期刊文献+
共找到516篇文章
< 1 2 26 >
每页显示 20 50 100
Thymus serpyllum L.Essential Oil:Phytochemistry and in Vitro and in Silico Screening of Its Antimicrobial,Antioxidant and Anti-Inflammatory Properties
1
作者 Samiah Hamad Al-Mijalli Hanae Naceiri Mrabti +9 位作者 Amine Elbouzidi Naglaa S.Ashmawy Amine Batbat Emad M.Abdallah Wafa Laaboudi Mohammed Aladhadh Fahad M.Alshabrmi Sulaiman Mohammed Alnasser Mohamed Addi Naoufal El Hachlafi 《Phyton-International Journal of Experimental Botany》 2025年第1期209-227,共19页
Thymus serpyllum L.,often known as wild thyme,has been used since ancient times due to its multifaceted culinary and medicinal attributes.It is usually utilized in folk medicine to manage different health issues.This ... Thymus serpyllum L.,often known as wild thyme,has been used since ancient times due to its multifaceted culinary and medicinal attributes.It is usually utilized in folk medicine to manage different health issues.This work aimed to investigate the chemical composition and biological characteristics of T.serpyllum essential oil(EO),including its antimicrobial,antioxidant,and anti-inflammatory capabilities.Moreover,we have prompted an in-silico simulation to reveal the underlying mode of action of these properties.The chemical characterization of T.serpyllum(EO)by Gas Chromatography-Mass Spectrometry(GC-MS)indicated sabinene(17.33%),terpinen-4-ol(11.73%),phellandral(13.18%),and thymol(10.54%)as main components.The antimicrobial screening utilized the disc-diffusion technique,MIC,and MBC assays.The disc-diffusion test’s results revealed significant anti-Candida activity and notable antibacterial efficacy.The MIC and MBC tests showed that T.serpyllum EO effectively stops bacterial growth,including Gram-positive and Gram-negative strains and Candida strains.The tolerance level ratio demonstrated that this EO exhibits bactericidal and fungicidal effects on all tested bacteria and Candida strains.Also,T.serpyllum EO presented effective inhibitory activity against the 5-lipoxygenase(5-LOX)enzyme(IC50=744.19±0.1µg/mL)(p<0.05).It also effectively affected FRAP,β-carotene,DPPH,and ABTS radicals.In light of these findings,T.serpyllum holds promise for diverse applications across pharmaceuticals,nutraceuticals,and the food industry.However,further research and collaboration between traditional knowledge and modern medicine are crucial to fully realizing its potential benefits in these fields. 展开更多
关键词 Thymus serpyllum GC-MS ANTIMICROBIAL oxidative stress ANTI-INFLAMMATORY in silico
下载PDF
质谱MRM方法开发--ABC外排蛋白指纹肽段的Insilico筛选研究
2
作者 彭洁 《中南药学》 CAS 2024年第9期2326-2331,共6页
目的基于质谱MRM方法开发,建立相关ABC外排蛋白P-gp、MRP1、BCRP指纹肽段的In silico筛选方法。方法运用生物信息学方法,使用Uniprot软件获取目标氨基酸序列,根据肽段选择规则进行筛选;使用Skyline软件预测肽段离子及MRM相关母离子和子... 目的基于质谱MRM方法开发,建立相关ABC外排蛋白P-gp、MRP1、BCRP指纹肽段的In silico筛选方法。方法运用生物信息学方法,使用Uniprot软件获取目标氨基酸序列,根据肽段选择规则进行筛选;使用Skyline软件预测肽段离子及MRM相关母离子和子离子的信息,并排除特定不确定或不稳定的氨基酸;最后采用Blast软件对候选指纹肽段进行独特性确认,最终需结合质谱检测的方法进行验证。结果成功运用生物信息学方法,选定代表各自目标蛋白的指纹肽段,结果为P-gp蛋白肽段,IATEAIENFR;MRP1蛋白肽段,EDAQVDLFR;BCRP蛋白肽段,SSLLDVLAAR。结论In silico联合质谱的MRM方法成功选定了ABC相关外排蛋白的指纹肽段,为具有肽段组成的各类蛋白类、多肽类物质检测奠定了基础。 展开更多
关键词 指纹肽段 Insilico MRM方法 ABC外排蛋白
下载PDF
Structural and Functional Annotation of Hypothetical Protein of Fusobacterium nucleatum Strain MJR7757B: An in Silico Approach
3
作者 Md. Isrfil Hossen Fouzia Mostafa +3 位作者 Nusrat Jahan Jannatul Ferdaus Amgad Albahi Sayed Mashequl Bari 《Computational Molecular Bioscience》 2024年第1期17-33,共17页
Fusobacterium nucleatum is an anaerobic, commensal, gram-negative oral bacterium that is carcinogenic and causes a wide range of human diseases. The present study focused on the analysis of the hypothetical protein, H... Fusobacterium nucleatum is an anaerobic, commensal, gram-negative oral bacterium that is carcinogenic and causes a wide range of human diseases. The present study focused on the analysis of the hypothetical protein, HMPREF3221_01179, derived from F. nucleatum strain MJR7757B, employing various computational methods to anticipate both its structure and functional characteristics. NCBI conserved domain analysis, NCBI BLASTp and MEGA Phylogenetic tree study characterize the target protein as an outer membrane efflux protein (ToIC family) which facilitate the bacterial transmembrane transport. With a molecular weight of 52120.02 Da, an isoelectric point (pI) of 8.33, and an instability index of 29.47, the protein is anticipated to exhibit good solubility in the extracellular space and crucial stability for pharmaceutical applications. The protein’s structure meets quality standards during the construction and refinement of its 3D model. The efflux inhibitor Arginine beta-naphthylamide exhibits a significant binding affinity (-7.1 kcal/mol) to the binding site of the target protein. The in-silico analysis improves the understanding of the protein and facilitates future investigations into therapeutic medication. 展开更多
关键词 Fusobacterium nucleatum In silico BACTERIA Hypothetical Protein Molecular Docking
下载PDF
In silico prospective analysis of the medicinal plants activity on the CagA oncoprotein from Helicobacter pylori
4
作者 Rafaela Viana Vieira Gabrielle Caroline Peiter +2 位作者 Fabrício Freire de Melo Ana Carla Zarpelon-Schutz Kádima Nayara Teixeira 《World Journal of Clinical Oncology》 2024年第5期653-663,共11页
BACKGROUND Colonization with Helicobacter pylori(H.pylori)has a strong correlation with gastric cancer,and the virulence factor CagA is implicated in carcinogenesis.Studies have been conducted using medicinal plants w... BACKGROUND Colonization with Helicobacter pylori(H.pylori)has a strong correlation with gastric cancer,and the virulence factor CagA is implicated in carcinogenesis.Studies have been conducted using medicinal plants with the aim of eliminating the pathogen;however,the possibility of blocking H.pylori-induced cell differentiation to prevent the onset and/or progression of tumors has not been addressed.This type of study is expensive and time-consuming,requiring in vitro and/or in vivo tests,which can be solved using bioinformatics.Therefore,prospective computational analyses were conducted to assess the feasibility of interaction between phenolic compounds from medicinal plants and the CagA oncoprotein.AIM To perform a computational prospecting of the interactions between phenolic compounds from medicinal plants and the CagA oncoprotein of H.pylori.METHODS In this in silico study,the structures of the phenolic compounds(ligands)kaempferol,myricetin,quercetin,ponciretin(flavonoids),and chlorogenic acid(phenolic acid)were selected from the PubChem database.These phenolic compounds were chosen based on previous studies that suggested medicinal plants as non-drug treatments to eliminate H.pylori infection.The three-dimensional structure model of the CagA oncoprotein of H.pylori(receptor)was obtained through molecular modeling using computational tools from the I-Tasser platform,employing the threading methodology.The primary sequence of CagA was sourced from GenBank(BAK52797.1).A screening was conducted to identify binding sites in the structure of the CagA oncoprotein that could potentially interact with the ligands,utilizing the GRaSP online platform.Both the ligands and receptor were prepared for molecular docking using AutoDock Tools 4(ADT)software,and the simulations were carried out using a combination of ADT and AutoDock Vina v.1.2.0 software.Two sets of simulations were performed:One involving the central region of CagA with phenolic compounds,and another involving the carboxy-terminus region of CagA with phenolic compounds.The receptor-ligand complexes were then analyzed using PyMol and BIOVIA Discovery Studio software.RESULTS The structure model obtained for the CagA oncoprotein exhibited high quality(C-score=0.09)and was validated using parameters from the MolProbity platform.The GRaSP online platform identified 24 residues(phenylalanine and leucine)as potential binding sites on the CagA oncoprotein.Molecular docking simulations were conducted with the three-dimensional model of the CagA oncoprotein.No complexes were observed in the simulations between the carboxy-terminus region of CagA and the phenolic compounds;however,all phenolic compounds interacted with the central region of the oncoprotein.Phenolic compounds and CagA exhibited significant affinity energy(-7.9 to-9.1 kcal/mol):CagA/kaempferol formed 28 chemical bonds,CagA/myricetin formed 18 chemical bonds,CagA/quercetin formed 16 chemical bonds,CagA/ponciretin formed 13 chemical bonds,and CagA/chlorogenic acid formed 17 chemical bonds.Although none of the phenolic compounds directly bound to the amino acid residues of the K-Xn-R-X-R membrane binding motif,all of them bound to residues,mostly positively or negatively charged,located near this region.CONCLUSION In silico,the tested phenolic compounds formed stable complexes with CagA.Therefore,they could be tested in vitro and/or in vivo to validate the findings,and to assess interference in CagA/cellular target interactions and in the oncogenic differentiation of gastric cells. 展开更多
关键词 CagA oncoprotein Phenolic compounds Helicobacter pylori In silico analyses Medicinal plants Prospective analysis
下载PDF
New 4-imino-4H-Chromeno[2,3-d]Pyrimidin-3(5H)-Amine: Synthesis, Cytotoxic Effects on Tumoral Cell Lines and in Silico ADMET Properties
5
作者 Marwa Dhiabi Sirine Karoui +7 位作者 Mehdi Fakhfakh Souhir Abid Emmanuelle Limanton Rémy Le Guével Thierry Charlier Ludovic Paquin Jean-Pierre Bazureau Houcine Ammar 《International Journal of Organic Chemistry》 2024年第3期107-122,共16页
The synthesis of new 4-imino-4H-chromeno[2,3-d]pyrimidin-3(5H)-amine in four steps including one step under microwave dielectric heating is reported. The structural identity of the synthesized compounds was establishe... The synthesis of new 4-imino-4H-chromeno[2,3-d]pyrimidin-3(5H)-amine in four steps including one step under microwave dielectric heating is reported. The structural identity of the synthesized compounds was established according to their spectroscopic analysis, such as FT-IR, NMR and mass spectroscopy. These new compounds were tested for their antiproliferative activities on seven representative human tumoral cell lines (Huh7 D12, Caco2, MDA-MB231, MDA-MB468, HCT116, PC3 and MCF7) and also on fibroblasts. Among them, only the compounds 6c showed micromolar cytotoxic activity on tumor cell lines (1.8 50 50 > 25 μM). Finally, in silico ADMET studies ware performed to investigate the possibility of using of the identified compound 6c as potential anti-tumor compound. 展开更多
关键词 2-Amino-4H-Chromene 4H-Chromeno[2 3-d]Pyrimidin-3(5H)-Amine Microwave Irradiation Tumoral Cell Line in silico ADMET
下载PDF
New Insights in the Biodegradability and the Ecotoxicological Effects of Solar Products Containing Mineral and Chemical UV-Filters on Marine Zoo- and Phytoplanktons: An in silico and in vitro Study
6
作者 Jean-Claude Hubaud Karim Mekideche +1 位作者 Jean-Eric Branka Luc Lefeuvre 《Journal of Cosmetics, Dermatological Sciences and Applications》 2024年第1期98-111,共14页
Background: Cosmetic formulations, and particularly solar products which contain mineral and chemical UV-filters, are often suspected of causing harmful effects on marine fauna and flora. After the publication of our ... Background: Cosmetic formulations, and particularly solar products which contain mineral and chemical UV-filters, are often suspected of causing harmful effects on marine fauna and flora. After the publication of our work in 2019 concerning the ecotoxicological effects of such formulations on corals (Seriatopora hystrix), we here provide some new information about the biodegradability and the ecotoxicological effects of these products on marine zoo- and phytoplankton. Therefore, we choose to realize in silico and in vitro studies of the biodegradability of several solar products but also to evaluate the ecotoxicological effects of these products on one phytoplankton, i.e. Phaeodactylum tricornutum, and one zooplankton, i.e. Acartia tonsa, of a great importance for sea species survival (notably as sources of food). Materials and methods: Two different approaches were used to study the biodegradability of the tested products: One in silico method and an in vitro one. 2 solar products were involved in the in silico study which consisted in the determination of the degradation factor (DF) of each ingredient of the tested formulas in order to finally obtain their estimated biodegradability percentage. Already available data concerning each ingredient coupled to a computer model developed with one of our partners were used to achieve this study. The in vitro study involved 8 formulas containing UV-filters and was led by following the OECD 301 F guidelines. Ecotoxicological studies of 7 of the formulas containing UV-filters were for their part realized by following the ISO 10253 guidelines for the experiments led with Phaeodactylum tricornutum, and the ISO 14669 guidelines for the experiments led with Acartia tonsa. In these studies, the effect of each tested product on crustaceans’ mortality and algal growth inhibition was assessed. Results: The in silico study predicted that formulas containing chemical UV-filters display a high biodegradability (superior to the threshold value of 60% given by the OECD 301 F guidelines). In the in vitro part of our work, the 8 tested formulas showed a biodegradability slightly inferior to the one predicted in the in silico experiments. Therefore, in order to evaluate if these calculated biodegradability value could have significant harmful effects on zoo- or phytoplankton, we studied the effect of our products regarding the growth inhibition on Phaeodactylum tricornutum and the mortality on Acartia tonsa. In this last part of the study, all the tested products were classified as “non ecotoxic” following an internal classification based on Part 4 entitled “Environmental Hazards” of Globally Harmonized System of Classification and Labelling of Chemicals (GHS), 9<sup>th</sup> edition (2021). Conclusions: These results are notably in line with those published by our teams in 2019 on the effects of solar cosmetic products on corals and seem to confirm that formulas containing mineral and chemical UV-filters can be daily used without displaying significant noxious effects on marine fauna and flora. . 展开更多
关键词 UV-Filters Chemical UV-Filter BIODEGRADABILITY ECOTOXICOLOGY in silico in vitro ZOOPLANKTON Phytoplankton Phaeodactylum tricornutum Acartia tonsa
下载PDF
甜杨抗冻转录因子ICE1基因的in silico克隆及其分析 被引量:38
7
作者 林元震 张志毅 +3 位作者 刘纯鑫 郭海 朱保庆 陈晓阳 《分子植物育种》 CAS CSCD 2007年第3期424-430,共7页
ICE1基因编码类似MYC的bHLH转录因子,可特异地结合到CBF3启动子的MYC作用元件并诱导CBF/DREB1下游基因的转录表达。本文采用电子克隆的方法,以拟南芥ICE1蛋白序列为信息探针,利用杨树EST数据库和毛果杨基因组序列拼接的结果,设计引物并... ICE1基因编码类似MYC的bHLH转录因子,可特异地结合到CBF3启动子的MYC作用元件并诱导CBF/DREB1下游基因的转录表达。本文采用电子克隆的方法,以拟南芥ICE1蛋白序列为信息探针,利用杨树EST数据库和毛果杨基因组序列拼接的结果,设计引物并通过RT-PCR从甜杨克隆了杨树的第一个ICE1基因。其cDNA长1706bp,含有完整的开放阅读框,可编码543个氨基酸的MYC类蛋白。编码蛋白序列含有bHLH区,核定位信号(NLS)区,富S区和转膜区各1个。Blast分析表明,cDNA序列及其推导的氨基酸序列均与拟南芥和芥菜的ICE1存在着较高的同源性,说明所获得的cDNA可能是甜杨ICE1基因(PsICE1,DQ481236)。通过网络服务器平台进行PsICE1的功能预测,结果显示PsICE1含有bHLH保守功能域,具有多个磷酸化位点和跨膜区域。另外,ICE1的电子表达谱分析结果发现,ICE1几乎可在植物中整株表达,在多种组织和不同发育过程均表达,这也在一定程度上说明了ICE1是组成型表达,以及ICE1可能在植物的生长发育中也起着重要作用。 展开更多
关键词 PsICE1 in silico克隆 甜杨 转录因子 抗冻性
下载PDF
RT-PCR克隆籼稻叶绿素a/b结合蛋白基因全长cDNA及序列的in silico分析 被引量:5
8
作者 袁定阳 余东 +4 位作者 谭炎宁 孙志忠 韶也 孙学武 段美娟 《基因组学与应用生物学》 CAS CSCD 北大核心 2012年第2期173-177,共5页
根据日本晴cab4基因序列(GenBank:AK104499.1)设计引物,用RT-PCR的方法从籼稻9311中克隆了叶绿素a/b结合蛋白基因的全长cDNA,命名为cab-9311(cab gene from 9311)。insilico分析表明:cab-9311与cab4基因同源性为99%,编码的蛋白含有244... 根据日本晴cab4基因序列(GenBank:AK104499.1)设计引物,用RT-PCR的方法从籼稻9311中克隆了叶绿素a/b结合蛋白基因的全长cDNA,命名为cab-9311(cab gene from 9311)。insilico分析表明:cab-9311与cab4基因同源性为99%,编码的蛋白含有244个氨基酸,与cab4基因编码的蛋白同源性为98%。蛋白分子质量为26.9kD,理论等电点为6.52。第54位~第216位氨基酸是一个典型的叶绿素a/b结合蛋白功能域(chlorophyll a/bbinding domain)。跨膜分析和蛋白质三级预测显示,该蛋白在C端有一个典型的跨膜区。亚细胞定位分析表明该蛋白定位于叶绿体,是一个叶绿体内囊体膜上的锚定蛋白。 展开更多
关键词 水稻 叶绿素a/b结合蛋白基因 克隆 in silico分析
下载PDF
十字花科黑腐病菌中GGDEF结构域蛋白差异的insilico分析 被引量:1
9
作者 张穗生 姜伟 玉延华 《基因组学与应用生物学》 CAS CSCD 北大核心 2011年第6期722-727,共6页
近年来,含有GGDEF结构域(含有甘氨酸(G)(2个),天冬氨酸(D),谷氨酸(E),苯丙氨酸(F)保守氨基酸)的蛋白受到重视,已证实含GGDEF结构域蛋白在细胞信号转导、生长和致病性等方面发挥了重要作用。十字花科黑腐菌8004菌株(Xanthomonas campestr... 近年来,含有GGDEF结构域(含有甘氨酸(G)(2个),天冬氨酸(D),谷氨酸(E),苯丙氨酸(F)保守氨基酸)的蛋白受到重视,已证实含GGDEF结构域蛋白在细胞信号转导、生长和致病性等方面发挥了重要作用。十字花科黑腐菌8004菌株(Xanthomonas campestrispv.campestris str.8004,Xcc 8004)有32个基因编码含GGDEF结构域蛋白,实验证明其中部分蛋白与Xcc致病性、胞外酶产生、生物膜形成和泳动等生命活动相关。本文利用互联网提供的生物信息学资源,对Xcc8004不同功能含GGDEF结构域蛋白进行生物信息学分析,着重分析其结构域架构。对蛋白结构域架构整体比较显示,这些蛋白的整体结构域架构具有多样性,共有结构域架构仅有PAS_4-GGDEF-EAL(分布于参与致病的蛋白中);对结构域架构局部比较显示,在参与致病性的含GGDEF结构域蛋白中,PAS_4-GGDEF和GGDEF-EAL为共有结构域架构;在参与内切葡聚糖酶产生的蛋白中,PAS_4-PAS_4、PAS_4-GGDEF和GGDEF-EAL为共有结构域架构。本研究结果将为蛋白质功能预测提供线索。 展开更多
关键词 十字花科黑腐菌 GGDEF 结构域架构 in silico分析
下载PDF
一个新的葡萄抗逆转录因子VvERF2基因的In silico克隆及生物信息学分析
10
作者 刘红锦 高峰 +5 位作者 熊爱生 彭日荷 李贤 蔡斌 薛永 付晓燕 《上海农业学报》 CSCD 2008年第3期10-15,共6页
ERF是植物所特有的一类重要的转录因子,广泛参与植物生长、发育以及多种生理生化反应的信号传导。本研究利用In silico克隆方法获得葡萄VvERF2基因,并利用生物信息学方法对该基因编码产物从氨基酸组成、理化性质、进化关系、二级及三级... ERF是植物所特有的一类重要的转录因子,广泛参与植物生长、发育以及多种生理生化反应的信号传导。本研究利用In silico克隆方法获得葡萄VvERF2基因,并利用生物信息学方法对该基因编码产物从氨基酸组成、理化性质、进化关系、二级及三级结构、功能等方面进行预测和分析。结果表明,VvERF2为亲水性蛋白,与其他物种的ERF在序列组成、结构及活性位点等方面均具有高度的一致性。 展开更多
关键词 ERF In silico克隆 葡萄 转录因子 生物信息学
下载PDF
基于in silico技术探究益母草在化妆品中的应用前景
11
作者 刘丽 尹雅婷 +3 位作者 程康 李惠 吕智 易帆 《日用化学工业(中英文)》 CAS 北大核心 2023年第6期686-697,共12页
益母草具有行血养血,活血化瘀的作用,临床应用广泛,常用来主治妇科疾病,近年来益母草的美容应用逐渐受到关注。本研究利用in silico技术平台,通过文献计量学对益母草的研究现状和未来的发展态势进行了预测,同时结合网络药理学对益母草... 益母草具有行血养血,活血化瘀的作用,临床应用广泛,常用来主治妇科疾病,近年来益母草的美容应用逐渐受到关注。本研究利用in silico技术平台,通过文献计量学对益母草的研究现状和未来的发展态势进行了预测,同时结合网络药理学对益母草皮肤美容的功效及物质基础进行预测,结果表明益母草的活性成分萜类化合物及益母草碱可通过NADPH、PDPK1、MAOB、VEGF2、SIRT2等靶点有效促进血液流动,改善皮肤微循环,调节激素代谢,降低炎症反应,抵御氧化应激,具有延缓皮肤老化,滋养皮肤的功效。本研究为益母草作为化妆品植物功效原料的物质基础及功效机理提供了理论基础,同时证明了益母草作为化妆品功效原料的独特性,具备良好的发展前景。 展开更多
关键词 益母草 化妆品 皮肤美容 in silico技术 文献计量 网络药理学
下载PDF
花生转录因子WRI1基因特征的in silico分析 被引量:4
12
作者 鲁亚萍 刘风珍 万勇善 《分子植物育种》 CAS CSCD 北大核心 2012年第3期363-370,共8页
本研究利用电子克隆的方法获得花生转录因子WRI1的cDNA序列(AhWRI1),采用生物信息学方法,预测和分析AhW RI1的序列特点、编码蛋白AhW RI1的特性以及与其他植物氨基酸序列的相似性。结果表明:AhW RI1含一个长度为780bp的完整开放阅读框架... 本研究利用电子克隆的方法获得花生转录因子WRI1的cDNA序列(AhWRI1),采用生物信息学方法,预测和分析AhW RI1的序列特点、编码蛋白AhW RI1的特性以及与其他植物氨基酸序列的相似性。结果表明:AhW RI1含一个长度为780bp的完整开放阅读框架,编码259个氨基酸。编码蛋白AhWRI1包含2个典型的AP2功能域,是亲水性蛋白,在蛋白质的三级结构上与拟南芥和油菜的WRI1相似。AhW RI1与拟南芥、油菜WRI1氨基酸保守序列同源性在81.87%~100%之间。AhW RI1无序化程度为71.8%,比拟南芥低3.8%,比油菜高2.5%。亚细胞定位显示AhW RI1在细胞核内,并预测该蛋白具有转录复制,调控及转录与结合的可能性分别为0.244、0.226和0.152。研究结果为花生WRI1基因的分子克隆,功能鉴定提供理论基础。 展开更多
关键词 花生 转录因子 in silico分析
下载PDF
一个葡萄抗逆相关转录因子VvPF1基因的in silico克隆及生物信息学分析
13
作者 杨小兰 《安徽农学通报》 2007年第22期16-19,10,共5页
AP2/EREBP是植物所特有的一类转录因子,广泛参与植物生长、发育以及多种生理生化反应的信号传导。本文利用in silico克隆方法获得葡萄VvPF1基因,并利用生物信息学方法对该基因编码产物从氨基酸组成、理化性质、进化关系、二级及三级结... AP2/EREBP是植物所特有的一类转录因子,广泛参与植物生长、发育以及多种生理生化反应的信号传导。本文利用in silico克隆方法获得葡萄VvPF1基因,并利用生物信息学方法对该基因编码产物从氨基酸组成、理化性质、进化关系、二级及三级结构、功能等方面进行预测和分析。结果表明:VvPF1是一个含有明显AP2结构域,具有潜在核定位能力的ERF类转录因子。此外,VvPF1与CaPF1,JERF1等抗逆相关的转录因子具有较高的同源性,因此推测,VvPF1很可能参与葡萄对生物和非生物胁迫的信号传导。 展开更多
关键词 ERF in silico克隆 葡萄 转录因子 生物信息学
下载PDF
<i>In Silico</i>Analysis of a MRP Transporter Gene Reveals Its Possible Role in Anthocyanins or Flavonoids Transport in <i>Oryze sativa</i> 被引量:5
14
作者 Qin-Long Zhu Xian-Rong Xie +3 位作者 Jia Zhang Ge Xiang Yun Li Hai-Bing Wu 《American Journal of Plant Sciences》 2013年第3期555-560,共6页
There are many studies on enzymatic pathways of anthocyanin biosynthesis, but little is known about the anthocyanins transport in Oryze sativa. In silico analysis, the OsMRP15 (LOC_Os06g06440), an orthologous gene of ... There are many studies on enzymatic pathways of anthocyanin biosynthesis, but little is known about the anthocyanins transport in Oryze sativa. In silico analysis, the OsMRP15 (LOC_Os06g06440), an orthologous gene of mazie anthocyanin transporter ZmMRP3, has been identified in rice. The OsMRP15 contained a 4425bp open reading frame (ORF) encoding a 1475 amino acid protein, belonging to a MRP subfamily of ABC transporters, and has a high sequence identity, very similar protein structure, and the same arrangement of domains to ZmMRP3, but the genomic structure of OsMRP15 was significant difference with ZmMRP3. The prediction promoter of OsMRP15 has many presumed anthocyanin regulatory sites. The phylogenetic analysis of MRPs in rice, mazie and Arabidopsis showed that OsMRP15 and ZmMRP3 belonged to the same subbranch. The expression pattern indicated that OsMRP15 was co-expression with two anthocyanin transcription factors. These analysis results implied that as an ortholog of ZmMRP3, the function of OsMRP15 was possibly as a membrane-bound transporter required for vacuolar uptake of anthocyanins in rice. 展开更多
关键词 In silico Analysis OsMRP15 a MRP Transporter Anthocyanins or FLAVONOIDS TRANSPORT Oryze SATIVA
下载PDF
In Silico Cloning and Sequence Analysis of Phospholipase Dα Gene from Peach Fruit 被引量:2
15
作者 WAN Si-bao ZHANG Bin +2 位作者 ZHAN Ji-cheng CHEN Jian-ye YIN Jing-yuan 《Agricultural Sciences in China》 CAS CSCD 2009年第11期1293-1300,共8页
Phospholipase D (PLD, EC 3.1.4.4) plays an important role in adaptive response of postharvest fruit to environment. In this study, a novel cDNA of PLDα was isolated with the strategy of in silico cloning in combina... Phospholipase D (PLD, EC 3.1.4.4) plays an important role in adaptive response of postharvest fruit to environment. In this study, a novel cDNA of PLDα was isolated with the strategy of in silico cloning in combination with RT-PCR from peach (Prunus persica L. cv. Jiubao). The obtained PLDα gene contained a complete open reading frame encoding a 92- kDa protein of 810 amino acid residues, which possessed the characteristic C2 domain and two catalytic HKD motifs. The alignment analysis of the deduced peach PLDa protein with other known PLDα family proteins indicated that peach PLDα was conserved and highly homologous with strawberry PLDα. Semi-quantitative RT-PCR and Northern blot analysis indicated PLDα mRNA in peach fruits could be induced by low temperature. This work provided a scientific basis for further investigating the mechanism of postharvest fruit adaptation to low temperature. 展开更多
关键词 PEACH phospholipase in silico cloning RT-PCR Northern blot
下载PDF
<i>In</i><i>Silico</i>Mining of EST-SSRs in Jatropha curcas L. towards Assessing Genetic Polymorphism and Marker Development for Selection of High Oil Yielding Clones 被引量:2
16
作者 Neeraj Jain Ganesh B. Patil +1 位作者 Poonam Bhargava Rajani S. Nadgauda 《American Journal of Plant Sciences》 2014年第11期1521-1541,共21页
In recent years, Jatropha curcas L. has gained popularity as a potential biodiesel plant. The varying oil content, reported between accessions belonging to different agroclimatic zones, has necessitated the assessment... In recent years, Jatropha curcas L. has gained popularity as a potential biodiesel plant. The varying oil content, reported between accessions belonging to different agroclimatic zones, has necessitated the assessment of the existing genetic variability to generate reliable molecular markers for selection of high oil yielding variety. EST derived SSR markers are more useful than genomic markers as they represent the transcriptome, thus, directly linked to functional genes. The present report describes the in silico mining of the microsatellites (SSRs) using J. curcas ESTs from various tissues viz. embryo, root, leaf and seed available in the public domain of NCBI. A total of 13,513 ESTs were downloaded. From these ESTs, 7552 unigenes were obtained and 395 SSRs were generated from 377 SSR-ESTs. These EST-SSRs can be used as potential microsatellite markers for diversity analysis, MAS etc. Since the Jatropha genes carrying SSRs have been identified in this study, thus, EST-SSRs directly linked to genes will be useful for developing trait linked markers. 展开更多
关键词 BIO-DIESEL JATROPHA curcas L. EST SSR MAS Diversity Marker MINING Polymorphism In silico
下载PDF
In silico studies of magnesium-based implants: A review of the current stage and challenges 被引量:1
17
作者 Tamadur Albaraghtheh Regine Willumeit-Römer Berit Zeller-Plumhoff 《Journal of Magnesium and Alloys》 SCIE EI CAS CSCD 2022年第11期2968-2996,共29页
In silico methods to study biodegradable implants have recently received increasing attention due to their potential in reducing experimental time and cost. An important application case for in silico methods are magn... In silico methods to study biodegradable implants have recently received increasing attention due to their potential in reducing experimental time and cost. An important application case for in silico methods are magnesium(Mg)-based biodegradable implants, as they represent a powerful alternative to traditional materials used for temporary orthopaedic applications. Controlling Mg alloy degradation is critical to designing an implant that supports the bone healing process. To simulate different aspects of this biodegradation process, several mathematical models have been proposed with the ultimate aim of replacing laboratory experiments with computational modeling. In this review, we provide a comprehensive and critical discussion of the published models and their performance with respect to capturing the complexity of the biodegradation process. This complexity is presented initially. Additionally, the present review discusses the different approaches of optimizing and quantifying the different sources of errors and uncertainties within the proposed models. 展开更多
关键词 Biodegradable implants Degradation In silico Phenomenological approach Physical approach Validation Verification Uncertainty quantification Mg
下载PDF
Electrochemical and in silico approaches for liver metabolic oxidation of antitumor-active triazoloacridinone C-1305 被引量:1
18
作者 Agnieszka Potega Dorota Zelaszczyk Zofia Mazerska 《Journal of Pharmaceutical Analysis》 SCIE CAS CSCD 2020年第4期376-384,共9页
5-Dimethylaminopropylamino-8-hydroxytriazoloacridinone(C-1305)is a promising antitumor compound developed in our laboratory.A better understanding of its metabolic transformations is still needed to explain the multid... 5-Dimethylaminopropylamino-8-hydroxytriazoloacridinone(C-1305)is a promising antitumor compound developed in our laboratory.A better understanding of its metabolic transformations is still needed to explain the multidirectional mechanism of pharmacological action of triazoloacridinone derivatives at all.Thus,the aim of the current work was to predict oxidative pathways of C-1305 that would reflect its phase I metabolism.The multi-tool analysis of C-1305 metabolism included electrochemical conversion and in silico sites of metabolism predictions in relation to liver microsomal model.In the framework of the first approach,an electrochemical cell was coupled on-line to an electrospray ionization mass spectrometer.The effluent of the electrochemical cell was also injected onto a liquid chromatography column for the separation of different products formed prior to mass spectrometry analysis.In silico studies were performed using MetaSite software.Standard microsomal incubation was employed as a reference procedure.We found that C-1305 underwent electrochemical oxidation primarily on the dialkylaminoalkylamino moiety.An unknown N-dealkylated and hydroxylated C-1305 products have been identified.The electrochemical system was also able to simulate oxygenation reactions.Similar pattern of C-1305 metabolism has been predicted using in silico approach.Both proposed strategies showed high agreement in relation to the generated metabolic products of C-1305.Thus,we conclude that they can be considered as simple alternatives to enzymatic assays,affording time and cost efficiency. 展开更多
关键词 Antitumor triazoloacridinone P450-catalyzed reactions Electrochemistry/mass spectrometry In silico metabolism Prediction Liver microsomal assay
下载PDF
<i>In Silico</i>Experiments of Carbon Dioxide Atmosphere and Buffer Type Effects on the Biomimetic Coating with Simulated Body Fluids 被引量:1
19
作者 Gustavo M. Platt Ivan N. Bastos +1 位作者 Monica C. Andrade Glória D. A. Soares 《Advances in Materials Physics and Chemistry》 2012年第4期239-248,共10页
The formation of calcium phosphate phases is extremely important in a biomedical engineering context. These phosphates are used in many applications, such as grafts, drug-delivery processes and evaluation of the bioac... The formation of calcium phosphate phases is extremely important in a biomedical engineering context. These phosphates are used in many applications, such as grafts, drug-delivery processes and evaluation of the bioactivity of metallic surfaces. Considering this scenario, it is useful to evaluate the thermodynamic conditions for the precipitation of phosphates of biomedical interest, mainly hydroxyapatite. In this work, we investigate the effects of two important factors using a thermodynamic framework: 1) carbon dioxide partial pressure;and 2) buffer type (2-Amino-2-hydroxy- methyl-propane-1,3-diol, known as TRIS and 2-[4-(2-hydroxyethyl)piperazin-1-yl] ethanesulfonic acid, also called HEPES), on the driving force behind the precipitation of calcium phosphates in simulated body fluids. The in silico results show that the pH value is governed by carbon dioxide content, as expected to occur in vivo. Moreover, the buffers can deplete the free calcium available in solution and, consequently, can cause difficulties in the calcium phosphate precipitation. 展开更多
关键词 Hydroxyapatite Thermodynamic Modelling Carbon Dioxide HEPES and TRIS BUFFERS In silico EXPERIMENTS
下载PDF
In silico prediction of phytoconstituents from Ehretia laevis targeting TNF-αin arthritis 被引量:2
20
作者 Subhash R.Yende Sapan K.Shah +2 位作者 Sumit K.Arora Keshav S.Moharir Govind K.Lohiya 《Digital Chinese Medicine》 2021年第3期180-190,共11页
Objective Rheumatoid arthritis(RA)is an autoimmune disease involving the synovial lining of the major joints.Current therapies have noteworthy side effects.Our study involved in silico evaluation of Ehretia laevis(E.l... Objective Rheumatoid arthritis(RA)is an autoimmune disease involving the synovial lining of the major joints.Current therapies have noteworthy side effects.Our study involved in silico evaluation of Ehretia laevis(E.laevis)phytoconstituents targeting tumor necrosis factor-α(TNF-α).Methods Molecular docking studies performed to investigate the binding pattern of the plant E.laevis phytoconstituents along with the crystal structure of TNF-α(PDB ID:2 AZ5)using AutoDock Vina followed by a study of interacting amino acid residues and their influence on the inhibitory potentials of the active constituents.Further the pharmacokinetic profile and toxicity screening carried out using Swiss ADME and pk CSM.Results The docked results suggest that lupeol(-9.4 kcal/mol)andα-amyrin(-9.4 kcal/mol)has best affinity towards TNF-αcompared to standard drug thalidomide(-7.4 kcal/mol).The active chemical constituents represents better interaction with the conserved catalytic residues,leading to the inhibition/blockade of the TNF-α-associated signaling pathway in RA.Furthermore,pharmacokinetics and toxicity parameters of these phytochemicals were within acceptable limits according to ADMET studies.Conclusion The binding potential of phytoconstituents targeting TNF-αshowed promising results.Nonetheless,it encourages the traditional use of E.laevis and provides vital information on drug development and clinical treatment. 展开更多
关键词 Rheumatoid arthritis Ehretia laevis In silico Molecular docking Pharmacokinetics Tumor necrosis factor-α(TNF-α) LUPEOL α-Amyrin
下载PDF
上一页 1 2 26 下一页 到第
使用帮助 返回顶部