ArticleNucleic acids research2014
RepeatsDB: a database of tandem repeat protein structures.
Article in Nucleic acids research, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 30 papers.
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Who cites it
30 citing papers in PubMed.
- Structural and functional insights from detailed computational analysis ofJournal of genetics · 2026Article
- Designing novel solenoid proteins with in silico evolution.Communications chemistry · 2025Article
- SOLeNNoID: a deep learning pipeline for solenoid residue detection in protein structures.Bioinformatics (Oxford, England) · 2025Article
- AlphaFold 2, but not AlphaFold 3, predicts confident but unrealistic β-solenoid structures for repeat proteins.Computational and structural biotechnology journal · 2025Article
- Microsatellites explorer: A database of short tandem repeats across genomes.Computational and structural biotechnology journal · 2024Article
- STRPsearch: fast detection of structured tandem repeat proteins.Bioinformatics (Oxford, England) · 2024Article
- The SKMT Algorithm: A method for assessing and comparing underlying protein entanglement.PLoS computational biology · 2023Article
- RepeatsDB in 2021: improved data and extended classification for protein tandem repeat structures.Nucleic acids research · 2021Article
- "Protein" no longer means what it used to.Current research in structural biology · 2021Review
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- Structures of single-layer β-sheet proteins evolved from β-hairpin repeats.Protein science : a publication of the Protein Society · 2019Article
- On the Natural Structure of Amino Acid Patterns in Families of Protein Sequences.The journal of physical chemistry. B · 2018Article
- RepeatsDB-lite: a web server for unit annotation of tandem repeat proteins.Nucleic acids research · 2018Article
- Secreted Cysteine-Rich Repeat Proteins "SCREPs": A Novel Multi-Domain Architecture.Frontiers in pharmacology · 2018Article
- RepeatsDB 2.0: improved annotation, classification, search and visualization of repeat protein structures.Nucleic acids research · 2017Article
- Evolution of Protein Domain Repeats in Metazoa.Molecular biology and evolution · 2016Article
- Revealing aperiodic aspects of solenoid proteins from sequence information.Bioinformatics (Oxford, England) · 2016Article
- Article
- Protein Repeats from First Principles.Scientific reports · 2016Article
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Authors and funding
11 authors.
Funding
Abstract
RepeatsDB (http://repeatsdb.bio.unipd.it/) is a database of annotated tandem repeat protein structures. Tandem repeats pose a difficult problem for the analysis of protein structures, as the underlying sequence can be highly degenerate. Several repeat types haven been studied over the years, but their annotation was done in a case-by-case basis, thus making large-scale analysis difficult. We developed RepeatsDB to fill this gap. Using state-of-the-art repeat detection methods and manual curation, we systematically annotated the Protein Data Bank, predicting 10,745 repeat structures. In all, 2797 structures were classified according to a recently proposed classification schema, which was expanded to accommodate new findings. In addition, detailed annotations were performed in a subset of 321 proteins. These annotations feature information on start and end positions for the repeat regions and units. RepeatsDB is an ongoing effort to systematically classify and annotate structural protein repeats in a consistent way. It provides users with the possibility to access and download high-quality datasets either interactively or programmatically through web services.
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