DXMSMS Match Program for Automated Analysis of LC-MS/MS Data Obtained Using Isotopically Coded CID-Cleavable
Evgeniy V Petrotchenko1, Karl A T Makepeace1, Christoph H Borchers1,2
1University of Victoria - Genome British Columbia Proteomics Centre, University of Victoria, Victoria, Canada.
Current Protocols in Bioinformatics
|December 16, 2014
Summary
This study introduces DXMSMS Match, a program for automatically analyzing mass spectrometry data from isotopically coded cleavable cross-linkers. It aids in confidently identifying and assigning cross-links in protein complex studies.
Area of Science:
- Proteomics
- Biochemistry
- Analytical Chemistry
Background:
- Cross-linking combined with mass spectrometry is crucial for studying proteins and protein complexes.
- Isotopically coded cleavable cross-linking reagents enhance detection and assignment of cross-links.
- Automatic analysis of complex mass spectrometry data is needed.
Purpose of the Study:
- To describe the DXMSMS Match program for automatic analysis of LC-MS/MS data.
- To facilitate the study of proteins and protein complexes using isotopically coded cleavable cross-linkers.
- To improve the confidence and efficiency of cross-link assignment in mass spectrometry.
Main Methods:
- Development of the DXMSMS Match program for automated data analysis.
- Utilizing isotopically coded CID-cleavable cross-linkers.
- Verification of cross-link assignments using precursor mass and MS/MS spectra analysis, including fragments and cleavage products.
Main Results:
- The DXMSMS Match program provides automatic analysis of LC-MS/MS mass spectrometric data.
- The program verifies cross-link assignments through precursor mass and MS/MS spectral inspection.
- Nonprobabilistic scores and a visual interface are generated for validating mass spectral matches.
Conclusions:
- DXMSMS Match program facilitates confident detection and unambiguous assignment of cross-links.
- The software aids in the validation of mass spectral matches for cross-linked peptides.
- This tool enhances the study of protein and protein complex structures using mass spectrometry.
More Related Videos
Related Concept Videos
01:33Peptide Identification Using Tandem Mass Spectrometry
8.8K
Tandem mass spectrometry, also known as MS/MS or MS2, is an analytical technique that employs two mass analyzers. Essentially it is a series of mass spectrometers that helps isolate a particular biomolecule and then helps study its chemical properties.
This technique helps gather information regarding the protein from which the peptide was obtained and to study the peptides’ amino acid sequence. Identifying peptides from a complex mixture is an important component of the growing field of...
This technique helps gather information regarding the protein from which the peptide was obtained and to study the peptides’ amino acid sequence. Identifying peptides from a complex mixture is an important component of the growing field of...
8.8K
01:21Mass Spectrometry: Complex Analysis
2.2K
Mass spectrometry is an important technique for the identification of pure compounds. However, it has some limitations for the analysis of complex mixtures, often due to excessive fragmentation making the spectrum too complicated to decipher. Mass spectrometry can be combined with suitable separation methods in sequence, forming hyphenated methods, which are useful in the analysis of complex mixtures.
GC–MS is a powerful hyphenated method commonly used in forensics and environmental...
GC–MS is a powerful hyphenated method commonly used in forensics and environmental...
2.2K