A brief introduction to DRAMP database

What is DRAMP Database?

DRAMP database is an information portal to biological active peptides. Peptides in this database come from three sources : Public databases (Swiss-Prot, PDB, PubMed), Clinical antimicrobial peptides (preclinical and clinical) and Patents.

Why DRAMP Database is created?

Antimicrobial peptides (AMPs) are widely distributed in nature and play a fundamental role in the innate immune response against pathogens. They have been treated as a novel therapeutic approach to combat bacterial infections in the presence of growing antibiotics resistance. For the convenience of researches on AMPs, a variety of useful antimicrobial peptide databases have been established, but many of them are at the level of specific classes or limited collection of AMPs or in lack of analytic tools. Considering this, we developed a comprehensive high-quality, user-friendly data repository of antimicrobial peptides (DRAMP).Entries in the database have detailed annotations, especially detailed antimicrobial activity data (shown as target organism with MIC value) and cytotoxicity data (shown as Measurement of Hemolytic Activity, MHC).The database comes with easy-to-operate browsing as well as searching with sorting and filtering functionalities. Besides, several useful sequence analysis tools are provided, including similarity search, sequence alignment and Conserved Domain Search (CD-Search). Compared with the current databases, DRAMP harbors extensive entries with biological activity information and holds a dataset of peptides in clinical development.

What is in DRAMP Database?

The current version of DRAMP holds 22480 antimicrobial sequences, including 6105 general AMPs, 188 stapled AMPs, 16110 patented sequences and 77 peptides in drug development. Information related to peptides in DRAMP can be divided into six parts:

  1. General information: DRAMP ID, Sequence (mature peptide), Sequence Length (all <=100), Peptide name/class, Gene, Source, Family, Swiss-Prot ID (for future information).
  2. Activity information: Biological Activity (e.g. Antibacterial), Target Organism (with detailed activity value), Hemolytic Activity, Cytotoxicity, Binding Targets (if known).
    ·The relationship map of classifications by activity in DRAMP. In the red box is the main classifications.
  3. Structure information: Linear/Cyclic, N-terminal Modification, C-terminal Modification, Non-terminal modification, Stereochemistry, Structure (second structure), Structure Description (structure activity relationship), PDB ID (for future information), Predicted Structure.
  4. Physicochemical information: Length, Molecular weight, Theoretical pI, Amino acid composition, Net charge, Formula, Extinction coefficient, Estimated half-life (mammalian, yeast and E. coli), Instability index, Aliphatic index, Grand average of hydropathicity (GRAVY).
  5. Comments: Contain Function, Mode of action (MOA), Post-translational modification (PTM), and Toxicity (Hemolytic or Cytotoxicity), et al.
  6. Literature Information: Pubmed ID, Reference, Author and Title.

Disclaimer:

The Website is provided “as is” and the DRAMP hereby disclaim all warranties of any kind, express or implied. The DRAMP does not make any warranty that the services will be free of errors. You understand that you download from, or otherwise obtain content or services through, the DRAMP at your own discretion and risk.

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