DADP: the database of anuran defense peptides
| Autor: | Mario Novkovic, Viktor Bojović, Davor Juretić, Juraj Simunić, Alessandro Tossi |
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| Přispěvatelé: | M., Novković, J., Simunić, V., Bojović, Tossi, Alessandro, D., Juretić |
| Jazyk: | angličtina |
| Rok vydání: | 2012 |
| Předmět: |
Statistics and Probability
Signal peptide anuran host defense peptides antibiotics signal peptide database Databases Factual antimicrobial peptide PROSITE Biology computer.software_genre Biochemistry defense peptides antimicrobial Deoxyadenine Nucleotides amphibian bioactive peptide Phylogenetics Complementary DNA Animals Databases Protein Molecular Biology Phylogeny Skin Supplementary data Phylogenetic tree Database Computer Science Applications Computational Mathematics Computational Theory and Mathematics UniProt Anura Peptides computer Antimicrobial Cationic Peptides |
| Popis: | Anuran tissues, and especially skin, are a rich source of bioactive peptides and their precursors. As potential antibiotics, host defense peptides from amphibian species are a fast growing group in the UniProtKB database. We here present a manually curated database (http://split4.pmfst.hr/dadp/) of antimicrobial and other defense peptides with a total of 2571 entries, 1766 full precursors with demarcated signal peptide (SP), acidic proregion(s) and bioactive moiety(s) and 805 bioactive defense peptides, encompassing a total of 167 anuran species from 12 families [1]. Each DADP entry ID contains detailed information about peptide names and sequences, tripartite structure, taxonomy, biogeography data (ecozone and distribution), SP class, tissue, biological function, links to UniProtKB, references and activity data in the form of minimal inhibitory concentration (MIC, µM) for E. coli and/or S. aureus and concentration required for 50% haemolysis of red blood cells (HC50). Precursor structure is informative about origin, function and evolution of anuran host defense peptides, while more than 900 mature peptides with known MIC values in DADP are a valuable resource for structure-activity studies. The DADP focus on precursors and their conserved SPs has allowed the individuation of six distinct SP classes. The more conserved of these can be used for searching cDNA, UniProtKB or other protein databases for novel bioactive peptides, for creating PROSITE search patterns, and for phylogenetic analysis. [1] M. Novković, J. Simunić, V. Bojović, A. Tossi and D. Juretić, DADP: the Database of Anuran Defense Peptides, Bioinformatics J., (in press 2012). |
| Databáze: | OpenAIRE |
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