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    Post-Translational Modification Site Motif Analysis Service

      Post-Translational Modification Site Motif Analysis Service is designed to identify conserved sequence motifs surrounding post-translational modification (PTM) sites in proteins, thereby revealing the substrate recognition preferences, regulatory mechanisms and potential functional regions of the modifying enzymes. This service can help understand signal pathway regulation, modifying enzyme specificity, and predict new modification sites.

       

      post-translational-modification-site-motif-analysis-service1.jpg

      Li Y. et al. J Integr Bioinform. 2019.

       

      PTMs represent a core mechanism underlying the functional diversification of proteins. They play pivotal roles in regulating cellular signal transduction, metabolic pathways, transcriptional control, and disease progression. PTMs occur at specific amino acid residues, and the local sequence environment surrounding these modification sites often exhibits a certain degree of conservation and enzyme recognition preference. By systematically analyzing the sequence context around these sites, it is possible to identify characteristic motifs that reflect the substrate recognition mechanisms of modifying enzymes and allow for the prediction of novel PTM sites.

       

      Different types of PTMssuch as phosphorylation, acetylation, and ubiquitinationtypically correspond to distinct sequence motifs, revealing the substrate specificity of enzymes like kinases and acetyltransferases. PTM Site Motif Analysis utilizes statistically driven algorithms to analyze the upstream and downstream sequences of PTM sites identified via large-scale mass spectrometry, uncovering statistically enriched and frequently recurring sequence patterns.

       

      Leveraging high-confidence PTM identifications from mass spectrometry and advanced bioinformatics tools, MtoZ Biolabs provides Post-Translational Modification Site Motif Analysis Service to systematically explore conserved sequence motifs surrounding PTM sites, helping customers to deeply understand the PTM regulatory mechanism and expand biomarker research.

       

      Analysis Workflow

      1. Data Preparation

      Submit a high-confidence list of PTM sites identified by mass spectrometry, or opt for PTM site identification conducted by MtoZ Biolabs.

       

      2. Sequence Extraction

      Extract amino acid fragments centered on the modification sites from protein sequences, including upstream and downstream regions.

       

      3. Background Definition

      Set an appropriate background database, such as a reference protein dataset or non-modified site set, to serve as the statistical baseline.

       

      4. Motif Identification

      Apply bioinformatics tools to perform enrichment analysis and identify statistically significant motif patterns.

       

      5. Visualization Output

      Generate graphical motif logos to illustrate conserved features surrounding the modification sites.

       

      6. Functional Annotation and Prediction

      Interpret the biological significance of the motifs using existing motif databases and pathway information, and predict potential novel modification sites.

       

      Service Advantages

      1. Highly Integrated Mass Spectrometry and Bioinformatics Platform: Seamlessly integrates LC-MS/MS identification with motif analysis workflows to ensure consistency and enhance overall analytical efficiency.

      2. Flexible Compatibility with Diverse PTM Types: Supports a wide range of post-translational modifications including phosphorylation, acetylation, methylation, ubiquitination, and glycosylation.

      3. Advanced Statistical and Visualization Tools: Utilizes a combination of algorithms to improve the accuracy and interpretability of motif identification.

      4. Customized Analytical Support: Offers tailored options for background modeling, motif window length, and specific protein set analyses to meet diverse research goals.

      5. Ready for Downstream Applications: Identified motif data can be directly applied to predict enzyme-substrate relationships, build regulatory networks, or guide functional experiments.

       

      Sample Submission Suggestions

      Data Format: It is recommended to provide a list of PTM sites identified by mass spectrometry, including modification type, site position, and protein ID.

       

      Reference Database: Please provide a reference protein sequence database or specify the organism of interest.

       

      Additional Notes: MtoZ Biolabs can assist with upstream PTM site identification and filtering as needed.

       

      Applications

      Applications of Post-Translational Modification Site Motif Analysis Service include:

      • Reveal substrate recognition specificity of modifying enzymes.
      • Identify disease-associated regulatory sites and discover potential drug targets.
      • Construct regulatory networks of signaling pathways.
      • Support machine learning models for PTM site prediction.
      • Provide sequence-based insights for novel PTM research.

       

      Deliverables

      1. Enriched motif maps (graphical format + tabulated summary)

      2. Statistical analysis report of amino acid site enrichment

      3. Background model parameter description and enrichment significance data

      4. Motif-to-database annotation, functional enrichment analysis, predicted site list, etc. (optional)

       

      Related Services

      Post-Translational Modification Functional Analysis Service

      MS-Based Post-Translational Modification Analysis Service

      Post-Translational Modifications Proteomics Service

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