Document Type
Article
Journal Title
Nucleic acids research
Publication Date
Winter 1-1-2009
Volume
37
Abstract
The antimicrobial peptide database (APD, http://aps.unmc.edu/AP/main.php) has been updated and expanded. It now hosts 1228 entries with 65 anticancer, 76 antiviral (53 anti-HIV), 327 antifungal and 944 antibacterial peptides. The second version of our database (APD2) allows users to search peptide families (e.g. bacteriocins, cyclotides, or defensins), peptide sources (e.g. fish, frogs or chicken), post-translationally modified peptides (e.g. amidation, oxidation, lipidation, glycosylation or d-amino acids), and peptide binding targets (e.g. membranes, proteins, DNA/RNA, LPS or sugars). Statistical analyses reveal that the frequently used amino acid residues (>10%) are Ala and Gly in bacterial peptides, Cys and Gly in plant peptides, Ala, Gly and Lys in insect peptides, and Leu, Ala, Gly and Lys in amphibian peptides. Using frequently occurring residues, we demonstrate database-aided peptide design in different ways. Among the three peptides designed, GLK-19 showed a higher activity against Escherichia coli than human LL-37.
MeSH Headings
Animals, Anti-Infective Agents, Antimicrobial Cationic Peptides, Antineoplastic Agents, Databases, Factual, Drug Design, Sequence Analysis, Protein
DOI Link
ISSN
1362-4962
Rights
This work is licensed under a Creative Commons Non-Commercial Attribution 2.0 License. Creative Commons Attribution Non-Commercial License 2.0
Recommended Citation
Wang, Guangshun; Li, Xia; and Wang, Zhe, "APD2: the updated antimicrobial peptide database and its application in peptide design." (2009). Journal Articles: Pathology and Microbiology. 50.
https://digitalcommons.unmc.edu/com_pathmicro_articles/50