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4D Protein Post-translational Modifications (PTMs) Proteomics Service

Common Protein Post-translational Modifications

Protein phosphorylation is one of the most important covalent modifications in living organisms and is by far the most distributed and widely studied modification, which occurs by transferring the phosphate group of ATP to the amino acid (Ser, Tyr, Thr) side chain of a protein, catalyzed by kinase.

In the process of protein acetylation, under the catalysis of acetyltransferase, acetyl groups (such as acetyl-CoA and other donors) are covalently bound to the lysine residues of the substrate protein. This modification mainly occurs in the ε-NH2 position of protein lysine residues, which will increase the molecular weight by 42.01Da. Mass spectrometry can accurately determine whether the molecular weight has a corresponding mass shift, realizing the analysis of acylated modified peptides and sites.

Protein ubiquitination occurs through a three-enzyme cascade (E1-E2-E3) reaction that allows single or multiple ubiquitin molecules to be attached to protein amino acid (Lys) side chains, and is often accompanied by proteasomal degradation that regulates changes in protein expression levels. The modified lysine is covalently linked to the ubiquitin molecule, that is, two glycine K-ε-GG residues, resulting in a mass shift of 114.1Da in molecular weight. Mass spectrometry can be used to accurately determine whether the molecular weight has a mass shift of 114.1 Da, so as to detect ubiquitinated modified peptides and sites.

Experimental Ideas for PTMs Proteomics

Experimental Ideas for PTMs Proteomics

Our 4D PTMs Services:

We use 4D proteomics technology to provide you with protein post-translational modification services.

The new generation of timsTOFPro mass spectrometer is used to provide 4D label-free PTMs services, which can effectively differentiate modified isomeric peptides for differential modified proteomics analysis. It greatly improves the depth of modification identification and achieves a comprehensive improvement of proteomics in terms of coverage depth, sensitivity and throughput with less loading volume and faster scanning speed.


PTMs Services

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 the distribution of genes encoding proteins 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 and survival time and outcome
ROC CurvesEvaluate predictive accuracy by combining specificity and sensitivity, such as biomarker impact assessment on tumor grade


4D phosphoproteomics

4D acetylation proteomics

4D ubiquitin proteomics

4D methylation proteomics

Sample Requirements:

  1. Co-IP Samples: Protein requirement is around 2-5ug.
  2. Tissue Samples:
  3. Tissue SamplesProtein# of CellsAnimal TissuePlant TissueBloodUrineSerumMicrobes
    Quantify100 ug1×107 cells>200 mg1 g1 mL2 mL0.2-0.5 mLDry weighed: 200 mg
  4. Protein Samples: Please make sure the total amount of protein is above 50ug; ordinary tissue and cell lysate can be used for protein extraction.
  5. Transportation: Please use sufficient amount of dry ice for transportation and try to use a fast postal delivery method to reduce the possibility of sample degradation during transportation.


In addition, we also provide 4D Label-Free Proteomics and 4D-DIA Quantitative Proteomics. Please contact us for more details.

* 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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