Rapid detection of antigen binding by antibody fragments expressed in the periplasm of Escherichia coli

Bacterial expression systems can greatly facilitate proteinengineering of antibodies. We have developed a system for high-levelexpression of antibodies, antibody fragments, or hybrid antibodieswith novel effector functions in the periplasm of Escherichiacoli. From 5 ml of cells, a simple extraction yields sufficientmaterial for SDS-gel electro-phoresis, detection and characterizationof hapten binding. To demonstrate our system, heavy-chain variableregions and 1 light chains of a mouse anti-NP antibody weresynthesized as hybrid proteins with a bacterial signal peptide(Omp F). Each chain is secreted into the periplasm where processing(cleavage of the signal peptide), folding and heterodimer associationtake place. Periplasmic proteins are released by cold osmoticshock, and hapten-binding activity is easily detected withoutfurther manipulation. The ease of genetic engineering in thissystem will facilitate the production of immunoglobulin derivativesdesigned for specific applications, and expression of thesemolecules in a native state will allow the rapid screening ofcombinatorial libraries and the results of mutagenesis.     

Protein interaction networks: centrality,modularity, dynamics,and applications

In the post-genomic era, proteomics has achieved significant theoretical and practical advances with the development of high-throughput technologies. Especially the rapid accumulation of protein-protein interactions (PPIs) provides a foundation for constructing protein interaction networks (PINs), which can furnish a new perspective for understanding cellular organizations, processes, and functions at network level. In this paper, we present a comprehensive survey on three main characteristics of PINs: centrality, modularity, and dynamics. 1) Different centrality measures, which are used to calculate the importance of proteins, are summarized based on the structural characteristics of PINs or on the basis of its integrated biological information; 2) Different modularity definitions and various clustering algorithms for predicting protein complexes or identifying functional modules are introduced; 3) The dynamics of proteins, PPIs and sub-networks are discussed, respectively. Finally, the main applications of PINs in the complex diseases are reviewed, and the challenges and future research directions are also discussed.     

多特征融合的蛋白质相互作用位点预测

蛋白质相互作用位点预测为蛋白质功能和药物设计的理解提供重要线索。而蛋白质的各种特征为蛋白质相互作用位点预测提供了大量有用信息,特别是进化信息、残基序列邻近和空间邻近性。不同的蛋白质特征对蛋白质间的相互作用的贡献也不一样。通过提取蛋白质序列谱、保守性和残基熵,提出了特征融合技术对蛋白质相互作用位点进行研究,采用SVM构建三种预测器,分别对各种不同的特征加以验证,实验结果表明了基于特征融合方法的有效性和正确性。     

HClO对贻贝粘附单元DOPA氧化的理论研究

采用量子化学密度泛函理论(DFT)研究贻贝粘附单元DOPA(3,4-二羟基苯丙氨酸)的结构与性质,得分子的几何构型、原子电荷分布、反应活性及热力学等参数,表明:DOPA苯环易与HClO(次氯酸)发生亲电取代反应(1),生成3-氯4,5-二羟基苯丙氨酸,阻碍生成贻贝内超强粘附单元DOPA二联体,降低粘附蛋白间粘性;DOPA侧链易与HClO发生亲电亲核反应(2),促使DOPA侧链的断裂,降低粘附蛋白内粘性;在相同温度下,反应(1)和反应(2)的△G<0,且△G(1)<△G(2),反应(1)较易发生.     

过敏原肌质钙结合蛋白在毕赤酵母中的表达、优化及免疫反应性研究

目的 探究天然肌质钙结合蛋白(sarcoplasmic calcium binding protein, SCP)的可替代物,为蟹类过敏原的检测提供基础材料,本研究首次利用毕赤酵母(Pichia pastoris, P. pastoris)高效表达表达三疣梭子蟹(Portunus trituberculatus)重要过敏原SCP,并检验其免疫反应性。方法 根据毕赤酵母的密码子偏好性优化SCP基因并构建重组质粒。将其热激转化至P. pastoris GS115菌株后经遗传霉素(Geneticin, G418)筛选获得阳性高拷贝子。最后通过甲醇诱导表达重组SCP并结合免疫印记(Western blotting, WB)和间接酶联免疫吸附实验(enzyme-linked immunosorbent assay, ELISA)验证其免疫反应性。结果 SCP在P. pastoris GS115中实现了可溶性高效表达,其表观分子量约为28 kDa。在摇瓶水平下,最佳诱导条件为pH为6.0、每24 h添加1.0%(v/v)甲醇,于28℃发酵144 h,在此条件下,纯度为91.6%的SCP产量可达15 mg/L。WB和间接ELISA结果表明,重组SCP具有IgG结合能力。结论 毕赤酵母表达系统可以得到纯度较高且免疫反应性良好的重组SCP。本研究为SCP的理化研究及产业化应用奠定了基础,并有望促进特异性甲壳类过敏原检测的发展。     

A Constraint-Based Approach for Deriving 3-D Structures of Cyclic Polypeptides

This paper presents an hybrid algorithm for deriving 3-D structures of cyclic polypeptides. The algorithm combines constraint-based techniques with the most widely used methods for non-cyclic polypeptides. The empirical results demonstrate that the proposed hybrid algorithm outperforms traditional methods especially with respect to running times.     

用同步辐射X荧光分析血浆蛋白质的微量元素

用同步辐射X荧光(SRXRF)分析技术与凝胶色谱生化分离相结合，分析了用抗肿瘤药物顺铂处理过的和未处理过的小鼠血浆的大分子蛋白质。对以轻元素为基体的小量样品，用X荧光谱中的康普顿散射强度作为质量的因子，获得了在大于22ku分子量的蛋白质中Pt、S、Ca、Fe、Ni、Cu、Zn、Se、Br和Sr等元素含量在不同样品问的相对变化。由此推测，经顺铂处理后，Pt元素可与血浆中的大分子蛋白结合，含CM和S的大分子蛋白含量明显升高，而含Zn的减少。     

大豆/涤混纺纱混纺比及其不匀率的测试与计算方法

为了研究大豆蛋白纤维这种新型的纺织原料混纺比的测试方法,利用数理统计原理,采用密度梯度法对大豆/涤纶(65/35)混纺纱混纺比进行了测试和计算,该方法不仅可以得到混纺比均值,而且可以得到混纺比标准差,粗纱和细纱混纺比均值的控制范围分别为(63.64%,65.32%)和(64.16%,66.17%),粗纱和细纱混纺比标准差的控制限分别为2.89%和3.56%,同期细纱用溶解法实验结果为64.5%,2种方法误差为1.1%。     

河南省市售鱼虾蟹类及其制品营养成分调查分析

目的 分析河南省市售及加工鱼虾蟹类食品的营养成分,完善河南省特色食物成分数据库。方法 2017年12月—2020年12月对饭店和超市内售卖的鱼蟹类食品采样,分析其中的水分、灰分、蛋白质、脂肪、碳水化合物、总氮、糖类、多种维生素及人体必需的矿物质等营养成分。结果 水分、灰分含量水平基本一致;除油炸食品外均未检出糖类;蟹类能量含量整体偏高,炸鱼能量、蛋白质、总氮和脂肪整体高于鲜鱼;鱼虾蟹类脂肪酸的总量不高,不饱和脂肪酸比例大,二十碳五烯酸（EPA）和二十二碳六烯酸（DHA）占主要成分,DHA含量较高的依次是鱿鱼0.209 g/100 g、龙虾0.181 g/100 g和巴沙鱼0.153 g/100 g,EPA依次是蟹黄1.07 g/100 g、小黄鱼0.38 g/100 g和鲫鱼0.297 g/100 g;鱼类全部检出氨基酸,虾蟹类90%检出,蟹类中蟹黄氨基酸含量较高。结论 鱼虾蟹类制品中,调味料及食用油对食物成分有影响;鲜品中不饱和脂肪酸的含量与总脂肪酸含量正相关,鱼类和蟹类单不饱和脂肪酸高,虾类与推荐比例一致。     

Structural Insights into Iron Ions Accumulation in Dps Nanocage

Dps (DNA-binding protein from starved cells) is well known for the structural protection of bacterial DNA by the formation of highly ordered intracellular assemblies under stress conditions. Moreover, this ferritin-like protein can perform fast oxidation of ferrous ions and subsequently accumulate clusters of ferric ions in its nanocages, thus providing the bacterium with physical and chemical protection. Here, cryo-electron microscopy was used to study the accumulation of iron ions in the nanocage of a Dps protein from Escherichia coli. We demonstrate that Fe²⁺ concentration in the solution and incubation time have an insignificant effect on the volume and the morphology of iron minerals formed in Dps nanocages. However, an increase in the Fe²⁺ level leads to an increase in the proportion of larger clusters and the clusters themselves are composed of discrete ~1–1.5 nm subunits.