Query：
学者姓名：叶秀云
Refining：
Year
Type
Indexed by
Source
Complex
Former Name
Co-
Language
Clean All
Abstract ：
药物分子计算机辅助设计是一种在计算机或者理论上通过构建具有一定潜在药理活性的新化学实体的分子模拟方法。近十几年来，高通量组学技术的快速发展为生物和化学药物分子设计提供了良好的数据支撑和研究契机。另外，现代社会对生物制药合理性以及作用机理理解的要求越来越高，行业普遍要求药物需要有高效、无毒或者低毒以及靶向性强等特点。随着越来越多与药物靶点相关的蛋白质结构通过实验方法解析出来，基于蛋白质受体的药物分子设计方法可行性进一步提高，其方法也变得越来越重要。基于蛋白质受体的药物分子设计方法，一般是以蛋白质以及配体的三维结构出发进行分析，这让药物分子先导物的发现更加理性化。随着相关实验数据的积累以及深度学习等算法的发展，从而可以进行更加科学的药物分子设计，这在一定程度上加快了新药研发的进程，并更有利于探索相应的分子机理。本文对基于蛋白质受体的药物分子设计方法的常用策略进行系统的回顾、总结和展望。
Keyword ：
分子模拟 分子模拟 蛋白质受体 蛋白质受体 计算机辅助药物分子设计 计算机辅助药物分子设计
Cite：
Copy from the list or Export to your reference management。
| GB/T 7714 | 袁素素 , 叶秀云 , 鄢仁祥 . 基于蛋白质受体的药物分子计算机辅助设计策略 [J]. | 生物信息学 , 2024 , 22 (03) : 159-173 . |
| MLA | 袁素素 等. "基于蛋白质受体的药物分子计算机辅助设计策略" . | 生物信息学 22 . 03 (2024) : 159-173 . |
| APA | 袁素素 , 叶秀云 , 鄢仁祥 . 基于蛋白质受体的药物分子计算机辅助设计策略 . | 生物信息学 , 2024 , 22 (03) , 159-173 . |
| Export to | NoteExpress RIS BibTex |
Version ：
Abstract ：
The white rot fungus Cerrena unicolor 87613 has been previously shown to be a promising resource in laccase production, an enzyme with significant biotechnological applications. Conventional methods face technical challenges in improving laccase activity. Attempts are still being made to develop novel approaches for further enhancing laccase activity. This study aimed to understand the regulation of laccase activity in C. unicolor 87613 for a better exploration of the novel approach. Transcriptomic and metabolomic analyses were performed to identify key genes and metabolites involved in extracellular laccase activity. The findings indicated a strong correlation between the glutathione metabolism pathway and laccase activity. Subsequently, experimental verifications were conducted by manipulating the pathway using chemical approaches. The additive reduced glutathione (GSH) dose-dependently repressed laccase activity, while the GSH inhibitors (APR-246) and reactive oxygen species (ROS) inducer (H2O2) enhanced laccase activity. Changes in GSH levels could determine the intracellular redox homeostasis in interaction with ROS and partially affect the expression level of laccase genes in C. unicolor 87613 in turn. In addition, GSH synthetase was found to mediate GSH abundance in a feedback loop. This study suggests that laccase activity is negatively influenced by GSH metabolism and provides a theoretical basis for a novel strategy to enhance laccase activity by reprogramming glutathione metabolism at a specific cultivation stage.
Keyword ：
Cerrena unicolor Cerrena unicolor glutathione metabolism glutathione metabolism laccase activity laccase activity metabolome metabolome transcriptome transcriptome
Cite：
Copy from the list or Export to your reference management。
| GB/T 7714 | Zhang, Long-Bin , Qiu, Ting-Ting , Qiu, Xiu-Gen et al. Transcriptomic and metabolomic analysis unveils a negative effect of glutathione metabolism on laccase activity in Cerrena unicolor 87613 [J]. | MICROBIOLOGY SPECTRUM , 2024 , 12 (2) . |
| MLA | Zhang, Long-Bin et al. "Transcriptomic and metabolomic analysis unveils a negative effect of glutathione metabolism on laccase activity in Cerrena unicolor 87613" . | MICROBIOLOGY SPECTRUM 12 . 2 (2024) . |
| APA | Zhang, Long-Bin , Qiu, Ting-Ting , Qiu, Xiu-Gen , Yang, Wu-Wei-Jie , Ye, Xiu-Yun , Meng, Chun . Transcriptomic and metabolomic analysis unveils a negative effect of glutathione metabolism on laccase activity in Cerrena unicolor 87613 . | MICROBIOLOGY SPECTRUM , 2024 , 12 (2) . |
| Export to | NoteExpress RIS BibTex |
Version ：
Abstract ：
The medium-temperature alpha-amylase of Bacillus amyloliquefaciens is widely used in the food and washing process. Enhancing the thermostability of alpha-amylases and investigating the mechanism of stability are important for enzyme industry development. The optimal temperature and pH of the wild-type BAA and mutant MuBAA (D28E/V118A/S187D/K370 N) were all 60 degrees C and 6.0, respectively. The mutant MuBAA showed better thermostability at 50 degrees C and 60 degrees C, with a specific activity of 206.61 U/mg, which was 99.1% greater than that of the wild-type. By analyzing predicted structures, the improving thermostability of the mutant MuBAA was mainly related to enhanced stabilization of a loop region in domain B via more calcium-binding sites and intramolecular interactions around Asp187. Furthermore, additional intramolecular interactions around sites 28 and 370 in domain A were also beneficial for improving thermostability. Additionally, the decrease of steric hindrance at the active cavity increased the specific activity of the mutant MuBAA. Improving the thermostability of BAA has theoretical refer-ence values for the modification of alpha-amylases. (c) 2023 Elsevier Inc. All rights reserved.
Keyword ：
Alpha-amylase Alpha-amylase Bacillus amyloliquefaciens Bacillus amyloliquefaciens Thermostability Thermostability Three-dimensional model Three-dimensional model
Cite：
Copy from the list or Export to your reference management。
| GB/T 7714 | Yuan, Susu , Yan, Renxiang , Lin, Biyu et al. Improving thermostability of Bacillus amyloliquefaciens alpha-amylase by multipoint mutations [J]. | BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS , 2023 , 653 : 69-75 . |
| MLA | Yuan, Susu et al. "Improving thermostability of Bacillus amyloliquefaciens alpha-amylase by multipoint mutations" . | BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS 653 (2023) : 69-75 . |
| APA | Yuan, Susu , Yan, Renxiang , Lin, Biyu , Li, Renkuan , Ye, Xiuyun . Improving thermostability of Bacillus amyloliquefaciens alpha-amylase by multipoint mutations . | BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS , 2023 , 653 , 69-75 . |
| Export to | NoteExpress RIS BibTex |
Version ：
Abstract ：
Phenolic compounds are widely distributed in nature and industrial environment, and their detoxifi-cation or bioactive enhancement is of great value to environmental protection and industrial develop-ment. Laccases are multicopper oxidases that catalyse the oligo-or polymerisation of phenolic compounds. Identifying new laccase producers and investigating their application potential are of great importance. In this study, a white-rot fungus, Trametes hirsuta EZ1, with significantly high laccase pro-ductivity was isolated. The optimum conditions were studied for the maximum fermentation of extra-cellular laccase, which was achieved at 150 U/mL with a medium containing 10% strain EZ1, 7% maltodextrin, 1.5% peptone, and 0.5 mM Cu2+, and incubation at initial pH 6.0, 32 degrees C, and 180 rpm for nine days. Subsequently, a 70-kDa laccase was purified that showed activity over a wide range of tem-perature and pH, sensitivity to many metal ions and sodium dodecyl sulphate, and high tolerance to organic solvents. Purified laccase showed a significant unreported effect by catalysing catechol or ferulic acid into dimers, trimers, and tetramers or caffeic acid into dimers, trimers, tetramers, and pentamers. The oligomeric mixtures exhibited increased antioxidative capacity compared to that of each parent monomer, except for caffeic acid derivatives. Our study offers a novel strain source for laccase production and broadens its application in the enhancement of bioactive compounds.(c) 2022 British Mycological Society. Published by Elsevier Ltd. All rights reserved.
Keyword ：
Caffeic acid Caffeic acid Catechol Catechol Ferulic acid Ferulic acid Laccase Laccase Oligomerisation Oligomerisation Trametes hirsuta Trametes hirsuta
Cite：
Copy from the list or Export to your reference management。
| GB/T 7714 | Zhang, Long-Bin , Deng, Zhi-Qiang , Qiu, Ting-Ting et al. Characterisation of a laccase isolated from Trametes hirsuta and its application in the oligomerisation of phenolic compounds [J]. | FUNGAL BIOLOGY , 2023 , 127 (1-2) : 872-880 . |
| MLA | Zhang, Long-Bin et al. "Characterisation of a laccase isolated from Trametes hirsuta and its application in the oligomerisation of phenolic compounds" . | FUNGAL BIOLOGY 127 . 1-2 (2023) : 872-880 . |
| APA | Zhang, Long-Bin , Deng, Zhi-Qiang , Qiu, Ting-Ting , Yang, Wu-Wei-Jie , Zhu, Fan , Ye, Xiu-Yun . Characterisation of a laccase isolated from Trametes hirsuta and its application in the oligomerisation of phenolic compounds . | FUNGAL BIOLOGY , 2023 , 127 (1-2) , 872-880 . |
| Export to | NoteExpress RIS BibTex |
Version ：
Abstract ：
Bacillus amyloliquefaciens alpha-amylase (BAA) is one of well-known midrange thermostability amylases that are widely used in food and washing processes. However, the improvement of its catalytic properties by molecular modification is still lagging. To improve the activity of alpha-amylase BAA, mutants BAA28 and BAA294 are constructed via error-prone PCR and purified by column chromatography in the present study. The catalytic efficiencies (K-cat/K-m) of BAA28 and BAA294 are 2.42 and 2.73 mL mg(-1) s(-1), which are 43% and 61% higher than that of the wild-type BAA, respectively. Their specific activities are also increased by 40% and 62%, respectively, with no apparent changes of optimum temperature and pH. Homology modeling and molecular docking analysis suggest that the reduced steric hindrance is an important factor that enhances catalytic efficiencies and specific activities of the variants. These results may deepen the understanding of the mechanisms underlying the effects of each mutation on the catalytic efficiency of BAA and facilitate the construction of potent BAA mutants.
Keyword ：
Bacillus amyloliquefaciens alpha-amylase Bacillus amyloliquefaciens alpha-amylase protein structure protein structure random mutation random mutation specific activity specific activity
Cite：
Copy from the list or Export to your reference management。
| GB/T 7714 | Yuan, Susu , Li, Renkuan , Lin, Biyu et al. Engineering of Bacillus amyloliquefaciens α-Amylase for Improved Catalytic Efficiency by Error-Prone PCR [J]. | STARCH-STARKE , 2023 , 75 (11-12) . |
| MLA | Yuan, Susu et al. "Engineering of Bacillus amyloliquefaciens α-Amylase for Improved Catalytic Efficiency by Error-Prone PCR" . | STARCH-STARKE 75 . 11-12 (2023) . |
| APA | Yuan, Susu , Li, Renkuan , Lin, Biyu , Yan, Renxiang , Ye, Xiuyun . Engineering of Bacillus amyloliquefaciens α-Amylase for Improved Catalytic Efficiency by Error-Prone PCR . | STARCH-STARKE , 2023 , 75 (11-12) . |
| Export to | NoteExpress RIS BibTex |
Version ：
Abstract ：
Firstly, whey protein isolate (WPI) was hydrolyzed by trypsin at constant conditions (i.e., pH 8.5, 37 "C, enzyme/substrate ratio: 0.5%, 5 h) to prepare whey protein hydrolysates (WPH). Secondly, this study evaluated the influence of milieu conditions on emulsifying properties of WPH. Namely, pH values (3-7) and ionic strength (0.1 mol/L and 1 mol/L) by means of the addition with different salts (NaCl, KCl, CaCl2, MgCl2) were combined with heat treatment of WPH prior emulsification. For emulsion characterization, particle size distributions were measured by laser diffraction, emulsion stability was evaluated by STEP technique, and mass spectrometry was used to identify individual precipitated peptides due to heat treatment or the changes of milieu conditions. It was found that the charge-shielding effect caused by the increase in ionic strength at pH3 led to significant emulsion flocculation, while the effect of ionic strength on the emulsification characteristics of WPH at pH7 was insignificant. In addition, at the isoelectric point of WPH (pH4), heat treatment significantly improved the emulsification characteristics of WPH, especially for the sample group with the addition of CaCl2. Combining the composition of the precipitated peptides at different environmental conditions and the corresponding emulsification characteristics, f(41-60), f(71-91), and f(78-101) released from !-Lg are believed to make an important contribution to the emulsification characteristics of WPH. © 2023 Chinese Institute of Food Science and Technology. All rights reserved.
Keyword ：
emulsifying properties emulsifying properties heat treatment heat treatment pH values pH values salt ions salt ions whey protein hydrolysate whey protein hydrolysate
Cite：
Copy from the list or Export to your reference management。
| GB/T 7714 | Huang, W. , Mao, Y. , Cai, Z. et al. The Changes and Mechanism of the Emulsifying Properties of Whey Protein Hydrolysates at Various Conditions; [不同条件下乳清蛋白水解物乳化性的变化及机理分析] [J]. | Journal of Chinese Institute of Food Science and Technology , 2023 , 23 (3) : 99-110 . |
| MLA | Huang, W. et al. "The Changes and Mechanism of the Emulsifying Properties of Whey Protein Hydrolysates at Various Conditions; [不同条件下乳清蛋白水解物乳化性的变化及机理分析]" . | Journal of Chinese Institute of Food Science and Technology 23 . 3 (2023) : 99-110 . |
| APA | Huang, W. , Mao, Y. , Cai, Z. , Chen, L. , Li, R. , Ye, X. . The Changes and Mechanism of the Emulsifying Properties of Whey Protein Hydrolysates at Various Conditions; [不同条件下乳清蛋白水解物乳化性的变化及机理分析] . | Journal of Chinese Institute of Food Science and Technology , 2023 , 23 (3) , 99-110 . |
| Export to | NoteExpress RIS BibTex |
Version ：
Abstract ：
This study sought to understand how the features of proteins impact the properties of nanoparticles assembled using the pH-shifting approach and the mechanism behind. Four legume protein isolates from faba bean, mung bean, soy, and pea were fractionated into natural aqueous-soluble (Sup) and aqueous-insoluble (Sed) fractions, which were proved to serve as shell and core, respectively, for the pH-driven-assembled nanoparticles. Using zein instead of Sed fractions as the core improved size uniformity, and particle size can be precisely controlled by adjusting core/shell ratios. Using the proteomic technique and silico characterization, the features of identified proteins indicated that hydrophobicity rather than molecular weight, surface charge, etc., mainly determined particle size. With molecular docking, structural analysis, and dissociation tests, the assembly of zein/Sup-based nanoparticles was dominantly driven by hydrophobic interactions. This study provides constructive information on the correlation between protein features and the properties of pH-driven-assembled nanoparticles, achieving a precise control of particle size.
Keyword ：
assembly mechanism assembly mechanism legume proteins legume proteins LFQ proteomics LFQ proteomics pH-shifting nanoparticulation pH-shifting nanoparticulation zein zein
Cite：
Copy from the list or Export to your reference management。
| GB/T 7714 | Mao, Yuhong , Huang, Wenting , Jia, Rongju et al. Correlation between Protein Features and the Properties of pH-Driven-Assembled Nanoparticles: Control of Particle Size [J]. | JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY , 2023 , 71 (14) : 5686-5699 . |
| MLA | Mao, Yuhong et al. "Correlation between Protein Features and the Properties of pH-Driven-Assembled Nanoparticles: Control of Particle Size" . | JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 71 . 14 (2023) : 5686-5699 . |
| APA | Mao, Yuhong , Huang, Wenting , Jia, Rongju , Bian, Yangyang , Pan, Min-Hsiung , Ye, Xiuyun . Correlation between Protein Features and the Properties of pH-Driven-Assembled Nanoparticles: Control of Particle Size . | JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY , 2023 , 71 (14) , 5686-5699 . |
| Export to | NoteExpress RIS BibTex |
Version ：
Abstract ：
在pH8.5、37℃、酶与底物质量比0.5％的条件下用胰蛋白酶水解乳清分离蛋白(WPI)5 h制备水解物(WPH).通过控制环境条件,即添加不同盐(NaCl、KCl、CaCl2、MgCl2),改变离子强度(0.1 mol/L和1 mol/L),pH值(3～7)以及热处理来调控O/W界面处肽的组成.采用质谱法鉴定肽的组成,激光衍射法测量乳液的粒度分布及STEP技术测定乳液的稳定性,从而评估界面处肽的组成特性及相互作用对WPH乳化性的影响.结果表明,pH3时,因离子强度增大而引起的电荷屏蔽作用导致WPH乳液发生显著聚集,而pH7时离子强度对WPH乳化性的影响不显著,热处理则显著降低了其乳化性.此外,在WPH等电点(pH4)时,热处理显著提高了WPH的乳化性,尤其是添加CaCl2的样品组.综合不同pH条件下析出肽的组成及乳化性分析,研究发现来自β-Lg的肽段f(41～60)、f(71～91)、f(78～101)对WPH的乳化特性有重要贡献.
Keyword ：
pH值 pH值 乳化性 乳化性 乳清蛋白水解物 乳清蛋白水解物 热处理 热处理 盐离子 盐离子
Cite：
Copy from the list or Export to your reference management。
| GB/T 7714 | 黄雯婷 , 茅宇虹 , 蔡珍玲 et al. 不同条件下乳清蛋白水解物乳化性的变化及机理分析 [J]. | 中国食品学报 , 2023 , 23 (3) : 99-110 . |
| MLA | 黄雯婷 et al. "不同条件下乳清蛋白水解物乳化性的变化及机理分析" . | 中国食品学报 23 . 3 (2023) : 99-110 . |
| APA | 黄雯婷 , 茅宇虹 , 蔡珍玲 , 陈兰 , 李仁宽 , 叶秀云 . 不同条件下乳清蛋白水解物乳化性的变化及机理分析 . | 中国食品学报 , 2023 , 23 (3) , 99-110 . |
| Export to | NoteExpress RIS BibTex |
Version ：
Abstract ：
酶分子的生物学功能很大程度上是由其三维空间结构和所处溶剂环境共同决定的。因此，优化酶分子的结构性质以及探索其性质最优的溶剂环境是改善酶分子功能以及进行理性设计的一个可行途径。从实际应用的角度来看，分子设计方法可以为酶工程提供一种有效的解决方案。目前，酶分子设计有两个重要的研究方向，包括提高酶分子的催化活力和优化其稳定性。同时，对酶分子设计方法的研究也有助于对蛋白质生物学机理的探索。在近些年的学术界酶分子设计案例中，生物信息学方法得到广泛的应用。本文系统地总结基于生物信息学的酶分子设计方法的背景、策略和一些经典案例。
Keyword ：
酶分子设计 酶分子设计 酶功能分析 酶功能分析 酶性质优化 酶性质优化
Cite：
Copy from the list or Export to your reference management。
| GB/T 7714 | 苏绍玉 , 叶秀云 , 鄢仁祥 . 酶分子设计常用策略和进展 [J]. | 生物信息学 , 2023 , 21 (04) : 233-246 . |
| MLA | 苏绍玉 et al. "酶分子设计常用策略和进展" . | 生物信息学 21 . 04 (2023) : 233-246 . |
| APA | 苏绍玉 , 叶秀云 , 鄢仁祥 . 酶分子设计常用策略和进展 . | 生物信息学 , 2023 , 21 (04) , 233-246 . |
| Export to | NoteExpress RIS BibTex |
Version ：
Abstract ：
This study aimed to improve the stability and catalytic properties of Thermomyces lanuginosus lipase (TLL) adsorbed on a hydrophobic support. At the optimized conditions (pH 5 and 25 degrees C without any additions), the Sips isotherm model effectively fitted the equilibrium adsorption data, indicating a monolayer and the homogenous distribution of immobilized lipase molecules. To preserve the high specific activity of adsorbed lipase, the immobilized lipase (IL) with a moderate loading amount (approximately 40% surface coverage) was selected. Polyethylenimine (PEI) and chitosan (CS) were successfully applied as bridging units to in situ crosslink the immobilized lipase molecules in IL. At the low polymer concentration (0.5%, w/w) and with 1 h incubation, insignificant changes in average pore size were detected. Short-chain PEI and CS (MW <= 2 kDa) efficiently improved the lipase stability, i.e., the lipase loss decreased from 40% to <2%. Notably, CS performed much better than PEI in maintaining lipase activity. IL crosslinked with CS-2 kDa showed a two- to three-fold higher rate when hydrolyzing p-nitrophenyl butyrate and a two-fold increase in the catalytic efficiency in the esterification of hexanoic acid with butanol. These in situ crosslinking strategies offer good potential for modulating the catalytic properties of TLL for a specific reaction.
Keyword ：
anti-desorption anti-desorption chitosan chitosan esterification esterification hydrolytic activity hydrolytic activity polyethylenimine polyethylenimine
Cite：
Copy from the list or Export to your reference management。
| GB/T 7714 | Mao, Yuhong , Cai, Zhenling , Zhou, Chenxi et al. Characteristics of Crosslinking Polymers Play Major Roles in Improving the Stability and Catalytic Properties of Immobilized Thermomyces lanuginosus Lipase [J]. | INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES , 2022 , 23 (6) . |
| MLA | Mao, Yuhong et al. "Characteristics of Crosslinking Polymers Play Major Roles in Improving the Stability and Catalytic Properties of Immobilized Thermomyces lanuginosus Lipase" . | INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES 23 . 6 (2022) . |
| APA | Mao, Yuhong , Cai, Zhenling , Zhou, Chenxi , Lan, Hangzhen , Ye, Xiuyun . Characteristics of Crosslinking Polymers Play Major Roles in Improving the Stability and Catalytic Properties of Immobilized Thermomyces lanuginosus Lipase . | INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES , 2022 , 23 (6) . |
| Export to | NoteExpress RIS BibTex |
Version ：
Export
| Results： |
Selected to |
| Format： |
