毛细管电泳测定鸡肝二氢叶酸还原酶活力及其抑制剂的抑制率

本文采用毛细管电泳法对亲和层析提取的鸡肝二氢叶酸还原酶（DHFR）的反应体系进行了研究,根据体系中反应物还原辅酶Ⅱ（NADPH）和反应产物氧化型辅酶Ⅱ（NADP）的浓度变化,测得鸡肝二氢叶酸还原酶的米氏常数Km=1.35×10^-5mol／L。将该体系用于鸡肝二氢叶酸还原酶抑制剂（DHFRIs）抑制率的测定,测得氨甲喋呤的半数抑制浓度（Ic50）为7.46×10^-8mol／L。     

毛细管电泳法研究中草药有效成分对二氢叶酸还原酶的抑制作用

利用已建立的二氢叶酸还原酶抑制剂的毛细管电泳法筛选模型,研究了10种中草药有效成分对二氢叶酸还原酶的抑制作用.经实验测定发现木樨草素、表儿荼素、紫杉醇和槲皮素对二氢叶酸还原酶(DHFR)有抑制作用,且抑制效果为木樨草素>紫杉醇>表儿荼素>槲皮素.通过对产物NADP(氧化型辅酶Ⅱ)峰面积的定量测定,计算了4种抑制剂的抑制率.     

二氢叶酸还原酶抑制剂的高效毛细管电泳法筛选模型的建立与应用

建立了一种采用毛细管电泳法(CE)测定二氢叶酸还原酶(DHFR)反应动力学参数的新方法。以含0.002%Brij-35的50 mmol/L 的硼砂缓冲溶液（pH 9.18）作为电泳介质,检测波长280 nm,于19 min内实现了体系中各组分的基线分离。根据酶反应过程中反应物和反应产物的浓度变化计算有关反应动力学参数。将已知的氨甲喋呤、甲氧苄胺嘧啶和叶酸3种抑制剂作用于所建立的二氢叶酸还原酶体系,测得抑制剂的半数抑制浓度与文献值相接近,证明本体系可用于二氢叶酸还原酶抑制剂(DHFRI)的筛选。     

高效毛细管电泳法测定二氢叶酸还原酶活力的研究

通过胶束电动毛细管电泳法研究分离二氢叶酸还原酶体系中二氢叶酸、四氢叶酸、 NADP、 NADPH和酶5种组分,在含0.002%Brij-35的pH 9.18 50 mmol/L 的硼砂缓冲溶液中,5种组分在18min内得到基线分离.通过对其产物四氢叶酸峰面积的定量测定,计算出二氢叶酸还原酶的米氏常数,建立了毛细管电泳法对二氢叶酸还原酶活力的测定方法.     

木糖辅助底物对近平滑假丝酵母催化(R,S)-苯基乙二醇不对称氧化还原合成(S)-苯基乙二醇体系稳定性的促进作用

通过分析近平滑假丝酵母Candida parapsilosis催化外消旋苯基乙二醇(PED)不对称氧化还原合成(S)-苯基乙二醇的反应过程,结合微生物中糖类的代谢路径研究,建立了一种以木糖为辅助底物的NADPH辅酶再生的方法,提高了该催化系统的稳定性.结果表明,相同条件下反应体系中添加8 g/L的木糖可使(S)-PED产物的对映体过量值(ee)和产率分别提高14%和10%;菌体可重复使用3~4次,而产物ee值保持在98%.考察了木糖对表达羰基还原酶重组大肠杆菌体系催化效果的影响,发现木糖是通过强化(S)-羰基还原酶的催化作用提高了催化系统的稳定性,其原因是在磷酸戊糖途径中再生了氧化还原反应所需的NADPH辅酶.     

光合细菌羰基还原酶不对称还原苯乙酮的研究

从本实验室筛选得到的类球红杆菌(Rhodobacter sphaeroides)中,通过超声破碎、硫胺沉淀、DEAE-Sepha-dexA-25阴离子交换层析分离得到一种较纯的依赖NADPH的羰基还原酶.对其进行SDS-PAGE电泳分析,显示一条带,测得其相对分子量约为37kD.建立了羰基还原酶催化苯乙酮反应体系并对其进行优化,得出该酶催化苯乙酮的最适反应pH值为8,最适温度为37℃,在pH值为7～9之间比较稳定,其热稳定性较低.该酶对苯乙酮的米氏常数Km和最大反应速率Vmax分别为0.26mmol·L-1和2.4μmol·min-1·mg-1,最佳反应时间为24h·催化苯乙酮的主要产物为(S)-苯乙醇,其产率为58.5%,ee值可达到99%以上,是很有前景的生物催化剂之一.对酶催化与辅酶再生体系相结合进行了初步的研究,提出了氢化酶再生辅酶与菌绿素再生辅酶体系,为今后的酶催化工业生产奠定了基础.     

仿生光(电)催化NADH再生

NADH依赖的氧化还原酶广泛应用于精细化学品合成和手性药物开发等领域。NADH作为还原当量在氧化还原酶催化过程中起着关键作用。鉴于高成本NADH的计量性使用,寻求绿色、经济和高效的NADH再生策略是该领域的研究热点和难点。近年来,光(电)催化NADH再生受到了广泛的关注。本文从模拟自然界光合作用的Z机制出发,基于光(电)催化辅酶再生过程中的光诱导电子转移、空穴捕获等关键问题,总结了NADH再生领域的相关工作,为进一步设计高效的辅酶再生体系提供了研究思路。本文最后还简介了NADH依赖的光-酶协同催化的研究进展,并对仿生光催化辅酶再生体系面临的挑战和光-酶偶联的发前景展进行了讨论与展望。     

重组大肠杆菌细胞不对称还原4-氯乙酰乙酸乙酯合成(R)-(+)-4-氯-3-羟基丁酸乙酯

 从赭色掷孢酵母(Sporobolomyces salmonicolor ZJU0105)中克隆出NADPH依赖型醛基还原酶基因,构建了重组大肠杆菌E.coli BL21(pET28-ALR0105), 该工程菌可以高效地表达醛基还原酶. 将重组细胞用于催化4-氯乙酰乙酸乙酯不对称还原,合成出具有光学活性的(R)-(+)-4-氯-3-羟基丁酸乙酯. 实验发现,在加入适量辅酶及辅酶再生酶的条件下,利用重组细胞催化还原反应可以获得比使用赭色掷孢酵母更高的转化率、产率和ee值,得到了几乎是光学纯的(R)-(+)-型产物,从而解决了酵母细胞催化此类反应ee值较低的问题. 考察了辅酶及共底物的添加、底物和产物的浓度、pH值、温度以及菌体密度等因素对还原反应的影响. 结果表明,不对称还原反应必须在辅酶NADPH和辅酶再生酶系及共底物葡萄糖的参与下进行; 底物和高浓度的产物对还原反应有一定的抑制作用; 当pH＞6.0时,反应的转化率及产率都显著降低; 高密度重组细胞可以减小底物的抑制作用.     

吖啶红高灵敏催化荧光光度法测定痕量钴(Ⅱ)

在H2SO4介质中,KIO3可氧化吖啶红使之褪色并伴随着吖啶红荧光强度的减弱,但其反应速率较慢。当加入痕量钴(Ⅱ)时,氧化反应明显加快,体系荧光猝灭程度加强,钴(Ⅱ)对该氧化反应具有显著的催化作用。据此建立了一种灵敏度高、选择性好的测定痕量钴(Ⅱ)的催化荧光分析新方法,并研究了该方法的动力学条件。反应体系的激发波长和发射波长分别为530和550nm,催化体系可允许较大量的多种常见离子同时存在。测定钴(Ⅱ)的线性范围为0.3～4.8μg/L,检出限为2.5×10-11g/mL。方法可用于茶叶、人发和面粉等实际样品中痕量钴(Ⅱ)的测定。     

氧化还原酶介导生物级联催化研究进展

氧化还原酶种类丰富,广泛应用于生物催化级联反应中。以细胞色素P450单加氧酶和羰基还原酶为例,综述了两者参与的级联催化反应及其在合成手性胺和手性醇等化合物中的应用,并对发展氧化还原酶级联催化反应面临的辅酶循环、限速步骤和化合物抑制等问题进行了讨论。     

Incorporating dynamics in E. coli dihydrofolate reductase enhances structure-based drug discovery

Escherichia coli dihydrofolate reductase (DHFR) is a long-standing target for enzyme studies. The influence of protein motion on its catalytic cycle is significant, and the conformation of the M20 loop is of particular interest. We present receptor-based pharmacophore models-an equivalent of solvent-mapping of binding hotspots-based on ensembles of protein conformations from molecular dynamics simulations of DHFR.NADPH in both the closed and open conformation of the M20 loop. The optimal models identify DHFR inhibitors over druglike non-inhibitors; furthermore, high-affinity inhibitors of E. coli DHFR are preferentially identified over general DHFR inhibitors. As expected, models resulting from simulations with DHFR in the productive conformation with a closed M20 loop have better performance than those from the open-loop simulations. Model performance improves with increased dynamic sampling, indicating that including a greater degree of protein flexibility can enhance the quest for potent inhibitors. This was compared to the limited conformational sampling seen in crystal structures, which were suboptimal for this application.     

One site fits both: A model for the ternary complex of folate + NADPH in R67 dihydrofolate reductase, a D2 symmetric enzyme

R67 dihydrofolate reductase (DHFR) is a novel enzyme that confers resistance to the antibiotic trimethoprim. The crystal structure of R67 DHFR displays a toroidal structure with a central active-site pore. This homotetrameric protein exhibits 222 symmetry, with only a few residues from each chain contributing to the active site, so related sites must be used to bind both substrate (dihydrofolate) and cofactor (NADPH) in the productive R67 DHFR?NADPH?dihydrofolate complex. Whereas the site of folate binding has been partially resolved crystallographically, an interesting question remains: how can the highly symmetrical active site also bind and orient NADPH for catalysis? To model this ternary complex, we employed DOCK and SLIDE, two methods for docking flexible ligands into proteins using quite different algorithms. The bound pteridine ring of folate (Fol I) from the crystal structure of R67 DHFR was used as the basis for docking the nicotinamide-ribose-P_i (NMN) moiety of NADPH. NMN was positioned by both DOCK and SLIDE on the opposite side of the pore from Fol I, where it interacts with Fol I at the pore's center. Numerous residues serve dual roles in binding. For example, Gln 67 from both the B and D subunits has several contacts with the pteridine ring, while the same residue from the A and C subunits has several contacts with the nicotinamide ring. The residues involved in dual roles are generally amphipathic, allowing them to make both hydrophobic and hydrophilic contacts with the ligands. The result is a `hot spot' binding surface allowing the same residues to co-optimize the binding of two ligands, and orient them for catalysis.     

三维原子场作用全息矢量用于二氢叶酸还原酶抑制剂及苦味二肽QSAR研究

将三维原子场作用全息矢量用于表征68个二氢叶酸还原酶抑制剂和48个苦味二肽结构, 分别以多元线性回归和偏最小二乘建模, 取得优良结果. 对前者建模得复相关系数Rmm2=0.893, 交互检验相关系数RCV2=0.853, 对后者建模得Rmm2=0.936, RCV2=0.849. 结果表明3D-HoVAIF能够较好表征两类分子结构, 具有物化意义明确及结果易解释特点, 值得进一步应用推广.     

Light activates reduction of methotrexate by NADPH in the ternary complex with Escherichia coli dihydrofolate reductase

Methotrexate (MTX), a strong inhibitor of dihydrofolate reductase (DHFR), has been widely used for chemotherapy for many types of cancer as well as for juvenile rheumatoid arthritis. It mimics folate substrates and binds tightly to the active site of DHFR, perhaps in a conformation close to the transition state of the folate catalyzed reaction. Absorption, fluorescence and ultrasensitive Raman difference spectroscopies show that light-activated MTX reacts with NADPH in the enzyme active site, producing 5,8-dihydromethotrexate (5,8-dihydro-MTX) and NADP+. The reaction, which proceeds with a hydride transfer between C4 (pro-R side) of the nicotinamide ring and N5 of the pteridine ring, is similar to that between folate and NADPH except that the hydride is transferred to C6 in this case. Hence, MTX is catalytically competent in its excited state. Most experiments were performed on the Escherichia coli enzyme, but preliminary studies show that the reaction also occurs with human DHFR.     

A proposed model of Mycobacterium avium complex dihydrofolate reductase and its utility for drug design

A homology model of Mycobacterium avium complex dihydrofolate reductase (MAC DHFR) was constructed on the basis of the X-ray crystal structure of Mycobacterium tuberculosis (Mtb) DHFR. The homology searching of the MAC DHFR resulted in the identification of the Mtb DHFR structure (PDB 1DF7) as the template for the model building. The MAC enzyme sequence was aligned to that of the Mtb counterpart using a modified Needleman and Wunsch methodology. The initial geometry to be modeled was copied from the template, either fully or partially depending on whether the residues were conserved or not, respectively. Using a randomized modeling procedure, 10 independent models of the target protein were built. The cartesian average of all the model structures was then refined using molecular mechanics. The resulting model was assessed for stereochemical quality using a Ramachandran plot and by analyzing the consistency of the model with the experimental data. The structurally and functionally important residues were identified from the model. Further, 5-deazapteridines recently reported as inhibitors of MAC DHFR were docked into the active site of the developed model. All the seven inhibitors used in the docking study have a similar docking mode at the active site. The network of hydrogen bonds around the 2,4-diamino-5-deazapteridine ring was found to be crucial for the binding of the inhibitors with the active site residues. The 5-methyl group of the inhibitors was located in a narrow hydrophobic pocket at the bottom of the active site. The relative values of the three torsion angles of the inhibitors were found to be important for the proper orientation of the inhibitor functional groups into the active site.     

Protein flexibility and species specificity in structure-based drug discovery: dihydrofolate reductase as a test system

In structure-based drug discovery, researchers would like to identify all possible scaffolds for a given target. However, techniques that push the boundaries of chemical space could lead to many false positives or inhibitors that lack specificity for the target. Is it possible to broadly identify the appropriate chemical space for the inhibitors and yet maintain target specificity? To address this question, we have turned to dihydrofolate reductase (DHFR), a well-studied metabolic enzyme of pharmacological relevance. We have extended our multiple protein structure (MPS) method for receptor-based pharmacophore models to use multiple X-ray crystallographic structures. Models were created for DHFR from human and Pneumocystis carinii. These models incorporate a fair degree of protein flexibility and are highly selective for known DHFR inhibitors over drug-like non-inhibitors. Despite sharing a highly conserved active site, the pharmacophore models reflect subtle differences between the human and P. carinii forms, which identify species-specific, high-affinity inhibitors. We also use structures of DHFR from Candida albicans as a counter example. The available crystal structures show little flexibility, and the resulting models give poorer performance in identifying species-specific inhibitors. Therapeutic success for this system may depend on achieving species specificity between the related human host and these key fungal targets. The MPS technique is a promising advance for structure-based drug discovery for DHFR and other proteins of biomedical interest.     

Structure-guided development of efficacious antifungal agents targeting Candida glabrata dihydrofolate reductase

Candida glabrata is a lethal fungal pathogen resistant to many antifungal agents and has emerged as a critical target for drug discovery. Over the past several years, we have been developing a class of propargyl-linked antifolates as antimicrobials and hypothesized that these compounds could be effective inhibitors of dihydrofolate reductase (DHFR) from C. glabrata. We initially screened a small collection of these inhibitors and found modest levels of potency. Subsequently, we determined the crystal structure of C. glabrata DHFR bound to a representative inhibitor with data to 1.6 A resolution. Using this structure, we designed and synthesized second-generation inhibitors. These inhibitors bind the C. glabrata DHFR enzyme with subnanomolar potency, display greater than 2000-fold levels of selectivity over the human enzyme, and inhibit the growth of C. glabrata at levels observed with clinically employed therapeutics.     

Automated flexible ligand docking method and its application for database search

We have developed a new docking program that explores ligand flexibility. This program can be applied to database searches. The program is similar in concept to earlier efforts, but it has been automated and improved. The algorithm begins by selecting an anchor fragment of a ligand. This fragment is protonated, as needed, and then placed in the receptor by the DOCK algorithm, followed by minimization using a simplex method. Finally, the conformations of the remaining parts of the putative ligands are searched by a limited backtrack method and minimized to get the most stable conformation. To test the efficiency of this method, the program was used to regenerate ten ligand–protein complex structures. In all cases, the docked ligands basically reproduced the crystallographic binding modes. The efficiency of this method was further tested by a database search. Ten percent of molecules from the Available Chemicals Directory (ACD) were docked to a dihydrofolate reductase structure. Most of the top-ranking molecules (7 of the top 13 hits) are dihydrofolate or methotrexate derivatives, which are known to be DHFR inhibitors, demonstrating the suitability of this program for screening molecular databases. © 1997 John Wiley & Sons, Inc. J Comput Chem 18 : 1812–1825, 1997