Cheetah-MS

Cheetah-MS integrates tandem cross-linking mass spectrometry (MS/MS or MS2) data with computational protein–protein docking to identify and model protein–protein interactions within complex, unfractionated mixtures.

Key Features:

• Data input: Processes tandem cross-linking mass spectrometry (MS/MS or MS2) data from complex or unfractionated samples.
• Cross-linking integration: Integrates chemical cross-linking information with MS/MS spectral evidence.
• Docking: Applies computational protein–protein docking techniques to generate interaction models.
• Mixture analysis: Analyzes intricate sample mixtures to predict protein–protein interactions with enhanced sensitivity and resolution.
• Structural modeling: Produces detailed models of the quaternary structure of protein complexes.
• Interaction interpretation: Combines cross-linking, MS, and docking data to aid interpretation of complex interaction datasets.

Scientific Applications:

• Structural biology: Modeling quaternary structures of protein complexes using cross-linking and MS-derived evidence.
• Molecular biology: Identifying and characterizing protein–protein interactions in complex biological samples.
• Systems biology: Mapping interaction networks from unfractionated or heterogeneous mixtures to inform systems-level studies.

Methodology:

Integrates chemical cross-linking with tandem mass spectrometry (MS/MS or MS2) data processing and computational protein–protein docking to predict PPIs and generate quaternary structure models.