ArticlePLoS computational biology2014
Analysis of the protein domain and domain architecture content in fungi and its application in the search of new antifungal targets.
Article in PLoS computational biology, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.
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Who cites it
16 citing papers in PubMed, 32 citations in OpenAlex.
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- Learning from the unknown: exploring the range of bacterial functionality.Nucleic acids research · 2023Article
- Systematic Assessment of Protein C-Termini Mutated in Human Disorders.Biomolecules · 2023Article
- Real or fake? Measuring the impact of protein annotation errors on estimates of domain gain and loss events.Frontiers in bioinformatics · 2023Article
- Promiscuous Domains in Eukaryotes and HAT Proteins in FUNGI Have Followed Different Evolutionary Paths.Journal of molecular evolution · 2022Article
- Co-occurrence of enzyme domains guides the discovery of an oxazolone synthetase.Nature chemical biology · 2021Article
- ProdMX: Rapid query and analysis of protein functional domain based on compressed sparse matrices.Computational and structural biotechnology journal · 2020Article
- Article
- Siroheme Is Essential for Assimilation of Nitrate and Sulfate as Well as Detoxification of Nitric Oxide but Dispensable for Murine Virulence ofFrontiers in microbiology · 2018Article
- Classification of proteins with shared motifs and internal repeats in the ECOD database.Protein science : a publication of the Protein Society · 2016Review
- The Mechanistic Targets of Antifungal Agents: An Overview.Mini reviews in medicinal chemistry · 2016Review
- Computational Identification of Novel Genes: Current and Future Perspectives.Bioinformatics and biology insights · 2016Review
- The language of the protein universe.Current opinion in genetics & development · 2015Review
- Is the emergence of fungal resistance to medical triazoles related to their use in the agroecosystems? A mini review.Brazilian journal of microbiology : [publication of the Brazilian Society for Microbiology]Review
Corrections and comments
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Authors and funding
5 authors at 2 institutions in 2 countries.
Funding
Abstract
Over the past several years fungal infections have shown an increasing incidence in the susceptible population, and caused high mortality rates. In parallel, multi-resistant fungi are emerging in human infections. Therefore, the identification of new potential antifungal targets is a priority. The first task of this study was to analyse the protein domain and domain architecture content of the 137 fungal proteomes (corresponding to 111 species) available in UniProtKB (UniProt KnowledgeBase) by January 2013. The resulting list of core and exclusive domain and domain architectures is provided in this paper. It delineates the different levels of fungal taxonomic classification: phylum, subphylum, order, genus and species. The analysis highlighted Aspergillus as the most diverse genus in terms of exclusive domain content. In addition, we also investigated which domains could be considered promiscuous in the different organisms. As an application of this analysis, we explored three different ways to detect potential targets for antifungal drugs. First, we compared the domain and domain architecture content of the human and fungal proteomes, and identified those domains and domain architectures only present in fungi. Secondly, we looked for information regarding fungal pathways in public repositories, where proteins containing promiscuous domains could be involved. Three pathways were identified as a result: lovastatin biosynthesis, xylan degradation and biosynthesis of siroheme. Finally, we classified a subset of the studied fungi in five groups depending on their occurrence in clinical samples. We then looked for exclusive domains in the groups that were more relevant clinically and determined which of them had the potential to bind small molecules. Overall, this study provides a comprehensive analysis of the available fungal proteomes and shows three approaches that can be used as a first step in the detection of new antifungal targets.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.