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APD3: the antimicrobial peptide database as a tool for research and education

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Wang, Guangshun, Li, Xia, Wang, Zhe·2016·Nucleic Acids Research
DOI 10.1093/nar/gkv1278
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Abstract

The antimicrobial peptide database (APD, http://aps.unmc.edu/AP/) is an original database initially online in 2003. The APD2 (2009 version) has been regularly updated and further expanded into the APD3. This database currently focuses on natural antimicrobial peptides (AMPs) with defined sequence and activity. It includes a total of 2619 AMPs with 261 bacteriocins from bacteria, 4 AMPs from archaea, 7 from protists, 13 from fungi, 321 from plants and 1972 animal host defense peptides. The APD3 contains 2169 antibacterial, 172 antiviral, 105 anti-HIV, 959 antifungal, 80 antiparasitic and 185 anticancer peptides. Newly annotated are AMPs with antibiofilm, antimalarial, anti-protist, insecticidal, spermicidal, chemotactic, wound healing, antioxidant and protease inhibiting properties. We also describe other searchable annotations, including target pathogens, molecule-binding partners, post-translational modifications and animal models. Amino acid profiles or signatures of natural AMPs are important for peptide classification, prediction and design. Finally, we summarize various database applications in research and education.

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Metadata

Authors
Wang, G., Li, X., & Wang, Z.
Venue
Nucleic Acids Research
Publisher
Oxford University Press (OUP)
Published
2015-11-23
Volume
44
Issue
D1
Pages
D1087-D1093
ISSN
  • 0305-1048 (ISSN-L)
  • 1362-4962
DOI
10.1093/nar/gkv1278
OpenAlex
W2175270296
Cited by
2,388
References
1
FWCI
69.74
Type
journal article
Language
en
Open access
gold
Licence
creativecommons.org/licenses/by-nc/4.0/ (vor, 358 d)

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Wang, G., Li, X., & Wang, Z. (2016). APD3: the antimicrobial peptide database as a tool for research and education. Nucleic Acids Research. https://doi.org/10.1093/nar/gkv1278

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