取代杂氮硅三环的核磁共振及分子动力学研究

对取代的杂氮硅三环类化合物(Silatrane)-(3R,4S)-1-氯甲基杂氮硅三环-4-羧酸(1)和(3R,4S)-1-氯甲基-3-甲基杂氮硅三环-4-羧酸(2)及它们相应的三乙基铵盐(3)和(4)的结构采用^1H,^1^3C,^2^9Si NMR进行研究, 其一维^1H NMR谱根据二维同核和异核相关谱进行了归属。从测得的偶合常数及化学位移分析, 得出羧基及其铵盐的取代造成相邻另外两环上的-CH2-CH2-O-链上二面角发生扭拐,成为拐折旁式构象。分子动力学方法的模拟计算证明了这种构象变化。另外根据溶液中^2^9Si及^1H的化学位移实验结果, 讨论了该类化合物环上取代对分子内配键(N-Si)的影响。     

Investigation of structure and dynamics in a photochromic molecular crystal by NMR crystallography

A photochromic anil, N-(3,5-di-t-butylsalicylidene)-4-amino-pyridine, has been studied by single-crystal X-ray diffraction, multinuclear magic-angle spinning NMR, and first-principles density functional theory (DFT) calculations. Interpretation of the solid-state NMR data on the basis of calculated chemical shifts confirms the structure is primarily composed of molecules in the ground-state enol tautomer, whereas thermally activated cis-keto and photoisomerised trans-keto states exist as low-level defects with populations that are too low to detect experimentally. Variable temperature ¹³C NMR data reveal evidence for solid-state dynamics, which is found to be associated with fast rotational motion of t-butyl groups and 180° flips of the pyridine ring, contrasting the time-averaged structure obtained by X-ray diffraction. Comparison of calculated chemical shifts for the full crystal structure and an isolated molecule also reveals evidence for an intermolecular hydrogen bond involving the pyridine ring and an adjacent imine carbon, which facilitates the flipping motion. The DFT calculations also reveal that the molecular conformation in the crystal structure is very close to the energetic minimum for an isolated molecule, indicating that the ring dynamics arise as a result of considerable steric freedom of the pyridine ring and which also allows the molecule to adopt a favourable conformation for photochromism.     

Glass transition dynamics and boiling temperatures of molecular liquids and their isomers

The relation between a dynamic and a thermodynamic temperature, glass transition Tg and boiling point Tb, is investigated for various glass-forming liquids, with emphasis on monohydroxy alcohols. As is well known, Tb and Tg are positively correlated across a large variety of liquids. However, we found that the same quantities show a negative correlation within an isomeric series, i.e., Tb decreases with increasing Tg for different isomers of the same chemical formula. For the alcohol series, CnH2n+1OH with 3 < or = n < or = 10, a master curve of the negative Tg - Tb correlation is obtained if the temperatures are normalized to the respective values of the n-alkanols. This Tg - Tb dependence of isomeric liquids is linked to entropic effects and responsible for much of the scatter of the correlation observed for a large number of molecular organic glass-formers with 45 < Tg < 250 K. Dielectric relaxation is measured for three groups of isomers: (a) 3-methoxyl-1-butanol and 2-iso-propoxyethanol, (b) 1,4-, 1,2-, and 2,4-pentanediol, and (c) di-n- and di-iso-butyl phthalate. Two key parameters of the dynamics, fragility m and stretching exponent beta, are found to be indistinguishable within isomers of moderately different Tgs. Larger fragility differences are readily expected with pronounced structural change, but no systematic trend is observed within an isomer series. The results provide a useful tool for assessing Tg, m, and beta for marginal glass formers on the basis of their isomers.     

Features of complexing of molecular NMR relaxation probes with cellulose acetates in solutions

The method of active and inert NMR relaxation probes can be used for determining the degree of substitution of cellulose acetates. The formation of hydrogen bonds between the hydroxyl and acetate groups of cellulose acetate is more probable than between the hydroxyl groups, which results in relative large shielding of the free OH groups in the polymer in samples with high degrees of substitution.Translated from Izvestiya Akademii Nauk SSSR, Seriya Khimicheskaya, No. 8, pp. 1761–1765, August, 1989.We would like to thank N. I. Naimark for providing the samples of the cellulose acetates.     

Dielectric relaxation in some polyacrylate solutions

The dielectric constant ?′ and loss factor ?″ of poly(butyl acrylate), poly(butyl methacrylate), and poly(isobutyl methacrylate) solutions are reported in the frequency region of 1 kHz to 24.42 GHz at four different temperatures of 27, 40, 50, and 60°C. Cole–Cole plots are plotted to obtain the distribution parameter and relaxation time. The activation energies are evaluated assuming dielectric relaxation to be a rate process in these solutions. A possible relaxation mechanism is discussed.     

Molecular dynamics of hydrophilic poly(propylene imine) dendrimers in aqueous solutions by 1H NMR relaxation

The local dynamics of three poly(propylene imine) dendrimers with hydrophilic triethylenoxy methyl ether terminal groups were studied in D₂O by the measurement of the ¹H NMR relaxation times, which were treated with the Lipari–Szabo model‐free approach. The results showed that the overall mobility increased with temperature and decreased with increasing dendrimer size. An Arrhenius trend was observed for both overall and local motions. The activation energy of overall tumbling increased from 11.3 to 17.5 kJ/mol with the dendrimer size. The local mobility decreased from the outer part to the inner part of the dendrimer and with the dendrimer size. The spatial restriction of local motions decreased with increasing temperature up to 55 °C and remained constant above 55 °C. Local motions were more restricted when the dendrimer size increased. The results showed that the hydrophilic end groups of the dendrimers were located preferentially at the periphery of the molecules and were extended in the aqueous environment. © 2003 Wiley Periodicals, Inc. J Polym Sci Part B: Polym Phys 41: 2969–2975, 2003     

NMR relaxation and relaxivity parameters of MRI probes revealed by optimal wavelet signal compression of molecular dynamics simulations

The MRI contrast agents (CAs) have been routinely used for detecting tumors at early stages. Currently, the most used CAs in MRI are gadolinium (Gd³⁺) complexes. However, these CAs can be toxic to the body. Thus, this work proposes Ni²⁺ complexes ([Ni(ACAC)₂(H₂O)₂], [Ni(TEA)]²⁺) as promising CAs. For the theoretical prediction, molecular dynamics simulations were carried out and the conformations were selected by the optimal wavelet signal compression algorithm method. The T₁ and T₂ values were obtained directly by means of the spectral density. Our findings showed that the Ni²⁺ complexes can be promising CAs in MRI.     

Transport properties of acetone aqueous solutions: molecular dynamics simulation and NMR studies

Two quantities η_rel and are applied to study the nonideal acetone–water association mixture. An all-atom acetone model and a TIP5P water model have been adopted for molecular dynamics simulation. We study the transport properties of the system comparing the 's of strong hydrogen bond and weak contact based on transport properties, MD simulations together with NMR experimental data and find good agreement of concentration dependence, which exhibits the cooperation effect.     

Investigation of some aminophosphonates by high-resolution NMR in the solid

Conclusion By high-resolution NMR in the solid it was possible to demonstrate unambiguously that the nitrogen atom is protonated through the phosphono group in the investigated compounds. The order of substitution of the protons in N-PMG was established from the obtained data on the anisotropy of the³¹P chemical shift in variously substituted salts of N-PMG with CHA. Slow rotation of the phosphono group about the P–C bond was detected during investigation of the hydrochlorides.All-Union Scientific-Research Technological Institute of Herbicides and Plant Growth Regulators. Translated from Zhurnal Strukturnoi Khimii, Vol. 27, No. 3, pp. 60–64, May–June, 1986.     

1H NMR relaxation in glycerol solutions of nitroxide radicals: effects of translational and rotational dynamics

(1)H spin-lattice relaxation rates in glycerol solutions of selected nitroxide radicals at temperatures between 200 K and 400 K were measured at 15 MHz and 25 MHz. The frequency and temperature conditions were chosen in such a way that the relaxation rates go through their maximum values and are affected by neither the electron spin relaxation nor the electron-nitrogen nucleus hyperfine coupling, so that the focus could be put on the mechanisms of motion. By comparison with (1)H spin-lattice relaxation results for pure glycerol, it has been demonstrated that the inter-molecular electron spin-proton spin dipole-dipole interactions are affected not only by relative translational motion of the solvent and solute molecules, but also by their rotational dynamics as the interacting spins are displaced from the molecular centers; the eccentricity effects are usually not taken into account. The (1)H relaxation data have been decomposed into translational and rotational contributions and their relative importance as a function of frequency and temperature discussed in detail. It has been demonstrated that neglecting the rotational effects on the inter-molecular interactions leads to non-realistic conclusions regarding the translational dynamics of the paramagnetic molecules.     

Proton NMR relaxation study of molecular dynamics of chromonic liquid crystal Edicol Sunset Yellow

Proton nuclear magnetic resonance (¹H NMR) relaxometry, over about five decades in Larmor frequency, and pulsed field gradient NMR were used to study the molecular dynamics in the chromonic nematic and isotropic phases of stacked molecules of the binary mixture composed by Edicol Sunset Yellow (ESY) and deuterated water. Our results evidence that in both phases collective motions are responsible for the spin-lattice relaxation dispersion in the Larmor frequency range below 1 MHz. In the nematic phase, the collective motion are attributed to columnar undulations within the stacked molecules, while, in the isotropic phase, the results are explained by local order fluctuations due to the formation of the stacks. The high frequency dispersion was explained by individual molecular motions like rotations around and perpendicular to the stack axis, and also self-diffusion.     

Microwave dielectric relaxation in some hydrogen-bonded solutions

Dielectric constant and loss values have been obtained between 1 and 35 GHz for several:polyhydroxyl alcohols in p-dioxane solution at 25°C. The data have been analyzed in terms of a Cole-Cole distribution. The relaxation times are sensitive to the proximity of the hydroxyl groups and the degree of intramolecular hydrogen bonding.     

Probing side-chain dynamics in the proteasome by relaxation violated coherence transfer NMR spectroscopy

A pair of experiments is presented for measuring intra-methyl 1H-1H dipolar cross-correlated spin relaxation rates in highly deuterated, methyl protonated proteins with significantly improved sensitivity relative to previously developed experiments that measure dynamics via 1H spin relaxation. In applications to proteins with correlation times in the macromolecular limit, these cross-correlation rates are related directly to order parameters, characterizing the amplitude of motion of methyl-containing side-chains. The experimental approach is validated by comparing extracted order parameters with those obtained via 2H and 13C spin relaxation methods for both protein L (7.5 kDa) and malate synthase G (82 kDa), with excellent correlations obtained. The methodology is applied to study Ile, Leu, and Val side-chain dynamics in a 360 kDa "half-proteasome" complex. In particular, order parameters obtained from the WT complex and from a second complex where the proteasome gating residues are deleted establish that the relative levels of dynamics in each of the two molecules are very similar. It thus becomes clear that there is no communication between gating residues and other regions of the molecule involving pico- to nanosecond time-scale dynamics of these methyl-containing side-chains.     

Model of drug-loaded fluorocarbon-based micelles studied by electron-spin induced (19)f relaxation NMR and molecular dynamics simulation

Rf-IPDU-PEGs belong to a class of fluoroalkyl-ended poly(ethylene glycol) polymers (Rf-PEGs), where the IPDU (isophorone diurethane) functions as a linker to connect each end of the PEG chain to a fluoroalkyl group. The Rf-IPDU-PEGs form hydrogels in water with favorable sol-gel coexistence properties. Thus, they are promising for use as drug delivery agents. In this study, we introduce an electron-spin induced 19F relaxation NMR technique to probe the location and drug-loading capacity for an electron-spin labeled hydrophobic drug, CT (chlorambucil-tempol adduct), enclosed in the Rf-IPDU-PEG micelle. With the assistance of molecular dynamics simulations, a clear idea regarding the structures of the Rf-IPDU-PEG micelle and its CT-loaded micelle was revealed. The significance of this research lies in the finding that the hydrophobic drug molecules were loaded within the intermediate IPDU shells of the Rf-IPDU-PEG micelles. The molecular structures of IPDU and that of CT are favorably comparable. Consequently, it appears that this study opens a window to modify the linker between the Rf group and the PEG chain for achieving customized structure-based drug-loading capabilities for these hydrogels, while the advantage of the strong affinity among the Rf groups to hold individual micelles together and to interconnect the micellar network is still retained in hopes of maintaining the sol-gel coexistence of the Rf-PEGs.     

Discriminating the helical forms of peptides by NMR and molecular dynamics simulation

The HNCO NMR pulse sequence was applied to three selectively labeled (15)N and (13)C isotopic homologues of the peptide Ac-WAAAH(AAARA)(3)A-NH(2) to probe directly for hydrogen bonds between residues 8 and 11 (characteristic of a 3(10)-helix), 8 and 12 (alpha-helix), and 8 and 13 (pi-helix). The experiments demonstrate conclusively, and in agreement with circular dichroism studies, that the center of the peptide is alpha-helical; there is no discernible 3(10)- or pi-helix at these specific positions. Molecular dynamics simulations of the preceding peptide and Ac-(AAAAK)(3)A-NH(2) in water using the potential energy parameter set CHARMM22/CMAP correctly yield an alpha-helix, in contrast to simulations with the set CHARMM22, which result in a pi-helix.     

Furanose dynamics in the HhaI methyltransferase target DNA studied by solution and solid-state NMR relaxation

Both solid-state and solution NMR relaxation measurements are routinely used to quantify the internal dynamics of biomolecules, but in very few cases have these two techniques been applied to the same system, and even fewer attempts have been made so far to describe the results obtained through these two methods through a common theoretical framework. We have previously collected both solution 13C and solid-state 2H relaxation measurements for multiple nuclei within the furanose rings of several nucleotides of the DNA sequence recognized by HhaI methyltransferase. The data demonstrated that the furanose rings within the GCGC recognition sequence are very flexible, with the furanose rings of the cytidine, which is the methylation target, experiencing the most extensive motions. To interpret these experimental results quantitatively, we have developed a dynamic model of furanose rings based on the analysis of solid-state 2H line shapes. The motions are modeled by treating bond reorientations as Brownian excursions within a restoring potential. By applying this model, we are able to reproduce the rates of 2H spin-lattice relaxation in the solid and 13C spin-lattice relaxation in solution using comparable restoring force constants and internal diffusion coefficients. As expected, the 13C relaxation rates in solution are less sensitive to motions that are slower than overall molecular tumbling than to the details of global molecular reorientation, but are somewhat more sensitive to motions in the immediate region of the Larmor frequency. Thus, we conclude that the local internal motions of this DNA oligomer in solution and in the hydrated solid state are virtually the same, and we validate an approach to the conjoint analysis of solution and solid-state NMR relaxation and line shapes data, with wide applicability to many biophysical problems.     

Non-markovian effects in NMR relaxation processes: An application to molecular dynamics in branched and cross-linked solid polymers

The dynamic of restricted rotatranslation of mobile structural defects along a polymer chain are treated with an equation of motion with a non-Markovian, stochastic force. The MORI/KUBO/ZWANZIG representation gives a stochastic process with a memory where the loss of correlation is dependend on the restriction of diffusional motion of defects. The influence of crosslinks and branchings of the polymer chains on the molecular dynamics are discussed. The analytical spectral densities of ω^−-α-type characterized by the fractal dimensions of the relevant processes in the different polymeric systems, e. g. cis-polybutadiene, cis-polyisoprene, styrene-butadiene-rubber, high density and linear low density polyethylenes, are compared with the observed NMR data.