ArticlePloS one2013
Functional and genomic analyses of alpha-solenoid proteins.
Article in PloS one, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.
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20 citing papers in PubMed, 36 citations in OpenAlex.
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- Probing the extent of importin-α targeting of the TAF8 NLS by eliminating its cationic net-charge.Protein science : a publication of the Protein Society · 2025Article
- SOLeNNoID: a deep learning pipeline for solenoid residue detection in protein structures.Bioinformatics (Oxford, England) · 2025Article
- STRPsearch: fast detection of structured tandem repeat proteins.Bioinformatics (Oxford, England) · 2024Article
- Molecular basis of bacterial DSR2 anti-phage defense and viral immune evasion.Nature communications · 2024Article
- Extracellular vesicle formation inProceedings of the National Academy of Sciences of the United States of America · 2024Article
- Diversity and features of proteins with structural repeats.Biophysical reviews · 2023Review
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- MLKS2 is an ARM domain and F-actin-associated KASH protein that functions in stomatal complex development and meiotic chromosome segregation.Nucleus (Austin, Tex.) · 2019Article
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- Branched late-steps of the cytosolic iron-sulphur cluster assembly machinery of Trypanosoma brucei.PLoS pathogens · 2018Article
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- Floppy but not sloppy: Interaction mechanism of FG-nucleoporins and nuclear transport receptors.Seminars in cell & developmental biology · 2017Review
- Comparative interactomics provides evidence for functional specialization of the nuclear pore complex.Nucleus (Austin, Tex.) · 2017Article
- Bacterial kinesin light chain (Bklc) links the Btub cytoskeleton to membranes.Scientific reports · 2017Article
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- Biallelic TBCD Mutations Cause Early-Onset Neurodegenerative Encephalopathy.American journal of human genetics · 2016Article
- Scalable production in human cells and biochemical characterization of full-length normal and mutant huntingtin.PloS one · 2015Article
Corrections and comments
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Authors and funding
7 authors at 4 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Alpha-solenoids are flexible protein structural domains formed by ensembles of alpha-helical repeats (Armadillo and HEAT repeats among others). While homology can be used to detect many of these repeats, some alpha-solenoids have very little sequence homology to proteins of known structure and we expect that many remain undetected. We previously developed a method for detection of alpha-helical repeats based on a neural network trained on a dataset of protein structures. Here we improved the detection algorithm and updated the training dataset using recently solved structures of alpha-solenoids. Unexpectedly, we identified occurrences of alpha-solenoids in solved protein structures that escaped attention, for example within the core of the catalytic subunit of PI3KC. Our results expand the current set of known alpha-solenoids. Application of our tool to the protein universe allowed us to detect their significant enrichment in proteins interacting with many proteins, confirming that alpha-solenoids are generally involved in protein-protein interactions. We then studied the taxonomic distribution of alpha-solenoids to discuss an evolutionary scenario for the emergence of this type of domain, speculating that alpha-solenoids have emerged in multiple taxa in independent events by convergent evolution. We observe a higher rate of alpha-solenoids in eukaryotic genomes and in some prokaryotic families, such as Cyanobacteria and Planctomycetes, which could be associated to increased cellular complexity. The method is available at http://cbdm.mdc-berlin.de/~ard2/.
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