Forces in molecular recognition: Comparison of experimental data and molecular mechanics calculations

Summary NMR studies of the rotation barrier of the disaccharide of the glycopeptide antibiotic vancomycin have been used to test the performance of computer simulation techniques using molecular mechanics. In the absence of any solvated water, no correlation could be found between experiment and calculation. By introducing solvent water molecules into the binding region of the antibiotic, the NMR results could be simulated both qualitatively and quantitatively within experimental error without using massive computational resources.     

Exploration of the site-specific nature and generalizability of a trimethylammonium salt modification on vancomycin: A-ring derivatives

Vancomycin analogues bearing an A-ring trimethylammonium salt modification were synthesized and their antimicrobial activity against vancomycin-resistant Enterococci (VRE) was evaluated. The modification increased antimicrobial potency and provided the capability to induce bacteria cell membrane permeabilization, but both properties were weaker than that found with our earlier reported similar C-terminus modification. The results provide further insights on the additive effect and generalizability of the structural and site-specific nature of a peripheral quaternary trimethylammonium salt modification of vancomycin.     

Atropisomerism of diastereomer diribonucleoside phosphotriester

Linear diribonucleoside phosphotriester is an important intermediate for synthesizing biologically important compounds,such as cyclic bis（3’-5’） diguanylic acid（c-di-GMP） and its analogues. Atropisomerism of diastereomers generated by the chiral center of the P atom,which results in the doubling of signals in ³¹P NMR.The data of ³¹P NMR at different temperature are presented,and thereafter the reason is discussed.     

Separation of triphenyl atropisomers of a pharmaceutical compound on a novel mixed mode stationary phase: a case study involving dynamic chromatography, dynamic NMR and molecular modeling

Analysis of atropisomers is of considerable interest in the pharmaceutical industry. For complex chiral molecules with several chiral centers hindered axial rotation can lead to formation of interconverting diastereomers that should be separable on achiral stationary phases. However, achieving the actual separation may be difficult as the on-column separation speed must match or be faster then the rate of isomer interconversion. Often, this requirement can be satisfied by using low-temperature conditions and by improving selectivity via use of chiral stationary phases. In the current study, we present an alternative approach utilizing an Obelisc R column, a novel mixed mode stationary phase that provided acceptable separation of triphenyl atropisomers inside a conventional HPLC temperature range. The separation was investigated under various chromatographic conditions. The interconversion chromatograms exhibited classic peak-plateau-peak behavior indicating the simultaneous atropisomer separation and interconversion. The elution profiles were integrated in order to deconvolute the peak areas of the "pure" (non-exchanged) and interconverted species; these data were used to obtain kinetic information. Analysis of retention data rendered thermodynamic information on the mechanism of retention and selectivity. Chromatographic kinetic data were complemented with variable-temperature NMR and molecular modeling studies, which provided additional support and insights into the energetics of the interconversion process.     

原位合成手性镍配合物中的阻转异构及磁性研究

阻转异构体是一类特殊的手性化合物. 利用轴手性配体制得的具有阻转异构行为的配合物在不对称催化等领域有广泛的应用. 相比之下, 通过原位反应由非手性底物制备这类手性配合物的报道较少, 而利用非轴手性化合物原位组装得到非轴手性阻转异构体的报道则更加罕见. 乙腈是一种廉价易得的基本化工原料, 在金属离子存在下活化乙腈分子是向有机分子中引入氰甲基的一种有效手段. 本文利用乙腈分子进攻2-二吡啶基酮获得了一例含有氰甲基官能团的配体dpkMeCN-H[dpkMeCN=cyanomethyl-di(pyridin-2-yl)methanol]. 在Ni^II和K^I的配位作用下, 该体系发生原位组装生成了一对阻转异构体. 磁性拟合结果表明镍离子之间主要为铁磁耦合, 且它们由于八面体畸变产生一定的零场分裂, 使手性镍配合物产生磁各向异性.     

Formation and isolation of an iron-tripyrrole complex from heme degradation

Addition of dioxygen to a solution of (py)2Fe(OEPO) (1) (where OEPO is the trianion of octaethyloxophlorin) in pyridine-d5 at 23 degrees C results in a series of oxidative changes that have been followed by 1H NMR spectroscopy. After 4 h, the resonances of 1 have vanished, while several sets of new resonances have developed. The most intense of these are identified as belonging to (py)2FeIII(OEB) (2) by comparison with the previously obtained spectrum of this species, which contains a ring-opened tetrapyrrole. After the sample was left standing for 1 day, further changes occur which produce a sample that is stable, because 1H NMR spectroscopic examination reveals no further changes on continued exposure to dioxygen or air. The product, (py)2FeIII(HETP) (3), where HETP is the dianion of a hexaethyltripyrrole, has been converted into (n-Bu4N)[ClFeIII(HETP)] by treatment with tetra(n-butyl)ammonium chloride. Red (n-Bu4N)[ClFeIII(HETP)] has been isolated and characterized by single-crystal X-ray diffraction.     

Design and optimization of cyclized NK1 antagonists with controlled atropisomeric properties

We have previously described a series of antagonists that showed high potency and selectivity for the NK₁ receptor. However, these compounds also had the undesirable property of existing as a mixture of four interconverting rotational isomers. Through biological and structural analysis of the atropisomers, a binding model was developed and used to guide the design of compounds, which were rigidified by installation of a cyclizing linkage. These compounds existed as a mixture of two atropisomers. Further elaboration of the ring system reinforced the desired conformation and eliminated atropisomeric properties. We found that the region distal to the 8-membered ring system could be modified while retaining NK₁ potency, and optimization led to further improvements in the in vivo activity.     

地耳苯抗疟有效成份的研究—地耳苯系A、B、C、D的分离和结构

从地耳草中分离到四个间苯三酚衍生物, 定名为地耳草素A、B、C、D. 通过紫外、红外、核磁和质谱分析以及化学反应, 推定其结构分别为4、8、12和14. 4和8对鼠疟原虫有显著抑制作用.     

The extended view on the empty C2(3)-C82 fullerene: isolation, spectroscopic, electrochemical, and spectroelectrochemical characterization and DFT calculations

An extended study of the spectroscopic and redox properties of the C(82) fullerene is presented. Among the nine isolated-pentagon-rule (IPR) isomers of the C(82) fullerene the C(82)(3) isomer with C(2) symmetry is the only stable, empty fullerene structure formed in the arc burning process that can be isolated in an isomerically pure form. Here, its formation and isolation are described and its structure is confirmed by experimental spectroscopic studies as well as time-dependent DFT calculations. The electrochemistry of the C(82)(3) isomer is studied in detail by cyclic voltammetry and spectroelectrochemistry. The anionic species of C(82) with the charge ranging from C(82) (-) to C(82) (4-) were successively generated in o-dichlorobenzene solution at room temperature and characterized by in situ ESR and visible/near-infrared (Vis/NIR) spectroscopy. The data give new insights into the charged states of the C(82)(3) fullerene.     

Matrix isolation, spectroscopic characterization, and photoisomerization of m-xylylene

A new efficient synthesis of m-xylylene 1 is reported. The diradical 1 was trapped in argon matrices at 10 K and characterized by IR, UV-vis, and EPR spectroscopy. The syntheses reported before only allowed generation of 1 in organic glasses, and the spectroscopic identification was limited to fluorescence and EPR spectroscopy. Diradical 1 proved to be highly photolabile, and irradiation results in the formation of three isomeric hydrocarbons 7, 9, and 11 which could be identified by comparison of their IR spectra with the results of DFT calculations.     

Synthesis, isolation, and characterization of ABT-578 equilibrium isomers

ABT-578, an anti-restenosis agent exists as two isomers, a major pyran form and a minor oxepane form. The existence of the two isomeric forms was established by isolation and equilibration studies under buffered and physiological conditions. Finally their structures were confirmed by converting the major pyran form to the oxepane form by synthesis, isolation, and characterization.     

Synthesis,isolation, and characterization of 2'-paclitaxel glycinate: an application of the Bsmoc protecting group

The relevance of the Bsmoc protecting group in the synthesis of moisture- and base-sensitive compounds has been demonstrated by the preparation of 2'-paclitaxel glycinate with use of the solid anhydrous base, 4-piperidinopiperidine in DCM solvent.     

Unexpected reactivity of 2-fluoro-4-(trifluoromethyl)-phenylacetonitrile: isolation and characterization of a trimeric impurity

An uncommon reactivity of 2-fluoro-4-(trifluoromethyl)-phenylacetonitrile, with the loss of three fluorine atoms, is herein reported, the resulting trimeric compound was isolated and characterized by NMR and MS/MS studies. An unprecedented mechanism has been proposed.     

Preparation and characterization of aluminum phthalocyanine acetate, propionate, and benzoate

Aluminum phthalocyanine acetate, propionate and benzoate were prepared by the reaction of hydroxy aluminum phthalocyanine and the corresponding acetic, propionic, and benzoic anhydrides. The reaction products were characterized by ¹H and ¹³C NMR spectroscopy and mass spectrometry. The thermal behavior of the products was determined by thermal analysis of particular samples.     

Synthesis and structures of trifluoromethyl-, fluoro-, and azido-substituted hexabenzylhexaazaisowurtzitanes and isolation of a novel hexaazaisowurtzitane-based polycycle

The first hexabenzylhexaazaisowurtzitane cage compounds with trifluoromethyl and azide groups, as well as those with fluorine atoms in the 3- and 4-positions, have been prepared and fully characterized. A study of the substituent influence on the benzene ring regarding the formation of the hexaazaisowurtzitane polycycle in either the 2- or 4-position with CF(3), F, and N(3) revealed an interesting difference. In all cases with CF(3), F, and N(3) substituents in the 4-position, the corresponding hexabenzylhexaazaisowurtzitanes were isolated. The corresponding hexabenzylhexaazaisowurtzitanes were also formed when these substituents were in the 2-position; however, in addition with azide in 2-position a novel type of polycycle was isolated and identified. (15)N NMR data and crystal structures of hexabenzylhexaazaisowurtzitane derivatives were obtained and are discussed in detail.     

Formation and characterization of emulsions using beta-cyclodextrin as an emulsifier

The preparation and characterization of n-alkane/water emulsions using beta-cyclodextrin (beta-CD) were studied. The prepared n-alkane/water emulsions were of the oil-in-water (O/W) type, and the stability of emulsions was in the order of n-hexadecane > n-dodecane > n-octane. From observations using polarized light microscopy and powder X-ray diffraction measurement, it was suggested that the formation of a dense film at the oil-water interface and the three-dimensional structural network created by precipitated complexes in the continuous phase are associated with the stability of emulsion. Furthermore, it was clarified that O/W-type emulsions were formed because the contact angle (theta ow) which the precipitate makes with the interface was theta ow < 90 degrees in all compounds (oils) used in this study.     

Lanthanum endohedral metallofulleropyrrolidines: synthesis, isolation, and EPR characterization

Lanthanum endohedral metallofulleropyrrolidines have been synthesized for the first time through addition of an azomethine ylide to La@C(82)-A in toluene. It was found that the addition reaction is very efficient and, to some extent, regioselective. Two major endohedral metallofulleropyrrolidines, a monoadduct and a bisadduct of La@C(82)-A with abundance ratio of approximately 1:0.4, have been isolated by HPLC chromatography and characterized by mass spectrometry, UV/Vis-NIR absorption, and EPR spectroscopy. The electronic structure of La@C(82)-A has been modified slightly upon monoaddition and significantly upon bisaddition of the pyrrolidines.     

Structurally original oxathioethers macrocycles containing an exocyclic double-bond: synthesis,characterization, reactivity,and coordination

New oxathioethers macrocycles have been synthesized and characterized. Each macrocycle consists in structurally defined ether and thioether moieties and an exocyclic double-bond (2a–c) or a hydroxymethyl group (3a–c). Macrocycles (2a–c) have been synthesized by reaction of dianions of thioethers diols (1a–c) with 3-chloro-2-chloromethylprop-1-ene. Their hydroboration/oxidation led to corresponding primary alcohols (3a–c). Structures of compounds (2b) and (3a) have been determined by X-ray diffraction. The reactivity of the hydroxyl group allowed the preparation of oxathioethers macrocycles bearing a polyether chain or a benzyl group (4a,b) and the synthesis of new bicyclic sandwich-type compounds (5a,b). The ability of these functionalized macrocycles to coordinate to palladium has been investigated.     

Identification, isolation, and characterization of cysteinate and thiolactate complexes of bismuth

Although bismuth compounds have been used in medicine for over 200 years, chemical characterization of complexes involving biological molecules is minimal and mechanisms of bioactivity are ill-defined. The thiophilic nature of bismuth implicates sulfur centers as likely sites for interaction, and we have exploited this feature to identify, isolate, and characterize complexes of bismuth with thiolate-carboxylate bifunctional ligands including the amino acid l-cysteine. The solid-state structures of potassium dichloro(thiopropionato)bismuth (K[1d]), dimethylaminoethanethiolato(thiopropionato)bismuth (4), and dinitrato(cysteinato)bismuthphenanthroline [5(phen)] are compared with data from electrospray ionization mass spectrometry (ESI-MS). ESI-MS is applied to reactions of BiCl(3) or Bi(NO(3))(3) with mercaptosuccinic, malic, and succinic acids to illustrate the general observation of 1:1 and 1:2 complexes.