dbAMP has been created with an objective to provide a useful resource for AMP studies. The AMP in dbAMP has been grouped into two categories by reference source: Experimental source, Prediction AMPs which can found from NCBI, Uniprot and other published private databases. This manually curated database currently holds 28,709 AMP sequences including 9,062 experimental AMPs from publicated articles or public databases, 19,647 predicted AMPs from public databases. In here, the complete information related to AMPs, functional against activity type, physical properties, taxonomy of the source organism, host target or any PDB structure, and links to external databases like UniProt, PDB, PubMed links are included here. User can browse any information from dbAMP and if has any question and commend, welcome to contact us by TY Lee.

    Total 12,361 unique Anti-microbial peptides sequence were collected and designed to support for users to browse all types of AMPs in dbAMP. For example, the dbAMP provided the three method to browse the AMP sequence you intrested, including function against activity, AMP sequence length and Taxonomy.

    Simple search in dbAMP allows users to query the AMP sequence based on keywords individual fields such as sequence peptides, activity against, or taxonomy in the search page. Firstly, users fill the input data corresponding to your interesting fields and then click on the "Search" button to query the matching peptide. Users can restrict the search to a particular field descriptor.

    The AMPs info matching the query keywords are retrieved from our database and shown in a table format. User can click on the URL link "dbAMP_ID" which be interested in, the detail information about the peptides will be showed, such as activity against, physical properties and reviewed reference.

    To perform an advanced search, you can select or enter your queries keyword corresponding to your interesting fields below and press the "Search" button to query the matching peptide. to query the matching peptide. Currently we support AND, OR and NOT search operators, which can tell dbAMP search function how the words in your search relate to each other. Users can restrict the search to a particular field descriptor.

    The AMPs info matching the query keywords are retrieved from our database and shown in a table format. User can click on the URL link "dbAMP_ID" which be interested in, the detail information about the peptides will be showed, such as activity against, physical properties and reviewed reference.

    Simple search in dbAMP allows users to query the AMP sequence based on keywords such as sequence peptides, activity against, or taxonomy in the search page. Firstly, users fill the input data corresponding to your interesting fields and then click on the "Submit" button to query the matching peptide. Users can restrict the search to a particular field descriptor.

    The AMPs info matching the query keywords are retrieved from our database and shown in a table format. User can click on the URL link "dbAMP_ID" which be interested in, the detail information about the peptides will be showed, such as activity against, physical properties and reviewed reference.

[1] BLAST 2.2.30⁺
[2] Bowtie2
[3] CD-HIT

    FASTA format begins with a greater-than ('>') symbol followed by a single-line description. The sequence data starts from the next line. The description line is demarked from the sequence data by a greater-than ('>') symbol in the first line.
For example:

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ADAM A Database of Anti-Microbial peptides
CAMP Collection of Anti-Microbial Peptides
APD The Antimicrobial Peptide Database
DBAASP Database of Antimicrobial Activity and Structure of Peptides

Reference

[1] Langmead, B. and S.L. Salzberg, Fast gapped-read alignment with Bowtie 2. Nat Methods, 2012. 9(4): p. 357-9.
[2] Shiryev, S.A., et al., Improved BLAST searches using longer words for protein seeding. Bioinformatics, 2007. 23(21): p. 2949-51.
[3] Fu, L., et al., CD-HIT: accelerated for clustering the next-generation sequencing data. Bioinformatics, 2012. 28(23): p. 3150-2.