基于HPPK靶标酶的分子对接研究——金属离子Mg2＋的影响

6-羟甲基-7,8-二氢喋呤磷酸化酶(HPPK)催化细菌进行叶酸合成反应中的第一步, 即焦磷酰从三磷酸酰酐(ATP)转移到6-羟甲基-7,8-二氢喋呤(HP), 被认为是基于结构虚拟筛选新型抗生素的理想靶标. 本工作分别以HPPK和含有金属离子Mg^2＋的HPPK为受体, 以底物类似物为配体进行了对接, 发现活性口袋大小、金属镁离子对对接结果有较大的影响. 特别是金属镁离子的加入不仅可大大提高对接结果的可信度, 同时可增加虚拟筛选的命中率. 这一结果将为设计新的HPPK抑制剂提供一定的理论指导.     

3-芳基-6-甲基-1,6-二氢-1,2,4,5-四嗪及其衍生物的合成和晶体结构

以乙腈和芳基腈为原料, 经过醚化、环化和还原三步方便且有效地合成了3-芳基-6-甲基-1,6-二氢-1,2,4,5-四嗪, 并在此基础上合成了一系列新的3-芳基-6-甲基-1,6-二氢-1,2,4,5-四嗪衍生物, 通过元素分析, ¹H NMR, IR和HRMS对这些化合物进行了表征. 对化合物N-邻甲基苯-3-苯基-6-甲基-1,6-二氢-1,2,4,5-四嗪-1-甲酰胺(5a)的X射线晶体衍射研究表明: 其属于单斜晶系, P2_{1 /c空间群, 晶胞参数a＝1.3941(6) nm, b＝0.5675(2) nm, c＝2.0614(8) nm; α＝γ＝90°, β＝102.055(6)°; V＝1.5949(11) nm³, 此类化合物的四嗪环采用不对称船式结构, 且具有同芳香性.}     

1,3-二(乙氧基甲基)-5-N,N-二甲氨基-6-甲基尿嘧啶的合成

报道了1,3-二(乙氧基甲基)-5-N,N-二甲氨基-6-甲基尿嘧啶方便、高产率的合成方法. 以6-甲基尿嘧啶(1)为起始物, 经硝化、嘧啶N¹,N ³-烷基化、还原及氨基甲基化, 首次高产率合成了1,3-二(乙氧基甲基)-5- N,N -二甲氨基-6-甲基尿嘧啶(5), 并对其化学结构进行了表征.     

C(3)-乙烯基的化学修饰与含氧基团取代的叶绿素-a衍生物的合成

以焦脱镁叶绿酸-a甲酯为起始原料, 通过加成和氧化反应将其3-位上的乙烯基转化为羟乙基、溴乙基、二羟乙基、二溴乙基和溴羟乙基, 再经过二甲亚砜/乙酸酐或者高钌酸四丙基铵(TPAP)/N-甲基吗啉-N-氧化物所组成的混合氧化剂的氧化反应, 得到多种C(3)-多酮基取代的二氢卟吩衍生物. 其单羟基作为离去基团与不同的活泼亚甲基化合物经过重排过程, 得到相应的酮基取代的二氢卟吩衍生物. 所得新叶绿素衍生物的化学结构均经UV, IR, ¹H NMR及元素分析得以证实, 并对相应的反应提出可能的反应机理.     

异噁唑基取代的1,2,4-噁二唑啉和吡唑啉类化合物的合成

通过3-乙酰基-5-羟甲基异噁唑衍生的Schiff碱2与由醛肟原位生成的腈氧化物的1,3-偶极环加成反应, “一锅法”制备了5-甲基-5-[5-(叔丁基二甲基硅氧基甲基)-3-异噁唑基]-3-芳基-4-(4-甲氧基苯基)-4,5二氢-1,2,4-噁二唑类化合物4a～4e; 同时由3-乙酰基-5-羟甲基异噁唑衍生的α,β-不饱和酮(5)与取代苯肼的环化反应制备了5-(叔丁基二甲基硅氧基甲基)-3-[(1,5-二芳基)-3-(4,5-二氢吡唑基)]-异噁唑类化合物6a～6i. 所有新化合物的结构经核磁共振谱氢谱和碳谱、质谱、红外光谱以及高分辨质谱等进行了确证.     

维生素丁的研究Ⅰ.——7,8-双羟-7,8-双氢维生素丁二

用高锰酸钾在温和条件下氧化维生素丁二,得到一种新的双羟双氢维生素丁二。根据其紫外吸收光谱及四乙酸铅或高碘酸的氧化结果,证明其结构是7.8-双羟-7,8-双氢维生素丁二。制备5,6-和7,8-双羟双氢维生素丁二的二乙酸酯衍生物,分别应是5,6-双羟-5,6-双氢维生素丁二的3,6-双乙酸酯和7,8-双羟-7,8-双氢维生素丁二的3,7-双乙酸酯。本文并讨论维生素丁二因氧化剂与条件不同所经历不同的反应历程。     

2-氨基-6-氟-9-(4-羟基-3-羟甲基丁基)嘌呤的合成

报道了2-氨基-6-氟-9-(4-羟基-3-羟甲基丁基)嘌呤(1)的合成, 通过对起始原料2-氨基-6-氯-9-(4-乙酰氧基-3-乙酰氧甲基丁基)嘌呤(2)水解脱去乙酰基, 得到2-氨基-6-氯-9-(4-羟基-3-羟甲基丁基)嘌呤(3). 化合物3与三甲胺乙醇溶液在混合溶剂[V(THF)∶V(DMF)＝3∶1]中反应得到相应的氯化铵盐4, 然后与KF在DMF溶剂中反应, 得到化合物1. 产品经UV-vis, IR, ¹H NMR, ¹⁹F NMR和MS表征. 考察了反应温度、氟化试剂等因素对氟化反应的影响, 为6位含氟的嘌呤核苷类化合物的合成提供了一种直接、简易的新方法.     

3-氨基-7,8-二甲氧基香豆素及其衍生物的合成及抗氧化活性

合成了3-氨基-7,8-二甲氧基香豆素及其衍生物共11个化合物,其中3个化合物(2b、2d、2e)为新型香豆素芳酰胺类化合物。 通过猝灭1,1-二苯基-2-三硝基苯肼(DPPH)、2,2'-联氮二(3-乙基苯并噻唑-6-磺酸)二铵盐阳离子自由基(ABTS^+·)和羟自由基实验考察了所合成化合物的抗氧化活性,结果表明化合物2b对DPPH自由基、羟自由基的清除能力超出或接近对照品维生素C,而衍生物2a、2b和2c的抗氧化活性优于母体。 故酰化可提高3-氨基-7,8-二甲氧基香豆素的抗氧化性能,尤其是普遍提高了羟基自由基的清除能力。     

吡啶基团的对称性和离子化对分子双光子吸收截面的影响

采用超快速激光光谱方法研究了含吡啶基团的四个联苯乙烯衍生物及两个杂环分子(A: 4,4’-二(2-(4-吡啶基)乙烯)联苯; B: 4,4’-二(2-(2-吡啶基)乙烯)联苯; C: 1-甲基-4-(2-(4’-(2-(4-吡啶基)乙烯基)-4-联苯)乙烯基)吡啶碘盐; D: 1-甲基-2-(2-(4’-(2-(2-吡啶基)乙烯基)-4-联苯)乙烯基)吡啶碘盐; E: 4-(2-(9-丁基-9氢-3-咔唑)乙烯基)-1-甲基吡啶碘盐; F: 4-(2-(9-丁基-9氢-3-咔唑)乙烯基)-1-甲基喹啉碘盐)的结构-性能关系. 实验结果显示双光子吸收截面最大的是分子E, 高达617.3 GM; 最小的是分子B, 为19.3 GM(1 GM=10^-50 cm⁴·s·photon^-1). 实验研究结果表明, 分子中吡啶基团的对称性及其离子化对分子双光子吸收截面起很重要的作用; 进一步用理论计算证实了以上实验结论并对其机制进行了分析讨论.     

靶向亲和-液相色谱-质谱联用技术快速筛选黄藤总生物碱中乙酰胆碱酯酶抑制剂

采用靶向亲和-液相色谱-质谱联用技术(Target molecule affinity-LC-ESI-MSn)快速筛选黄藤总生物碱中能够抑制乙酰胆碱酯酶活性的成分,共筛选出12种具有潜在抑制乙酰胆碱酯酶的活性成分,并鉴定了6种成分,分别为黄藤素(Palmatine)、小檗碱(Berberine)、药根碱(Jatrorrhizine)、巴马汀红碱(Palmatrubine)、7,8-二氢-8-羟基小檗碱(7,8-Dihydro-8-hydroxyberberine)、Groenlandicine,结合体外酶学实验对这6种化合物进行了活性验证实验.结果表明,黄藤素抑制活性最强,其抑制作用强于阳性对照药盐酸多奈哌齐,说明黄藤素具有开发成抗阿尔茨海默症药物的潜力.本方法简单、快速、准确地从复杂的中药提取物中筛选出具有抑制乙酰胆碱酯酶活性的成分,适用于复杂体系中的高通量筛选.     

Probing single-molecule enzyme active-site conformational state intermittent coherence

The relationship between protein conformational dynamics and enzymatic reactions has been a fundamental focus in modern enzymology. Using single-molecule fluorescence resonance energy transfer (FRET) with a combined statistical data analysis approach, we have identified the intermittently appearing coherence of the enzymatic conformational state from the recorded single-molecule intensity-time trajectories of enzyme 6-hydroxymethyl-7,8-dihydropterin pyrophosphokinase (HPPK) in catalytic reaction. The coherent conformational state dynamics suggests that the enzymatic catalysis involves a multistep conformational motion along the coordinates of substrate-enzyme complex formation and product releasing, presenting as an extreme dynamic behavior intrinsically related to the time bunching effect that we have reported previously. The coherence frequency, identified by statistical results of the correlation function analysis from single-molecule FRET trajectories, increases with the increasing substrate concentrations. The intermittent coherence in conformational state changes at the enzymatic reaction active site is likely to be common and exist in other conformation regulated enzymatic reactions. Our results of HPPK interaction with substrate support a multiple-conformational state model, being consistent with a complementary conformation selection and induced-fit enzymatic loop-gated conformational change mechanism in substrate-enzyme active complex formation.     

New ways to derivatize at position 6 of 7,7-dimethyl-7,8-dihydropterin

Reported are the synthesis of two intermediates for derivatization at position 6 of 7,7-dimethyl-7,8-dihydropterin: 6-carboxylic acid ethyl ester-7,7-dimethyl-7,8-dihydropterin, which is a novel compound, and 6-aldehyde-7,7-dimethyl-7,8-dihydropterin, which is synthesized by a new method with a yield of 90%.     

Emission properties of dihydropterins in aqueous solutions

Pterins belong to a class of heterocyclic compounds present in a wide range of living systems and accumulate in the skin of patients affected by vitiligo, a depigmentation disorder. The study of the emission of 7,8-dihydropterins is difficult because these compounds are more or less unstable in the presence of O(2) and their solutions are contaminated with oxidized pterins which have much higher fluorescence quantum yields (Φ(F)). In this work, the emission properties of six compounds of the dihydropterin family (6-formyl-7,8-dihydropterin (H(2)Fop), sepiapterin (Sep), 7,8-dihydrobiopterin (H(2)Bip), 7,8-dihydroneopterin (H(2)Nep), 6-hydroxymethyl-7,8-dihydropterin (H(2)Hmp), and 6-methyl-7,8-dihydropterin (H(2)Mep)) have been studied in aqueous solution. The fluorescence characteristics (spectra, Φ(F), lifetimes (τ(F))) of the neutral form of these compounds have been investigated using the single-photon-counting technique. Φ(F) and τ(F) values obtained lie in the ranges 3-9 × 10(-3) and 0.18-0.34 ns, respectively. The results are compared to those previously reported for oxidized pterins.     

Über Pterinchemie. 73. Mitteilung [1]. Zum Verlauf der katalytischen Reduktion von 7-Methylpterin

On the Pathway of the Catalytic Reduction of 7-Methylpterin The catalytic hydrogenation of 7-methylpterin (VII) in a neutral solution occurs first by the reduction of the 7,8-double bond (thermodynamically-controlled reaction) followed by the reduction of the 5,6-double bond. On the contrary, in an acidic medium like CF₃COOH, the 5,6-double bond is reduced first (kinetically-controlled reaction). The dihydro-intermediate then undergoes a [1,2]-H-rearrangement leading to the formation of the thermodynamically more stable 7-methyl-7,8-dihydropterin (XV) which on further reduction gives 7-methyl-5,6,7,8-tetrahydropterin (VIII). The catalytic reduction of 7-methyl-7,8-dihydropterin (XV) with deuterium gives stereoselectively a sole product with D at C(6) in the equatorial position.     

Electrochemistry of 6-methyl-5,6,7,8-tetrahydropterin

The electrochemical oxidation of 6-methyl-5,6,7,8-tetrahydropterin (6-MTHP), the most effective of the synthetic aromatic amino acid hydroxylase pseudo cofactors, has been studied in aqueous solution over a wide pH range at a pyrolytic graphite electrode. The first electrooxidation of 6-WTHP occurs by a quasi-reversible 2e-2H⁺ reaction giving an unstable quinonoid-dihydropterin. The latter undergoes a first order chemical follow-up reaction yielding 6-methyl-7,8-dihydropterin (6-MDHP). At pH values ?5.6 6-MDHP forms an equilibrium mixture of a covalently hydrated species and non-hydrated species. The covalently hydrated form of 6-MDHP is electrooxidized in a 2e-2H⁺ quasi-reversible reaction to another unstable quinonoid that appears to undergo a two-step rearrangement to 6-methylpterin. Non-hydrated 6-MDHP is electrooxidized at the most positive potential in an irreversible 2e-2H⁺ reaction giving 6-methylpterin.     

Synthesis,antimicrobial activity,and molecular docking study of formylnaphthalenyloxymethyl‐triazolyl‐N‐phenylacetamides

In the present study, substituted formylnaphthalenyloxymethyl‐triazolyl‐N‐phenylacetamide derivatives ( 6a – k ) have been designed and synthesized employing click chemistry approach and evaluated for their in vitro antifungal and antibacterial activities. All the newly synthesized compounds were thoroughly characterized by ¹H NMR, ¹³C NMR, and HRMS spectral techniques. Among the screened compounds, 6d , 6e , 6j , and 6k have shown good antifungal and antibacterial activities. Compound 6k has shown very effective antimicrobial activity. We further performed exploratory docking studies on microbial DNA gyrase to rationalize the in vitro biological data and to demonstrate the mechanism of antimicrobial activity. This is the first report to demonstrate the formylnaphthalenyloxymethyl, triazole, and N‐phenylacetamide hybrids as potential antimicrobial agents.     

A point mutation converts dihydroneopterin aldolase to a cofactor-independent oxygenase

Dihydroneopterin aldolase (DHNA) catalyzes the conversion of 7,8-dihydroneopterin (1) to 6-hydroxymethyl-7,8-dihydropterin (4) in the folate biosynthetic pathway. Substitution of a conserved tyrosine residue at the active site of DHNA by phenylalanine converts the enzyme to a cofactor-independent oxygenase, which generates mainly 7,8-dihydroxanthopterin (6) rather than 4. 6 is generated via the same enol intermediate as in the wild-type enzyme-catalyzed reaction, but this species undergoes an oxygenation reaction to form 6. The conserved tyrosine residue plays only a minor role in the formation of the enol reaction intermediate but a critical role in the protonation of the enol intermediate to form 4.     

Transition metal chemistry of oxime-containing ligands,part XI. Copper(II) complexes of syn-phenyl-2-pyridylketoxime and syn-methyl-2-pyridylketoxime

Summary Some copper(II) complexes of the types: Cu(HPPK)-(PPK)X, Cu(HMPK)(MPK)X (where HPPK = syn-phenyl-2-pyridylketoxime, HMPK = syn-methyl-2-pyridylketoxime and X = Cl^–, Br^–, I^–, NO₃ ^–, SCN^– or SeCN^–) Cu(HPPK)₂SO₄ 3 H₂O and Cu(HMPK)₂SO₄ · 3 H₂O were synthesized and characterized by analysis, magnetic susceptibility, e.s.r., reflectance and i.r. spectral measurements. The spectral data suggest that Cu(HPPK)(PPK)X and Cu(HMPK)(MPK)X containcis square-coplanar [Cu(HPPK)(PPK)]⁺ and [Cu(HMPK)(MPK)]⁺ units respectively, linked by weakly coordinated anions, giving infinite polymeric highly distorted octahedral chain structures, whereas Cu(HPPK)₂SO₄ · 3H₂O and Cu(HMPK)₂SO₄ · 3 H₂O have acis distorted octahedral structure containing two ligand molecules of ketoxime and a bidentate sulphate group. The polycrystalline e.s.r. spectra suggest a distorted octahedral stereochemistry for the Cu^II ion involving a ground-state. By using e.s.r. and reflectance spectral data, the orbital reduction parameters, k₁₁ and k₁ were calculated and interpreted in terms of molecular orbital coefficients.     

Antibacterial potential of N-(2-furylmethylidene)-1, 3, 4-thiadiazole-2-amine: Experimental and theoretical investigations

Recently, a lot of interest has been attributed to the Schiff base compound because of its wide range of biological activities which include: antibacterial, antifungal, antima larial, including; antiproliferative, antiviral, and antipyretic. In this research work, N-(2-furylmethylidene)-1, 3, 4-thiadiazole- 2-amine gotten from o-phenylenediamine and 5- methoxysalicaldehyde was produced and characterized using UV–Visible, FT-IR, ¹H NMR, ¹³C NMR, and GC-MS along with molecular modeling using density functional theory (DFT) and molecular docking approach. The results obtained indicated that the Schiff base exhibited antimicrobial action against all the tested microbes except Candidaalbicans isolate, which exhibited zero diameter zone of inhibition. The theoretical investigations of the synthesized compounds were computed applying density functional theory at the B3LYP/6–31++G (d, p) level of theory and in silico molecular docking simulation. In comparing binding affinity energies and binding poses of the studied compound and the standard drug (ampicillin), the deduction that the molecular docking analysis results are in good agreement with in vitro analysis of the synthesized compounds can be made.     

CoMFA 3D-QSAR Analysis of Epothilones Based on Docking Conformation and Alignment

Epothilones belong to a class of novel microtubule stabilizing and anti-mitotic agents, which have a paclitaxel-like mechanism of action. A three-dimensional quantitative structure-activity relationship （3D-QSAR） model was built for epothilones by the method of comparative molecular field analysis （CoMFA） combined with the flexible docking technology. The docking CoMFA model gave a good cross-validated value of q2=0.784 with an optimized component of 6 and the conventional correlation coefficient of r^2=0.985. The statistical results show that the model has good ability to predict the activity of the studied compounds. At last, the docking CoMFA model was analyzed through contour maps complemented with MOLCAD-generated active site potential surface in the α,β-tubulin receptor, which can provide important information for the structure-based drug design.