CLAUDIO

CLAUDIO analyzes cross-linking mass spectrometry data to validate protein structural models and identify intra- and inter-protein interactions, including evidence for homo-multimers.

Key Features:

• Automated structure retrieval and mapping: Automates retrieval and mapping of cross-linked peptides to protein structures for structural interpretation.
• Geometric assessment of peptide pairs: Performs geometric assessments and validation of spatial relationships between cross-linked peptide pairs.
• Remapping intra- to inter-protein links: Remaps intra-protein links as inter-protein links to reveal potential inter-protein interactions and to provide evidence for homo-multimers.
• Distance and overlap assessment: Assesses distances and overlaps between peptides to validate cross-linking constraints against structural models.

Scientific Applications:

• Protein complex structural validation: Validates structural models of protein complexes using cross-link-derived distance constraints from cross-linking mass spectrometry.
• Detection of protein-protein interactions and homo-multimers: Identifies inter-protein interactions and homo-multimeric assemblies from cross-link data.
• Large-scale cross-linking MS analysis: Supports interpretation of large-scale cross-linking mass spectrometry datasets to study protein structure, interactions, and disease-relevant mechanisms.

Methodology:

Automated processing of large-scale cross-linking datasets, structure retrieval and mapping, geometric assessment of peptide pairs, assessment of distances and overlaps between peptides, and remapping of intra-protein links as inter-protein links.