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Related Databases & Prediction Websites

1. PubMed, Swiss-Prot and PDB


URL
Tool Description Country
PubMed
National Library of Medicine Resource for publications in biological and biomedical sciences
USA

Swiss-Prot
UniPro protein knowledgebase
Europe

PDB
The RCSB Protein Data Bank
USA





2. Accessible Databases for antimicrobial peptides (AMPs)

Website
Database Description Country Year Published
Peptaibols
A collection of peptaibols
England 2003,2004
APD
The antimicrobial peptide database and analysis system for peptide discovery, nomenclature, classification, search, prediction and design
USA 2004,2009,2016
DAMPD (formerly ANTIMIC) Dragon database for antimicrobial sequences South Africa/Saudi Arabia 2004,2012
Cybase
The database of cyclic proteins
Australia 2006,2008
Defensins Defensins knowledgebase Singapore 2007
BACTIBASE
A data repository of bacteriocins
Canada/Tunisie 2007,2010
PhytAMP
Plant AMPs
Canada/Tunisie 2009
CAMP
A collection of AMPs such as predicted peptides
India 2010,2014,2016
YADAMP
Yet another database of AMPs
Italy 2012
DADP
Database of amphibian defense peptides
Croatia 2012
THIOBASE
Database of bacterial thiopeptides (containing macrocyclic core)
China 2012
EnzyBase
Database of enzybiotics (lysins, autolysins, lysozymes, and large bacteriocins)
China 2012
LAMP
A database with links to AMPs in parent databases
China 2013
MilkAMP
A database for milk AMPs
Canada 2014
DBAASP
Database of AMPs with mainly synthetic peptides
Georgia 2014,2016
BaAMPs
Biofilm-active AMPs database
Italy 2015
DRAMP
A data Repository of AMPs, mainly from patents
China 2016
ANTISTAPHYBASE
A database for anti-Staphylococcal peptides and essential oils
France/Tunisia/Canada/USA 2016
InverPep
Invertebrate AMPs
Colombia 2017
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3. Selected AMP prediction tools


Server
Description Country Year
APD peptide predictor
Database-based classification and prediction of AMPs
USA
2004

BAGLE
A web-based bacteriocin genome mining tool
The Netherlands
2006

AntiBP
SVM, QM, or ANN prediction of AMPs
India
2007

AMPer
An automated discovery tool for gene-coded antimicrobial peptides
Canada
2007

CAMP Prediction
SVM, RF, ANN, or DA prediction of AMPs
India
2010

antiSMASH
A web-based thiopeptide genome mining tool
The Netherlands
2011

AMPA
Antimicrobial sequence scanning system to predict potential AMP region from proteins
Spain
2012

AVPpred
SVM Prediction of antiviral peptides
India
2012

iAMP-2L
Two-layer Prediction of AMPs
China/USA
2013

CyPred
Prediction of circular proteins
Canada
2014

DBAASP
Prediction of AMPs based on membrane interactions
Georgia
2014

dPABBs
Prediction of anti-biofilm peptides
India
2016

iAMPpred
Improved AMP Prediction (G, F and V)
India
2017

AMP prediction using APD3




Main references for this webpage:

Wang, G. (2007) Tool developments for structure-function studies of host defense peptides. Protein Pept. Lett. 14, 57-69 (containing a list of existing AMP databases).

Wang, G., ed. (2010) Antimicrobial Peptides: Discovery, Design and Novel Therapeutic Strategies, CABI, England.

Wang, G. (2015) Database resources dedicated to antimicrobial peptides. In "Antimicrobial Resistance and Food Safety: Methods and Techniques" (Chen, C.-Y., Yan, X., and Jackson, C.R., eds.), Academic Press, Boston, pp. 365-384.

Last updated: May 2017 | Copyright 2003-2017 Dept of Pathology & Microbiology, UNMC All Rights Reserved
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