In Vitro Evolution and Selection of Proteins: Ribosome Display for Larger Libraries

The cell-free production of large protein libraries can now be achieved with the ribosome display technique. The use of intact ribosomes (R) in the translation of a mRNA library enables the rapid selection of the generated proteins (P) according to their affinity to a given immobilized binding partner (B).     

化学与酶促相结合合成并克隆核糖体失活蛋白Gelonin基因

利用已知Gelonin的氨基酸序，逆向推算出整个基因的碱基序列，根据E.coli的密码子偏爱性和后续基因克隆的需要，通过沉默突变设计相应的酶切位点和碱基序列，将整个基因分为四段，每个片段约175－220pb，每一个片段中的互补链从5′末端用化学合成100－120的碱基单链，其中两个链的3′末端有20个互补碱基。利用T4DNA聚合酶酶促添补成双链DNA，用分子克隆技术，分别构建重组子，然后再构建成含整个Gelonin基因的表达载体pET-gel进行表面，经诱导后，获得了一个28000的重组蛋白，并主要以可溶形式存在。     

Model studies on the kinetics and mechanism of polyarylate synthesis by acidolysis

Model reactions were carried out to simulate the acidolysis process for polyarylate synthesis by using p-tert-butylphenyl acetate (ptBuPhOAc) and benzoic acid in diphenyl ether. p-tert-Butylphenol was formed in the reaction mixture and its concentration stayed constant throughout the reaction. Acetic benzoic anhydride and benzoic anhydride were detected by NMR. Based on this experimental evidence, a mechanism for the acidolysis was proposed involving the mixed anhydride. The kinetics of the acidolysis reaction was studied for this model reaction. The overall reaction order is two and the reaction order with respect to each reactant is one. Second-order reaction rate constants were measured at different reaction conditions (200–250°C). The activation energy (E_a), activation enthalpy (ΔH^≠), and activation entropy (ΔS^≠) were calculated from these data. The thermodynamic parameters of the acidolysis reaction were also measured for the analogous reaction of p-tert-butylphenyl pivalate (ptBuPhOPiv) and benzoic acid. The kinetics of two other elementary reactions involved in the acidolysis reaction were also studied: p-tert-butylphenol with acetic anhydride or benzoic anhydride, and p-tert-butylphenyl pivalate with benzoic acid.     

Energetic Tuning by tRNA Modifications Ensures Correct Decoding of Isoleucine and Methionine on the Ribosome

Chemical modifications of tRNAs are critical for accurate translation of the genetic code on the ribosome. The discrimination between isoleucine (AUA) and methionine (AUG) codons depends on such modifications of the wobble position in isoleucine tRNA anticodon loops, in all kingdoms of life. Bacteria and archaea employ functionally similar lysine‐ and agmatine‐conjugated cytidine derivatives to ensure decoding fidelity, but the thermodynamics underlying codon discrimination remains unknown. Here, we report structure‐based computer simulations that quantitatively reveal the energetics of this decoding strategy in archaea. The results further show that the agmatidine modification confers tRNA specificity primarily by desolvation of the incorrect codon in the non‐cognate complex. Tautomerism is found to play no significant role in this decoding system as the usual amino form of the modified tRNA is by far the most stable.     

A differential scanning calorimetry method to determine the isothermal crystallization kinetics of cocoa butter

This research aimed to reduce the variability on the data obtained from differential scanning calorimetric (DSC) analysis of the isothermal crystallization kinetics of cocoa butter.

To enable transformation of the DSC crystallization peak to a sigmoid crystallization curve, the DSC peak area has to be integrated. Usually, the start and end points of the crystallization peak are determined visually. The result of this visual determination appeared to be very much dependent on the operator, but also differed considerably when the same operator performed the integration several times. By proposing an objective calculation algorithm to determine the start and end points of integration, the variability caused by the operator during the integration procedure could be eliminated. Furthermore, sample preparation and the DSC heating protocol to melt the sample prior to crystallization were studied. Three heating protocols (65 °C for 15 min, 65 °C for 30 min and 80 °C for 15 min) were compared and it was shown that holding at 65 °C for 15 min was sufficient to eliminate any influence of sample history. Two different sample preparation procedures were compared and it appeared that a change in sample preparation procedure had a significant influence on the measured crystallization process. It is thus important to keep this method constant to eliminate the variability caused by it.     

Lithium diisopropylamide: solution kinetics and implications for organic synthesis

Lithium diisopropylamide (LDA) is a prominent reagent used in organic synthesis. In this Review, rate studies of LDA-mediated reactions are placed in the broader context of organic synthesis in three distinct segments. The first section provides a tutorial on solution kinetics, emphasizing the characteristic rate behavior caused by dominant solvation and aggregation effects. The second section summarizes substrate- and solvent-dependent mechanisms that reveal basic principles of solvation and aggregation. The final section suggests how an understanding of mechanism might be combined with empirical methods to optimize yields, rates, and selectivities of organolithium reactions and applied to organic synthesis.     

Interpretation of the nonisothermal crystallization kinetics of polypropylene using a power law nucleation rate function

A nucleation rate function is proposed for use in analyzing the overall crystallization kinetics of polymers. This function allows for the possibility that the nucleation rate varies substantially during the crystallization. This feature is particularly useful in analyzing nonisothermal crystallization, but it can be used to analyze isothermal crystallization as well. The nucleation rate function was used in the derivation of a modified transformation kinetics equation of the Avrami type. The modified Avrami equation was found to be suitable for kinetics analysis for the data obtained from nonisothermal crystallization at rapid cooling rates. Kinetics parameters used to describe nonisothermal crystallization under rapid cooling rates are presented and discussed. These include crystallization induction time, plateau (crystallization) temperature, crystallization half-time, crystallization rate constant, Avrami index, and newly defined quantities called nucleation index, geometric index, and nucleation rate constant. The procedure used to obtain the nucleation rate constant and nucleation index for the nucleation rate function is described and illustrated by application to the analysis of the crystallization kinetics of polypropylene. © 1997 John Wiley & Sons, Inc. J Polym Sci B: Polym Phys 35: 1077–1093, 1997     

Heating rate effect on the DSC kinetics of oil shales

This research was aimed to investigate the combustion and kinetics of oil shale samples (Mengen and Himmetoğlu) by differential scanning calorimetry (DSC). Experiments were performed in air atmosphere up to 600°C at five different heating rates. The DSC curves clearly demonstrate distinct reaction regions in the oil shale samples studied. Reaction intervals, peak and burn-out temperatures of the oil shale samples are also determined. Arrhenius kinetic method was used to analyze the DSC data and it was observed that the activation energies of the samples are varied in the range of 22.4–127.3 kJ mol⁻¹ depending on the oil shale type and heating rate.     

Polychronous kinetics with nonstationary rate constants. Effect of a medium

Characteristic features of the kinetics of solid-state cage reactions with distributed parameters of the relaxing matrix were considered. Depending on the ratio of the constants of the reaction rate and relaxation of environment, the kinetics of chemical conversions can be either exponential or nonexponential. Plausible reasons for the unsteady-state character of the kinetics of the processes of two types,viz., the reactions of alkyl radicals in amorphous alcohol matrices and conversions in biological systems, were discussed. The main reason for the unsteady-state character of the reactions of the first type is a dispersion of the equilibrium distances between the reagents. Kinetics of the reactions of the second type, such as rebinding of the ligands in the heme-containing proteins (e.g., in myoglobin), is determined by the distances in the pairs of reagents and the relaxation transitions. Translated fromIzvestiya Akademii Nauk. Seriya Khimicheskaya, No. 3, pp. 469–476, March, 1997.     

Theory of diffusion-controlled adsorption kinetics at the expanding planar surface with a constant area rate

The diffusion equation for the expanding surface was solved and a corresponding general expression of dynamic surface adsorption was derived. For the short-time adsorption, a special factor 1/3, which reflected the effect of the expanding surface on the adsorption, appeared in the equation. In addition, the effects of the surface expansion on subsurface concentration (ϕ(t)), dynamic surface adsorption (Γ(t)), dynamic surface tension (γ(t)) and the adsorption mechanism were discussed. In contrast to the adsorption on a still planar surface, ϕ(t) and Γ(t) are smaller, but γ(t) increased. The adsorption mechanism will be the same as long as the corresponding theories are used.     

An efficient organic additive to control the crystallization rate of aliphatic polyketone: A non-isothermal crystallization kinetics study

Three types of organic compounds—two carboxylic acids and an anhydride, were used as additives for polyketone(PK). The effect of the additive structure and their feed ratios on the melting temperature, crystallization temperature, and crystallization rate of PK were studied. We found that the crystallization temperature could be reduced significantly by introducing a small quantity of organic additive, in particular, an anhydride. On addition of 1 phr of anhydride, the crystallization temperature was reduced by 10.7 ℃. Therefore, the non-isothermal crystallization kinetics of aliphatic PK/anhydride blends with various feed ratios was investigated using DSC. The results were analyzed by various theoretical models, such as Avrami, Ozawa and combined Avrami-Ozawa models.     

聚氯乙烯的热解特性和热解动力学研究

随着聚氯乙烯的大量使用,聚氯乙烯在总固体废弃物中占的比例愈来愈高,成为固体废弃物中的重要组分.如何科学、合理、有效地妥善解决聚氯乙烯问题是当前一项急待解决的重要课题.……     

A new study on the kinetics of Stöber synthesis by in-situ liquid 29Si NMR

Liquid-state ²⁹Si NMR was used to investigate the hydrolysis and condensation kinetics of ammonia-catalyzed tetraethoxysilane (TEOS) in methanol system. The reactive rate constants were calculated by applying first-order reaction approximation and the steady state approximation theory. The reaction orders with respect to TEOS, ammonia and water were derived, as well as the activation energies and the Arrhenius constants. It was found that the formation of intermediate species Si(OH)(OEt)₃ was the rate-limiting step and its reaction rate equation was r _TEOS=7.41×10⁻³[TEOS][NH₃]^0.333[H₂O]^0.227. Higher reactive temperature benefited the hydrolysis of TEOS. The results presented here indicated quantificationally that the formation of colloidal SiO₂ particles was controlled by the initial hydrolysis of TEOS.     

Investigating the kinetics of liquid-free,OSDA-free ZSM-5 zeolite synthesis from iron ore tailings

In this study, ZSM-5, which is a Mobil-type five-type zeolite with well-defined crystal morphology, is successfully synthesized via a seed-assisted, liquid-free method that uses iron ore tailings as a silica source. The ZSM-5 crystallization kinetics at 423, 433, and 443 K and different synthesis times are investigated to identify the nucleation and crystallization mechanisms of the synthesized ZSM-5 zeolites, and results suggest that the crystallization kinetics follow a Kolmogorov-Johnson-Mehl-Avrami-type behavior. The activation energies for the induction and transition periods are 112.38 and 58.35 kJ mol⁻¹, respectively. Furthermore, the Avrami exponent indicates three-dimensional crystal growth from both sporadic and instantaneous nucleation mechanisms. A comparison of our results with previous reports of the ZSM-5 crystallization mechanism demonstrates that the seed crystals play a significant role in nucleation and crystal growth. Finally, seed surface crystallization and new nuclei crystallization dual mechanism has been proposed to describe the crystallization process of ZSM-5.     

Macrothiuram disulfide for the free radical synthesis of PDMS-vinyl triblock copolymers. I. Syntheses and polymerization kinetics

PDMS-based macrothiuram disulfides of different molecular weights capable of being used as macro-thermal iniferters towards deriving PDMS-containing triblock copolymers were synthesized and characterized. The synthesis of ω-(secondary amine)-terminated PDMS were accomplished by the hydrosilylation reaction of silyl hydride terminated PDMS with allyl-N-methylamine. Macroamines were eventually transformed to macroiniferters by the thiocarbamylation reaction and oxidative coupling. Kinetics of polymerization studied in the case of MMA and styrene in bulk, and as in toluene solution in case of MMA, revealed that the macroiniferters are as efficient as their microanalogues from the point of view of their initiating and chain-terminating properties. The different kinetic parameters were determined and discussed. © 1993 John Wiley & Sons, Inc.     

On the kinetics of cellulose degradation: looking beyond the pseudo zero order rate equation

The kinetics of cellulose degradation was analysed by means of a two-stage model, characterised by an autoretardant and autocatalytic regime, later tempered by the consumption of glycosidic bonds in the amorphous regions. The proposed model explains the effects on the kinetic equations of different modes of ageing (acid hydrolysis, ageing in ventilated oven or sealed vessels), initial oxidation of cellulose and experimental procedures (with or without reduction of oxidised groups). The autoretardant branch can be analysed in a quantitative way, while the integration of the non-linear autocatalytic branch is allowed in some cases, characterised by the decrease of pH and/or emission of acid volatile organic compounds (VOCs). Most of the controversial results of the literature can be easily explained, but the proposed model offers also a guide for further studies on the kinetics of cellulose degradation.     

The thermal degradation kinetics of dextran and pullulan

The effect of molar mass and, in the case of dextran, of the degree of branching on the thermal degradation kinetics of dextran and pullulan was studied in the presence and absence of oxygen. Although the initial mass loss of the dextran samples occurred at higher temperatures than that of the pullulan samples, the overall thermal degradation activation energies were lower for dextran than for pullulan. In the case of dextran the thermal stability was found to decrease with molar mass and degree of branching. The molar mass of pullulan, in the range of 10⁴ to 10⁵ g/mol, appeared to have no significant influence on the thermal characteristics of the samples.     

Co(II)Schiff碱配合物的合成、氧合反应热力学及热分解动力学的研究

合成了两种新的钴(II)schiff碱配合物水杨醛L-甲硫氨酸-水合钴(II)(1), 邻香兰素L-甲硫氨酸-水合钴(II)(2)。通过元素分析、红外光谱、热分析等测试手段研究了配合物的性质, 并确定了配合物的组成。用气体吸收装置测定配合物在乙腈溶液中不同温度下的饱和吸氧量, 求得氧合反应的平衡常数及热力学参数, 同时探讨了温度和配体结构对配合物氧合性能的影响。用TG-DTG法研究了配合物的热稳定性及非等温热分解动力学, 并采用积分法和微分法相结合的方法,推断了两种配合物的第一步热分解反应机理, 得到了热分解反应动力学参数及其动力学方程。