ArticleEuropean biophysics journal : EBJ2011
Knowledge-based computational methods for identifying or designing novel, non-homologous antimicrobial peptides.
Article in European biophysics journal : EBJ, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.
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Who cites it
17 citing papers in PubMed, 56 citations in OpenAlex.
- Role of Peptide Associations in Enhancing the Antimicrobial Activity of Adepantins: Comparative Molecular Dynamics Simulations and Design Assessments.International journal of molecular sciences · 2024Article
- Relating Molecular Dynamics Simulations to Functional Activity for Gly-Rich Membranolytic Helical Kiadin Peptides.Pharmaceutics · 2023Article
- Designed Multifunctional Peptides for Intracellular Targets.Antibiotics (Basel, Switzerland) · 2022Review
- Multiple-Allele MHC Class II Epitope Engineering by a Molecular Dynamics-Based Evolution Protocol.Frontiers in immunology · 2022Article
- Taxonomic bias in AMP prediction of invertebrate peptides.Scientific reports · 2021Article
- Hepatic cecum: a key integrator of immunity in amphioxus.Marine life science & technology · 2021Review
- The multifaceted nature of antimicrobial peptides: current synthetic chemistry approaches and future directions.Chemical Society reviews · 2021Review
- Bioinformatic Analysis of 1000 Amphibian Antimicrobial Peptides Uncovers Multiple Length-Dependent Correlations for Peptide Design and Prediction.Antibiotics (Basel, Switzerland) · 2020Article
- The Spectrum of Design Solutions for Improving the Activity-Selectivity Product of Peptide Antibiotics against Multidrug-Resistant Bacteria and Prostate Cancer PC-3 Cells.Molecules (Basel, Switzerland) · 2020Article
- Antimicrobial Peptides: Classification, Design, Application and Research Progress in Multiple Fields.Frontiers in microbiology · 2020Review
- ADAPTABLE: a comprehensive web platform of antimicrobial peptides tailored to the user's research.Life science alliance · 2019Article
- Mechanistic Landscape of Membrane-Permeabilizing Peptides.Chemical reviews · 2019Review
- Identification of a novel antimicrobial peptide from amphioxus Branchiostoma japonicum by in silico and functional analyses.Scientific reports · 2015Article
- Peptides and Peptidomimetics for Antimicrobial Drug Design.Pharmaceuticals (Basel, Switzerland) · 2015Review
- Distinct profiling of antimicrobial peptide families.Bioinformatics (Oxford, England) · 2015Article
- Characterization of Antimicrobial Peptides toward the Development of Novel Antibiotics.Pharmaceuticals (Basel, Switzerland) · 2013Article
- Designing antimicrobial peptides: form follows function.Nature reviews. Drug discovery · 2011Review
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Authors and funding
8 authors at 5 institutions in 3 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
We describe computational approaches for identifying promising lead candidates for the development of peptide antibiotics, in the context of quantitative structure-activity relationships (QSAR) studies for this type of molecule. A first approach deals with predicting the selectivity properties of generated antimicrobial peptide sequences in terms of measured therapeutic indices (TI) for known antimicrobial peptides (AMPs). Based on a training set of anuran AMPs, the concept of sequence moments was used to construct algorithms that could predict TIs for a second test set of natural AMPs and could also predict the effect of point mutations on TI values. This approach was then used to design peptide antibiotics (adepantins) not homologous to known natural or synthetic AMPs. In a second approach, many novel putative AMPs were identified from DNA sequences in EST databases, using the observation that, as a rule, specific subclasses of highly conserved signal peptides are associated exclusively with AMPs. Both anuran and teleost sequences were used to elucidate this observation and its implications. The predicted therapeutic indices of identified sequences could then be used to identify new types of selective putative AMPs for future experimental verification.
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