蛋白质定向进化的研究进展及其应用前景

定向进化是改造蛋白质分子的有效新策略.它不需要了解蛋白质的空间结构,主要通过在实验室里模拟自然进化过程,采用错误倾向PCR等方法对编码蛋白质的基因进行随机突变,经DNA改组、交错延伸等技术进行体外重组,设计高通量筛选方法来选出需要的突变体.本综述了定向进化技术的发展及应用.     

蛋白质定向进化技术的研究进展

蛋白质定向进化技术是蛋白质分子改造的一个重要策略.重点介绍了易错PCR、DNA改组等对编码蛋白质的基因进行随机突变和重组的技术,以及构建突变体库和高通量筛选的方法,并探讨了定向进化技术在蛋白质工程中的应用及前景.     

蛋白质定向进化的研究进展

定向进化是改造蛋白质分子的一种有效的新策略。主要是在实验室里模拟自然进化过程,通过由易错PCR、致突变菌株诱变等方法对编码蛋白质的基因进行随机诱变,由DNA改组、随机引导重组和交错延伸等方法进行突变基因体外重组,设计高通量筛选方法来选出需要的突变株。它不仅可快速产生工业上有用的新酶,而且对研究蛋白质的结构与功能的关系具有非常重要的意义。     

蛋白质定向进货的研究进展

定向进化是改造蛋白质分子的一种有效的新策略。主要是在实验室里模拟自然进化过程,通过由易错PCR、致突变菌株诱变等方法对编码蛋白质的基因进行随机诱变,由DNA改组、随机引导重组和交错延伸等方法进行突变基因体外重组,设计高通量筛选方法来选出需要的突变株。它不仅可快速产生工业上有用的新酶,而且对研究蛋白质的结构与功能的关系具有非常重要的意义。     

分段DNA shuffling: 一种大分子海藻糖合酶有效的定向进化方法

[目的]红色亚栖热菌(Meiothermus ruber)海藻糖合酶(Trehalose synthase,M-TreS)将麦芽糖转化生成海藻糖只需一步反应,且具有很好的热稳定性及pH耐受性,是潜在的工业生产海藻糖的酶源.为了提高该酶的性能,有必要对其进行定向进化.[方法]M-TreS基因(M-treS)大小为2 889bp.该蛋白质分子本身具有很大的进化空间,但是却不宜进行全长基因Shuffling.分段DNA shuffling是为大分子蛋白质(基因≥2 000 bp)的进化而设计的一种方法.该方法分为三步:(1)用两对引物分别扩增目的基因的上游片段和下游片段;(2)上下游片段各自进行Shuffling; (3)利用重叠延伸PCR连接上下游突变群,建立完整基因的突变文库.[结果]结合易错PCR,通过该方法经一轮进化获得一株酶活力是野生型1.6倍、催化效率是野生型2倍的突变株.序列分析表明,该突变株共有6个位点发生了氨基酸的替代,其中一个来自易错突变,2个来自同源重组,3个为随机突变.[结论]分段DNA shuffling是进化大分子蛋白质的有效方法.     

过氧化氢酶基因定向进化文库的构建及其评价

采用易错聚合酶链反应和DNA改组技术构建野生型梅花鹿过氧化氢酶(CAT)基因的突变体文库,并随机对两种方法所得产物各5个样品做序列测定。序列分析结果表明突变率分别为0.329%和27.58%,易错聚合酶链反应体系的错配率可以比普通PCR体系提高约10倍,DNA改组的突变率则更高,但是难以避免由于突变率太高造成的目的基因无法正确翻译这一情况。另外,应用邻接法(neighbor-joining, NJ)对随机选择的过氧化氢酶基因突变体序列和野生型序列做核酸和蛋白质序列的NJ进化树,进化关系与突变率分析基本一致。     

改进重叠延伸PCR技术构建定点双突变

目的:目的DNA片段中快速构建位点不同的定点双突变体。方法: 借鉴DNA shuffling技术中DNA小片段延伸扩增获得全长DNA片段的工作原理,与常规基因定点突变技术相结合,改进重叠延伸PCR技术构建定点双突变。结果:对嗜酸热脂肪杆菌(Alicyclobacillus acidocaldarius)Tc-12-31的甘露聚糖酶基因AamanA中两个可能的活性位点E151和E231进行双点突变,先后经过无引物和有引物两步PCR,扩增获得全长DNA,测序结果表明得到预期的定点双突变体;酶活性检测和薄层层析结果表明双点突变体丧失了酶的活性。结论: 改良的重叠PCR技术,能经济、简便、高效地获得双点定点突变体,在酶的催化机理的阐述、蛋白质结构改造等分子生物学领域中具有较高的应用价值。     

正痘病毒属成员血凝素分子的结构及分子进化途径的分析

利用DNA聚合酶链式反应(PCR)及其它分子生物学技术克隆了23株包括所有正痘病毒属成员在内的病毒血凝素(HA)基因.核苷酸序列分析及结构与功能的研究发现HA分子具有与细胞粘着分子超家族成员(CAM)相似的结构,其生物学功能主要与结构中的IgG结构域和广泛的O型糖基化结构有关.另外,以HA分子基因的核苷酸和其氨基酸序列为比较指标,首次在基因水平对正痘病毒的起源和进化途径以及病毒间的抗原相关性等进行了分析.基因的分子进化树和蛋白质系统分类树的演段揭示了病毒在宿主选择压力作用下的自然进化途径及相互间的亲缘关系,为进一步阐明正痘病毒的进化过程和控制与预防该类病毒性疾病的流行提供了有价值的依据.     

利用交错延伸剪接PCR技术扩增油菜花粉育性基因MS2Bnap全长cDNA序列

交错延伸剪接PCR是一种用于分子进化研究的DNA改组技术。本实验利用其原理,将已获得的油菜花粉育性MS2Bnap有部分序列重叠的三段PCR产物作为模板进行扩增,获得了花粉育性基因MS2Bnap的全长cDNA序列。     

DNA改组的最新动态及应用前景

DNA改组(DNA shuffling)是目前最方便、有效的一种分子水平的体外定向进化技术,该技术同倾向错误PCR (Error-prone PCR) 相结合,通过对单基因或相关基因家族的靶序列进行多轮随机诱变、重组和高通量的筛选,可以有效富集正突变,去除负突变,提高突变文库的丰度,创造新基因和获得期望功能的蛋白质。DNA改组技术已在新药物等领域取得了广泛的应用,极大地推动了现代生物科学和生物技术的发展。该技术同计算机强大的数据分析系统相结合,将会为后基因组学的发展提供强有力的技术平台。     

重组水蛭素的突变及突变体部分性质研究

以基因突变结合动力学分析的方法研究了水蛭素空间结构及其与凝血酶的相互作用．采用基因定点突变和随机突变的方法得到两个重组水蛭素突变体,并从抗酰胺水解活性,抗凝血酶活力和稳定性三个方面,比较研究了重组水蛭素ｒＨＶ２中４７位和１１位两个氨基酸残基对其稳定性和抑制能力的影响．将ｒＨＶ２中Ｇｌｎ１１和Ａｓｎ４７分别突变为Ｈｉｓ１１和Ｌｙｓ４７后,ｒＨＶ２－Ｈ１１生物活力降低３０％,ｒＨＶ２－Ｋ４７生物活力提高６１％．测定抑制常数Ｋｉ表明,ｒＨＶ２－Ｈ１１突变体Ｋｉ值升高１４倍,ｒＨＶ２－Ｋ４７突变体Ｋｉ值降低１４倍,两个突变体的热稳定性均有所增强,ｒＨＶ２－Ｈ１１在酸性和碱性条件的稳定性降低．分析实验结果,可以认为：①４７位的Ｌｙｓ可能是通过氢键和静电两种作用力同时影响着水蛭素的三维结构和其与凝血酶的结合．②１１位氨基酸可能是水蛭素分子中另一个重要位点．     

Sulphation of hirudin in BHK cells

Hirudin, a thrombin inhibitor of the leech, was expressed in BHK cells; the alpha 1-antitrypsin signal peptide was used to direct secretion into the culture medium. The recombinant hirudin so produced inhibited thrombin and was shown by labelling experiments with [35S]sulphate to have been posttranslationally modified.     

Hirudin binding reveals key determinants of thrombin allostery

Thrombin exists in two allosteric forms, slow (S) and fast (F), that recognize natural substrates and inhibitors with significantly different affinities. Because under physiologic conditions the two forms are almost equally populated, investigation of thrombin function must address the contribution from the S and F forms and the molecular origin of their differential recognition of ligands. Using a panel of 79 Ala mutants, we have mapped for the first time the epitopes of thrombin recognizing a macromolecular ligand, hirudin, in the S and F forms. Hirudin binding is a relevant model for the interaction of thrombin with fibrinogen and PAR1 and is likewise influenced by the allosteric S-->F transition. The epitopes are nearly identical and encompass two hot spots, one in exosite I and the other in the Na+ site at the opposite end of the protein. The higher affinity of the F form is due to the preferential interaction of hirudin with Lys-36, Leu-65, Thr-74, and Arg-75 in exosite I; Gly-193 in the oxyanion hole; and Asp-221 and Asp-222 in the Na+ site. Remarkably, no correlation is found between the energetic and structural involvements of thrombin residues in hirudin recognition, which invites caution in the analysis of protein-protein interactions in general.     

Antithrombin activity of the hirudin N-terminal core domain residues 1–43

Hirudin N-terminal core domain residues 1–43 (r-Hir^1–43) were prepared from limited proteolysis of recombinant hirudin by V8 Staphylococcal protease followed by purification with reversed-phase HPLC. r-Hir^1-43 lacks the putative reactive site of hirudin (Lys⁴⁷), but binds to thrombin (with K_i of 300 nM) and blocks the catalytic activity of the protease. The structural element which accounts for the thrombin inhibitory activity of r-Hir^1–43 is analyzed in this report.     

Unfolding of hirudin characterized by the composition of denatured scrambled isomers

The native core structure of hirudin, a thrombin specific inhibitor, contains 24 hydrogen bonds, two stretches of -sheet and three disulfide bonds. Hirudin unfolds in the presence of denaturant and thiol catalyst by shuffling its native disulfide bonds and converting to scrambled structures that consist of 11 identified isomers. The composition of scrambled isomers, which characterizes the structure of denatured hirudin, varies as a function of denaturing conditions. The unfolding pathway of hirudin has been constructed by quantitative analysis of scrambled isomers unfolded under increasing concentrations of various denaturants. The results demonstrate a progressive expansion of the polypeptide chain and the existence of a structurally defined stable intermediate along the pathway of unfolding.     

水蛭素抑制人脐静脉内皮细胞基质金属蛋白酶-2的生成及活化

研究凝血酶对人脐静脉内皮细胞表达基质金属蛋白酶的影响及重组水蛭素的作用。将原代培养人脐静脉内皮细胞(HUVEC)的第2～5代分组后与凝血酶(4．0ku／L)共同温育,同时分别加入水蛭素(6．0ku/L)和肝素(6．0ku／L),在不同时间,用逆转录聚合酶链反应和免疫组织化学分析的方法评价基质金属蛋白酶-2的表达情况。结果显示凝血酶促进血管内皮细胞产生和活化基质金属蛋白酶-2。重组水蛭素可以有效地阻断凝血酶的上述作用。     

Rapid purification and revised amino-terminal sequence of hirudin: a specific thrombin inhibitor of the bloodsucking leech

Hirudin is a specific polypeptide thrombin inhibitor consisting of 65 amino acids that is produced by the leech, Hirudo medicinalis. We describe a rapid method for the purification of hirudin from a leech extract. Crude hirudin, purchased from a commercial source, was first fractionated on a DEAE-HPLC column using a salt gradient. Hirudin activity was monitored by inhibition of the thrombin-mediated hydrolysis of a synthetic substrate H-D-Phenylalanyl-Pipecolyl-Arginine-p-Nitroanilide. The fractions containing antithrombin activity were pooled and further purified by reverse-phase HPLC. The homogeneity of purified hirudin was confirmed by a single amino-terminal sequence for 43 residues with Val-Val as the first two amino acids. Residue 33 was Asn rather than Asp as reported previously.     

啤酒酵母生产的重组水蛭素的纯化及脱色

对啤酒酵母生产的重组水蛭素变异体1(rHV1)进行多步骤的纯化。首先将分泌到培养上清液中的水蛭素进行硫酸铵沉淀和SephadexG-50凝胶过滤,再用Q-SepharoseHP阴离子交换层析分离,最后用HPLCSP-5PW阳离子交换柱脱色及HPLCC8柱反相层析。真空干燥后得到的水蛭素蛋白经SPS-PAGE、N端氨基酸序列分析、抗凝血酶活力分析鉴定,证明已获得高纯度的重组水蛭素HV1制剂,为利用基因工程方法生产重组水蛭素的规模化生产及临床应用提供了依据     

Crystal structure of the thrombin-hirudin complex: a novel mode of serine protease inhibition.

Thrombin is a serine protease that plays a central role in blood coagulation. It is inhibited by hirudin, a polypeptide of 65 amino acids, through the formation of a tight, noncovalent complex. Tetragonal crystals of the complex formed between human alpha-thrombin and recombinant hirudin (variant 1) have been grown and the crystal structure of this complex has been determined to a resolution of 2.95 A. This structure shows that hirudin inhibits thrombin by a previously unobserved mechanism. In contrast to other inhibitors of serine proteases, the specificity of hirudin is not due to interaction with the primary specificity pocket of thrombin, but rather through binding at sites both close to and distant from the active site. The carboxyl tail of hirudin (residues 48-65) wraps around thrombin along the putative fibrinogen secondary binding site. This long groove extends from the active site cleft and is flanked by the thrombin loops 35-39 and 70-80. Hirudin makes a number of ionic and hydrophobic interactions with thrombin in this area. Furthermore hirudin binds with its N-terminal three residues Val, Val, Tyr to the thrombin active site cleft. Val1 occupies the position P2 and Tyr3 approximately the position P3 of the synthetic inhibitor D-Phe-Pro-ArgCH2Cl. Thus the hirudin polypeptide chain runs in a direction opposite to that expected for fibrinogen and that observed for the substrate-like inhibitor D-Phe-Pro-ArgCH2Cl.