Presence of imidazole in loading buffer prevents formation of free radical in immobilized metal affinity chromatography and dramatically improves the recovery of herpes simplex virus type 1 gene therapy vectors

We have recently shown that immobilized metal affinity chromatography (IMAC) is an effective technique for purification of herpes simplex virus type 1 (HSV-1) gene vector engineered to display cobalt affinity tag on the envelope. However, the tagged HSV-1 viruses were severely inactivated by oxidative hydroxyl free radicals when crude HSV-1 supernatant was applied on an immobilized cobalt column and eluted by a low pH buffer. Furthermore, we have reported that virus inactivation could be prevented by inclusion of high concentration of ascorbate in chromatographic mobile phase. In this paper we report that when elution of bound virus was attempted by inclusion of imidazole in elution buffer, rather than lowering the pH of elution buffer, similar inactivation was also observed. The results also demonstrated that virus inactivation was dramatically reduced by inclusion of 20mM imidazole in the loading buffer. Electron spin resonance (ESR) experiments suggest that imidazole prevents hydroxyl free radical generation from the cobalt complexes. This is the first report describing the role of imidazole in preventing free radical formation in an IMAC column. From a practical stand point, our results imply that inclusion of appropriate amount of imidazole in the loading buffer is an effective strategy for improving the recovery yield of active products and for enhancing product quality during IMAC purification.     

A post aza Baylis-Hillman/Heck coupling approach towards the synthesis of constrained scaffolds

An intramolecular Heck coupling of the product of an aza Baylis-Hillman reaction to afford conformationally constrained scaffolds is reported.     

Photon-induced unimolecular decay of the benzyl radical: first direct identification of the reaction pathway to C7H6

The thermal unimolecular decay of the benzyl radical has been investigated extensively by several groups. However, the reaction products could not be determined unambiguously. In this work the unimolecular bond fission of the benzyl radical is studied in a molecular beam experiment. The precursor molecules toluene and cycloheptatriene are expanded in a molecular beam and photodissociated with two photons at 248 or 193 nm, yielding in each case hot benzyl radicals. Since the internal energies lie above the dissociation limit, the benzyl radicals decay in a subsequent step. The reaction products are detected in a time-resolved manner with a quadrupole mass spectrometer on the molecular beam axis at low electron energies. The measured time-of-flight spectra provide information on the translational energy distribution of the products. In each case it is found that the hot benzyl radicals C₇H₇ fragment under hydrogen loss to C₇H₆.     

Polymerization in nonuniform latex particles: Distribution of free radicals

Previous kinetic studies in emulsion polymerization have almost always involved an assumption of uniform distribution of free radicals in the latex particle. Such an assumption is not likely to reflect reality in many systems that employ water-soluble initiators because the hydrophilic end-group of the oligomeric free radical will preferentially stay in the surface layer of the particle. This constrained end-group location would result in nonuniform distribution of free radicals in the polymerizing latex particles. A Monte Carlo simulation of the growth of a single polymer chain within the latex particle supports this hypothesis. Such a nonuniform distribution of free radicals in the latex particle is expected to have an influence on reaction kinetics and product properties. The mechanism for transport of free radicals out of polymerizing latex particles is reexamined based on the proposed concept, and a modified expression for the desorption rate constant is presented.     

The dynamical role of solvent on the ICN photodissociation reaction: connecting experimental observables directly with molecular dynamics simulations

The ICN photodissociation reaction is the prototype system for understanding energy disposal and curve crossing in small molecule bond-breaking. The wide knowledge base on this reaction in the gas phase makes it an excellent test case to explore and understand the influence of a liquid solvent on the photo-induced reaction dynamics. Molecular dynamics simulations that include surface-hopping have addressed numerous aspects of how the solvent should influence non-adiabatic transitions and energy flow and ultimately determine product branching for this reaction system. In this paper, we report femtosecond transient absorption work directly combined with new molecular dynamics simulations that make direct connection with the spectroscopic observables. The full spectral evolution after initiating ICN photodissociation at 266 nm in water and ethanol is recorded with unprecedented time resolution, fast enough to see the nascent products emerge before interacting with the solvent cage. Use of a 266 nm pump maximizes the probability of subsequent caging on the upper diabat while launching large rotational energy release for trajectories emerging on the lower diabat. The 2D dataset yields a map of the different products and how they interconvert. In particular, information on the branching ratio and spectral evolution of the product bands is revealed as the products relax their electronic and rotational degrees of freedom. An evolution from rotationally hot gas-phase like CN (sharp band, at 390 nm) to equilibrated and solvated CN radicals (broad, at 326 nm in water and 415 nm in ethanol) is clearly observed in both solvents, and signals assignable to I* are also captured. The non-adiabatic molecular dynamics simulations focus on identifying when trajectories curve cross, filtering the trajectory ensemble into spectroscopically distinct sub-populations and analyzing the rotational energy for the CN product population. The experimental results, taken together with the MD simulations, establish the initial surface crossing probability and suggest multiple passes through the curve crossing region determine the final product yields and provide a source of freshly torqued CN radicals that continues to top up the population of rotationally hot photoproduct over the first few picoseconds.     

Determination of biphenyl in the presence of polyphenyls : Water solubility method

Prior work had shown that the principal products of the pyrolysis of p-terphenyl are biphenyl and certain higher polyphenyls. Since the three terphenyls as well as particular higher polyphenyls are being investigated as heat transfer media for atomic energy reactors, the determination of biphenyl, as a major or minor product of their pyrolysis, becomes of prime importance in order to follow the trend of reaction products.Because of the greater solubility of biphenyl in water, as compared to other polyphenyls, biphenyl is completely extracted from such mixtures by water and can be determined spectrophotometrically in aqueous solution. Effects of temperature, rates of solution, and the presence of polyphenyls were studied. The solubility of biphenyl is about 0.9 mg/100 ml of water, but the suggested working limit in 0.4 mg biphenyl/100 ml of solvent.As little as 0.1% biphenyl in p-terphenyl may be detected and as high as 20% may be determined in higher polyphenyls.     

ESR and chemical study of p-polyphenylene formed by using an AlCl3–CuCl2 catalyst

The free radicals in p-polyphenylene and the formation of free radicals in this polymer upon pyrolysis in vacuum have been studied by means of electron spin resonance. For an unpyrolyzed series of polymer samples, a linear relationship was observed between free radical concentration and increasing carbon content. The free radicals observed in the unpyrolyzed samples did not react with NO. When samples of polyphenylene were pyrolyzed, additional free radicals were produced which did react with NO. The growth of free radical concentration upon pyrolysis was observed to be closely related to the production of volatile products from the polymer. In the temperature range 250–600°C, HCl was the principal volatile species produced. Two mechanisms were involved in HCl production: a process with an activation energy of 7.1 kcal/mole which led to the production of stable free radicals; and a process involving 75 kcal/mole which was unconnected with the production of free radicals. From 600 to 700°C, H₂ was the principal volatile degradation product. The rate at which H₂ was evolved showed a second-order dependence on phenyl units bearing two or three substituents; this process had an activation energy of 79 kcal/mole. Electron spin resonance spectra indicated that this process led to the production of free radicals, and infrared spectra showed that a highly crosslinked product resulted.     

Studies of complex reactions using modem hyphenated methods: alpha-pinene ozonolysis as a model reaction

Modern analytical equipment, in this case the combinations of gas chromatography (GC) with mass spectrometry (MS) and infrared spectroscopy (IR) and liquid chromatography (LC) with mass spectrometry, nuclear magnetic resonance (NMR) spectroscopy and infrared spectroscopy, respectively, have been used to monitor complex reactions that do not only form one or two but a larger number of products. Additionally, side reactions of one primary product with a reactant form a second line of secondary products. To be able to propose formation pathways or even mechanistic interpretation of reactions like these, sophisticated analytical instrumentation is necessary to be able to observe all steps of such a reaction. In this case, the gas phase reaction of alpha-pinene with ozone has been used as a model reaction. A number of both volatile and low-volatile reaction products could be characterized and formation pathways for a reaction with ozone and OH radicals were proposed.     

Photolysis of bromo- and chloro-substituted benzyl derivatives. Competition between ionic and radical pathways

Photolysis of 1-fluoro-2-halo-1,2-diphenylethanes was studied in solutions of tetrahydrofuran, acetonitrile, and cyclohexane. The effect of free radical inhibitor and metal hydrides on products formation as well as their ratio was analyzed to elucidate the reaction pathway. In the first step homolytic C-X bond cleavage occurs from a single excited state, resulting in a biradical pair. Further reaction path depends on the type of the halogen bonded and on the solvent polarity. Electron transfer within the radical pair cage is apparently more rapid for bromides than for chlorides and is opposite as expected on the basis of the relative electronegativities of chlorine and bromine. As radicals approach each other, they fall into ionic or radical product channels. This is influenced by solvent polarity, resulting in the larger yield of ionic products in the case of acetonitrile as in the case of less polar cyclohexane.     

Biomimetic synthesis of pyrone-derived natural products: exploring chemical pathways from a unique polyketide precursor

Our biomimetic hypothesis proposes that families of diverse natural products with complex core structures such as 9,10-deoxytridachione, photodeoxytridachione and ocellapyrone A are derived in nature from a linear and conformationally strained all-( E) tetraene-pyrone precursor. We therefore synthesized such a precursor and investigated its biomimetic transformation under a variety of reaction conditions, both to the above natural products as well as to diverse isomers which we propose to be natural products "yet to be discovered". We also report herein the first synthesis of the natural product iso-9,10-deoxytridachione.     

亲电反应中的缺电子中心

对于不饱和烃类化合物的亲电反应,在反应类型上,有亲电加成和亲电取代;在反应产物上,有取代产物和加成产物,而且在加成产物中既有马氏加成、又有反马氏加成产物。知识点多而且复杂,学生学习记忆往往比较困难。本文以缺电子中心为主线,系统分析了亲电反应中的4种主要缺电子中心(包括正离子、自由基、卡宾和中性分子),从其结构特点和反应机理归纳总结了各种反应底物的亲电反应,以期对亲电反应有一个更深入、系统的认识。     

Stereoselectivity of glycosylations of conformationally restricted mannuronate esters

Glycosidation of conformationally unrestricted mannuronate ester donors proceeds in a highly β-selective fashion, whereas condensations of mannuronate ester donors, which are conformationally constrained by a 3,4-butanedimethylacetal or a 2,3-isopropylidene function, provide α-selective products. We hypothesize that the difference in stereochemical outcome of these condensations results from the different conformations of the product forming oxacarbenium intermediate. The formation of the β-linked products from the flexible mannuronates is thought to originate from the most favorable ³H₄ oxacarbenium ion, which is not accessible from the conformationally restrained donors. Although an α-triflate intermediate is formed upon activation of the 3,4-butanedimethylacetal protected mannuronate ester thio donor, this is not the product forming intermediate. The anomeric triflate serves as a reservoir for the ⁴H₃ oxacarbenium ion, which is glycosidated to provide the α-linked mannuronates.     

Ring opening versus ring expansion in rearrangement of bicyclic cyclobutylcarbinyl radicals

Ring opening and expansion of multicyclic cyclobutylcarbinyl radicals provides an appealing method for the construction of heavily substituted ring systems in a stereocontrollable fashion. Here we conducted the first, systematic study on the regioselectivity in the rearrangement of various synthetically relevant cyclobutylcarbinyl radicals. It was found that a two-layer ONIOM method, namely ONIOM(QCISD(T)/6-311+G(2d,2p):B3LYP/6-311+G(2df,2p)), could accurately predict the free energy barriers of the ring openings of cyclobutylcarbinyl radicals with a precision of 0.3 kcal/mol. By using this powerful tool we found that the regiochemistry for the ring opening of monocyclic cyclobutylcarbinyl radicals could be easily predicted by the relative stability of the two possible carbon radical products. A linear correlation was found between the activation and reaction free energies. This observation indicated that the ring opening of cyclobutylcarbinyl radicals was strongly affected by the thermodynamic factors. On the basis of the above results we extended our study to the rearrangement of bicyclic cyclobutylcarbinyl radicals that could undergo both ring opening and expansion. It was found that for bicyclic cyclobutylcarbinyl radicals whose radical center was located at the bridge methyl group, ring expansion was the favored rearrangement pathway unless a strongly radical-stabilizing substituent was placed in the cyclobutyl ring adjacent to the bridge methyl group. On the other hand, for bicyclic cyclobutylcarbinyl radicals whose radical center was located at the 2-position, ring opening was the favored rearrangement pathway unless a strongly radical-stabilizing substituent was placed in the cyclobutyl ring at the bridge position.     

Reactivity of conformationally constrained bispropargyl sulfones: complete preference for 6π-electrocyclization process

The reactivity of a series of conformationally constrained bispropargyl sulfones with an ortho alkenyl moiety was studied. Under basic condition, these molecules underwent isomerization, first to monoallene followed by 6π-electrocyclization (6π-EC). Another cycle of isomerization and 6π-EC gave the bis naphthyl sulfones. No Garratt–Braverman (GB) Cyclization product could be isolated even on easing up the strain. Computations with DFT (at BP86-D3/def2-SVP level) indicated that, it is energetically more favorable for the initially formed monoallenic intermediate to undergo electrocyclization rather than isomerize to bisallene. This is in contrast to the acyclic unconstrained counterpart, where isomerization to bisallene is preferred and competing GBC/6π-EC of bisallenes results in mixture of products.     

Free radical scavenging and COX-2 inhibition by simple colon metabolites of polyphenols: A theoretical approach

Free radical scavenging and inhibitory potency against cyclooxygenase-2 (COX-2) by two abundant colon metabolites of polyphenols, i.e., 3-hydroxyphenylacetic acid (3-HPAA) and 4-hydroxyphenylpropionic acid (4-HPPA) were theoretically studied. Different free radical scavenging mechanisms are investigated in water and pentyl ethanoate as a solvent. By considering electronic properties of scavenged free radicals, hydrogen atom transfer (HAT) and sequential proton loss electron transfer (SPLET) mechanisms are found to be thermodynamically probable and competitive processes in both media. The Gibbs free energy change for reaction of inactivation of free radicals indicates 3-HPAA and 4-HPPA as potent scavengers. Their reactivity toward free radicals was predicted to decrease as follows: hydroxyl >> alkoxyls > phenoxyl ≈ peroxyls >> superoxide. Shown free radical scavenging potency of 3-HPAA and 4-HPPA along with their high μM concentration produced by microbial colon degradation of polyphenols could enable at least in situ inactivation of free radicals. Docking analysis with structural forms of 3-HPAA and 4-HPPA indicates dianionic ligands as potent inhibitors of COX-2, an inducible enzyme involved in colon carcinogenesis. Obtained results suggest that suppressing levels of free radicals and COX-2 could be achieved by 3-HPAA and 4-HPPA indicating that these compounds may contribute to reduced risk of colon cancer development.     

Autoxidation of ethylbenzene: the mechanism elucidated

Using a combined experimental and theoretical approach, we elucidated the mechanism of ethylbenzene autoxidation, at about 420 K. The generally accepted literature mechanism indeed fails to explain basic experimental observations, such as the high ketone to alcohol ratio. The hitherto overlooked propagation of 1-phenyl-ethylhydroperoxide, the primary chain product, is now unambiguously identified as the source of acetophenone as well as of 1-phenylethanol via a subsequent activated cage reaction. A similar mechanism allowed rationalizing of the cyclohexanone and cyclohexanol formation in the autoxidation of cyclohexane. The primary hydroperoxide product is found to react about 10 times faster than the arylalkane substrate with the chain carrying peroxyl radicals, whereas in cyclohexane autoxidation, this reactivity ratio is as high as 55. In combination with a lower efficiency of the above-mentioned cage reaction, this results in a rather high 1-phenyl-ethylhydroperoxide yield and causes a high ketone/alcohol ratio. Radicals are shown to be predominantly generated via a concerted bimolecular reaction of the hydroperoxide with the arylalkane substrate, producing alkyl and hydrated alkoxy free radicals. In this autoxidation system, no reaction product exhibits a major initiation-enhancing autocatalytic effect, as is the case with cyclohexanone in cyclohexane autoxidation. As a result, the conversion rate increases less sharply in time compared to cyclohexane autoxidation. In fact, even some slight inhibition can be observed, due to the formation of chain-terminating HO2* radicals in the alcohol co-oxidation. At 418 K, the chain length is estimated to be about 300-500 for conversions up to 10%.     

An Epitope‐Specific Respiratory Syncytial Virus Vaccine Based on an Antibody Scaffold

Respiratory syncytial virus (RSV) is a leading cause of lower respiratory tract infections in children. We have generated an epitope‐specific RSV vaccine by grafting a neutralizing epitope (F‐epitope) in its native conformation into an immunoglobulin scaffold. The resulting antibody fusion exhibited strong binding affinity to Motavizumab, an RSV neutralizing antibody, and effectively induced potent neutralizing antibodies in mice. This work illustrates the potential of the immunoglobulin molecule as a scaffold to present conformationally constrained B‐cell epitopes.     

混合抗体的亲和色谱分离策略

乳腺生物反应器可以高效表达重组人单克隆抗体,但是目标产品与乳液原料中的牛抗体性质、结构非常类似,分离难度很大。本文对牛抗体和重组人抗体的种属差异进行了分析,并在此基础上制定了新型分离策略,采取Protein A亲和色谱和免疫亲和色谱来解决混合抗体的分离问题,并讨论了色谱洗脱模式对分离效果的影响。结果表明,Protein A亲和色谱结合梯度洗脱可以有效地纯化得到混合抗体,但是难以彻底分离重组人抗体和牛抗体;相比之下,使用Protein A亲和色谱结合置换色谱模式可以更加高效地分离混合抗体,最终可以得到纯度高达95%以上的重组人抗体,回收率可达95%以上。免疫亲和色谱同样可以有效地分离纯化重组单克隆抗体,且其通用性更强,可以应用于任何动物乳腺表达重组人抗体的分离纯化中。     

气体再燃低NOx燃烧中NO与NHi的反应机理研究

采用量子化学密度泛函理论(DFT)对NO与NH_i自由基的反应机理进行了研究,并结合经典过渡态理论对各反应速率常数进行了计算。结果表明,NO与NH₂自由基的反应体系可通过六个反应通道形成N₂+H₂O、N₂O+H₂和N₂H+OH。从能量变化和反应速率两方面考虑,产物N₂+H₂O最容易生成,其最佳反应通道为NO+NH₂→→N₂+H₂O;NO与NH自由基的反应体系可通过七个反应通道形成N₂+OH、N₂O+H和N₂H+O;其中,N₂+OH最容易生成,最佳反应通道为NO+NH→→N₂+OH。比较发现, NH比NH₂自由基更易与NO发生反应生成N₂。因此,在实际运行中改变操作条件,实现NH₂等向NH方向转化,有利于NO_x的还原。     

二氧化钛(TiO2)表面上水分解反应的理论研究

模拟了较大的反应体系, 希望能与实验进行比较, 更好地解释实验结果, 理解反应过程.