 surface polysaccharides and confirmed the strong adsorption ability of the capsular polysaccharide (AL46CPS). Based on this finding, we further determined the chemical structure of AL46CPS using 1H and 13C NMR spectroscopy by conducting 2D DQF–COSY, TOCSY, HSQC, HMBC, and NOESY experiments. AL46CPS comprises a trisaccharide repeating unit with the following structure: [→2)-β-d-Rhap-(1 → 3)-α-d-Rhap-(1 → 2)-α-d-Rhap-(1→]n. These findings highlight the potential application of AL46CPS as a new aluminum-adsorbing substance in acidic environments to prevent crop loss.

Structural analyses of mannose pentasaccharide of high mannose type oligosaccharides by 1D and 2D NMR spectroscopy

NMR spectroscopy is a very important and useful method for the structural analysis of oligosaccharides, despite its low sensitivity. We first applied conventional measuring methods, 2D DQF COSY, (1)H-(13)C HSQC, and (1)H-(13)C HMBC, and also the Double Pulsed Field Gradient Spin Echo (DPFGSE)-TOCSY and DPFGSE-NOESY/ROESY techniques to analyze a branched mannose pentasaccharide as a model of high mannose type N-glycans in natural abundance. The NMR spectra of the model compound are very complex and difficult to analyze owing to overlapping signals. The superior selective irradiation capability of the DPFGSE technique is useful for fine structural and conformational analyses of such complex oligosaccharides. We here introduce a novel technique called DPFGSE-Double-Selective Population Transfer (SPT)-Difference and DPFGSE-NOE/ROE-SPT-Difference spectroscopy. The DPFGSE-Double-SPT-Difference method involves irradiation of two peaks from one proton and the subtraction of higher and lower peaks from each spectrum. The DPFGSE-NOE/ROE-SPT-Difference method involves the transfer of the magnetization polarized by NOE/ROE from the nuclei to the spin-coupled nuclei through scalar spin-spin interaction using the SPT method. Even if the signals in the NMR spectra overlap, each signal can be accurately assigned. In particular, DPFGSE-NOE/ROE-SPT-Difference is very useful for identifying sugar connectivity.

The COSY and DQF-COSY NMR spectra of an AX system of spins I = 3/2

The 2D NMR COSY and DQF-COSY spectra of an AX system of spins I = 3/2 have been calculated by numerical density matrix calculations. The results are presented in two extreme cases, namely in the slow relaxation regime and in the fast relaxation regime. It is concluded that in addition to the usual advantages that the DQF-COSY NMR experiment offer compared with the conventional COSY NMR experiment (observation of only-coupled spins, antiphase character of both diagonal and cross-peaks and intensity of the cross peaks comparable to the intensity of the diagonal peaks), the DQF-COSY NMR experiment appear to be more reliable for interpretation and analysis than the conventional COSY NMR experiment and this is particularly true for quadrupolar nuclei relaxing usually very quickly. © 2011 Wiley Periodicals, Inc. Concepts Magn Reson Part A 38A: 7–15, 2011.

Isolation of lignans from Schisandra chinensis with anti-proliferative activity in human colorectal carcinoma: Structure–activity relationships

Separate benzocyclooctadiene lignans were isolated from the berries of Schisandra chinensis in milligram quantities on analytical reverse phase (RP) HPLC by an automated repeat-injection method and shown to have anti-proliferative activity against human colorectal cancer cells. Structures of the compounds were determined by a combination of NMR and mass spectrometry. Stereospecific NMR assignments for gomisin-N and deoxyschisandrin, gave more complete and accurate data than previously reported, based on 600 MHz 2D HSQC, DQF-COSY and HMBC data. Comparison of coupling constants and HMBC crosspeak intensities with calculated and X-ray crystal structures confirmed their stereochemistry and conformation. Analysis of structure–activity relationships revealed the importance of key structural determinants. The S-biphenyl configuration of gomisin N, the most active lignan, correlated with increased anti-proliferative activity, while the presence of a hydroxyl group at the C7 position reduced or abolished this activity. Increased activity was also observed when a methylenedioxy group was present between C12 and C13. The percent yield of the most active compounds relative to the starting plant materials was 0.0156% for deoxyschisandrin and 0.0173% for gomisin N. The results of these studies indicate that automated repeat-injection method of analytical HPLC may provide a superior alternative to the standard semi-preparative HPLC techniques for separation of complex mixtures.

Fast multidimensional localized parallel NMR spectroscopy for the analysis of samples

A parallel localized spectroscopy (PALSY) method is presented to speed up the acquisition of multidimensional NMR (nD) spectra. The sample is virtually divided into a discrete number of nonoverlapping slices that relax independently during consecutive scans of the experiment, affording a substantial reduction in the interscan relaxation delay and the total experiment time. PALSY was tested for the acquisition of three experiments 2D COSY, 2D DQF-COSY and 2D TQF-COSY in parallel, affording a time-saving factor of 3-4. Some unique advantages are that the achievable resolution in any dimension is not compromised in any way: it uses conventional NMR data processing, it is not prone to generate spectral artifacts, and once calibrated, it can be used routinely with these and other combinations of NMR spectra.

An alternative scheme for the multiplexed acquisition of 1D and 2D NMR spectra

Spin system selective 1D 1H, 2D DQF-COSY and 2D HSQC NMR spectra were recorded in order to fully assign the 1H and 13C 1D NMR spectra of an asymmetrical β-cyclodextrin derivative. Instead of individually accessing the seven sugar anomeric protons by means of long multiplet selective pulses, only short region selective pulses were used. The simultaneously selected anomeric protons were differentiated by allowing their magnetization to evolve under the sole effect of the chemical shift interaction. In each experiment, the seven recorded spectra were linear combinations of the seven desired ones. The combination coefficients were measured and used to obtain almost perfectly separated sugar unit sub-spectra. This multiplexed acquisition scheme resulted in a time gain factor of about 2.

ChemInform Abstract: A New Sulfated β-Galactan from Clams with Anti-HIV Activity.

A new polysaccharide composed of galactan sulfate with a β-(1→3)-glycosidic linkage has been isolated from the marine clam species Meretrix petechialis. The polysaccharide was homogeneous in its composition containing d-galactose. The glycosidic linkage was examined by 2D DQF-COSY and 2D NOESY spectroscopy. The coupling constant of anomeric proton was 7.8 Hz, suggesting a β-galacto configuration. The downfield shift of H-2 of galactose residue demonstrated the presence of 2-O-sulfonate group. TQF-COSY confirmed that the C-6 position was substituted with a sulfonate group. The anti-HIV activity of the polysaccharides has been evaluated by the inhibition of syncytia formation. The fusion index and percentage fusion inhibition of sulfated galactan were 0.34 and 56% at 200 μg/mL.

1H and 13C NMR data of methyl tetra‐O‐benzoyl‐D‐pyranosides in acetone‐d6

Complete assignments of (1)H- and (13)C-NMR resonances of five methyl tetra-O-benzoyl-D-pyranosides based on (1)H, (13)C, 2D DQF-COSY, HMQC, HMBC and HSQC-TOCSY experiments have been performed.

Secondary Metabolites from the Roots of Salvia Palaestina Bentham

Two new sesquiterpenes (1–2), and one diterpene (3) were isolated from the roots of Salvia palaestina Bentham (Lamiaceae), together with eight known diterpenes and two triterpenes. Their structures were elucidated by 1D and 2D NMR spectroscopy, including 1D-TOCSY, DQF-COSY, ROESY, HSQC, and HMBC experiments, as well as ESIMS and chemical analysis.

2D Selective-TOCSY–DQFCOSY and HSQC–TOCSY NMR experiments for assignment of a homogeneous asparagine-linked triantennary complex type undecasaccharide

The assignment of 1H and 13C NMR signals of a complex type triantennary asialooligosaccharide was examined using 2D selective-TOCSY–DQFCOSY and HSQC–TOCSY experiments. The 2D selective-TOCSY–DQFCOSY experiment exhibits a 2D DQFCOSY spectrum of an individual monosaccharide in the undecasaccharide, although the NMR signals of several monosaccharides in the triantennary undecasaccharide are heavily overlapped. Selective excitation of each anomeric proton signal and subsequent TOCSY experiment afforded transverse magnetization corresponding to all of the proton signals of the monosaccharide. This magnetization was then developed with the corresponding DQFCOSY pulse sequence to afford the DQFCOSY spectrum of the individual monosugars. In this case, four GlcNAc-b, -e, -j, and -h residues were excited as a mixture. In order to assign 13C signals, a conventional 2D HSQC–TOCSY spectrum was examined and compared with an unambiguous assignment of 2D selective-TOCSY–DQFCOSY thus obtained. This systematic analysis made it possible to obtain an assignment of the 1H and 13C NMR signals of the triantennary undecasaccharide. In addition, these experiments also revealed all of the glycosyl positions in the triantennary undecasaccharide.

Insertion of a Bulky Rhodium Complex into a DNA Cytosine−Cytosine Mismatch: An NMR Solution Study

The bulky octahedral complex Rh(bpy)2chrysi3+ (chrysi = 5,6-chrysenequinonediimine) binds single-base mismatches in a DNA duplex with micromolar binding affinities and high selectivity. Here we present an NMR solution study to characterize the binding mode of this bulky metal complex with its target CC mismatch in the oligonucleotide duplex (5'-CGGACTCCG-3')2. Both NOESY and COSY studies indicate that Rh(bpy)2chrysi3+ inserts deeply in the DNA at the mismatch site via the minor groove and with ejection of both destabilized cytosines into the opposite major groove. The insertion only minimally distorts the conformation of the oligonucleotide local to the binding site. Both flanking, well-matched base pairs remain tightly hydrogen-bonded to each other, and 2D DQF-COSY experiments indicate that all sugars maintain their original C2'-endo conformation. Remarkably, 31P NMR reveals that opening of the phosphate angles from a BI to a BII conformation is sufficient for insertion of the bulky metal complex. These results corroborate those obtained crystallographically and, importantly, provide structural evidence for this specific insertion mode in solution.

Structural analysis of an acidic, fatty acid ester-bonded extracellular polysaccharide produced by a pristane-assimilating marine bacterium, Rhodococcus erythropolis PR4

Rhodococcus erythropolis PR4 is a marine bacterium that can degrade various alkanes including pristane, a C 19 branched alkane. This strain produces a large quantity of extracellular polysaccharides, which are assumed to play an important role in the hydrocarbon tolerance of this bacterium. The strain produced two acidic extracellular polysaccharides, FR1 and FR2, and the latter showed emulsifying activity toward clove oil, whereas the former did not. FR2 was composed of d-galactose, d-glucose, d-mannose, d-glucuronic acid, and pyruvic acid at a molar ratio of 1:1:1:1:1, and contained 2.9% (w/w) stearic acid and 4.3% (w/w) palmitic acid attached via ester bonds. Therefore, we designated FR2 as a PR4 fatty acid-containing extracellular polysaccharide or FACEPS. The chemical structure of the PR4 FACEPS polysaccharide chain was determined by 1D 1H and 13C NMR spectroscopies as well as by 2D DQF-COSY, TOCSY, HMQC, HMBC, and NOESY experiments. The sugar chain of PR4 FACEPS was shown to consist of tetrasaccharide repeating units having the following structure: [Display omitted]

Structural analysis of mucoidan, an acidic extracellular polysaccharide produced by a pristane-assimilating marine bacterium, Rhodococcus erythropolis PR4

Rhodococcus erythropolis PR4 is a marine bacterium that can degrade various alkanes including pristane, a C 19 branched alkane. This strain produces a large quantity of extracellular polysaccharides (EPS), which are assumed to play an important role in the hydrocarbon tolerance of R. erythropolis PR4. The strain produced an acidic EPS, mucoidan, together with a fatty acid-containing EPS, PR4 FACEPS. The chemical structure of the mucoidan was determined using 1H and 13C NMR spectroscopy and by conducting 2D DQF-COSY, TOCSY, HMQC, HMBC, and NOESY experiments. The mucoidan was shown to consist of a pentasaccharide repeating unit with the following structure: [Display omitted]

Optimization of homonuclear 2D NMR for fast quantitative analysis: Application to tropine–nortropine mixtures

Quantitative analysis by 1H NMR is often hampered by heavily overlapping signals that may occur for complex mixtures, especially those containing similar compounds. Bidimensional homonuclear NMR spectroscopy can overcome this difficulty. A thorough review of acquisition and post-processing parameters was carried out to obtain accurate and precise, quantitative 2D J-resolved and DQF-COSY spectra in a much reduced time, thus limiting the spectrometer instabilities in the course of time. The number of t 1 increments was reduced as much as possible, and standard deviation was improved by optimization of spectral width, number of transients, phase cycling and apodization function. Localized polynomial baseline corrections were applied to the relevant chemical shift areas. Our method was applied to tropine–nortropine mixtures. Quantitative J-resolved spectra were obtained in less than 3 min and quantitative DQF-COSY spectra in 12 min, with an accuracy of 3% for J-spectroscopy and 2% for DQF-COSY, and a standard deviation smaller than 1%.

Antiproliferative Triterpene Saponins from Entada africana

Nine new ester saponins (1-9) were isolated from the roots of Entada africana. Their structures were elucidated by 1D and 2D NMR experiments including 1D and 2D TOCSY, DQF-COSY, HSQC, and HMBC spectroscopy, as well as ESIMS analysis, and chemical methods. The aglycon moieties were found to be echinocystic acid for compounds 1, 2, 4-6, 8, and 9 and acacic acid for 3 and 7. All isolated compounds were tested for their antiproliferative activity against the J774.A1, HEK-293, and WEHI-164 cell lines. Moderate to high cytotoxic potency was found for almost all compounds tested.

The Synthesis, Structural Characterization, and Receptor Specificity of the α-Conotoxin Vc1.1

The alpha-conotoxin Vc1.1 is a small disulfide-bonded peptide currently in development as a treatment for neuropathic pain. This study describes the synthesis, determination of the disulfide connectivity, and the determination of the three-dimensional structure of Vc1.1 using NMR spectroscopy. Vc1.1 was shown to inhibit nicotine-evoked membrane currents in isolated bovine chromaffin cells in a concentration-dependent manner and preferentially targets peripheral nicotinic acetylcholine receptor (nAChR) subtypes over central subtypes. Specifically, Vc1.1 is selective for alpha3-containing nAChR subtypes. The three-dimensional structure of Vc1.1 comprises a small alpha-helix spanning residues Pro6 to Asp11 and is braced by the I-III, II-IV disulfide connectivity seen in other alpha-conotoxins. A comparison of the structure of Vc1.1 with other alpha-conotoxins, taken together with nAChR selectivity data, suggests that the conserved proline at position 6 is important for binding, whereas a number of residues in the C-terminal portion of the peptide contribute toward the selectivity. The structure reported here should open new opportunities for further development of Vc1.1 or analogues as analgesic agents.

Investigation of Tetrahedral Mixed-Metal Carbonyl Clusters by Two-Dimensional 59Co COSY and DQFCOSY NMR Experiments

Two-dimensional (2D) 59Co correlation spectroscopy (COSY)/double-quantum-filtered (DQF)COSY experiments are reported for three tetrahedral mixed-metal clusters HFeCo3(CO)11L with L = PPh3, P(OMe)3, and PCy3 (Cy = cyclohexyl) in which the L-substituted Co center is chemically different from the other two. The 2D 59Co COSY and DQFCOSY NMR spectra of these clusters in solution prove the existence of a scalar coupling constant between the 59Co nuclei. To determine this value for each cluster, 2D 59Co COSY and DQFCOSY NMR spectra have been simulated by numerical density-matrix calculations. The predicted spectra mimic well the features of the experimental spectra if a scalar coupling is introduced between the Co nuclei. It was initially observed that the scalar coupling constants between the Co nuclei obtained from the 2D COSY and DQFCOSY NMR spectra differed significantly. In contrast to the 2D COSY spectra, the diagonal and cross peaks are of comparable intensity in the 2D DQFCOSY spectra, which leads to a considerable increase in the accuracy of the determination of the scalar coupling constant.

Structural analysis of an extracellular polysaccharide produced by Rhodococcus rhodochrous strain S-2

A possibility has been suggested of applying the EPS produced by Rhodococcus rhodochrous strain S-2 (S-2 EPS) to the bioremediation of oil-contaminated environments, because its addition, together with minerals, to oil-contaminated seawater resulted in emulsification of the oil, increased the degradation of polyaromatic hydrocarbons (PAH) of the oil, and led to the dominance of PAH-degrading marine bacteria. To understand the underlying principles of these phenomena, we determined the chemical structure of the sugar chain of S-2 EPS. The EPS was found to be composed of d-galactose, d-mannose, d-glucose, and d-glucuronic acid, in a molar ratio of 1:1:1:1. In addition, 0.8% (w/w) of octadecanoic acid and 2.7% (w/w) of hexadecanoic acid were also contained in its structure. By 1H and 13C NMR spectroscopy, including 2D DQF-COSY, TOCSY, HMQC, HMBC, and NOESY experiments, as well as chemical and enzymatic analyses, the polysaccharide was shown to consist of tetrasaccharide repeating units with the following structure: [Display omitted]

Structural analysis of an extracellular polysaccharide produced by a benzene tolerant bacterium, Rhodococcus sp. 33

Rhodococcus sp. 33 can tolerate and efficiently degrade various concentrations of benzene, one of the most toxic and prevailing environmental pollutants. This strain produces a large quantity of extracellular polysaccharide (33 EPS), which plays an important role in the benzene tolerance in Rhodococcus sp. 33, especially by helping the cells to survive an initial challenge with benzene. This EPS has been reported to be composed of d-galactose, d-glucose, d-mannose, d-glucuronic acid, and pyruvic acid at a molar ratio of 1:1:1:1:1. To understand the protective effect of 33 EPS, we determined its chemical structure by using 1H and 13C NMR spectroscopy including 2D DQF-COSY, TOCSY, HMQC, HMBC, and NOESY experiments. The polysaccharide was shown to consist of tetrasaccharide repeating units with the following structure: ▪