Peptide Sequence Analysis

The research of peptide drug has great potential, such as the discovery of new peptides, more targeted peptide library and sequence optimization design, the research and development of new formulations, multifunctional peptides and complexes, and so on. In order to achieve these, the identification of peptides and the analysis of peptide sequences are the first step to promote the research. Creative Peptides is not only experts in peptide synthesis of various peptide forms and peptide-based products, but also provide peptide sequence analysis services to support many different applications.

Application

The following characteristics are calculated, estimated and predicted according to analysis of peptide sequence:

• Protein identification.
• Post-translational or other covalent modification site assignment.
• Physical and chemical properties of peptides, including charge pH diagram, pI, hydrophobicity and quality.
• Easy peptide synthesis and purification, including relative delivery speed.
• Compatibility of peptide with SRM/MRM quantitative Mass Spectrometry Workflow.

Our Services

We use NanoLC-MS/MS to obtain the amino acid sequence of the peptide. For short peptides, such as less than 30 amino acids, we directly carry out secondary fragmentation to obtain the original mass spectrometry data for the derivation of the peptide sequence, through the database search or de novo sequencing, the theoretical sequence can be obtained. For longer peptides (> 30 amino acids), we will use three kinds of proteases to digest and identify the target peptides respectively, and at the same time, 100% of the peptide sequence can be determined by splicing between peptides. Below is a list of our available tools for peptide analysis (include but not limited to the following):

• Regression Analysis
• Hidden Markov Model
• Bayesian Network method
• Support Vector Machine
• Alignment-free sequence analysis
• Artificial Neural Network method

Advantages

• Multiple analysis tools.
• The mass spectrometer with the highest resolution and sensitivity.
• Ensuring the sensitivity of identification of peptide fragments with low abundance.
• In the process of peptide fragmentation, the binding mode of HCD and ETD is adopted to ensure the integrity of peptide fragments.

References

1. Medzihradszky, K. F. (2005). Peptide sequence analysis. Methods in enzymology, 402, 209-244.
2. Syka, J. E., Coon, J. J., Schroeder, M. J., Shabanowitz, J., & Hunt, D. F. (2004). Peptide and protein sequence analysis by electron transfer dissociation mass spectrometry. Proceedings of the National Academy of Sciences, 101(26), 9528-9533.
3. Coppage, R., Slocik, J. M., Briggs, B. D., Frenkel, A. I., Naik, R. R., & Knecht, M. R. (2012). Determining peptide sequence effects that control the size, structure, and function of nanoparticles. ACS nano, 6(2), 1625-1636.