Ppm For 1H Research Articles

Molecular structure, spectroscopic (FT-IR, NMR and UV–Vis), electronic properties, molecular docking, and molecular dynamics studies on novel thiazolidinone derivative: A potent breast cancer drug

This study details the synthesis, characterization, and comprehensive computational analysis of a novel (R)-camphor-based thiazolidinone derivative. The structural integrity of the synthesized compound was confirmed using 1H- and 13CNMR spectroscopy as well as HRMS. Theoretical vibrational modes were successfully assigned and matched well with the observed FT-IR spectrum. Simulated NMR values were in excellent agreement with experimental chemical shifts, showing maximum deviations of less than 1.5 ppm for 1H and 4 ppm for 13C. UV–vis spectroscopy revealed n→π* and π→π* transitions in thiazolidinone, with intermolecular charge transfer (ICT) corroborated by Frontier Molecular Orbital (FMO), density of states (DOS), and Natural Bond Orbital (NBO) analyses. Molecular docking studies indicated that thiazolidinone exhibited strong inhibitory activity against the breast cancer target protein 6HQO, which was further validated by molecular dynamics simulations, confirming the stability and accuracy of the docking results.

Impacts of basis sets, solvent models, and NMR methods on the accuracy of 1H and 13C chemical shift calculations for biaryls: a DFT study

Introduction: Biaryls are core structures composed of chiral ligands, organocatalysts, biologically active natural products and biopolymer lignins. In this study, the effects of basis sets, solvent models, and NMR methods on the accuracy of 1H/13C NMR chemical shift calculations for biaryl structures were evaluated. Methods: All calculations were performed using Gaussian09. The GIAO NMR results were observed and extracted using GaussView05. To reduce the systematic error of the calculations, linear regression analysis of the calculated chemical shifts versus the experimental shifts was performed. Results: The tested basis sets showed good 1H/13C results, with CMAE values as low as 0.0425 ppm and 1.09 ppm for 1H and 13C, respectively. The use of solvent models significantly increased the accuracy of the 1H chemical shift calculations. The GIAO method produced more accurate results than did the IGAIM and CSGT methods. Conclusion: This study recommends 6-31G(d,p) and DGDZVP basis sets, IEMPCM and CPCM solvent models, and GIAO NMR methods for the accurate prediction of 1H and 13C chemical shifts for biaryls, assisting in their full structural assignments.

DELTA50: A Highly Accurate Database of Experimental 1H and 13C NMR Chemical Shifts Applied to DFT Benchmarking

Density functional theory (DFT) benchmark studies of 1H and 13C NMR chemical shifts often yield differing conclusions, likely due to non-optimal test molecules and non-standardized data acquisition. To address this issue, we carefully selected and measured 1H and 13C NMR chemical shifts for 50 structurally diverse small organic molecules containing atoms from only the first two rows of the periodic table. Our NMR dataset, DELTA50, was used to calculate linear scaling factors and to evaluate the accuracy of 73 density functionals, 40 basis sets, 3 solvent models, and 3 gauge-referencing schemes. The best performing DFT methodologies for 1H and 13C NMR chemical shift predictions were WP04/6-311++G(2d,p) and ωB97X-D/def2-SVP, respectively, when combined with the polarizable continuum solvent model (PCM) and gauge-independent atomic orbital (GIAO) method. Geometries should be optimized at the B3LYP-D3/6-311G(d,p) level including the PCM solvent model for the best accuracy. Predictions of 20 organic compounds and natural products from a separate probe set had root-mean-square deviations (RMSD) of 0.07 to 0.19 for 1H and 0.5 to 2.9 for 13C. Maximum deviations were less than 0.5 and 6.5 ppm for 1H and 13C, respectively.

Accurate and Cost-Effective NMR Chemical Shift Predictions for Nucleic Acids Using a Molecules-in-Molecules Fragmentation-Based Method.

We have developed, implemented, and assessed an efficient protocol for the prediction of NMR chemical shifts of large nucleic acids using our molecules-in-molecules (MIM) fragment-based quantum chemical approach. To assess the performance of our approach, MIM-NMR calculations are calibrated on a test set of three nucleic acids, where the structure is derived from solution-phase NMR studies. For DNA systems with multiple conformers, the one-layer MIM method with trimer fragments (MIM1trimer) is benchmarked to get the lowest energy structure, with an average error of only 0.80 kcal/mol with respect to unfragmented full molecule calculations. The MIMI-NMRdimer calibration with respect to unfragmented full molecule calculations shows a mean absolute deviation (MAD) of 0.06 and 0.11 ppm, respectively, for 1H and 13C nuclei, but the performance with respect to experimental NMR chemical shifts is comparable to the more expensive MIM1-NMR and MIM2-NMR methods with trimer subsystems. To compare with the experimental chemical shifts, a standard protocol is derived using DNA systems with Protein Data Bank (PDB) IDs 1SY8, 1K2K, and 1KR8. The effect of structural minimizations is employed using a hybrid mechanics/semiempirical approach and used for computations in solution with implicit and explicit-implicit solvation models in our MIM1-NMRdimer methodology. To demonstrate the applicability of our protocol, we tested it on seven nucleic acids, including structures with nonstandard residues, heteroatom substitutions (F and B atoms), and side chain mutations with a size ranging from ∼300 to 1100 atoms. The major improvement for predicted MIM1-NMRdimer calculations is obtained from structural minimizations and implicit solvation effects. A significant improvement with the explicit-implicit solvation model is observed only for two smaller nucleic acid systems (1KR8 and 7NBK), where the expensive first solvation shell is replaced by the microsolvation model, in which a single water molecule is added for each solvent-exposed amino and imino protons, along with the implicit solvation. Overall, our target accuracy of ∼0.2-0.3 ppm for 1H and ∼2-3 ppm for 13C has been achieved for large nucleic acids. The proposed MIM-NMR approach is accurate and cost-effective (linear scaling with system size), and it can aid in the structural assignments of a wide range of complex biomolecules.

Structural, spectroscopic, quantum chemical, and molecular docking study towards cartilage protein of (3E,3′E)-3,3′-(1,4-phenylenebis(azanediyl))bis(cyclohex-2-en-1-one)

This article presents the results of the structural and spectroscopic analysis of (3E,3′E)-3,3′-(1,4-phenylenebis(azanediyl))bis(cyclohex-2-en-1-one) by the means of IR, Raman, NMR, and Density functional theory methods. The structure of the compound was optimized at the B3LYP/6-311++G(d,p) level of theory. The NMR spectra were predicted using the Gauge Independent Atomic Orbital approach. The mean absolute differences between experimental and theoretical chemical shifts were 0.44 and 2.3 ppm for 1H and 13C NMR spectra thus proving the applicability of the chosen level of theory. The vibrational (IR and Raman) spectra were assigned based on the optimized structure following the Potential Energy Distribution (PED) analysis. The intermolecular interactions governing the stability of the compound were investigated by the Natural Bond Orbital and Quantum Theory of Atoms in Molecules analyses. The active positions in the compound were assessed by the Fukui functions calculation and Molecular electrostatic potential map. The inhibitory activity of the compound was analyzed by molecular docking toward cartilage proteins. This activity, along with the groups included in interactions, proved the activity of various parts of the molecule. The inhibitory activity was higher than that of a native ligand. The ecotoxicity assessment proved low toxicity towards aquatic organisms. These results show the high potential of enaminone derivatives obtained under mild conditions.

Synthesis, crystal structure, and magnetic properties of a one-dimensional chain antiferromagnet NiC2O4·2NH3

NiC2O4·2NH3 was synthesized hydrothermally, and its structure was solved by single-crystal X-ray diffraction. Accordingly, NiC2O4·2NH3 crystallizes in the centrosymmetric monoclinic space group C2/m (no. 12) with lattice parameters of a ​= ​10.767(5) Å, b ​= ​5.414(2) Å, c ​= ​5.005(2) Å and β ​= ​96.3(4)°. The NiO4N2 octahedra align in a parallel pattern through shared C2O42− units and thus form linear one-dimensional (1D) chains extending along the b-axis. These linear chains are separated along the a-axis by NH3 molecules and weakly coupled with each other through hydrogen bonding. 1H and 13C solid-state NMR revealed isotropic resonances at −115(3) ppm and −312(5) ppm, respectively, for NiC2O4·2NH3, the ammonia protons and oxalate carbons being paramagnetically shifted via the Fermi contact interaction from d8 Ni(II). Room-temperature paramagnetic shift anisotropies of 400(30) ppm for 1H and 780(40) ppm for 13C were determined from simulations of the spinning sideband manifolds. Magnetic susceptibility shows a broad maximum around T(χmax) ​= ​35 ​K, suggesting well-developed spin–spin correlations along the Ni–C2O4–Ni chains. No long-range order is observed down to 2 ​K, which is further confirmed by heat capacity results. The intrachain interaction J/k of −31.0 ​K is estimated by fitting the data with a 1D spin chain model. The isothermal magnetization curve at 2 ​K shows a field-induced phase transition around 5 ​T. The magnetization value at 9 ​T is only 0.087 μB, which is far from saturation. All magnetic results indicate NiC2O4·2NH3 is a good 1D chain quantum antiferromagnet.

Efficiently Computing NMR 1H and 13C Chemical Shifts of Saccharides in Aqueous Environment.

Determining the structure of saccharides in their native environment is crucial to understanding their function and more accurately targeting their utilization. Nuclear magnetic resonance observables such as the nuclear Overhauser effect or spin-spin coupling constants are routinely utilized to study saccharides in their native water environment. However, while highly sensitive to the local environment, chemical shifts are mostly overlooked, despite being commonly measured for compounds identification. Although chemical shifts carry considerable structural information, their direct association with structure is notoriously difficult. This is mostly due to the similarity in the chemical nature of most saccharides causing similar physicochemical environments close to sugar C and H atoms, resulting in comparable chemical shifts. The rise of computational power allows one to compute reliable chemical shifts and use them to determine atomistic details of these sugars in solution. However, any prediction is severely limited by the computational protocol used and its accuracy. In this work, we studied a set of 31 saccharides on which we evaluated various computational protocols to calculate the total number of 375 1H and 327 13C chemical shifts of sugars in an aqueous environment. Our study proposes two cost-effective protocols for simulating 1H and 13C chemical shifts that we recommend for further use. These protocols can help with the interpretation of experimental spectra, but we also show that they are also capable of structure prediction independently. This is possible because of the low mean absolute deviations of calculated shifts from the experiment (0.06 ppm for 1H and 1.09 ppm for 13C). We explore different solvation methods, basis sets, and optimization schemes to reach such accuracy. A correct sampling of the conformation phase space of flexible sugar molecules is also key to obtaining accurately converged theoretical chemical shifts. The linear regression method was applied to convert the calculated isotropic nuclear magnetic shielding constants to simulated chemical shifts comparable with the experiment. The achieved level of accuracy can help in utilizing chemical shifts for elucidating the 3D atomistic structure of saccharides in aqueous solutions. All linear regression parameters obtained on our extensive set of sugars for all the tested protocols can be reutilized in future works.

Accurate Prediction of Nuclear Magnetic Resonance Parameters via the XYG3 Type of Doubly Hybrid Density Functionals.

Nuclear magnetic resonance (NMR) spectroscopy is one of the most powerful and versatile tools in elucidating molecular structures. To eliminate ambiguities of experimental assignments, accurate calculations of NMR spectra are of great importance. Here, a method for theoretical evaluation of the NMR shielding constants by analytic derivatives using gauge including atomic orbitals (GIAO) has been implemented for the XYG3 type of doubly hybrid density functionals (xDH), namely, the GIAO-xDH method. Benchmark calculations on shielding constants and chemical shifts demonstrate the remarkable accuracy of the GIAO-xDH method, compared to the accurate CCSD(T) references. It is shown here that the XYGJ-OS functional is able to give a mean absolute deviation (MAD) of ∼3.0 ppm in the calculated shielding constants for 13C, 15N, 17O, 19F, while both XYGJ-OS and xDH-PBE0 functionals are able to provide a satisfactory estimation of chemical shifts with MADs of ∼0.03 and 1.0 ppm for 1H and 13C, respectively. The basis set influence upon the method has been examined and a computational scheme considering both accuracy and efficiency has been proposed and tested to predict the experimental 13C chemical shifts of five medium-sized natural product molecules, yielding a MAD of ∼1.0 ppm, which demonstrates the practical feasibility of the GIAO-xDH method.

Towards Elucidating Structure-Spectra Relationships in Rhamnogalacturonan II: Computational Protocols for Accurate 13C and 1H Shifts for Apiose and Its Borate Esters.

Apiose is a naturally occurring, uncommon branched-chain pentose found in plant cell walls as part of the complex polysaccharide Rhamnogalacturonan II (RG-II). The structural elucidation of the three-dimensional structure of RG-II by nuclear magnetic resonance (NMR) spectroscopy is significantly complicated by the ability of apiose to cross-link via borate ester linkages to form RG-II dimers. Here, we developed a computational approach to gain insight into the structure–spectra relationships of apio–borate complexes in an effort to complement experimental assignments of NMR signals in RG-II. Our protocol involved structure optimizations using density functional theory (DFT) followed by isotropic magnetic shielding constant calculations using the gauge-invariant atomic orbital (GIAO) approach to predict chemical shifts. We evaluated the accuracy of 23 different functional–basis set (FBS) combinations with and without implicit solvation for predicting the experimental 1H and 13C shifts of a methyl apioside and its three borate derivatives. The computed NMR predictions were evaluated on the basis of the overall shift accuracy, relative shift ordering, and the ability to distinguish between dimers and monomers. We demonstrate that the consideration of implicit solvation during geometry optimizations in addition to the magnetic shielding constant calculations greatly increases the accuracy of NMR chemical shift predictions and can correctly reproduce the ordering of the 13C shifts and yield predictions that are, on average, within 1.50 ppm for 13C and 0.12 ppm for 1H shifts for apio–borate compounds.

1H/13C chemical shift calculations for biaryls: DFT approaches to geometry optimization.

Twelve common density functional methods and seven basis sets for geometry optimization were evaluated on the accuracy of 1H/13C NMR chemical shift calculations for biaryls. For these functionals, 1H shifts calculations for gas phase optimized geometries were significantly less accurate than those for in-solution optimized structures, while 13C results were not strongly influenced by geometry optimization methods and solvent effects. B3LYP, B3PW91, mPW1PW91 and ωB97XD were the best-performing functionals with lowest errors; among seven basis sets, DGDZVP2 and 6-31G(d,p) outperformed the others. The combination of these functionals and basis sets resulted in high accuracy with CMAEmin = 0.0327 ppm (0.76%) and 0.888 ppm (0.58%) for 1H and 13C, respectively. The selected functionals and basis set were validated when consistently producing optimized structures with high accuracy results for 1H and 13C chemical shift calculations of two other biaryls. This study highly recommends the IEFPCM/B3LYP, B3PW91, mPW1PW91 or ωB97XD/DGDZVP2 or 6-31G(d,p) level of theory for the geometry optimization step, especially the solvent incorporation, which would lead to high accuracy 1H/13C calculation. This work would assist in the fully structural assignments of biaryls and provide insights into in-solution biaryl conformations.

Potential Recognition Layer in Electrochemical Sensor: A Comparative Characterization of p-Cyano Schiff Base Compounds

The effective conjugation of electrons in aromatic Schiff bases has been utilized as an electrochemical sensor in forensic, pharmaceutical and environmental applications. The use of the Schiff base enhances the sensitivity and selectivity of the sensor. In this study, p-cyano Schiff base derived from 4-(4-aminostyryl)benzonitrile and three different aldehydes were synthesized. The spectroscopic techniques via Fourier transform-infrared spectroscopy (FT-IR), Uv-Vis spectrophotometry and Nuclear Magnetic Resonance (NMR) of 1H and 13C were used for structural elucidation resulted compounds. The targeted p-cyano Schiff base showed a clear imine (C=N) stretching vibration band at 1681-1708 cm-1, n→π* electronic transition at 355-360 nm in UV-Vis and a singlet: 8.34-8.39 ppm and 118.07-119.09 ppm for 1H and 13C NMR, respectively, supporting the formation of Schiff bases. The application of Schiff base as spacer in electrochemical DNA (E-DNA) sensor has not been much research done on it so far. The obtained compounds are potentially valuable for electrochemical-DNA sensor study in the future.

The 1H and 13C chemical shifts of 5–5 lignin model dimers: An evaluation of DFT functionals

The calculations of 1H and 13C NMR chemical shifts were performed on three 5–5 lignin dimers, prominent substructures in softwood lignins, to compare with experimental data. Initially, 10 DFT functionals (B3LYP, B3PW91, BPV86, CAM-B3LYP, HCTH, HSEH1PBE, mPW1PW91, PBEPBE, TPSSTPSS, and ωB97XD) combined with the gage-including atomic orbital (GIAO) method and basic set 6–31G(d,p) were tested on 3,3′-(6,6′-dihydroxy-5,5′-dimethoxy-[1,1′-biphenyl]-3,3′-diyl)dipropionic acid (1), efficiently synthesized from ferulic acid. HSEH1PBE, mPW1PW91, and ωB97XD were found to be the three best performing functionals with strong correlations (r2 ≥ 0.9988) and low errors (CMAEs ≤ 0.0611 ppm for 1H and CMAEs ≤ 1.19 ppm for 13C). These functionals were also well-performed for the 1H and 13C shift calculations of dimers 3,3′-dimethoxy-5,5′-dimethyl-[1,1′-biphenyl]-2,2′-diol (2) and 5,5′-diallyl-3,3′-dimethoxy-[1,1′-biphenyl]-2,2′-diol (3). Overall, the ωB97XD functional consistently provided the calculated 1H and 13C chemical shifts with a high level of accuracy.

Characterization of tar generated from the mixture of municipal solid waste and coal pyrolysis at 800 °C

Nowadays, comprehensive perception of the tar characteristics generated from municipal solid waste (MSW) and coal to guide pyrolysis or gasification gas yield upgrading and cleaning has attracted massive research attention. In this study, MSW and coal samples were chosen as principal components. The mixture of these products was pyrolyzed in a horizontal tube furnace at 800 °C with a heating rate of 20 °C/min. The tar derived from the pyrolysis of this mixture was further studied. Gas chromatography–mass spectrometry (GC–MS)coupled with a trace GC and a nuclear magnetic resonance (NMR) spectrometer was applied to investigate the tar composition and characterization along with their molecular chemical structures. 1H and 13C NMR spectra indicated that the functional groups of the tar derived from the mixture of MSW and coal were dominant at the resonances of 0.9–1.8 ppm, 1.5–2.6 ppm and 3.8–4.1 ppm for 1H, 10–40 ppm and 60–80 ppm for13C. The results from GC–MS showed that the tar derived from the mixture of MSW and coal contained about 20 major chemical compounds such as benzene, methyl isobutyl, toluene, xylene, phenol, cresol, naphthalene and others.

Accurate and cost-effective NMR chemical shift predictions for proteins using a molecules-in-molecules fragmentation-based method.

We have developed an efficient protocol using our two-layer Molecules-in-Molecules (MIM2) fragmentation-based quantum chemical method for the prediction of NMR chemical shifts of large biomolecules. To investigate the performance of our fragmentation approach and demonstrate its applicability, MIM-NMR calculations are first calibrated on a test set of six proteins. The MIM2-NMR method yields a mean absolute deviation (MAD) from unfragmented full molecule calculations of 0.01 ppm for 1H and 0.06 ppm for 13C chemical shifts. Thus, the errors from fragmentation are only about 3% of our target accuracy of ∼0.3 ppm for 1H and 2-3 ppm for 13C chemical shifts. To compare with experimental chemical shifts, a standard protocol is first derived using two smaller proteins 2LHY (176 atoms) and 2LI1 (146 atoms) for obtaining an appropriate protein structure for NMR chemical shift calculations. The effect of the solvent environment on the calculated NMR chemical shifts is incorporated through implicit, explicit, or explicit-implicit solvation models. The expensive first solvation shell calculations are replaced by a micro-solvation model in which only the immediate interaction between the protein and the explicit solvation environment is considered. A single explicit water molecule for each amine and amide proton is found to be sufficient to yield accurate results for 1H chemical shifts. The 1H and 13C NMR chemical shifts calculated using our protocol give excellent agreement with experiments for two larger proteins, 2MC5 (the helical part with 265 atoms) and 3UMK (33 residue slice with 547 atoms). Overall, our target accuracy of ∼0.3 ppm for 1H and ∼2-3 ppm for 13C has been achieved for the larger proteins. The proposed MIM-NMR method is accurate and computationally cost-effective and should be applicable to study a wide range of large proteins.

Chemical and structural variations in hazelnut and soybean oils after ozone treatments

In the present work, the effect of ozone treatments on the structural properties of soybean oil (SBO) and hazelnut oil (HO) were investigated. The study presents the findings and results about the oxidation of HO and SBO with ozone, which has not been fully studied previously. The HO and SBO were treated with ozone gas for 1, 5, 15, 30, 60, 180 and 360 min. The ozone reactivity with the SBO and HO during the ozone treatment was analyzed by 1H, 13C NMR, FTIR and GC. The iodine value, viscosity and color variables (L*, a* and b*) of untreated and ozone treated oils were determined. Reaction products were identified according to the Criegee mechanism. New signals at 5.15 and 104.35 ppm were assigned to the ring protons of 1,2,4- trioxolane (secondary ozonide) in the ozonated oils in 1H and 13C NMR, respectively. Ozonated oils exhibited peaks at 9.75 and 2.43 ppm in 1H and NMR, which corresponded to the aldehydic proton and α-methylene group and to the carbonyl carbon, respectively. The peak at 43.9 ppm in 13C NMR was related to the α-methylene group and to the carbonyl carbon. The new signals formed in the ozonation process gradually increased with respect to ozone treatment time. After 360 min of ozone treatment, the carbon-carbon double bond signal, which belongs to the unsaturated fatty acids, disappeared completely in the spectrum. An increase in viscosity, a decrease in iodine value and a dramatic reduction in b* of the oil samples on (+) axis were observed with increased ozone treatment time.

Melt processing of biodegradable poly(lactic acid)/functionalized chitosan nanocomposite films: mechanical modeling with improved oxygen barrier and thermal properties

The present work demonstrates about the formulation of functionalized chitosan (CH-g-OLLA) through the transformation of hydrophilic nature of chitosan into hydrophobic by grafting with oligo(L-lactic acid) (OLLA). The developed CH-g-OLLA is easily soluble in poly(lactic acid) (PLA) matrix, which provides an opportunity towards producing industrially viable nanocomposite films for stringent food packaging and beverages applications. The grafting of OLLA chains is confirmed at NH2 group of chitosan through the presence of two new peaks at 4.2 and 5.1 ppm in 1H–NMR spectra. Various parameters like yield (%), grafting efficiency (%) and percent grafting (%) are calculated as ~51.6, ~40 and ~150%, respectively. Functionalized chitosan has been utilized as nano-filler in PLA matrix to fabricate PLA/CH-g-OLLA nanocomposite films which have compounded successfully by co-rotating twin screw compounder cum cast film extrusion technique (distinctly advantageous over conventional solution casting) at bench scale as well as semi-pilot scale and further demonstrated for its application in the area of food packaging with tailored oxygen barrier properties. Uniform dispersion of spherical aggregates of functionalized chitosan is observed in PLA/CH-g-OLLA nanocomposite films using TEM analysis. A significant reduction up to ~11 °C in glass transition temperature of PLA is observed by adding 5 wt% of nano-filler as a result of plasticization effect, which is an essential property in designing of flexible packages. Mechanical modeling of extruded PLA/CH-g-OLLA films has been performed to compare the experimental values with theoretical results using various mathematical models in which modified foam model, Nielsen model and modified Mitsuishi model demonstrate the best match for Young’s modulus (±0.08), tensile strength (±0.06) and percentage elongation (±0.03), respectively. This may be a significant contribution towards commercialization of such formulation where elegant melt extrusion process of PLA with functionalized chitosan is capable of reducing oxygen permeability up to ~10 folds due to a drastic reduction (~96%) in oxygen solubility.

High resolution solid-state NMR spectroscopy of the Yersinia pestis outer membrane protein Ail in lipid membranes.

The outer membrane protein Ail (Adhesion invasion locus) is one of the most abundant proteins on the cell surface of Yersinia pestis during human infection. Its functions are expressed through interactions with a variety of human host proteins, and are essential for microbial virulence. Structures of Ail have been determined by X-ray diffraction and solution NMR spectroscopy, but those samples contained detergents that interfere with functionality, thus, precluding analysis of the structural basis for Ail's biological activity. Here, we demonstrate that high-resolution solid-state NMR spectra can be obtained from samples of Ail in detergent-free phospholipid liposomes, prepared with a lipid to protein molar ratio of 100. The spectra, obtained with 13C or 1H detection, have very narrow line widths (0.40-0.60ppm for 13C, 0.11-0.15ppm for 1H, and 0.46-0.64ppm for 15N) that are consistent with a high level of sample homogeneity. The spectra enable resonance assignments to be obtained for N, CO, CA and CB atomic sites from 75 out of 156 residues in the sequence of Ail, including 80% of the transmembrane region. The 1H-detected solid-state NMR 1H/15N correlation spectra obtained for Ail in liposomes compare very favorably with the solution NMR 1H/15N TROSY spectra obtained for Ail in nanodiscs prepared with a similar lipid to protein molar ratio. These results set the stage for studies of the molecular basis of the functional interactions of Ail with its protein partners from human host cells, as well as the development of drugs targeting Ail.

Systematic Study of Locally Dense Basis Sets for NMR Shielding Constants.

This paper presents a systematic study of partitioning schemes for locally dense basis sets in the context of NMR shielding calculations. The partitionings explored were based exclusively on connectivity and utilized the basis sets from the pcS-n series. Deviations from pcS-4 shieldings were calculated for a set of 28 organic molecules at the HF, B3LYP, and KT3 levels of theory, with the primary goal being the determination of an efficient scheme that achieves maximal deviations of 0.1 ppm for (1)H and 1 ppm for (13)C. Both atom based and group based divisions of basis sets were examined, with the latter providing the most promising results. It is demonstrated that for the systems studied, at least pcS-1 is required for all parts of the molecule. This, coupled with pcS-3 on the group of interest and pcS-2 on the adjacent groups, is sufficient to achieve the desired level of accuracy at a minimal computational expense. In addition, the suitability of the pcS-n basis sets for post-SCF methods was confirmed through a comparison with other standard basis sets at the MP2 level.

Biotransformation of 2,3,3,3-tetrafluoropropene (HFO-1234yf) in male, pregnant and non-pregnant female rabbits after single high dose inhalation exposure

2,3,3,3-Tetrafluoropropene (HFO-1234yf) is a novel refrigerant intended for use in mobile air conditioning. It showed a low potential for toxicity in rodents studies with most NOAELs well above 10,000ppm in guideline compliant toxicity studies. However, a developmental toxicity study in rabbits showed mortality at exposure levels of 5,500ppm and above. No lethality was observed at exposure levels of 2,500 and 4,000ppm. Nevertheless, increased subacute inflammatory heart lesions were observed in rabbits at all exposure levels. Since the lethality in pregnant animals may be due to altered biotransformation of HFO-1234yf and to evaluate the potential risk to pregnant women facing a car crash, this study compared the acute toxicity and biotransformation of HFO-1234yf in male, female and pregnant female rabbits. Animals were exposed to 50,000ppm and 100,000ppm for 1h. For metabolite identification by 19F NMR and LC/MS-MS, urine was collected for 48h after inhalation exposure. In all samples, the predominant metabolites were S-(3,3,3-trifluoro-2-hydroxypropanyl)-mercaptolactic acid and N-acetyl-S-(3,3,3-trifluoro-2-hydroxypropanyl)-L-cysteine. Since no major differences in urinary metabolite pattern were observed between the groups, only N-acetyl-S-(3,3,3-trifluoro-2-hydroxypropanyl)-L-cysteine excretion was quantified. No significant differences in recovery between non-pregnant (43.10±22.35μmol) and pregnant female (50.47±19.72μmol) rabbits were observed, male rabbits exposed to 100,000ppm for one hour excreted 86.40±38.87μmol. Lethality and clinical signs of toxicity were not observed in any group. The results suggest that the lethality of HFO-1234yf in pregnant rabbits unlikely is due to changes in biotransformation patterns or capacity in pregnant rabbits.

Structural Investigation of Rimantadine Inhibition of the AM2-BM2 Chimera Channel of Influenza Viruses

The M2 channel of influenza A is a target of the adamantane family antiviral drugs. Two different drug-binding sites have been reported: one inside the pore, and the other is a lipid-facing pocket. A previous study showed that a chimera of M2 variants from influenza A and B that contains only the pore-binding site is sensitive to amantadine inhibition, suggesting that the primary site of inhibition is inside the pore. To obtain atomic details of channel-drug interaction, we determined the structures of the chimeric channel with and without rimantadine. Inside the channel and near the N-terminal end, methyl groups of Val27 and Ala30 from four subunits form a hydrophobic pocket around the adamantane, and the drug amino group appears to be in polar contact with the backbone oxygen of Ala30. The structures also reveal differences between the drug-bound and -unbound states of the channel that can explain drug resistance.