小分子阿特拉津和罂粟碱检测的免疫芯片技术研究

采用蛋白芯片竞争法对小分子半抗原的污染物进行检测。在获得特异性抗体的前提下,首先将阿特拉津半抗原进行了衍生化,然后将该衍生物和氨基罂粟碱分别与载体蛋白质卵清蛋白(OVA)进行偶联。实验证明新合成的完全抗原能够与其相应抗体发生特异性的结合。实验还对蛋白芯片检测阿特拉津进行了条件优化,其抗体固定化时间为2h,用卵清蛋白为封闭液的封闭时间为1h,样品稀释液pH值为8．0。并对阿特拉津及罂粟碱进行了定性、定量实验,结果表明：荧光信号强度随待测物浓度的降低而增强,有一定的线性趋势,阿特拉津检出限为0．001mg/L,罂粟碱检出限为0．01mg/L。     

反相液相色谱在蛋白质及多肽分离分析中的应用

反相液相色谱是一种以疏水作用为基础的色谱分离模式。由于它具有分辨率高、重复性好、回收率高等优点,在蛋白质及多肽的分离分析中得到了极为广泛的应用。本文简要介绍了反相液相色谱及其分离机理,对其在蛋白质和多肽研究中的应用如分离纯化、肽图分析、酶活测定、构象变化检测及疏水作用研究等作系统综述,并展望了反相液相色谱在这一领域的发展前景。     

Effect of Hydrated Ionic Liquid on Photocycle and Dynamics of Photoactive Yellow Protein

The mechanism by which proteins are solvated in hydrated ionic liquids remains an open question. Herein, the photoexcitation dynamics of photoactive yellow protein dissolved in hydrated choline dihydrogen phosphate (Hy[ch][dhp]) were studied by transient absorption and transient grating spectroscopy. The photocyclic reaction of the protein in Hy[ch][dhp] was similar to that observed in the buffer solution, as confirmed by transient absorption spectroscopy. However, the structural change of the protein during the photocycle in Hy[ch][dhp] was found to be different from that observed in the buffer solution. The known change in the diffusion coefficient of the protein was apparently suppressed in high concentrations of [ch][dhp], plausibly due to stabilization of the secondary structure.     

基于串级质谱信息进行蛋白质数据库搜索的结果可靠性分析

SEQUEST与Mascot为目前蛋白组学分析研究中使用最为广泛的蛋白质库搜索工具.尝试将Mascot与SEQUEST搜索结果进行比较,进而采用不同多变量判别方法对二者的搜索结果进行判别分析,以降低其结果的假阳性率.通过对Mascot与SEQUEST搜索结果进行比较,发现所得结果差异很大;利用多变量判别分析方法对Mascot及SEQUEST搜索结果进行判别分析,可有效提高SEQUEST结果中假阳性结果与正确结果之间的区分能力.对于Mascot搜索结果,采用多变量判别分析方法仍无法显著降低其假阳性结果,利用Decoy库搜索结果进行估计时亦存在导致错误估计的风险.     

Effect of soy protein isolate on the thermal, mechanical and morphological properties of poly (-caprolactone) and corn starch blends

The development of biodegradable polymers is considered to be a good alternative to decrease the volume of the plastic waste disposed into the environment every year. The use of natural polymers as raw materials to develop polymer blends and composites has increased the demand for renewable sources such as starch and soy protein.In this work, the authors prepared and characterized the thermal, mechanical and morphological properties of blends based on poly (-caprolactone) and modified corn starch, with added soy protein isolate (SPI) and sorbitol. All samples were processed by extrusion in a single-screw extruder and hot pressing. It was observed that the addition of modified corn starch and SPI were responsible for the reduction of thermal and mechanical properties of the materials, compared to pristine PCL. However, with increasing amounts of SPI and the reduction of starch incorporated into the samples, their properties tend to recover. The insertion of soy protein isolate in the formulations was done with the aim of balancing the C/N ratio of the blend, which plays a key role in the biodegradation process of these materials.     

Using support vector machines for prediction of protein structural classes based on discrete wavelet transform

The prediction of secondary structure is a fundamental and important component in the analytical study of protein structure and functions. How to improve the predictive accuracy of protein structural classification by effectively incorporating the sequence‐order effects is an important and challenging problem. In this study, a new method, in which the support vector machine combines with discrete wavelet transform, is developed to predict the protein structural classes. Its performance is assessed by cross‐validation tests. The predicted results show that the proposed approach can remarkably improve the success rates, and might become a useful tool for predicting the other attributes of proteins as well. © 2008 Wiley Periodicals, Inc. J Comput Chem 2009     

A novel method for enzyme design

Rational design of enzymes is a stringent test of our understanding of protein structure and function relationship, which also has numerous potential applications. We present a novel method for enzyme design that can find good candidate protein scaffolds in a protein-ligand database based on vector matching of key residues. Residues in the vicinity of the active site were also compared according to a similarity score between the scaffold protein and the target enzyme. Suitable scaffold proteins were selected, and the side chains of residues around the active sites were rebuilt using a previously developed side-chain packing program. Triose phosphate isomerase (TIM) was used as a validation test for enzyme design. Selected scaffold proteins were found to accommodate the enzyme active sites and successfully form a good transition state complex. This method overcomes the limitations of the current enzyme design methods that use limited number of protein scaffold and based on the position of ligands. As there are a large number of protein scaffolds available in the Protein Data Band, this method should be widely applicable for various types of enzyme design.     

Refinement of the primary hydration shell model for molecular dynamics simulations of large proteins

A realistic representation of water molecules is important in molecular dynamics simulation of proteins. However, the standard method of solvating biomolecules, that is, immersing them in a box of water with periodic boundary conditions, is computationally expensive. The primary hydration shell (PHS) method, developed more than a decade ago and implemented in CHARMM, uses only a thin shell of water around the system of interest, and so greatly reduces the computational cost of simulations. Applying the PHS method, especially to larger proteins, revealed that further optimization and a partial reworking was required and here we present several improvements to its performance. The model is applied to systems with different sizes, and both water and protein behaviors are compared with those observed in standard simulations with periodic boundary conditions and, in some cases, with experimental data. The advantages of the modified PHS method over its original implementation are clearly apparent when it is applied to simulating the 82 kDa protein Malate Synthase G. © 2009 Wiley Periodicals, Inc. J Comput Chem 2009     

乙二醇-磷霉素改性氧化锆色谱固定相的制备及其在蛋白质分离中的应用

合成了分离蛋白质的乙二醇-磷霉素钠改性氧化锆高效液相色谱固定相, 通过漫反射红外光谱、元素分析等分析方法对该固定相进行了表征. 以溶菌酶、核糖核酸酶A、细胞色素C和糜蛋白酶四种标准碱性蛋白质为探针, 系统地考察了固定相的疏水相互作用色谱性能. 结果表明, 乙二醇-磷霉素改性氧化锆固定相对蛋白质有一定的保留, 表现出较高的分离选择性.