在此,本研究介绍了PlantEMS(图1),这是一个免费的、无需注册的植物专用数据库(plantems.lin-group.cn/p),整合了表观遗传修饰位点的多组学数据,包括DNA、RNA和翻译后修饰(PTM)。作为植物表观遗传学领域的首个多组学数据库,PlantEMS收集了来自54种植物的57种化学修饰,涵盖基因组学、转录组学和蛋白质组学,总共...
All data are available via ProteomeXchange with identifier PXD003634, but to provide easy access to our model plant and crop data sets, we created an online database, Plant PTM Viewer ( bioinformatics.psb.ugent.be/webtools/ptm_viewer/ ), where all phosphosites identified in our study can ...
The annotation also includes proteomics data such as PTM and protein identification MS experimental results. UniProtKB and the other products of the UniProt consortium are accessible online at www.uniprot.org. 展开 关键词: Database UniProt Manual annotation Plant Proteomics PTM ...
These Abs carry a unique but crucial post-translational modification (PTM), namely O-sulfated tyrosine in the heavy chain complementarity determining region (CDR) H3 loop. Several studies have demonstrated that plants are suitable hosts for the generation of highly active anti-HIV-1 antibodies with...
Protein ubiquitination is the third, most abundant PTM process, and like other PTMs, is reversible. The primary function of this mechanism is the creation of a covalent bond between the C-terminal of the ubiquitin molecule and the N-terminal of the target protein. After this event, ubiquitinat...
‘full_dbs’ to include the full bfd database for multi-sequence alignment search for all predictions. For the flagellin monomer, ‘monomer_ptm’ was specified for the ‘--model_preset’ flag to obtain the pTM confidence measure. Monomer pTM score was extracted from the.pkl output file ...
Posttranslational modification (PTM) analysis Further data analysis of the MetO-containing peptides was performed with an in-house R script, using the Oxidation (M) sites output table from MaxQuant. Reverse database hits were removed the site table was expanded, the intensity values were log2 ...
length of the predicted putative TM domains; GRAVY, hydrophobicity value; pI, theoretical pI; MW, theoretical molecular weight; Loc., protein location (according to literature or UniProtKB database information); CW, cell wall; GA, Golgi apparatus; Mb., membrane; PTM, post-translational modificatio...
In rice, all except OsMKK10–1 and OsMKK10–3 are expressed in four reproductive stages from the microarray data (Additional file 19). Moreover, all maize and poplar MKK genes are expressed in different tissues (Additional file 19). However, the transcriptional levels in PtMKKs have a grea...
Post-translational modification (PTM) enables a quick regulation of protein function in response to metabolic and environmental changes. Therefore, it is a ubiquitous mechanism for protein activity modification. There are many identified types of PTM in chloroplasts including phosphorylation, lysine acetylat...