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4D-Ubiquitination Proteomics Services

Protein ubiquitination is often accompanied by ubiquitin-proteasome degradation, leading to changes in protein stability. Protein ubiquitination also participated in various bioregulatory processes, such as proliferation, apoptosis, endocytosis, and immunity. Mechanistically, protein ubiquitination goes through the triple enzyme cascade (E1-E2-E3) reaction that allows single or multiple ubiquitin molecules to attach to amino acid (Lys) side chains and is often accompanied by proteasomal degradation, which regulates protein expression levels changes. The ubiquitination-modified lysine covalently links the ubiquitin molecule, i.e., two glycine K-ε-GG residues, resulting in a mass shift of 114.1 Da. Mass spectrometry can precisely determine the mass shift of 114.1 Da in molecular weight to detect the ubiquitination-modified peptides and sites.

UbiquitinationUbiquitination (Xu L,2012)

Our 4D-Ubiquitination Proteomics Services

Creative proteomics uses the 4D proteomics technology to provide you with protein ubiquitination services. 4D label-free ubiquitinated proteomics technology is based on a new generation of timsTOF Pro mass spectrometer to perform ubiquitination differential proteomics analysis. 4D- label label-free PTMs Omics can effectively distinguish modified isomeric peptides to significantly improve identification depth and achieve comprehensive improvement of proteomics in terms of coverage depth, sensitivity, and throughput with less loading volume and faster scanning speed.




Data Analysis

Standard Data Analysis Content
Mass spectrometry data analysisSpectral peptide quality deviation distribution, peptide length distribution, unique peptide number distribution, protein coverage distribution
Protein Expression AnalysisProtein abundance value distribution of PTMs, protein abundance ratio distribution of PTMs between samples, PCA analysis, statistical analysis of significant differences
Protein Functional AnalysisTotal protein and differential protein GO secondary classification, COG function classification, KEGG annotation, subcellular organelle location, domain annotation, signal peptide prediction and PPI prediction; differential protein GO, KEGG, domain enrichment analysis
Advanced Data Analysis Content
Protein Gene Chromosome LocalizationObtain genes encoding proteins distribution on chromosomes
WGCNA AnalysisPredict functional clustering and network interactions by protein expression level; correlate with phenotype data to obtain key proteins or protein complexes that influence phenotype
Trend Cluster AnalysisObtain protein expression trend patterns
Molecular TypingMolecular typing for large cohort samples
Survival Curve AnalysisStudy the relationship between influencing factors, survival time, and outcome
ROC CurvesEvaluate predictive accuracy by combining specificity and sensitivity, such as biomarker impact assessment on tumor grade

Technical Advantages

Sample Requirements

We can quickly extract proteins from various samples and design personalized experimental schemes according to specific experimental purposes based on our unique protein extraction technology. Specific requirements are as follows:

Sample TypeProtein# of CellsAnimal TissuePlant TissueBloodUrineSerumMicrobes
Quantify100 ug1×107 cells1 g200 mg1 mL2 mL0.2-0.5 mLDry weighed: 200 mg


Recommended Combination

Comprehensive protein expression levels analysis: transcriptomics + proteomics + ubiquitination.


  1. Genome-wide identification of U-box genes and protein ubiquitination under PEG-induced drought stress in potato. 2021. Physiologia Plantarum.
  2. Rewiring of the ubiquitinated proteome determines ageing in C. elegans. 2021. Nature.
  3. Xu L, Qu Z. Roles of protein ubiquitination and degradation kinetics in biological oscillations. PloS one, 2012, 7(4).
* For Research Use Only. Not for use in the treatment or diagnosis of disease.

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Specializing in proteomics, Creative Proteomics offers cutting-edge protein analysis services. Our distinctive approach revolves around harnessing the power of DIA technology, enabling us to deliver precise and comprehensive insights that drive advancements in research and industry.

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