ArticleComputational and structural biotechnology journal2016
Sequence comparison, molecular modeling, and network analysis predict structural diversity in cysteine proteases from the Cape sundew, Drosera capensis.
Article in Computational and structural biotechnology journal, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.
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14 citing papers in PubMed, 22 citations in OpenAlex.
- Jasmonate signaling and prey nutrient availability trigger distinct biochemical responses in the Drosera capensis feeding cycle.Plant physiology · 2026Article
- Comparative analysis of thermal adaptations of extremophilic prolyl oligopeptidases.Biophysical journal · 2024Article
- Comparative Modeling and Analysis of Extremophilic D-Ala-D-Ala Carboxypeptidases.Biomolecules · 2023Article
- Network Hamiltonian Models for Unstructured Protein Aggregates, with Application to γD-Crystallin.The journal of physical chemistry. B · 2023Article
- Omics Approaches in Uncovering Molecular Evolution and Physiology of Botanical Carnivory.Plants (Basel, Switzerland) · 2023Review
- The Droserasin 1 PSI: A Membrane-Interacting Antimicrobial Peptide from the Carnivorous PlantBiomolecules · 2020Article
- Comparative modelling studies of fruit bromelain using molecular dynamics simulation.Journal of molecular modeling · 2020Article
- Comparative Exploratory Analysis of Intrinsically Disordered Protein Dynamics Using Machine Learning and Network Analytic Methods.Frontiers in molecular biosciences · 2019Article
- Protein structure networks provide insight into active site flexibility in esterase/lipases from the carnivorous plant Drosera capensis.Integrative biology : quantitative biosciences from nano to macro · 2018Article
- Early lysosomal maturation deficits in microglia triggers enhanced lysosomal activity in other brain cells of progranulin knockout mice.Molecular neurodegeneration · 2018Article
- Evolutionary and structural analyses uncover a role for solvent interactions in the diversification of cocoonases in butterflies.Proceedings. Biological sciences · 2018Article
- Long-read sequencing uncovers the adaptive topography of a carnivorous plant genome.Proceedings of the National Academy of Sciences of the United States of America · 2017Article
- Structure prediction and network analysis of chitinases from the Cape sundew, Drosera capensis.Biochimica et biophysica acta. General subjects · 2017Article
- The Computer-Assisted Sequence Annotation (CASA) workflow for enzyme discovery.Applications in plant sciencesArticle
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Authors and funding
8 authors at 1 institution in 1 country.
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Abstract
Carnivorous plants represent a so far underexploited reservoir of novel proteases with potentially useful activities. Here we investigate 44 cysteine proteases from the Cape sundew, Drosera capensis, predicted from genomic DNA sequences. D. capensis has a large number of cysteine protease genes; analysis of their sequences reveals homologs of known plant proteases, some of which are predicted to have novel properties. Many functionally significant sequence and structural features are observed, including targeting signals and occluding loops. Several of the proteases contain a new type of granulin domain. Although active site residues are conserved, the sequence identity of these proteases to known proteins is moderate to low; therefore, comparative modeling with all-atom refinement and subsequent atomistic MD-simulation is used to predict their 3D structures. The structure prediction data, as well as analysis of protein structure networks, suggest multifarious variations on the papain-like cysteine protease structural theme. This in silico methodology provides a general framework for investigating a large pool of sequences that are potentially useful for biotechnology applications, enabling informed choices about which proteins to investigate in the laboratory.
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