dbPTM

dbPTM catalogs protein post-translational modification (PTM) substrate sites and associated regulatory networks and functional annotations, leveraging mass spectrometry-based proteomics data to support proteomic and regulatory network analyses.

Key Features:

• Extensive Data Collection: Contains over 2,777,000 PTM substrate sites integrated from existing databases and manual curation, including more than 2,235,000 experimentally verified sites.
• Expanded Modification Types: Includes over 42 newly added PTM types compared with the previous release.
• Regulatory Network Integration: Integrates regulatory protein information into a protein-protein interaction (PPI) network to enable exploration of upstream regulators of PTM sites.
• Functional Annotations: Provides curated functional annotations integrated with existing resources to link PTMs to molecular functions and cellular processes.
• Resource Renewal: Updates related annotation databases and prediction tools to incorporate newly discovered modification types and regulatory information.

Scientific Applications:

• Cellular and Molecular Biology: Enables analysis of PTM distributions and roles across molecular functions and cellular processes.
• Disease Research and Pathology: Supports investigation of PTM alterations and their implications in disease mechanisms and pathology.
• Therapeutic Target Identification: Aids identification of candidate therapeutic targets based on PTM sites and their regulatory relationships.
• Network and Pathway Analysis: Facilitates exploration of protein-protein interaction networks and PTM-regulated pathways.

Methodology:

Data collection from existing databases and literature, incorporation of mass spectrometry-based proteomics data, manual curation, and integration of regulatory information into protein-protein interaction networks, together with renewal of annotation databases and prediction tools.