RESID database of protein modifications

RESID database of protein modifications catalogs and standardizes annotations of post-translational modifications (PTMs) in proteins to enable structured integration and retrieval of PTM data for Swiss-Prot and proteomic analyses.

Key Features:

• Standardized annotation: Uses a controlled vocabulary to represent PTMs consistently within Swiss-Prot.
• Comprehensive coverage: Includes annotations for amino-terminal, carboxyl-terminal, and peptide chain cross-link PTMs with detailed site information.
• Integration with Swiss-Prot: Maps and implements standardized PTM annotations into the Swiss-Prot knowledge base for structured storage and retrieval.
• Mod-Prot companion database (in development): Plans to provide general descriptions of modification processes, identify enzymes involved, specify taxonomic ranges, and detail mass modifications for each PTM.

Scientific Applications:

• Proteomic data interpretation: Supports accurate interpretation of high-throughput proteomic studies by providing standardized PTM annotations.
• Study of protein function and regulation: Enables investigation of how PTMs affect protein activity, interactions, and regulation.
• Comparative PTM analysis: Facilitates exploration of modification patterns across taxa and supports hypothesis generation and experimental design in molecular biology, biochemistry, and systems biology.

Methodology:

Systematic standardization of PTM annotations using a controlled vocabulary and integration of those standardized annotations into Swiss-Prot to represent PTM data from high-throughput proteomic studies in structured formats.