The RNA Modification Database (RNAMDB)

The RNA Modification Database (RNAMDB) catalogs detailed information on naturally occurring RNA modifications to support research on RNA chemistry, distribution, and function.

Key Features:

• Content scope: Contains annotated entries for 109 known naturally occurring RNA modifications.
• Chemical structure: Provides chemical structures for each modification.
• Names and symbols: Records common name and symbol for each modification.
• Elemental composition and mass: Reports elemental composition and exact mass for each modification.
• Chemical Abstracts identifiers: Includes Chemical Abstracts (CA) registry numbers and index names.
• Phylogenetic sources: Lists phylogenetic sources for each modification.
• RNA species occurrence: Specifies the types of RNA species in which each modification occurs.
• Literature references: Provides citations to the first reported structure determination and to syntheses.
• Recent additions: Includes entries for agmatidine and 8-methyladenosine.

Scientific Applications:

• RNA biology research: Supports studies of RNA modifications across RNA species and phylogenetic contexts.
• Structural and chemical studies: Supplies chemical structures, masses, and identifiers relevant to structure determination and chemical synthesis research.
• Comparative phylogenetics: Enables analysis of modification distribution across phylogenetic sources.
• Epitranscriptomics and disease research: Supports investigation of modification roles in biological processes and their implications in health and disease.

Methodology:

Entries record chemical structures, common names and symbols, elemental composition and mass, Chemical Abstracts registry numbers and index names, phylogenetic sources, RNA species occurrence, and references to first reported structure determination and synthesis.