(Search by Antimicrobial Peptides Name, e.g. Human Alpha-Defensin)

An integrated system for identifying Anti-Microbial Peptides (AMPs) with their functional types based on high-throughput transcriptome and proteome data. In recent years, the widespread use of antibiotics has inspired the rapid growth of antibiotic-resistant microorganisms that usually induce critical infection and pathogenesis. However, as the key components of innate immunity, human host defense antimicrobial peptides and proteins (AMPs) play a critical role in warding off invading microbial pathogens. Typical examples are Human γδ T cells produce antimicrobial peptide elafin (dbAMP_00487) which is the major antiviral protein in cervicovaginal lavage fluid. Human Lactoferricin derivatives (dbAMP_04016) shows an inhibitory effect on bacteria and melanoma cells.

    An increasing interest was motivated for identifying natural AMPs that enables the development of new antibiotics. Thus, we were motivated to design a database-assisted system (dbAMP) for identifying AMPs with their functional types based on the metatranscriptomic analysis of high-throughput transcriptome and proteome data. In this resource, a total of 4,271 experimentally verified AMPs were obtained from 2,048 organisms. All the collected AMPs were transformed into DNA sequences in order to implement an efficient pipeline for discovering AMPs on NGS reads using Bowtie2 program. Users are allowed to submit a large-scale data of NGS reads or MS/MS-identified peptides to the dbAMP, and the system could identify known AMPs with their functional types and predict novel AMPs by the constructed model.

The highlighted aims for user in dbAMP

    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 12,389 AMP sequences including 4,271 experimental AMPs from publicated articles or public databases, 8,118 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.

The Target Activity Alignment Info has been open.

T.Y. LEE

At 15th June, 2018

-Database update!

T.Y. LEE

At 25th August, 2017

The protein structure viwer has been open.

T.Y. LEE

At 21th April, 2017

-dbAMP V1.0 released! Comments and suggestions are welcome!

T.Y. LEE

At 25th November, 2016

We are responsible for maintaining the website daily and updating the database regularly.

T.Y. LEE

At 25th November, 2016

External Links
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About Us

The database is developed by Dr.Lee's team. This is the home page of the database, please use the navigation bar in the top of page to browse the database. If you encounter any problems in using this database, you can consult the FAQs/help pages for help or feedback to us, we will help you solve as soon as possible.

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